Citrus Sinensis ID: 005381

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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-------70
Protein Sequence
MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQLH
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHcccccccccccccccccccccEEcccccccccccccccccccccccccHHHHHcccccccccccEEEcccccccccccccccccccccccEEEEEEEEcccccccccccccEEEcccccccccccccccccccccEEEEEEEcccccHHHHcccccEEEccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccEEEcccccccccccccccccccEEEcccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEccccccccHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccHccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccHHHHHHHHHcccccccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHcHcccccccccHHccccccccEEEEEEcccccccEEEEccccccccccEEEEEEEccccccccccEEEEEEcccccccEEEEccccccccccEEEEEEccccccccccccEEEEEEccccccccccccccEccccccEEEEEEEEcccccccHHHHccEEEEcccccccccccccccccHHHHHHHHHHHHcHcccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccccHcHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEccccccccccEEEEcccccccEcccHHHEEEEEEEccccccccccccHHHcHHHHEEEccccccccHHHcccHccccccEEEEccccccccccccccEEEccccccccccccHHcccEcccccHHHHHHHHHHHHcccEEEEEccccHHccHHHHHHHHHHccccEEEcccEcc
Coil and Loop (DISEMBL)
mhgrprkplkpedAAASAAKAEKLRVLQSQFLHnhhnhiysKEAVELSTKLLETNPELYTAWNYRKLAVQHkltendsdpdslkSILDEELRVVESALRQNFKsygawhhrkwilskghssiDNELRLLDKFQkadsrnfhaWNYRRFVAASMNRSEEDELKYTEDmicnnfsnysaWHNRSLLLSNLLKRKVEgfvskekvlpdeyEFVHQaiftdpddqsgwfyHLWLLDQtvrvdspqlvsswptpgsdlillgdrcldgcasspftrfhldsrtfpLVLYFNQAVEGVNSSTITVdselntnkdlvwkplsscnskAAQVWVTQlnlpdgnthsskvfPVEVSlghsqgiisssgfhysnpfcFAFRVSLqfvetqpvEALGKEIISWRDesfhnynahsqdsspisslYQLSikndneltDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHdammcppankishsEEVLELYNDLmrldpthvqyykdqHSLVLLQQVTSNWESLLSRCFhysnspsnrgspmclqlknlslsrlgsfDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNlsnnilgsftalepIRQLKSLRALNISyneigahsidttkylcssplshsvgsewnhgqtviddDIKSYWEAYFILKglnltqfdivgnAIVNEKFKSFLIKvlpglkwldgeqlh
Flexible Loop (DISEMBL)
mhgrprkplkpedAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLtendsdpdsLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKadsrnfhawnyRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIkvlpglkwldgeqlh
Low Complexity Region (SEG)
MHGRPRKPLKPEDaaasaakaEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHnrslllsnllkrkVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGlealqllsclnlsnnilgsFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQLH
Disordered region (IsUnstruct)
************************RVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHK*************ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA*************TEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYN**********SLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYS*********MCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD*****
Disordered Region (DISOPRED)
MHGRPRK*************AEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND**PDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNY*********ISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQL*
Disordered Region (DISEMBL)
********************AEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYN********ISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQLH
Disordered Region (DISPRO)
********LKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDG****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQLH
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	699	2.2.26 [Sep-21-2011]
Q08602	567	Geranylgeranyl transferas	yes	no	0.738	0.910	0.289	6e-48
Q9JHK4	567	Geranylgeranyl transferas	yes	no	0.726	0.895	0.293	4e-47
Q5NVK5	567	Geranylgeranyl transferas	yes	no	0.719	0.887	0.286	9e-47
A5A779	567	Geranylgeranyl transferas	yes	no	0.753	0.929	0.276	4e-46
Q92696	567	Geranylgeranyl transferas	yes	no	0.331	0.409	0.402	6e-42
Q5EA80	567	Geranylgeranyl transferas	yes	no	0.331	0.409	0.406	2e-40
O94412	344	Geranylgeranyl transferas	yes	no	0.323	0.656	0.362	4e-35
Q55DQ4	311	Geranylgeranyl transferas	yes	no	0.319	0.717	0.362	4e-34
Q00618	327	Geranylgeranyl transferas	yes	no	0.324	0.694	0.330	1e-27
O93829	371	Geranylgeranyl transferas	N/A	no	0.329	0.619	0.308	3e-26

>sp|Q08602|PGTA_RAT Geranylgeranyl transferase type-2 subunit alpha OS=Rattus norvegicus GN=Rabggta PE=1 SV=1

 Score =  192 bits (489), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 181/625 (28%), Positives = 268/625 (42%), Gaps = 109/625 (17%)

Query: 1   MHGRPRKPLKPEDAAASAAKAE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A   + E KL++ QS               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 61  DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR 238

Query: 234 TVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVN 293
               D    V          +   + CL  C S P T   + SR   L+L  ++A     
Sbjct: 239 AEPHDVLCCVH---------VSREEACLSVCFSRPLT---VGSRMGTLLLMVDEA----- 281

Query: 294 SSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQG 353
                              PLS         W T    PDG    S V+  ++       
Sbjct: 282 -------------------PLSV-------EWRT----PDGRNRPSHVWLCDLPAASLND 311

Query: 354 IISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSL 413
            +              FRV     ++Q      KE +  +D          +DS+    L
Sbjct: 312 QLPQ----------HTFRVIWTGSDSQ------KECVLLKDRP----ECWCRDSATDEQL 351

Query: 414 YQLSIKNDNELTDFEWRAATIAKEIDHFRELLSL-INCKIGKLTLARLLMAHDAMMCPPA 472
           ++  +  +        ++  +  E++  +EL  L    K   LT+  L+ A D ++    
Sbjct: 352 FRCELSVE--------KSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLL---- 399

Query: 473 NKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNR 532
               + +E L+ ++ L  +DP    Y  D  S  LL+      E    R  H ++     
Sbjct: 400 ----YEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHK---- 451

Query: 533 GSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGS 591
                       L+ L   ++LL V  LDLSHN LR++   L AL+ L  L  S+N L +
Sbjct: 452 -----------DLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN 500

Query: 592 FTALEPIRQLKSLRALNISYNEIGA 616
              +  + +L+ L   N    +  A
Sbjct: 501 VDGVANLPRLQELLLCNNRLQQSAA 525

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.
Rattus norvegicus (taxid: 10116)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 6EC: 0

>sp|Q9JHK4|PGTA_MOUSE Geranylgeranyl transferase type-2 subunit alpha OS=Mus musculus GN=Rabggta PE=1 SV=1

 Score =  190 bits (482), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 181/617 (29%), Positives = 268/617 (43%), Gaps = 109/617 (17%)

Query: 1   MHGRPRKPLKPEDAAASAAKAE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A   + E KL++ QS               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKREAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 61  DFATLWNCRREVLQQ--LETQKSPEELAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLRELELVQNAFFTDPNDQSAWFYHRWLLGR 238

Query: 234 TVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVN 293
                          P   L  L     + C S  F+R        PL++        + 
Sbjct: 239 A-------------EPHDVLCCLHVSREEACLSVCFSR--------PLIVG-----SKMG 272

Query: 294 SSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQG 353
           +  +TVD            PLS         W T    PDG    S V+  ++       
Sbjct: 273 TLLLTVDE----------APLSV-------EWRT----PDGRNRPSHVWLCDLP------ 305

Query: 354 IISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSL 413
             +S   H        FRV     +TQ      KE +  +     +     +DS+    L
Sbjct: 306 -AASLNDHLPQ---HTFRVIWTGSDTQ------KECVLLKG----HQECWCRDSATDEQL 351

Query: 414 YQLSIKNDNELTDFEWRAATIAKEIDHFRELLSL-INCKIGKLTLARLLMAHDAMMCPPA 472
           ++  +  +        ++  +  E++  +EL  L    K   LT+  L+ A D ++    
Sbjct: 352 FRCELSVE--------KSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLL---- 399

Query: 473 NKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNR 532
               + +E LE ++ L  +DP    Y  D  S  L++      E    R  H ++     
Sbjct: 400 ----YEKETLEYFSTLKAVDPMRAAYLDDLRSKFLVENSVLKMEYADVRVLHLAHK---- 451

Query: 533 GSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGS 591
                       L+ L   ++LL V  LDLSHN LR++   L AL+ L  L  S+N+L +
Sbjct: 452 -----------DLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNVLEN 500

Query: 592 FTALEPIRQLKSLRALN 608
              +  + +L+ L   N
Sbjct: 501 LDGVANLPRLRELLLCN 517

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|Q5NVK5|PGTA_PONAB Geranylgeranyl transferase type-2 subunit alpha OS=Pongo abelii GN=RABGGTA PE=2 SV=1

 Score =  189 bits (479), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 178/622 (28%), Positives = 262/622 (42%), Gaps = 119/622 (19%)

Query: 1   MHGRPRKPLKPEDAAASAAKAE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A   + E KL++ QS               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+L 
Sbjct: 61  DFATLWNCRREVLQQ--LETQKSPEELAALVKAELGFLESCLRVNPKSYGTWHHRCWLLG 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F + D RNFH W+YRRFVA        +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWTRELELCARFLEVDERNFHCWDYRRFVATQAAVPPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL  
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLLG- 237

Query: 234 TVRVDSPQLVSSWPTPGSDLILLGDRCL-----DGCASSPFTR-FHLDSRTFPLVLYFNQ 287
             R D          P   L     RCL     + C +  F+R   + SRT  L+L    
Sbjct: 238 --RAD----------PQDAL-----RCLHVSREEACLTVSFSRPLLVGSRTEILLLM--- 277

Query: 288 AVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVS 347
               V+ S + V+          W+     N + + VW+  L     N    +       
Sbjct: 278 ----VDDSPLIVE----------WRTPDGRN-RPSHVWLCDLPAASLNDQLPQ------- 315

Query: 348 LGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDS 407
             H+  +I ++G                 V+ + V   G++    RD +        + S
Sbjct: 316 --HTFRVIWTAG----------------DVQKECVLLKGRQEGWCRDSTTDEQLFRCELS 357

Query: 408 SPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAM 467
              S++ Q  +++  EL + E                      K   LT+  L+ A D +
Sbjct: 358 VEKSTVLQSELESCKELQELE-------------------PENKWCLLTIILLMRALDPL 398

Query: 468 MCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSN 527
           +        + +E L  +  L  +DP    Y  D  S  LL+      E    R  H ++
Sbjct: 399 L--------YEKETLRYFQTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYAEVRVLHLAH 450

Query: 528 SPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSN 586
                            L+ L   ++LL V  LDLSHN LR++   L AL+ L  L  S+
Sbjct: 451 K---------------DLTVLCHLEQLLLVTHLDLSHNRLRTLPPALAALRCLEVLQASD 495

Query: 587 NILGSFTALEPIRQLKSLRALN 608
           N + S   +  + +L+ L   N
Sbjct: 496 NAIESLDGVTNLPRLQELLLCN 517

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Pongo abelii (taxid: 9601)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|A5A779|PGTA_PIG Geranylgeranyl transferase type-2 subunit alpha OS=Sus scrofa GN=RABGGTA PE=2 SV=1

 Score =  186 bits (473), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 182/658 (27%), Positives = 279/658 (42%), Gaps = 131/658 (19%)

Query: 1   MHGRPRKPLKPEDAAASAAKAE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A   + E KL++ Q+               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQTATQTVFQKRQAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+L 
Sbjct: 61  DFATLWNCRREVLQR--LEVQKSPEELAALVKAELGFLESCLRVNPKSYGTWHHRCWLLG 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F + D RNFH W+YRRFVA+       +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEVDERNFHCWDYRRFVASQAAVPPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL  
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLLG- 237

Query: 234 TVRVDSPQLVSSWPTPGSDLILLGDRCL-----DGCASSPFTRFHLDSRTFPLVLYFNQA 288
             R D          P   L     RCL     + C +  F+R  L   +   +L     
Sbjct: 238 --RAD----------PQDAL-----RCLHVSRDEACLTVSFSRPLLVGPSTETLLLM--- 277

Query: 289 VEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSL 348
              VN S ++V+          W+     N + + VW+  L     N H  +        
Sbjct: 278 ---VNESPLSVE----------WRTPDGRN-RPSHVWLCDLPAASLNDHLPQ-------- 315

Query: 349 GHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSS 408
            H+  +I ++G   +   C                     ++  R E +       +DS+
Sbjct: 316 -HTFRVIWTAG--NAQKECV--------------------LLKGRQEGW------CRDSA 346

Query: 409 PISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSL-INCKIGKLTLARLLMAHDAM 467
               L++  +  +        ++  +  E++  +EL  L    K   LT+  L+ A D +
Sbjct: 347 TDEQLFRCELSVE--------KSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPL 398

Query: 468 MCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSN 527
           +        + +E L+ +  L  +DP    Y  D  S  LL+      E    R  H   
Sbjct: 399 L--------YEKETLQYFQTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLH--- 447

Query: 528 SPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSN 586
                       L +  L+ L   ++LL V  LDLSHN LR++   L AL+ L  L  ++
Sbjct: 448 ------------LGHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQAND 495

Query: 587 NILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCS---------SPLSHSVG 635
           N + S   L+ +  L  L+ L++  N +   ++      C          +PL  +VG
Sbjct: 496 NAIES---LDGVTNLPRLQELSLCNNRLQQPAVLQPLASCPRLVLLNLQDNPLCQAVG 550

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Sus scrofa (taxid: 9823)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|Q92696|PGTA_HUMAN Geranylgeranyl transferase type-2 subunit alpha OS=Homo sapiens GN=RABGGTA PE=1 SV=2

 Score =  172 bits (437), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 97/241 (40%), Positives = 130/241 (53%), Gaps = 9/241 (3%)

Query: 1   MHGRPRKPLKPEDAAASAAKAE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A   + E KL++ QS               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+L 
Sbjct: 61  DFATLWNCRREVLQQ--LETQKSPEELAALVKAELGFLESCLRVNPKSYGTWHHRCWLLG 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F + D RNFH W+YRRFVA        +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWTRELELCARFLEVDERNFHCWDYRRFVATQAAVPPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR 238

Query: 234 T 234
            
Sbjct: 239 A 239

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|Q5EA80|PGTA_BOVIN Geranylgeranyl transferase type-2 subunit alpha OS=Bos taurus GN=RABGGTA PE=2 SV=1

 Score =  167 bits (424), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 98/241 (40%), Positives = 132/241 (54%), Gaps = 9/241 (3%)

Query: 1   MHGRPRKPLKPEDAAASAAKAE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A   + E KL++ Q+               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQAATQTVFQKRQAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 61  DFATLWNCRREVLQQ--LEVQKSPEELATLVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F + D RNFH W+YRRFVAA       +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEVDERNFHCWDYRRFVAAQAAVPPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR 238

Query: 234 T 234
            
Sbjct: 239 A 239

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Bos taurus (taxid: 9913)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|O94412|PGTA_SCHPO Geranylgeranyl transferase type-2 subunit alpha OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=bet4 PE=3 SV=1

 Score =  150 bits (379), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 90/248 (36%), Positives = 139/248 (56%), Gaps = 22/248 (8%)

Query: 1   MHGRPRKPLKPED----AAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNP 56
           MHG  R  L  E     A    AK E+ R L S+F        YS+  ++L+T+LL+ NP
Sbjct: 1   MHGILRVKLSEEQRKLKAEKERAKIEEYRGLVSRFQEARKRKDYSEGNLKLTTELLDWNP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDP----DSLKSILDEELRVVESALRQNFKSYGAWHHRK 112
           E Y+ WNYR+     ++  ND  P    +  + +LD EL+ V S ++   K Y  ++HR+
Sbjct: 61  ETYSVWNYRR-----EILLNDVFPKISLNEKQDLLDNELKYVLSKMKVFPKVYWIFNHRR 115

Query: 113 WILSKG-HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS-----EEDELKYTED 166
           W L    + + + E+ + +K   AD+RNFH W+YRR+V + + R+      + E++YT  
Sbjct: 116 WCLENAPYPNWNYEMMITEKLLSADARNFHGWHYRRYVVSQIERAGNCSLAKKEMEYTTS 175

Query: 167 MICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSK---EKVLPDEYEFVHQAIFTDPDDQSG 223
            I  NFSN+SA HNR+ L+  +L  + +    K   +++L  E + +HQA+FTDPDD S 
Sbjct: 176 AIATNFSNFSALHNRTKLIETILNLEADPNSQKALAKQILEQELDMIHQAVFTDPDDSSV 235

Query: 224 WFYHLWLL 231
           W YH WL+
Sbjct: 236 WIYHRWLM 243

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to proteins having the C-terminal-XCC or -XCXC, where both cysteines may become modified.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|Q55DQ4|PGTA_DICDI Geranylgeranyl transferase type-2 subunit alpha OS=Dictyostelium discoideum GN=rabggta PE=3 SV=2

 Score =  147 bits (370), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 87/240 (36%), Positives = 133/240 (55%), Gaps = 17/240 (7%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQS--------QFLHNHHNHIYSKEAVELSTKLL 52
           MHG  +  ++  +  A A + ++L  ++S        + L    N  Y + ++ +S  +L
Sbjct: 1   MHGVLK--VRTSEEKAKAQRLKELEKIESYNKLVKSFEELREKQNGRYDEISLSVSKLVL 58

Query: 53  ETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRK 112
             NPE YT WNYR+LA+  + TE   + + L+ I   E++ +E  +++  KSY  W HR+
Sbjct: 59  IENPEFYTIWNYRRLAIL-QFTETKENSE-LQVIYQNEMKFLEECIQRFTKSYWIWFHRQ 116

Query: 113 WI-LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN 171
           WI L   +   + E++L  K    D RNFH W +RRF+    N   EDELKYT + +  N
Sbjct: 117 WIALRMDNCDWEREMKLCTKLLNFDLRNFHCWGHRRFILKHSNIKLEDELKYTTEKVEQN 176

Query: 172 FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
           FSNYSAWH RS +L  + K   +     EK+L +E+E V  A++T+P D S W YH WL+
Sbjct: 177 FSNYSAWHQRSSILPKIYKEPEQLL---EKIL-EEFELVRNAVYTEPKDSSSWIYHKWLV 232

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to proteins having the C-terminal-XCC or -XCXC, where both cysteines may become modified.

Dictyostelium discoideum (taxid: 44689)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|Q00618|PGTA_YEAST Geranylgeranyl transferase type-2 subunit alpha OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BET4 PE=1 SV=3

 Score =  125 bits (315), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 82/248 (33%), Positives = 128/248 (51%), Gaps = 21/248 (8%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEK----LRVLQSQFLHNHHNHIYSKEAVELSTKLLETNP 56
           MHG  RK    E       + EK     R L    L+     IYS EA++ +++LLE NP
Sbjct: 1   MHGIKRKQWTKELLRQKRVQDEKKIYDYRSLTENVLNMRDEKIYSIEALKKTSELLEKNP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           E    WNYR+  +    +E +          D+EL  V   L+   K Y  W+HR W+L 
Sbjct: 61  EFNAIWNYRRDIIASLASELEI------PFWDKELVFVMMLLKDYPKVYWIWNHRLWVLK 114

Query: 117 KGHSS----IDNELRLLDKFQKADSRNFHAWNYRRFVAASM----NRS-EEDELKYTEDM 167
              +S       EL +++K  + D+RN+H W+YRR V  ++    N+S +++E +YT   
Sbjct: 115 HYPTSSPKVWQTELAVVNKLLEQDARNYHGWHYRRIVVGNIESITNKSLDKEEFEYTTIK 174

Query: 168 ICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYH 227
           I NN SNYSAWH R  ++S + ++   G  ++++ +  E  ++  A+FTD +DQS WFY 
Sbjct: 175 INNNISNYSAWHQRVQIISRMFQKGEVG--NQKEYIRTEISYIINAMFTDAEDQSVWFYI 232

Query: 228 LWLLDQTV 235
            W +   +
Sbjct: 233 KWFIKNDI 240

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to proteins having the C-terminal -XCC or -XCXC, where both cysteines may become modified. Acts on YPT1 and SEC4.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|O93829|PGTA_CANAX Geranylgeranyl transferase type-2 subunit alpha OS=Candida albicans GN=BET4 PE=3 SV=1

 Score =  120 bits (302), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 83/269 (30%), Positives = 126/269 (46%), Gaps = 39/269 (14%)

Query: 2   HGRPRKPLKPE----DAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPE 57
           HG  R  L  E           K +  R L  +      N  YS EA+  + +LL  NPE
Sbjct: 3   HGIKRVKLSEEAKRLKLEKDQIKIKNYRQLTDEIFELRANENYSDEALIKTNELLIINPE 62

Query: 58  LYTAWNYRK-LAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
            YT WNYR+ + + +  + ND D    + IL+++L  V   L++  K Y  W+HR+W+L 
Sbjct: 63  FYTIWNYRREILINNYSSSNDKDDQIYEDILNQDLNFVLVQLKKFPKCYWIWNHRRWLLF 122

Query: 117 K----GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMN-----------RSEEDEL 161
           +    G  +   E  ++ K    D RNFH W+YRRFV  +M            +   DE 
Sbjct: 123 ELVKLGKVNWKYEFGVVSKLLDLDQRNFHGWHYRRFVVKNMELECKNDTTLILKINLDEF 182

Query: 162 KYTEDMICNNFSNYSAWHNRSLLLS---NLLKRK----------------VEGFVSKEKV 202
            YT   I  +FSN+SAWHNR+ L+    NL++++                +E F +   +
Sbjct: 183 NYTTLKIQKDFSNFSAWHNRTKLIPKIYNLIQQQQQQQQKDGKIFGDLPGIELFQNPILL 242

Query: 203 LPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
           L ++ E +   ++  P+D S W Y  WLL
Sbjct: 243 LKNDLEMIKTGVYMSPEDTSVWLYLYWLL 271

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to proteins having the C-terminal -XCC or -XCXC, where both cysteines may become modified. Acts on YPT1 and SEC4.

Candida albicans (taxid: 5476)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

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	699
224092154	696	predicted protein [Populus trichocarpa]	0.992	0.997	0.663	0.0
225459067	704	PREDICTED: uncharacterized protein LOC10	1.0	0.992	0.677	0.0
255545992	696	protein with unknown function [Ricinus c	0.992	0.997	0.663	0.0
356515736	691	PREDICTED: uncharacterized protein LOC10	0.985	0.997	0.597	0.0
356510126	691	PREDICTED: uncharacterized protein LOC10	0.985	0.997	0.602	0.0
357465223	705	Geranylgeranyl transferase type-2 subuni	0.978	0.970	0.573	0.0
449433595	695	PREDICTED: geranylgeranyl transferase ty	0.979	0.985	0.592	0.0
297799558	677	protein binding protein [Arabidopsis lyr	0.959	0.991	0.572	0.0
79485405	678	RAB geranylgeranyl transferase alpha sub	0.964	0.994	0.566	0.0
7269299	661	Rab geranylgeranyl transferase like prot	0.938	0.992	0.565	0.0

>gi|224092154|ref|XP_002309487.1| predicted protein [Populus trichocarpa] gi|222855463|gb|EEE93010.1| predicted protein [Populus trichocarpa]

 Score =  936 bits (2420), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 465/701 (66%), Positives = 558/701 (79%), Gaps = 7/701 (0%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPRK  KPED AAS AKAEKLR+LQSQFL NHH  IY+KEA+ELS+KLLE NPE YT
Sbjct: 1   MHGRPRKAPKPEDLAASTAKAEKLRILQSQFLLNHHQKIYTKEALELSSKLLEINPECYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRK AVQH L E++ DPDS+ SILD+ELRVVE+ALRQNFKSYGAW+HRKW+L+KGHS
Sbjct: 61  AWNYRKHAVQHSLFESNLDPDSVNSILDQELRVVENALRQNFKSYGAWYHRKWVLNKGHS 120

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           S +NELRLLDK Q  D RNFHAWNYRRFVAA +NRS+EDEL +T+D I  NFSNYSAWHN
Sbjct: 121 STENELRLLDKLQNVDPRNFHAWNYRRFVAALLNRSDEDELNHTQDFIDKNFSNYSAWHN 180

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+L+SNL+K+KV+ F  K++VL  EYE V +A+FTD DDQSGWFYHLWLLDQTV+ +SP
Sbjct: 181 RSVLVSNLMKKKVQAFSRKDEVLIREYELVREAVFTDEDDQSGWFYHLWLLDQTVKAESP 240

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            L SSWP  GS++ L GDR LD  +SSPF     DS + PL+LYFNQAVEGVN+ST+TV 
Sbjct: 241 LLASSWPAHGSEITLSGDRYLDLGSSSPFNTNQFDSGSLPLILYFNQAVEGVNASTVTVS 300

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           S LN N D++WKP+ S NS+  QVWV QL  P+    S   + +EV+LGHSQGIISSSGF
Sbjct: 301 SGLNVNMDVIWKPILSNNSRTTQVWVGQLKFPEVELDSLGAYTMEVTLGHSQGIISSSGF 360

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           HYS+P  F+F V +   +T+PVE LG E ISWRDE+FH Y + S +S+ +  L  LSIKN
Sbjct: 361 HYSHPSHFSFTVHVLPAKTEPVEGLGSEKISWRDENFHIYESDSLESNSVLPLDHLSIKN 420

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEE 480
           + E T   W+A  I +EI +FRELL   +CKIGKLTLARLL A DA+M   ++K  HSEE
Sbjct: 421 EREPTHSSWQAKIIDEEISNFRELL---DCKIGKLTLARLLTARDALMS--SDKPVHSEE 475

Query: 481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSN-SPSNRGSPMCLQ 539
           VL LY++LM+LDP H ++YKD+HSLVLL++V S  ESLLS CF Y N + S+  +P+CL+
Sbjct: 476 VLRLYSELMKLDPPHSRFYKDEHSLVLLEKVISGRESLLSYCFRYRNLTSSSSSNPICLR 535

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
           L  LSLSRLGSF+KLLWVQMLDLSHNEL+SIEGLEA+QLLS LNLS N  GSFT+LEP+R
Sbjct: 536 LNGLSLSRLGSFEKLLWVQMLDLSHNELQSIEGLEAMQLLSHLNLSKNKFGSFTSLEPLR 595

Query: 600 QLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDD-DIKSYWEAYFI 658
            LKS++ L++SYNEIG+HSIDTT+YLCSSPL HSVGSEW+  +TV D   + SYWEA+FI
Sbjct: 596 HLKSMKVLDLSYNEIGSHSIDTTRYLCSSPLCHSVGSEWDGSETVTDGVSLVSYWEAFFI 655

Query: 659 LKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQLH 699
           L+GL LTQ DI GNAI +EKF +FL KVLP LKWLDG QL+
Sbjct: 656 LRGLKLTQIDIAGNAIADEKFTAFLAKVLPALKWLDGVQLN 696

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225459067|ref|XP_002283768.1| PREDICTED: uncharacterized protein LOC100248920 [Vitis vinifera]

 Score =  932 bits (2410), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 477/704 (67%), Positives = 569/704 (80%), Gaps = 5/704 (0%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPRK  KPEDAAASAAKAEKLR LQSQ LHNHHN IY+KEA+E+S KLLE NPE YT
Sbjct: 1   MHGRPRKAPKPEDAAASAAKAEKLRALQSQLLHNHHNQIYTKEALEISAKLLEANPESYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAV+H L+ ++SDPD++KSI  EELRVVE++L+QNFKSYGAWHHRKW+LSKGHS
Sbjct: 61  AWNYRKLAVEHNLSHSESDPDTVKSIFSEELRVVENSLKQNFKSYGAWHHRKWVLSKGHS 120

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           S+D+EL+LLD+FQ+ADSRNFHAWNYRRF+AA     +E+ELKYT  +I  NFSNYSAWHN
Sbjct: 121 SVDHELQLLDRFQRADSRNFHAWNYRRFIAALKGIPDEEELKYTTKLIETNFSNYSAWHN 180

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+LLS+LL+ KV+GF  KEKVL +EYEFVHQA+FTDPDDQSGWFYHLWLLDQTV+ ++P
Sbjct: 181 RSVLLSHLLQNKVKGFFPKEKVLVEEYEFVHQALFTDPDDQSGWFYHLWLLDQTVKPETP 240

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            LVS+WP  GSD+I+  + CLDG A SPFT FH D+ TFPL+LYFN+AVEGVNSST+TV 
Sbjct: 241 LLVSTWPAHGSDIIVSAEGCLDGRALSPFTSFHSDAGTFPLILYFNEAVEGVNSSTVTVK 300

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           S    NKDLVWKPL++  S AAQ WVT LN+PD   H S  +P+EV+LG SQGIIS SG 
Sbjct: 301 SVFTENKDLVWKPLATSKSCAAQAWVTHLNVPDVKLHPSTAYPIEVNLGDSQGIISLSGS 360

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           H S+P  FAF V +Q + ++  E    E+I WRD +FH Y+AH Q+SSPI+   +LSIK 
Sbjct: 361 HCSHPSRFAFTVCVQPLSSKHAERQSVEMILWRDVNFHFYDAHVQESSPIAYFDRLSIKK 420

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAM---MCPPANKISH 477
           D+E    +W A T+  EI   R+LLS I+CKIGKLTLARLLMAHDAM   M P ++K  H
Sbjct: 421 DHEPAASKWHAKTLVNEIALVRQLLSEIDCKIGKLTLARLLMAHDAMVSYMAPHSHKKVH 480

Query: 478 SEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNR-GSPM 536
           SEEVL+LY+DLM LDP H QYYK+  SLVLLQQVTSN ESLL  C H+  S S+  G+ +
Sbjct: 481 SEEVLQLYSDLMELDPMHSQYYKEAQSLVLLQQVTSNRESLLKHCCHHRVSTSSSVGNSV 540

Query: 537 CLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE 596
           CL+L NLSLSR+G  ++LLWVQMLDLSHNELRSI+GLEA+QLLS LNLS+N L SFTALE
Sbjct: 541 CLRLNNLSLSRIGCVEQLLWVQMLDLSHNELRSIDGLEAMQLLSFLNLSHNKLSSFTALE 600

Query: 597 PIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDD-DIKSYWEA 655
           P+R LK L+ L+ISYNEIGAH +DT +YLCSSPLSH+VGS+WN  + V DD  + +YWEA
Sbjct: 601 PLRLLKLLKVLDISYNEIGAHPVDTRRYLCSSPLSHTVGSDWNFNEFVPDDAKVTNYWEA 660

Query: 656 YFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQLH 699
           + I +G NLTQ DIVGNAI +EKFKSFLIKVLP LKW+DGE+LH
Sbjct: 661 FAIFRGFNLTQLDIVGNAITDEKFKSFLIKVLPTLKWVDGEELH 704

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255545992|ref|XP_002514056.1| protein with unknown function [Ricinus communis] gi|223547142|gb|EEF48639.1| protein with unknown function [Ricinus communis]

 Score =  927 bits (2396), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 465/701 (66%), Positives = 551/701 (78%), Gaps = 7/701 (0%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHG PRK    E+AAASA KAEKLR LQSQ L NHH+ IY+KEAVE S KLLETNPE YT
Sbjct: 1   MHGLPRKVPTAEEAAASAVKAEKLRCLQSQVLSNHHHKIYTKEAVEASAKLLETNPECYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAVQH L+++DSDPD +KSILD+ELRVV+SALRQNFKSYGAWHHRKW+L KGHS
Sbjct: 61  AWNYRKLAVQHNLSQSDSDPDIVKSILDQELRVVQSALRQNFKSYGAWHHRKWVLCKGHS 120

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           SID EL+LLDK    DSRNFHAW+YRRFVA  MNRSE+DEL YTE +I  NFSNYSAWHN
Sbjct: 121 SIDKELKLLDKLFTIDSRNFHAWSYRRFVAQLMNRSEKDELDYTECLIGKNFSNYSAWHN 180

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS LLSNL+K+ VEGF  K +VL  EYE V  A+FTD DDQSGWFYHLWLL QTV  + P
Sbjct: 181 RSFLLSNLVKKSVEGFSEKNEVLTREYELVRDAVFTDQDDQSGWFYHLWLLKQTVNTEGP 240

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            LVSSWP   SD+ILL D CL+ CASSPF+ F  DS TFPL+L+FNQAVEG+NSST+ V 
Sbjct: 241 MLVSSWPAHRSDIILLIDSCLEDCASSPFSTFQFDSGTFPLILFFNQAVEGINSSTVKVA 300

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           S  N+N+DL WKP+S+  S+AAQVWVT+L+ PD N HS + +PVEVS G  QGI+SS+G 
Sbjct: 301 SGFNSNEDLTWKPVSTHISQAAQVWVTELSFPDVNLHSLESYPVEVSFGQYQGIVSSTGS 360

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           +YS+P   AF V +Q V+T   E      ISW D +FH    H  +S  ++SL  LSIK+
Sbjct: 361 YYSHPSHLAFTVRVQSVKTGLAEGASVARISWTDNNFHLCEPHLLESDLVASLDNLSIKS 420

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEE 480
            NE     W+   IA+EI  FRE   L +CKIGKLTLARLL AHDA++   ++K +HSEE
Sbjct: 421 KNEPAAATWQEKIIAEEIKLFRE---LSDCKIGKLTLARLLSAHDALV--SSDKSAHSEE 475

Query: 481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPS-NRGSPMCLQ 539
           VL LY  L++LDPTH +YYKD HSL LLQQVTS+ ES+LSRCFHY +  S + G P+CL+
Sbjct: 476 VLRLYCQLIKLDPTHARYYKDVHSLALLQQVTSSQESVLSRCFHYRDVTSLSSGYPICLR 535

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
           L NLSLSR+G+ +KLLWVQMLDLS NEL+SIEGLEA+QLLS L+LS N L SFT+LEP+R
Sbjct: 536 LNNLSLSRIGAVEKLLWVQMLDLSCNELQSIEGLEAMQLLSYLSLSRNKLSSFTSLEPLR 595

Query: 600 QLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVI-DDDIKSYWEAYFI 658
           QLKSL+ L+ISYNEIG HSIDTT+YLCSSPLSHSVG+EW   +TVI   D+ +YWEA+F+
Sbjct: 596 QLKSLKMLDISYNEIGLHSIDTTRYLCSSPLSHSVGNEWEQDKTVIYGIDMTNYWEAFFV 655

Query: 659 LKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQLH 699
           LKGLNLTQ D++GNAI +EKF SFL+KVLP LKWLDG +L+
Sbjct: 656 LKGLNLTQLDVLGNAIADEKFTSFLVKVLPKLKWLDGVKLN 696

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515736|ref|XP_003526554.1| PREDICTED: uncharacterized protein LOC100783193 [Glycine max]

 Score =  843 bits (2179), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 418/699 (59%), Positives = 526/699 (75%), Gaps = 10/699 (1%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPRK LK ED AASAAK EKLR +Q+QFL NHHNHIYSKEA++LS KLLE NPE YT
Sbjct: 1   MHGRPRKALKQEDEAASAAKTEKLRSVQAQFLANHHNHIYSKEALDLSAKLLEVNPECYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAVQH L+ +DSDP    SI D+EL++VE+ALR+NFKSYGAWHHRKW+L+KGHS
Sbjct: 61  AWNYRKLAVQHFLSNSDSDP---HSIFDDELKLVENALRKNFKSYGAWHHRKWVLNKGHS 117

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           SIDNE+RLL+ FQK D RNFHAWNYRRFVA  M RS+EDELKYTE++I  NFSNYSAWHN
Sbjct: 118 SIDNEMRLLNGFQKMDPRNFHAWNYRRFVAELMKRSDEDELKYTEEVIATNFSNYSAWHN 177

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+LLSNLLKRK EG+  KEKVL +E+E VH AIFTDPDDQSGWFYHLWL+ QTV++D+P
Sbjct: 178 RSVLLSNLLKRKAEGYFPKEKVLEEEFEHVHNAIFTDPDDQSGWFYHLWLIQQTVKIDAP 237

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            LVSSWP+ GS++ L+GD  L GC  S       +  T P++LYFNQAVEG+NSST+ + 
Sbjct: 238 LLVSSWPSHGSNITLIGDNDLRGCGLSLLNGTLSNPGTLPIILYFNQAVEGINSSTVAIK 297

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           SEL   ++L+WKPLS  NS  AQ WV  LNL +     SK + VE+++GHS+GIISS+G 
Sbjct: 298 SEL-LKEELIWKPLSMNNSNTAQFWVVYLNLGNFELQPSKTYSVEINIGHSKGIISSNGN 356

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           H+ +P   + +V +Q   ++P E  G +  +W+D +F   + H Q+S  I    Q    N
Sbjct: 357 HFDDPSQISCKVFVQTASSEPTEGQGGKRTTWKDTNFQKID-HFQESDSILPADQ----N 411

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEE 480
            +  T   W    I +EI   R+LLS  +CKIGKLTLARLL A D++      + S++EE
Sbjct: 412 HHIPTTSNWCTEEIGEEITKVRDLLSEYDCKIGKLTLARLLSALDSLSFQYDGRKSNTEE 471

Query: 481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQL 540
           VL+LY DLM+LDPTH  YYKD+HSL+ L+++TS  +SLL  C +Y ++       +CL+L
Sbjct: 472 VLQLYTDLMKLDPTHYLYYKDEHSLISLKRITSTRDSLLPYCHYYKDATETITGYVCLRL 531

Query: 541 KNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQ 600
           +NLSLSR+GS + LLWVQMLDLSHNEL+S+EGLEA+QLLSCLNLS+N  GSFTALEP+R 
Sbjct: 532 RNLSLSRMGSIENLLWVQMLDLSHNELQSVEGLEAMQLLSCLNLSHNKFGSFTALEPVRL 591

Query: 601 LKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDD-DIKSYWEAYFIL 659
           LKSL+ LNISYNE+G+HSIDTT+YLCSSP+SH+    W+  + + D  +   +WEA+ I 
Sbjct: 592 LKSLKVLNISYNELGSHSIDTTRYLCSSPVSHAEEFAWDRFELLTDSINATKFWEAFLIF 651

Query: 660 KGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQL 698
             L LT+ +I GNA+ +E F+SFL+KVLP LKWLD E+L
Sbjct: 652 GSLTLTELNITGNAVADENFRSFLVKVLPTLKWLDDEEL 690

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510126|ref|XP_003523791.1| PREDICTED: uncharacterized protein LOC100807900 [Glycine max]

 Score =  810 bits (2093), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 421/699 (60%), Positives = 522/699 (74%), Gaps = 10/699 (1%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPRK LK ED AASAAKAEKLR LQ+QFL NHHNHIYSKEA+++S KLLE NPE YT
Sbjct: 1   MHGRPRKALKQEDEAASAAKAEKLRSLQAQFLANHHNHIYSKEALDVSAKLLEVNPECYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAVQH L+ +DSDP    SI D+EL++VE ALR+NFKSYGAWHHRKW+LSKGHS
Sbjct: 61  AWNYRKLAVQHLLSNSDSDP---HSIFDDELKLVEIALRKNFKSYGAWHHRKWVLSKGHS 117

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           SIDNE+RLL+ FQK D RNFHAWNYRRFVA  M RS+EDELKYTE++I  NFSNYSAWHN
Sbjct: 118 SIDNEMRLLNGFQKMDPRNFHAWNYRRFVAELMKRSDEDELKYTEEVIGTNFSNYSAWHN 177

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+LLSNLLKRK EG+  KEKVL  E+E VH AIFTDPDDQSGWFYHLWL+DQTV+ D+P
Sbjct: 178 RSVLLSNLLKRKAEGYFPKEKVLEGEFEHVHNAIFTDPDDQSGWFYHLWLIDQTVKTDAP 237

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            LVSSWP+ GS++ L+GD  L GC  S       D+ T P++LYFNQAVEG+NSST+ + 
Sbjct: 238 LLVSSWPSHGSNITLIGDNDLRGCGLSLLNGTLSDTETLPIILYFNQAVEGINSSTVAIK 297

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           SEL   ++LVWKPLS      AQVWV  LNL +     SK + VE+++GHS+G++SS+G 
Sbjct: 298 SEL-LKEELVWKPLSMKILNTAQVWVVYLNLGNMELQPSKTYSVEINIGHSKGVVSSNGN 356

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           HY +P   +F V +Q   T+P E  G +  +W+D +F   + H Q+S  I    Q    N
Sbjct: 357 HYGDPSQISFEVFVQTASTEPTEGQGGKRTTWKDTNFQKID-HFQESDSILPADQ----N 411

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEE 480
            +  T   W    I +EI  F++LLS  +CKIGKLTLARLL A D +      + S++EE
Sbjct: 412 PHIPTTSNWCTEEIGEEITKFQDLLSEYDCKIGKLTLARLLTALDLLSSQHDGRKSNTEE 471

Query: 481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQL 540
           VL+LY DLM+LDPTH  YYKD+HSL+ L+++TS  +SLL  C +Y ++        CL+L
Sbjct: 472 VLQLYTDLMKLDPTHSLYYKDEHSLISLKRITSTRDSLLPYCHYYKDATETITGYFCLKL 531

Query: 541 KNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQ 600
           +NLSLSR+GS + LLWVQMLDLSHNEL+SIEGLEA+QLLSCLNLS+N  GSFTAL P+R 
Sbjct: 532 QNLSLSRMGSIENLLWVQMLDLSHNELQSIEGLEAMQLLSCLNLSHNKFGSFTALGPVRL 591

Query: 601 LKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDD-DIKSYWEAYFIL 659
           LKSL+ LNISYNE+G+HSIDTT+YLCSSP+SH+    W+  + +    +   +WEA+ I 
Sbjct: 592 LKSLKVLNISYNELGSHSIDTTRYLCSSPVSHTEEFAWDRFEILTGSINATKFWEAFLIF 651

Query: 660 KGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQL 698
             L LT+ +I GNA+ +E F+SFL+KVLP L+WLD E+L
Sbjct: 652 GSLTLTELNITGNAVADENFRSFLVKVLPTLRWLDDEEL 690

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357465223|ref|XP_003602893.1| Geranylgeranyl transferase type-2 subunit alpha [Medicago truncatula] gi|355491941|gb|AES73144.1| Geranylgeranyl transferase type-2 subunit alpha [Medicago truncatula]

 Score =  806 bits (2083), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 412/719 (57%), Positives = 522/719 (72%), Gaps = 35/719 (4%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPRKPLK ED +  +AKAEKL  LQSQFL NH N IY+KEA++LS KLLE NPE YT
Sbjct: 1   MHGRPRKPLKEEDESVLSAKAEKLHSLQSQFLANHQNRIYTKEALDLSAKLLEINPECYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAVQH L+E++SD D+  S+ D+EL+VVE+AL++NFKSYGAWHHRKW+LSKGHS
Sbjct: 61  AWNYRKLAVQHNLSESNSDSDA--SLFDQELKVVENALKKNFKSYGAWHHRKWVLSKGHS 118

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           SIDNELRLL+ FQKAD+RNFHAWNYRRFV A M  S+EDELKYTE +I  NFSNYSAWHN
Sbjct: 119 SIDNELRLLNDFQKADARNFHAWNYRRFVTALMKISDEDELKYTEKVIGVNFSNYSAWHN 178

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+LLS L KRK EGF  KEKVL +EY++VH AIFTD DDQSGWFYHLWL+DQTV+ D+P
Sbjct: 179 RSVLLSTLFKRKAEGFSHKEKVLQEEYKYVHSAIFTDSDDQSGWFYHLWLIDQTVKNDAP 238

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            LVSSWP+ G+++ L G+  L G   S       D++T P++L FNQAVEGVNSST+ V 
Sbjct: 239 LLVSSWPSHGANITLNGNNSLHGSGLSLLNSTLSDTKTLPVILCFNQAVEGVNSSTVVVK 298

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           SEL   +DLVWKPLS+ NS  AQVWV  LN+ +     SK + +E+++GHS GI+SS+G+
Sbjct: 299 SEL-LKEDLVWKPLSTNNSSTAQVWVVYLNMGNMKLQLSKTYSIEINIGHSMGILSSNGY 357

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           HY  P    F V +Q   T+PV+    ++ SW+D  F   + H ++S+P       ++  
Sbjct: 358 HYGAPSQITFEVCVQTAYTEPVDGQRGKLTSWKDNDFRKID-HFEESNP-------AVSA 409

Query: 421 DNEL-TDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSE 479
           D+ + T   W    I +EI +F++   L +CKI KLTLARLL+A D +      + +H+E
Sbjct: 410 DHHIPTTSNWCMEAIDEEITNFQD---LSDCKIRKLTLARLLIALDLLSPQHDKRKNHTE 466

Query: 480 EVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQ 539
           EVL+LY +LM+LDPTH  YYKD+HSL+LLQQ+TS+ ESL+  C +Y ++     S +CL+
Sbjct: 467 EVLKLYTELMKLDPTHSLYYKDEHSLLLLQQITSSRESLIPYCHYYKDASETNTSYVCLR 526

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIE-------------------GLEALQLLS 580
           L+NLSLSR+GSF+ LLWVQMLDLSHNELRSIE                   GLEA+QLLS
Sbjct: 527 LQNLSLSRMGSFENLLWVQMLDLSHNELRSIEAVTIAFKKLEKGLTVNFLTGLEAMQLLS 586

Query: 581 CLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH 640
           CLNLS+N  GSFTAL P+R LKSL+ LNIS NE+G+HSIDT +YLCSSPL+HS    W+ 
Sbjct: 587 CLNLSHNKFGSFTALGPLRLLKSLKVLNISCNELGSHSIDTRRYLCSSPLAHSEVFAWDR 646

Query: 641 GQTVIDD-DIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQL 698
            + +        +WEA+ I + LNLT  +I GNA+ +E F SF++KVLP LK L+ E+L
Sbjct: 647 FEILCGSYSATKFWEAFLIFESLNLTDLNIAGNAVADENFASFIVKVLPTLKLLNDEEL 705

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433595|ref|XP_004134583.1| PREDICTED: geranylgeranyl transferase type-2 subunit alpha-like [Cucumis sativus] gi|449490592|ref|XP_004158649.1| PREDICTED: geranylgeranyl transferase type-2 subunit alpha-like [Cucumis sativus]

 Score =  803 bits (2075), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/707 (59%), Positives = 516/707 (72%), Gaps = 22/707 (3%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPRKP KPE+A ASA +A KL+ LQSQ L NHH   Y+KEA+E+S  LLE NP+LYT
Sbjct: 1   MHGRPRKPQKPEEAEASAVEAAKLQNLQSQLLANHHQKNYAKEALEVSANLLEMNPDLYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAV+H L E+ SD  S+++IL+EELRV ESALRQN KSYGAW+HRK+ILSKGHS
Sbjct: 61  AWNYRKLAVEHYLKESSSDIVSIEAILNEELRVAESALRQNVKSYGAWYHRKYILSKGHS 120

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           S D+ELRLL KFQK D+RNFHAWNYRRFVA  MN  E+ ELKYT DMI  NFSNYSAWHN
Sbjct: 121 STDHELRLLGKFQKLDARNFHAWNYRRFVAGLMNIPEDKELKYTTDMIDTNFSNYSAWHN 180

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS LL+ LL +K EG+   EKVL +EYE VHQAIFTDPDDQSGWFYHLWLLDQTV+ + P
Sbjct: 181 RSALLAKLLNQKAEGYFPMEKVLNEEYELVHQAIFTDPDDQSGWFYHLWLLDQTVKANPP 240

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            LVSSWP    ++ L   RCLD    SPF  F+ DS T PL+LYF+Q V+GV+SS++ V 
Sbjct: 241 YLVSSWPPHSFNVALSRTRCLDNHTPSPFCSFYSDSGTIPLILYFDQPVQGVDSSSVIVK 300

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           S  N  +DL+WKPLS CN   ++ W++ L  P     +S+ + VEVS+GHSQ I S++GF
Sbjct: 301 STANL-RDLIWKPLSKCNRDTSKAWISHLTFPQEEL-NSEFYSVEVSIGHSQKIASATGF 358

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESF-------HNYNAHSQDSSPISSL 413
           H+  P   +F+V++ F ET P E  G E I W+DE+F       HN+   S +S+     
Sbjct: 359 HHVKPTQISFKVAVNFKET-PSEDFGNERIRWKDENFTSCGISPHNFPFGSDNSTS---- 413

Query: 414 YQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPAN 473
                + D   +  EW   TI  EI  FRELLS  +CKIGKLTLARLLMAH A   P AN
Sbjct: 414 -----EGDYAPSTSEWCVETINNEIALFRELLSETDCKIGKLTLARLLMAH-AATSPHAN 467

Query: 474 KISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNR- 532
           ++   EEVL+LY DLM+ DP+H  +YKD+HSLVLLQ+VTS  ESLL  C+ Y    S   
Sbjct: 468 EMIQLEEVLDLYQDLMKFDPSHFHFYKDEHSLVLLQKVTSTRESLLRHCYSYKEQTSPYI 527

Query: 533 GSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSF 592
            S  CL+L NLS+SR+G  +K+LWVQ+LDLSHNEL SI+GLE++QLLSCL+LSNN +GSF
Sbjct: 528 DSTACLRLNNLSISRIGCVEKILWVQLLDLSHNELGSIDGLESMQLLSCLSLSNNKIGSF 587

Query: 593 TALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVID-DDIKS 651
           TALEP+R LKSL+ L+ISYNEIG+HSIDTT+YL SSPLSHS   + +  +   +  D+ S
Sbjct: 588 TALEPLRLLKSLKVLDISYNEIGSHSIDTTRYLFSSPLSHSEEIDLSSDEMATNCTDLAS 647

Query: 652 YWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQL 698
           YWEAYF+ K ++L Q DI GN I +E FK+FL+K+LP L WLDG+Q+
Sbjct: 648 YWEAYFLFKDISLMQLDIEGNTISSESFKAFLVKILPKLHWLDGKQV 694

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297799558|ref|XP_002867663.1| protein binding protein [Arabidopsis lyrata subsp. lyrata] gi|297313499|gb|EFH43922.1| protein binding protein [Arabidopsis lyrata subsp. lyrata]

 Score =  757 bits (1955), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 402/702 (57%), Positives = 513/702 (73%), Gaps = 31/702 (4%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPRK  KPE+ AASAAKA KLR LQSQF+ NHH+ IY+KEA+ELSTKLLE NPE YT
Sbjct: 1   MHGRPRKASKPEEEAASAAKAVKLRSLQSQFMTNHHDKIYTKEAIELSTKLLEINPEAYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAV+  L+  +SDP+ + SI DEELRVVE+ALRQNFKSYGAWHHRKW+LSKGHS
Sbjct: 61  AWNYRKLAVEDTLSRIESDPNLVNSIFDEELRVVENALRQNFKSYGAWHHRKWVLSKGHS 120

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           SI NEL+LLDKFQ+ DSRNFHAWNYRRFV     RSE+DEL+YT+DMI NNFSNYSAWHN
Sbjct: 121 SIGNELKLLDKFQRLDSRNFHAWNYRRFVVELTKRSEQDELQYTDDMINNNFSNYSAWHN 180

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+LLS+LL +  +GF+  EK+ PDEY+FVH AIFTDPDDQSGWFYHLWLLDQT+ V++P
Sbjct: 181 RSVLLSSLLAQNADGFMPNEKI-PDEYDFVHSAIFTDPDDQSGWFYHLWLLDQTLNVETP 239

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            L S+WP+ GS +IL G  CL+  +SS FT F  +S +FPL+LY +QAV GV+SST+T+D
Sbjct: 240 LLTSAWPSHGSTIILSGAGCLNS-SSSKFTTFCSESGSFPLILYSDQAVGGVSSSTVTID 298

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           SEL  N+DLVW+P+S+ NS+ + VWVT L     +      + V++ +G+S GIISS G+
Sbjct: 299 SELKGNEDLVWEPISNKNSQVSCVWVTHLKYVSSDPCE---YKVKIRVGNSPGIISSRGY 355

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           ++S P+ F F   +       VE   + I+SW D  F  ++A S+D   + +L +L  + 
Sbjct: 356 NFSAPYEFVFTAHVH----DTVEDSQEGIVSWTD-GFDIWDAKSKDLKSLVTLDRLEAE- 409

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEE 480
                DFEWR   I  E++ F     L + KIGKLTLARLLMA + M+   A K    EE
Sbjct: 410 ----IDFEWRQEAIDSEVECFG---ILADSKIGKLTLARLLMAREVMVSDDAVKGVRYEE 462

Query: 481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRG--SPMCL 538
           +L+LYN+LM LD +H QYYKD+HS+  L +VTS+ ESL    F Y      RG  + +CL
Sbjct: 463 ILQLYNELMALDSSHYQYYKDEHSVAFLHKVTSSSESLSRHLFRY------RGMNNLVCL 516

Query: 539 QLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPI 598
           +L NLSLSR+ S  KLL+VQMLDLSHNEL S EGLEA+QLL CLNLS+N + SF+AL+ +
Sbjct: 517 RLNNLSLSRIASVKKLLFVQMLDLSHNELHSTEGLEAMQLLCCLNLSHNRIRSFSALDSL 576

Query: 599 RQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDD--IKSYWEAY 656
           R +K L+ L++S+N IG HS+DTT+YLCSSPLS+   SEW+       +   +  YW+AY
Sbjct: 577 RHVKQLKVLDVSHNHIGKHSVDTTRYLCSSPLSN---SEWSQDGVGRQNPGLVTKYWDAY 633

Query: 657 FILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQL 698
           F+L+ LNL Q DI GN I  ++F SF+++V+P L WLDG++L
Sbjct: 634 FVLRDLNLKQLDIAGNEISGDEFSSFVLQVVPKLVWLDGQKL 675

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79485405|ref|NP_194180.2| RAB geranylgeranyl transferase alpha subunit 1 [Arabidopsis thaliana] gi|145334125|ref|NP_001078443.1| RAB geranylgeranyl transferase alpha subunit 1 [Arabidopsis thaliana] gi|18176361|gb|AAL60030.1| putative Rab geranylgeranyl transferase [Arabidopsis thaliana] gi|21436465|gb|AAM51433.1| putative rab geranylgeranyl transferase [Arabidopsis thaliana] gi|332659513|gb|AEE84913.1| RAB geranylgeranyl transferase alpha subunit 1 [Arabidopsis thaliana] gi|332659514|gb|AEE84914.1| RAB geranylgeranyl transferase alpha subunit 1 [Arabidopsis thaliana]

 Score =  743 bits (1919), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 395/697 (56%), Positives = 509/697 (73%), Gaps = 23/697 (3%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPR   KPE+ AASAAKA +LR LQSQF+ NHH+ IY+ EA+ELSTKLLE NPE YT
Sbjct: 1   MHGRPRNASKPEEEAASAAKAVQLRSLQSQFMTNHHDKIYTNEAIELSTKLLEINPEAYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAV+ +L   + DP+ + +ILDEELRVVESALRQNFKSYGAWHHRKW+LSKGHS
Sbjct: 61  AWNYRKLAVEDRLARIEPDPNLVSAILDEELRVVESALRQNFKSYGAWHHRKWVLSKGHS 120

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           S+ NELRLL+KFQK DSRNFHAWNYRRFV    NRSE+DEL+YT+DMI NNFSNYSAWHN
Sbjct: 121 SVGNELRLLEKFQKLDSRNFHAWNYRRFVVELTNRSEQDELQYTDDMINNNFSNYSAWHN 180

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+LLS+LL +  +GF+   K+ P+EY+FVH AIFT+PDDQSGWFYHLWLLDQT+ V++P
Sbjct: 181 RSVLLSSLLAQNADGFMPNIKI-PEEYDFVHSAIFTEPDDQSGWFYHLWLLDQTLNVETP 239

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            L SSWP+ GS +IL G  CL G +SS FT F  +S +FPL+LYF+QAV GV+SST+T+D
Sbjct: 240 LLTSSWPSHGSSIILSGAGCLSG-SSSMFTTFCSESGSFPLILYFDQAVGGVSSSTVTID 298

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           SEL  N+ LVW+P+ + NS+ + VWV +L     +    K   V++ +G+S GI+SS G+
Sbjct: 299 SELKGNEGLVWEPIPNKNSQVSCVWVARLKYVSSDPCEYK---VKIRVGNSPGIVSSRGY 355

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           +++ P+ F F   +       VE   + I+SW D  F  ++A S+D + + +L +L    
Sbjct: 356 NFNAPYEFVFTAHVH----DTVEDSQEGIVSWTD-GFDIWDAKSKDLNSLVTLDRL---- 406

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEE 480
            N   DF+WR   I  E++ F     L + KIGKLTLARLLMA +AM+   A K  H EE
Sbjct: 407 -NAEMDFKWRQEAIDSEVECFG---ILPDSKIGKLTLARLLMAREAMVSDDAVKGVHYEE 462

Query: 481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQL 540
           +L+LYNDLM LD +H QYYKD+HS   L +VTS+ ESL      Y     +  + +CL+L
Sbjct: 463 ILQLYNDLMALDSSHYQYYKDEHSKAFLHKVTSSSESLSRHLLRY----RDMNNLVCLRL 518

Query: 541 KNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQ 600
            NLSLSR+ S +KLL+VQMLDLSHNEL S EGLEA+QLLSCLNLS+N + SF+AL+ +R 
Sbjct: 519 NNLSLSRIASVEKLLFVQMLDLSHNELHSTEGLEAMQLLSCLNLSHNRIRSFSALDSLRH 578

Query: 601 LKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILK 660
           +K L+ L++S+N IG HS+DTT+YLCSSPLS+S   + + G+      +  YW+AY +L 
Sbjct: 579 VKQLKVLDVSHNHIGKHSVDTTRYLCSSPLSNSELGQDDVGKQN-PGLVTKYWDAYCVLT 637

Query: 661 GLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQ 697
            LNL Q DI GN I  E+F SF+++V+P L WLDG++
Sbjct: 638 DLNLKQLDIAGNEIAGEEFSSFVLQVVPKLVWLDGQK 674

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7269299|emb|CAB79359.1| Rab geranylgeranyl transferase like protein (fragment) [Arabidopsis thaliana]

 Score =  717 bits (1851), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 387/684 (56%), Positives = 494/684 (72%), Gaps = 28/684 (4%)

Query: 1   MHGRPRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
           MHGRPR   KPE+ AASAAKA +LR LQSQF+ NHH+ IY+ EA+ELSTKLLE NPE YT
Sbjct: 1   MHGRPRNASKPEEEAASAAKAVQLRSLQSQFMTNHHDKIYTNEAIELSTKLLEINPEAYT 60

Query: 61  AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
           AWNYRKLAV+ +L   + DP+ + +ILDEELRVVESALRQNFKSYGAWHHRKW+LSKGHS
Sbjct: 61  AWNYRKLAVEDRLARIEPDPNLVSAILDEELRVVESALRQNFKSYGAWHHRKWVLSKGHS 120

Query: 121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN 180
           S+ NELRLL+KFQK DSRNFHAWNYRRFV    NRSE+DEL+YT+DMI NNFSNYSAWHN
Sbjct: 121 SVGNELRLLEKFQKLDSRNFHAWNYRRFVVELTNRSEQDELQYTDDMINNNFSNYSAWHN 180

Query: 181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
           RS+LLS+LL +  +GF+   K+ P+EY+FVH AIFT+PDDQSGWFYHLWLLDQT+ V++P
Sbjct: 181 RSVLLSSLLAQNADGFMPNIKI-PEEYDFVHSAIFTEPDDQSGWFYHLWLLDQTLNVETP 239

Query: 241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
            L SSWP+ GS +IL G  CL G +SS FT F  +S +FPL+LYF+QAV GV+SST+T+D
Sbjct: 240 LLTSSWPSHGSSIILSGAGCLSG-SSSMFTTFCSESGSFPLILYFDQAVGGVSSSTVTID 298

Query: 301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
           SEL  N+ LVW+P+ + NS+ + VWV +L     +    K   V++ +G+S GI+SS G+
Sbjct: 299 SELKGNEGLVWEPIPNKNSQVSCVWVARLKYVSSDPCEYK---VKIRVGNSPGIVSSRGY 355

Query: 361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
           +++ P+ F F   +       VE   + I+SW D  F  ++A S+D + + +L +L    
Sbjct: 356 NFNAPYEFVFTAHVH----DTVEDSQEGIVSWTD-GFDIWDAKSKDLNSLVTLDRL---- 406

Query: 421 DNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEE 480
            N   DF+WR   I  E++ F     L + KIGKLTLARLLMA +AM+   A K  H EE
Sbjct: 407 -NAEMDFKWRQEAIDSEVECFG---ILPDSKIGKLTLARLLMAREAMVSDDAVKGVHYEE 462

Query: 481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQ-----QVTSNWESLLSRCFHYSNSPSNRGSP 535
           +L+LYNDLM LD +H QYYKD+HS   L      QVTS+ ESL      Y     +  + 
Sbjct: 463 ILQLYNDLMALDSSHYQYYKDEHSKAFLHKRMFMQVTSSSESLSRHLLRY----RDMNNL 518

Query: 536 MCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTAL 595
           +CL+L NLSLSR+ S +KLL+VQMLDLSHNEL S EGLEA+QLLSCLNLS+N + SF+AL
Sbjct: 519 VCLRLNNLSLSRIASVEKLLFVQMLDLSHNELHSTEGLEAMQLLSCLNLSHNRIRSFSAL 578

Query: 596 EPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEA 655
           + +R +K L+ L++S+N IG HS+DTT+YLCSSPLS+S   + + G+      +  YW+A
Sbjct: 579 DSLRHVKQLKVLDVSHNHIGKHSVDTTRYLCSSPLSNSELGQDDVGKQN-PGLVTKYWDA 637

Query: 656 YFILKGLNLTQFDIVGNAIVNEKF 679
           Y +L  LNL Q DI GN I  E+F
Sbjct: 638 YCVLTDLNLKQLDIAGNEIAGEEF 661

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	699
TAIR|locus:2153015	687	RGTA2 "RAB geranylgeranyl tran	0.944	0.960	0.473	5e-147
TAIR|locus:2121860	678	RGTA1 "RAB geranylgeranyl tran	0.792	0.817	0.467	2e-127
RGD|621697	567	Rabggta "Rab geranylgeranyltra	0.391	0.483	0.369	1.7e-45
MGI|MGI:1860443	567	Rabggta "Rab geranylgeranyl tr	0.327	0.403	0.403	1.5e-44
UNIPROTKB|Q5EA80	567	RABGGTA "Geranylgeranyl transf	0.327	0.403	0.394	7.2e-41
UNIPROTKB|F1PIE1	567	RABGGTA "Uncharacterized prote	0.327	0.403	0.394	1.2e-40
UNIPROTKB|Q92696	567	RABGGTA "Geranylgeranyl transf	0.327	0.403	0.390	1.5e-40
UNIPROTKB|A5A779	567	RABGGTA "Geranylgeranyl transf	0.327	0.403	0.386	2.5e-39
DICTYBASE|DDB_G0269570	311	rabggta "protein geranylgerany	0.277	0.623	0.383	6.7e-38
ZFIN|ZDB-GENE-060929-1042	580	rabggta "Rab geranylgeranyltra	0.253	0.305	0.353	8.7e-38

TAIR|locus:2153015 RGTA2 "RAB geranylgeranyl transferase alpha subunit 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1436 (510.6 bits), Expect = 5.0e-147, P = 5.0e-147
 Identities = 342/723 (47%), Positives = 452/723 (62%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
             MHGR R+   P          E LR LQSQF+ NHH  IY+KEA++LS KLL TNPE YT
Sbjct:     1 MHGRKREE-DPNPEETAAKALE-LRSLQSQFMSNHHQKIYTKEAIQLSAKLLITNPEFYT 58

Query:    61 AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK-GH 119
             AWNY KLA + +L E DSDP  + SI+DEEL VV++AL +N KSYGAW+HRKW+LSK GH
Sbjct:    59 AWNYPKLAFESRLDE-DSDPSLVNSIIDEELGVVQNALERNVKSYGAWYHRKWVLSKKGH 117

Query:   120 --SSIDNELRLLDKFQKA-----D-------SRNFHAWNYRRFVAASMNRSEEDELKYTE 165
                S++NEL+LL+ +QK      D       SRNFHAWNYRRFV      SEEDEL+YT 
Sbjct:   118 YYPSLENELQLLNDYQKQAHQKQDDEKQDDPSRNFHAWNYRRFVVELTKTSEEDELQYTT 177

Query:   166 DMICN-NFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGW 224
             DMI + +F+ YSAWH              +GF+ KE +   E ++VH AIFT  + QSGW
Sbjct:   178 DMISDISFTIYSAWHYRSVLVSSLVAKKADGFMPKETIRR-ELDYVHSAIFTLEEKQSGW 236

Query:   225 FYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSP-FTRFHLDSRTFPLVL 283
             FY+LWLLDQTV+++ P   SSWP+ GS +IL G  C +  +S+   T F  +S +FPL+L
Sbjct:   237 FYYLWLLDQTVKMEIPLRFSSWPSDGSIIILSGPDCFNASSSTTKLTTFCSESGSFPLIL 296

Query:   284 YFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSC-NSKAAQ-VWVTQLNLPDGNT-HSSK 340
             YF+QAV GV+SST+T+ SEL   KDLVW+P+S   NS+    VWV +L         S K
Sbjct:   297 YFDQAVSGVSSSTVTIGSEL---KDLVWEPVSDKKNSQVDSCVWVARLKFDCREPCFSRK 353

Query:   341 VFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKE-IISWRDESFHN 399
                V+VSLG   GI+SS G + + P+ F F  +L+  +T  VE   +E I+SW D  F N
Sbjct:   354 ETKVKVSLG---GIVSSMGCNLTAPYEFVF--TLRIHDTVEVELSQQESIVSWTD-GFDN 407

Query:   400 YNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLAR 459
             ++ ++  S+ ++SL  L     N  T FEWR   I  EI+ FR   +L + KIGKL LAR
Sbjct:   408 WDDNAL-SNDLNSLTAL-----NADTGFEWRKKAIKIEIELFR---TLPDSKIGKLILAR 458

Query:   460 LLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLL 519
             LLMA + M+   +N + H +E+L+LYNDLM LD  H QYYKD+HS+ L+ +VTS  ES+ 
Sbjct:   459 LLMAEETMI---SNGV-HYKEILQLYNDLMALDSWHNQYYKDEHSVALIHKVTSRTESMS 514

Query:   520 SRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGXXXXXXX 579
                F Y N      + +CL+L NL+LSR+ + +KLL+VQMLDLSHNEL S EG       
Sbjct:   515 RHLFRYRNM----NNIICLRLNNLTLSRIAAVEKLLFVQMLDLSHNELHSAEGLEAMQLL 570

Query:   580 XXXXXXXXXXXXFTALEPIRQLKSLRALNISYNEI-GAHSIDTTKYLCSSPLSHSVGSEW 638
                         F+AL+ +R LK LR L++S+N I G   +DTT+YLCSSPLS+S     
Sbjct:   571 CCLNLSHNRIRSFSALDSLRHLKQLRVLDVSHNHICGELPVDTTRYLCSSPLSNS----- 625

Query:   639 NHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV--NEKFKSFLIKVLPGLKWLDG 695
               G+T  +   K Y +AY +L+ L  L Q DI GN ++   E+F SF+ +V+P L WLDG
Sbjct:   626 --GETGREVPNK-YQDAYLVLRDLMKLKQLDIRGNDLIFAGEEFSSFVRQVVPKLVWLDG 682

Query:   696 EQL 698
              +L
Sbjct:   683 HKL 685

GO:0005886 "plasma membrane" evidence=ISM

GO:0008318 "protein prenyltransferase activity" evidence=IEA

GO:0018342 "protein prenylation" evidence=IEA

TAIR|locus:2121860 RGTA1 "RAB geranylgeranyl transferase alpha subunit 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1251 (445.4 bits), Expect = 2.0e-127, P = 2.0e-127
 Identities = 273/584 (46%), Positives = 375/584 (64%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT 60
             MHGRPR   KPE+         +LR LQSQF+ NHH+ IY+ EA+ELSTKLLE NPE YT
Sbjct:     1 MHGRPRNASKPEEEAASAAKAVQLRSLQSQFMTNHHDKIYTNEAIELSTKLLEINPEAYT 60

Query:    61 AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS 120
             AWNYRKLAV+ +L   + DP+ + +ILDEELRVVESALRQNFKSYGAWHHRKW+LSKGHS
Sbjct:    61 AWNYRKLAVEDRLARIEPDPNLVSAILDEELRVVESALRQNFKSYGAWHHRKWVLSKGHS 120

Query:   121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHX 180
             S+ NELRLL+KFQK DSRNFHAWNYRRFV    NRSE+DEL+YT+DMI NNFSNYSAWH 
Sbjct:   121 SVGNELRLLEKFQKLDSRNFHAWNYRRFVVELTNRSEQDELQYTDDMINNNFSNYSAWHN 180

Query:   181 XXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP 240
                          +GF+   K+ P+EY+FVH AIFT+PDDQSGWFYHLWLLDQT+ V++P
Sbjct:   181 RSVLLSSLLAQNADGFMPNIKI-PEEYDFVHSAIFTEPDDQSGWFYHLWLLDQTLNVETP 239

Query:   241 QLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVD 300
              L SSWP+ GS +IL G  CL G +SS FT F  +S +FPL+LYF+QAV GV+SST+T+D
Sbjct:   240 LLTSSWPSHGSSIILSGAGCLSG-SSSMFTTFCSESGSFPLILYFDQAVGGVSSSTVTID 298

Query:   301 SELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGF 360
             SEL  N+ LVW+P+ + NS+ + VWV +L     +    KV   ++ +G+S GI+SS G+
Sbjct:   299 SELKGNEGLVWEPIPNKNSQVSCVWVARLKYVSSDPCEYKV---KIRVGNSPGIVSSRGY 355

Query:   361 HYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIKN 420
             +++ P+ F F   +   +T  VE   + I+SW D  F  ++A S+D + + +L +L    
Sbjct:   356 NFNAPYEFVFTAHVH--DT--VEDSQEGIVSWTD-GFDIWDAKSKDLNSLVTLDRL---- 406

Query:   421 DNELTDFEWRAATIAKEIDHFRELL-SLIN-CKIGKLTLAR-LLMAHDAMMCPPANKISH 477
              N   DF+WR   I  E++ F  L  S I    + +L +AR  +++ DA+      +I  
Sbjct:   407 -NAEMDFKWRQEAIDSEVECFGILPDSKIGKLTLARLLMAREAMVSDDAVKGVHYEEILQ 465

Query:   478 S-EEVLEL---YNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSR-CFHYSNSPSNR 532
                +++ L   +    + + +    +K   S   L +    +  + +  C   +N   +R
Sbjct:   466 LYNDLMALDSSHYQYYKDEHSKAFLHKVTSSSESLSRHLLRYRDMNNLVCLRLNNLSLSR 525

Query:   533 GSP----MCLQLKNLSLSRLGSFDKLLWVQML---DLSHNELRS 569
              +     + +Q+ +LS + L S + L  +Q+L   +LSHN +RS
Sbjct:   526 IASVEKLLFVQMLDLSHNELHSTEGLEAMQLLSCLNLSHNRIRS 569

GO:0005737 "cytoplasm" evidence=ISM

GO:0008318 "protein prenyltransferase activity" evidence=IEA

GO:0018342 "protein prenylation" evidence=IEA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0005829 "cytosol" evidence=IDA

RGD|621697 Rabggta "Rab geranylgeranyltransferase, alpha subunit" [Rattus norvegicus (taxid:10116)]

 Score = 426 (155.0 bits), Expect = 1.7e-45, Sum P(2) = 1.7e-45
 Identities = 109/295 (36%), Positives = 148/295 (50%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXE-KLRVLQS--QFLHNHHNHIYSKEAV-ELSTKLLETNP 56
             MHGR +     E         E KL++ QS  Q +          E+V EL++++L  NP
Sbjct:     1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60

Query:    57 ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
             +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct:    61 DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query:   117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
             +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct:   119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178

Query:   176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
             S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct:   179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR 238

Query:   234 TVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQA 288
                 D    V          +   + CL  C S P T   + SR   L+L  ++A
Sbjct:   239 AEPHDVLCCVH---------VSREEACLSVCFSRPLT---VGSRMGTLLLMVDEA 281

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=ISO;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0018344 "protein geranylgeranylation" evidence=ISO;IDA

MGI|MGI:1860443 Rabggta "Rab geranylgeranyl transferase, a subunit" [Mus musculus (taxid:10090)]

 Score = 418 (152.2 bits), Expect = 1.5e-44, Sum P(2) = 1.5e-44
 Identities = 96/238 (40%), Positives = 127/238 (53%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXE-KLRVLQS--QFLHNHHNHIYSKEAV-ELSTKLLETNP 56
             MHGR +     E         E KL++ QS  Q +          E+V EL++++L  NP
Sbjct:     1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKREAGELDESVLELTSQILGANP 60

Query:    57 ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
             +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct:    61 DFATLWNCRREVLQQ--LETQKSPEELAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query:   117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
             +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct:   119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178

Query:   176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
             S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct:   179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLRELELVQNAFFTDPNDQSAWFYHRWLL 236

GO:0004659 "prenyltransferase activity" evidence=IEA

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=ISO;IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008318 "protein prenyltransferase activity" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0018342 "protein prenylation" evidence=IEA

GO:0018344 "protein geranylgeranylation" evidence=ISO;IMP

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|Q5EA80 RABGGTA "Geranylgeranyl transferase type-2 subunit alpha" [Bos taurus (taxid:9913)]

 Score = 406 (148.0 bits), Expect = 7.2e-41, Sum P(2) = 7.2e-41
 Identities = 94/238 (39%), Positives = 125/238 (52%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXE-KLRVLQS--QFLHNHHNHIYSKEAV-ELSTKLLETNP 56
             MHGR +     E         E KL++ Q+  Q +          E+V EL++++L  NP
Sbjct:     1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQAATQTVFQKRQAGELDESVLELTSQILGANP 60

Query:    57 ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
             +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct:    61 DFATLWNCRREVLQQ--LEVQKSPEELATLVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query:   117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
             +    +   EL L  +F + D RNFH W+YRRFVAA       +EL +T+ +I  NFSNY
Sbjct:   119 RLPEPNWARELELCARFLEVDERNFHCWDYRRFVAAQAAVPPAEELAFTDSLITRNFSNY 178

Query:   176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
             S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct:   179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLL 236

GO:0018344 "protein geranylgeranylation" evidence=IEA

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1PIE1 RABGGTA "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 406 (148.0 bits), Expect = 1.2e-40, Sum P(2) = 1.2e-40
 Identities = 94/238 (39%), Positives = 124/238 (52%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXE-KLRVLQS--QFLHNHHNHIYSKEAV-ELSTKLLETNP 56
             MHGR +     E         E KL++ QS  Q +          E+V EL++++L  NP
Sbjct:     1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQTVFQKRQAGELDESVLELTSQILGANP 60

Query:    57 ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
             +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+L 
Sbjct:    61 DFATLWNCRREVLQR--LEAQKSPEELAALVKTELGFLESCLRVNPKSYGTWHHRCWLLG 118

Query:   117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
             +    +   EL L  +F + D RNFH W+YRRFVAA       +EL +T+ +I  NFSNY
Sbjct:   119 RLPEPNWARELELCARFLEVDERNFHCWDYRRFVAAQAAVPPAEELAFTDSLITRNFSNY 178

Query:   176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
             S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct:   179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLL 236

GO:0018342 "protein prenylation" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=IEA

UNIPROTKB|Q92696 RABGGTA "Geranylgeranyl transferase type-2 subunit alpha" [Homo sapiens (taxid:9606)]

 Score = 405 (147.6 bits), Expect = 1.5e-40, Sum P(2) = 1.5e-40
 Identities = 93/238 (39%), Positives = 123/238 (51%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXE-KLRVLQS--QFLHNHHNHIYSKEAV-ELSTKLLETNP 56
             MHGR +     E         E KL++ QS  Q +          E+V EL++++L  NP
Sbjct:     1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60

Query:    57 ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
             +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+L 
Sbjct:    61 DFATLWNCRREVLQQ--LETQKSPEELAALVKAELGFLESCLRVNPKSYGTWHHRCWLLG 118

Query:   117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
             +    +   EL L  +F + D RNFH W+YRRFVA        +EL +T+ +I  NFSNY
Sbjct:   119 RLPEPNWTRELELCARFLEVDERNFHCWDYRRFVATQAAVPPAEELAFTDSLITRNFSNY 178

Query:   176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
             S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct:   179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLL 236

GO:0008270 "zinc ion binding" evidence=IEA

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=IEA

GO:0018344 "protein geranylgeranylation" evidence=IEA

GO:0006464 "cellular protein modification process" evidence=TAS

GO:0007601 "visual perception" evidence=TAS

UNIPROTKB|A5A779 RABGGTA "Geranylgeranyl transferase type-2 subunit alpha" [Sus scrofa (taxid:9823)]

 Score = 399 (145.5 bits), Expect = 2.5e-39, Sum P(2) = 2.5e-39
 Identities = 92/238 (38%), Positives = 124/238 (52%)

Query:     1 MHGRPRKPLKPEDXXXXXXXXE-KLRVLQS--QFLHNHHNHIYSKEAV-ELSTKLLETNP 56
             MHGR +     E         E KL++ Q+  Q +          E+V EL++++L  NP
Sbjct:     1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQTATQTVFQKRQAGELDESVLELTSQILGANP 60

Query:    57 ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
             +  T WN R+  +Q    E    P+ L +++  EL  +ES LR N KSYG WHHR W+L 
Sbjct:    61 DFATLWNCRREVLQR--LEVQKSPEELAALVKAELGFLESCLRVNPKSYGTWHHRCWLLG 118

Query:   117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
             +    +   EL L  +F + D RNFH W+YRRFVA+       +EL +T+ +I  NFSNY
Sbjct:   119 RLPEPNWARELELCARFLEVDERNFHCWDYRRFVASQAAVPPAEELAFTDSLITRNFSNY 178

Query:   176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
             S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct:   179 SSWHYRSCLLPQLHPQPDSGPQGRLPEDVLLKELELVQNAFFTDPNDQSAWFYHRWLL 236

GO:0018344 "protein geranylgeranylation" evidence=IEA

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

DICTYBASE|DDB_G0269570 rabggta "protein geranylgeranyltransferase type II" [Dictyostelium discoideum (taxid:44689)]

 Score = 371 (135.7 bits), Expect = 6.7e-38, Sum P(2) = 6.7e-38
 Identities = 77/201 (38%), Positives = 111/201 (55%)

Query:    32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEEL 91
             L    N  Y + ++ +S  +L  NPE YT WNYR+LA+  + TE   + + L+ I   E+
Sbjct:    38 LREKQNGRYDEISLSVSKLVLIENPEFYTIWNYRRLAIL-QFTETKENSE-LQVIYQNEM 95

Query:    92 RVVESALRQNFKSYGAWHHRKWI-LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA 150
             + +E  +++  KSY  W HR+WI L   +   + E++L  K    D RNFH W +RRF+ 
Sbjct:    96 KFLEECIQRFTKSYWIWFHRQWIALRMDNCDWEREMKLCTKLLNFDLRNFHCWGHRRFIL 155

Query:   151 ASMNRSEEDELKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFV 210
                N   EDELKYT + +  NFSNYSAWH              E  +  EK+L +E+E V
Sbjct:   156 KHSNIKLEDELKYTTEKVEQNFSNYSAWHQRSSILPKIYKEP-EQLL--EKIL-EEFELV 211

Query:   211 HQAIFTDPDDQSGWFYHLWLL 231
               A++T+P D S W YH WL+
Sbjct:   212 RNAVYTEPKDSSSWIYHKWLV 232

GO:0018342 "protein prenylation" evidence=IEA

GO:0008318 "protein prenyltransferase activity" evidence=IEA

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=IEA;ISS

GO:0018344 "protein geranylgeranylation" evidence=ISS

GO:0005968 "Rab-protein geranylgeranyltransferase complex" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0004659 "prenyltransferase activity" evidence=IEA

ZFIN|ZDB-GENE-060929-1042 rabggta "Rab geranylgeranyltransferase, alpha subunit" [Danio rerio (taxid:7955)]

 Score = 316 (116.3 bits), Expect = 8.7e-38, Sum P(3) = 8.7e-38
 Identities = 65/184 (35%), Positives = 100/184 (54%)

Query:     1 MHGRPR-KPLKPEDXXXXXXXXEKLRVL---QSQFLHNHHNHIYSKEAVELSTKLLETNP 56
             MHGR + K    ++        +KL+     +   L       + +EA++L+ +LL +NP
Sbjct:     1 MHGRVKVKTTAQQEEEKRKEREKKLKAFVCARDSVLKKRSAGEHDEEALDLTQQLLSSNP 60

Query:    57 ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
             +  T WNYR+  + H   E   + D ++ + + EL  +E+ L+ N KSYG WHHR W+ +
Sbjct:    61 DFATLWNYRREVLLH--LETLREKDEVQKLYESELHFIEACLKVNPKSYGCWHHRSWVNT 118

Query:   117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
             +        EL L D+    D RNFH W+YRR V      S E EL++T+ +I +NFSNY
Sbjct:   119 RLPQPDWTRELGLCDRCLSLDERNFHCWDYRRLVVKESGVSVEQELQFTDRLIGSNFSNY 178

Query:   176 SAWH 179
             S+WH
Sbjct:   179 SSWH 182

GO:0018342 "protein prenylation" evidence=IEA

GO:0008318 "protein prenyltransferase activity" evidence=IEA

GO:0004663 "Rab geranylgeranyltransferase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

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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

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.5.1	0.691

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00061586 hypothetical protein (696 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	699
COG5536	328	COG5536, BET4, Protein prenyltransferase, alpha su	2e-44
PLN02789	320	PLN02789, PLN02789, farnesyltranstransferase	5e-24
pfam01239	30	pfam01239, PPTA, Protein prenyltransferase alpha s	1e-05
pfam01239	30	pfam01239, PPTA, Protein prenyltransferase alpha s	7e-05
pfam01239	30	pfam01239, PPTA, Protein prenyltransferase alpha s	2e-04
pfam01239	30	pfam01239, PPTA, Protein prenyltransferase alpha s	6e-04
COG5536	328	COG5536, BET4, Protein prenyltransferase, alpha su	7e-04
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	7e-04
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.002

>gnl|CDD|227823 COG5536, BET4, Protein prenyltransferase, alpha subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  161 bits (409), Expect = 2e-44
 Identities = 72/200 (36%), Positives = 108/200 (54%), Gaps = 13/200 (6%)

Query: 39  IYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESAL 98
            YS  A++L+ +L++ NPE YT WNYR   ++H    ++        +LD EL  ++ AL
Sbjct: 46  EYSVRALKLTQELIDKNPEFYTIWNYRFSILKHVQMVSEDKEH----LLDNELDFLDEAL 101

Query: 99  RQNFKSYGAWHHRKWILSK-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE 157
           + N K+Y  WHHR+W+L      S   EL +  K   +DSRN+H W+YRR+V  ++    
Sbjct: 102 KDNPKNYQIWHHRQWMLELFPKPSWGRELFITKKLLDSDSRNYHVWSYRRWVLRTIEDLF 161

Query: 158 -----EDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQ 212
                + EL+YT  +I  +  N SAWH+R + +     R   G V  +K L  E E++  
Sbjct: 162 NFSDLKHELEYTTSLIETDIYNNSAWHHRYIWIERRFNR---GDVISQKYLEKELEYIFD 218

Query: 213 AIFTDPDDQSGWFYHLWLLD 232
            IFTDPD+QS W Y   +  
Sbjct: 219 KIFTDPDNQSVWGYLRGVSS 238

Length = 328

>gnl|CDD|215423 PLN02789, PLN02789, farnesyltranstransferase

 Score =  103 bits (258), Expect = 5e-24
 Identities = 59/207 (28%), Positives = 105/207 (50%), Gaps = 20/207 (9%)

Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S  A++L+  ++  NP  YT W++R+L ++           +L + L+EEL   E     
Sbjct: 53  SPRALDLTADVIRLNPGNYTVWHFRRLCLE-----------ALDADLEEELDFAEDVAED 101

Query: 101 NFKSYGAWHHRKWILSK-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEED 159
           N K+Y  WHHR+W+  K G  + + EL    K    D++N+HAW++R++V  ++    ED
Sbjct: 102 NPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGW-ED 160

Query: 160 ELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD 219
           EL+Y   ++  +  N SAW+ R  +++      + G  +   +   E ++   AI  +P 
Sbjct: 161 ELEYCHQLLEEDVRNNSAWNQRYFVITR--SPLLGGLEA---MRDSELKYTIDAILANPR 215

Query: 220 DQSGWFYHLWLL--DQTVRVDSPQLVS 244
           ++S W Y   L   D+   V  P++ S
Sbjct: 216 NESPWRYLRGLFKDDKEALVSDPEVSS 242

Length = 320

>gnl|CDD|201678 pfam01239, PPTA, Protein prenyltransferase alpha subunit repeat

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 13/29 (44%), Positives = 20/29 (68%)

Query: 89  EELRVVESALRQNFKSYGAWHHRKWILSK 117
           EEL + E  L  + K+Y AW++R+W+L K
Sbjct: 1   EELELTEKLLELDPKNYSAWNYRRWLLEK 29

Both farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) recognise a CaaX motif on their substrates where 'a' stands for preferably aliphatic residues, whereas GGT2 recognises a completely different motif. Important substrates for FT include, amongst others, many members of the Ras superfamily. GGT1 substrates include some of the other small GTPases and GGT2 substrates include the Rab family. Length = 30

>gnl|CDD|201678 pfam01239, PPTA, Protein prenyltransferase alpha subunit repeat

 Score = 39.8 bits (94), Expect = 7e-05
 Identities = 13/30 (43%), Positives = 19/30 (63%)

Query: 159 DELKYTEDMICNNFSNYSAWHNRSLLLSNL 188
           +EL+ TE ++  +  NYSAW+ R  LL  L
Sbjct: 1   EELELTEKLLELDPKNYSAWNYRRWLLEKL 30

Both farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) recognise a CaaX motif on their substrates where 'a' stands for preferably aliphatic residues, whereas GGT2 recognises a completely different motif. Important substrates for FT include, amongst others, many members of the Ras superfamily. GGT1 substrates include some of the other small GTPases and GGT2 substrates include the Rab family. Length = 30

>gnl|CDD|201678 pfam01239, PPTA, Protein prenyltransferase alpha subunit repeat

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 10/29 (34%), Positives = 16/29 (55%)

Query: 205 DEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           +E E   + +  DP + S W Y  WLL++
Sbjct: 1   EELELTEKLLELDPKNYSAWNYRRWLLEK 29

Both farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) recognise a CaaX motif on their substrates where 'a' stands for preferably aliphatic residues, whereas GGT2 recognises a completely different motif. Important substrates for FT include, amongst others, many members of the Ras superfamily. GGT1 substrates include some of the other small GTPases and GGT2 substrates include the Rab family. Length = 30

>gnl|CDD|201678 pfam01239, PPTA, Protein prenyltransferase alpha subunit repeat

 Score = 37.1 bits (87), Expect = 6e-04
 Identities = 12/26 (46%), Positives = 18/26 (69%)

Query: 124 NELRLLDKFQKADSRNFHAWNYRRFV 149
            EL L +K  + D +N+ AWNYRR++
Sbjct: 1   EELELTEKLLELDPKNYSAWNYRRWL 26

Both farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) recognise a CaaX motif on their substrates where 'a' stands for preferably aliphatic residues, whereas GGT2 recognises a completely different motif. Important substrates for FT include, amongst others, many members of the Ras superfamily. GGT1 substrates include some of the other small GTPases and GGT2 substrates include the Rab family. Length = 30

>gnl|CDD|227823 COG5536, BET4, Protein prenyltransferase, alpha subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 42.2 bits (99), Expect = 7e-04
 Identities = 26/128 (20%), Positives = 47/128 (36%), Gaps = 14/128 (10%)

Query: 30  QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDE 89
           Q++            + ++ KLL+++   Y  W+YR+  ++      +       S L  
Sbjct: 115 QWMLELFPKPSWGRELFITKKLLDSDSRNYHVWSYRRWVLRTIEDLFN------FSDLKH 168

Query: 90  ELRVVESALRQNFKSYGAWHHRKWILSK--------GHSSIDNELRLLDKFQKADSRNFH 141
           EL    S +  +  +  AWHHR   + +            ++ EL  +      D  N  
Sbjct: 169 ELEYTTSLIETDIYNNSAWHHRYIWIERRFNRGDVISQKYLEKELEYIFDKIFTDPDNQS 228

Query: 142 AWNYRRFV 149
            W Y R V
Sbjct: 229 VWGYLRGV 236

Length = 328

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

 Score = 37.5 bits (88), Expect = 7e-04
 Identities = 13/39 (33%), Positives = 21/39 (53%)

Query: 558 QMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE 596
           + LDLS+N++  +  L  L  L  L+LS N +   + L 
Sbjct: 4   ETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLSPLS 42

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

>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 23/60 (38%), Positives = 33/60 (55%), Gaps = 3/60 (5%)

Query: 557 VQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           ++ LDLS+N L  I     + L  L  L+LS N L S +  E    L SLR+L++S N +
Sbjct: 2   LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISP-EAFSGLPSLRSLDLSGNNL 60

Length = 60

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	699
KOG0529	421	consensus Protein geranylgeranyltransferase type I	100.0
KOG0530	318	consensus Protein farnesyltransferase, alpha subun	100.0
COG5536	328	BET4 Protein prenyltransferase, alpha subunit [Pos	100.0
PLN02789	320	farnesyltranstransferase	100.0
PLN02789	320	farnesyltranstransferase	99.94
KOG0529	421	consensus Protein geranylgeranyltransferase type I	99.91
KOG0530	318	consensus Protein farnesyltransferase, alpha subun	99.86
COG5536	328	BET4 Protein prenyltransferase, alpha subunit [Pos	99.72
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.57
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.53
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.49
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.43
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.41
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.3
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.29
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.26
PF07711	102	RabGGT_insert: Rab geranylgeranyl transferase alph	99.22
PRK15359	144	type III secretion system chaperone protein SscB;	99.21
PRK15359	144	type III secretion system chaperone protein SscB;	99.17
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.16
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.13
PRK12370	553	invasion protein regulator; Provisional	99.13
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.1
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.08
PRK11189	296	lipoprotein NlpI; Provisional	99.07
PRK11189	296	lipoprotein NlpI; Provisional	99.06
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.02
PRK12370	553	invasion protein regulator; Provisional	99.01
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.01
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.0
KOG1126	638	consensus DNA-binding cell division cycle control	98.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.94
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.93
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.91
KOG1126	638	consensus DNA-binding cell division cycle control	98.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.89
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.86
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.83
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.82
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.76
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.75
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.74
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.71
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.67
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.65
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.65
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.65
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.65
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.64
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.62
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.62
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.62
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.61
KOG0553	304	consensus TPR repeat-containing protein [General f	98.59
PF01239	31	PPTA: Protein prenyltransferase alpha subunit repe	98.57
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.56
KOG1125	579	consensus TPR repeat-containing protein [General f	98.54
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.53
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.53
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.52
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.52
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.51
PF01239	31	PPTA: Protein prenyltransferase alpha subunit repe	98.5
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.5
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.5
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.48
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.47
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.47
KOG0553	304	consensus TPR repeat-containing protein [General f	98.47
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.46
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.45
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.45
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.44
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.39
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.32
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.31
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.29
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.28
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.28
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.27
KOG2076	895	consensus RNA polymerase III transcription factor	98.27
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.26
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.25
KOG2123	388	consensus Uncharacterized conserved protein [Funct	98.21
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.21
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.19
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.18
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.16
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.16
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.14
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.14
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.13
PLN03150	623	hypothetical protein; Provisional	98.13
PRK14574	822	hmsH outer membrane protein; Provisional	98.13
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.12
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.11
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.09
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.09
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.06
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.06
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.03
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.96
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.93
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.92
KOG2076	895	consensus RNA polymerase III transcription factor	97.89
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.81
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.8
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.8
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.8
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.78
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.74
PLN03150	623	hypothetical protein; Provisional	97.74
KOG4234	271	consensus TPR repeat-containing protein [General f	97.72
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.7
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.7
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.7
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.69
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.67
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.65
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.64
PRK11906	458	transcriptional regulator; Provisional	97.63
PRK11906	458	transcriptional regulator; Provisional	97.6
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.59
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.58
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.58
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.58
KOG1125	579	consensus TPR repeat-containing protein [General f	97.56
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.55
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.52
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.47
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.47
PRK14574	822	hmsH outer membrane protein; Provisional	97.47
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.46
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.41
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.39
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.39
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.38
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.33
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.29
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.24
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.23
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.23
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.22
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.22
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.19
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.19
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.16
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.12
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.11
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.01
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.0
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.92
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.91
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.9
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.89
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.87
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	96.84
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.83
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	96.79
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.75
PRK10803	263	tol-pal system protein YbgF; Provisional	96.75
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	96.74
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	96.7
KOG4234	271	consensus TPR repeat-containing protein [General f	96.69
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.66
PF13371	73	TPR_9: Tetratricopeptide repeat	96.64
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	96.64
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.55
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.55
KOG1128	777	consensus Uncharacterized conserved protein, conta	96.51
PF13371	73	TPR_9: Tetratricopeptide repeat	96.5
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	96.47
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.43
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	96.26
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.19
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	96.14
PRK10803	263	tol-pal system protein YbgF; Provisional	96.14
KOG1129	478	consensus TPR repeat-containing protein [General f	96.11
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	96.04
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.02
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.01
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.98
KOG2003	840	consensus TPR repeat-containing protein [General f	95.91
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	95.91
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.89
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.89
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.81
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.78
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.67
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.66
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.66
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.61
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	95.46
PF12688	120	TPR_5: Tetratrico peptide repeat	95.44
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.3
KOG0495	913	consensus HAT repeat protein [RNA processing and m	95.18
KOG3763	585	consensus mRNA export factor TAP/MEX67 [RNA proces	95.15
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	95.1
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.94
KOG1128	777	consensus Uncharacterized conserved protein, conta	94.85
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	94.73
PF13431	34	TPR_17: Tetratricopeptide repeat	94.66
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.6
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.38
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	94.37
PF13431	34	TPR_17: Tetratricopeptide repeat	94.3
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	94.28
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	94.22
KOG2003	840	consensus TPR repeat-containing protein [General f	94.21
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	94.17
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	94.12
KOG4555	175	consensus TPR repeat-containing protein [Function	93.77
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.69
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.33
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	93.31
PRK15331	165	chaperone protein SicA; Provisional	93.15
PF12688	120	TPR_5: Tetratrico peptide repeat	93.06
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.91
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.69
KOG2376	652	consensus Signal recognition particle, subunit Srp	92.49
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.45
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	92.12
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.12
PRK15386	426	type III secretion protein GogB; Provisional	91.91
KOG0473	326	consensus Leucine-rich repeat protein [Function un	91.61
PF13428	44	TPR_14: Tetratricopeptide repeat	91.57
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	91.37
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	91.07
PF13428	44	TPR_14: Tetratricopeptide repeat	90.68
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	90.68
PRK15331	165	chaperone protein SicA; Provisional	90.36
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	90.25
KOG4555	175	consensus TPR repeat-containing protein [Function	90.12
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	90.04
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	89.69
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.3
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	89.17
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	89.15
PRK15386	426	type III secretion protein GogB; Provisional	89.06
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	88.43
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	88.43
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	88.17
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	87.64
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.48
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	87.25
KOG1310	758	consensus WD40 repeat protein [General function pr	87.0
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	86.06
PLN03077	857	Protein ECB2; Provisional	85.83
KOG1129	478	consensus TPR repeat-containing protein [General f	85.67
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	84.91
PLN03218	1060	maturation of RBCL 1; Provisional	84.89
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	84.8
smart00370	26	LRR Leucine-rich repeats, outliers.	84.8
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	84.8
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	84.66
KOG0473	326	consensus Leucine-rich repeat protein [Function un	83.29
PF13512	142	TPR_18: Tetratricopeptide repeat	83.11
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	82.81
PRK10941	269	hypothetical protein; Provisional	82.46
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	82.11
PLN03218	1060	maturation of RBCL 1; Provisional	81.98
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	81.87
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	81.21
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	81.1
PF13512	142	TPR_18: Tetratricopeptide repeat	80.68
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	80.46

>KOG0529 consensus Protein geranylgeranyltransferase type II, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.4e-64  Score=523.78  Aligned_cols=409  Identities=44%  Similarity=0.698  Sum_probs=320.5

Q ss_pred             CCCCcCC-CCChHHHHH---HHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccC
Q 005381            1 MHGRPRK-PLKPEDAAA---SAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEN   76 (699)
Q Consensus         1 mhg~~~~-~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~   76 (699)
                      ||||+|+ ++++|.+++   +.+++..|+..+++|..+++.++||+++++++.++|..||++|++||||+.++.......
T Consensus         1 Mhg~~kv~~~eee~~~k~~~~~~k~~~~~~~~s~i~~~r~~~~yd~e~l~lt~~ll~~npe~~t~wN~Rr~~~~~r~~~~   80 (421)
T KOG0529|consen    1 MHGRLKVKTTEEEKEAKLKERAFKAGQLRSLFSIIQKKREAKEYDEEHLELTSELLEKNPEFYTVWNYRRLIIEERLTRA   80 (421)
T ss_pred             CCcccccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHhhCchhhhhhhhHHHHHHHhhhhh
Confidence            9999998 556666664   466688888889999999999999999999999999999999999999999998876534


Q ss_pred             CCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCC
Q 005381           77 DSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS-SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus        77 ~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~-~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~  155 (699)
                      +.+|.+.+..+++||.+++.||+.|||+|.+||||+|+|++.+. .+..||.+|+++|+.||||||||+|||||+.+..+
T Consensus        81 ~~~~~ek~~~ld~eL~~~~~~L~~npksY~aW~hR~w~L~~~p~~~~~~EL~lcek~L~~D~RNfh~W~YRRfV~~~~~~  160 (421)
T KOG0529|consen   81 QLEPLEKQALLDEELKYVESALKVNPKSYGAWHHRKWVLQKNPHSDWNTELQLCEKALKQDPRNFHAWHYRRFVVEQAER  160 (421)
T ss_pred             cCCHHHHHHhhHHHHHHHHHHHHhCchhHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcCcccccchHHHHHHHHHHhc
Confidence            56677888899999999999999999999999999999997654 49999999999999999999999999999999988


Q ss_pred             C---hHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          156 S---EEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       156 ~---~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                      .   +.+|++||+++|..||+||||||||+.+|+.+.+++..|.....+.+..|++.+++|+|+||+|+|+|+|++|||+
T Consensus       161 ~~~~~~~El~ftt~~I~~nfSNYsaWhyRs~lL~~l~~~~~~g~~~~~~~l~sEle~v~saiFTdp~DqS~WfY~rWLl~  240 (421)
T KOG0529|consen  161 SRNLEKEELEFTTKLINDNFSNYSAWHYRSLLLSTLHPKEADGNFMPKELLQSELEMVHSAIFTDPEDQSCWFYHRWLLG  240 (421)
T ss_pred             ccccchhHHHHHHHHHhccchhhhHHHHHHHHHHHhccccccCccCCHHHHHHHHHHHHHHHhcCccccceeeehHHhhc
Confidence            7   7899999999999999999999999999999998877774334466799999999999999999999999999999


Q ss_pred             CcCCCCCCcccccCCCCCCcceecCCccccCCCCCCCccccCCCCccceEEeeccccccccccceEEecccCCCccceee
Q 005381          233 QTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWK  312 (699)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~  312 (699)
                      ++.+.+                     |..++.    +.+++.++.+|.+.+|...+.++.+   ++.++        |+
T Consensus       241 ~~~~~~---------------------~~~~S~----s~~ls~~~~~p~~~~l~~e~~~v~~---~i~~E--------~~  284 (421)
T KOG0529|consen  241 RGMRRE---------------------CYIVSH----SALLSESFSEPLIKYLRSEIGLVQS---TIGSE--------FE  284 (421)
T ss_pred             cccccc---------------------cccccc----ccccccccCCccHHHHHHHhhhhhh---hhhhh--------cc
Confidence            987655                     111111    1345667788899999888877643   33333        33


Q ss_pred             e-CCCCCCccceeEEEeccCCCCCCCCCCccceEEecCcccccccCCCCccCCCccceEEEEEeecccccccccccceee
Q 005381          313 P-LSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIIS  391 (699)
Q Consensus       313 ~-~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  391 (699)
                      + ++..+      |+|..+..                             |..|.+ ++.|++.-.+  .    ..+..+
T Consensus       285 ~~~d~~g------w~~~~~~n-----------------------------~~s~~~-~~~v~~~~e~--~----~~~~~~  322 (421)
T KOG0529|consen  285 TPIDKRG------WLCESLVN-----------------------------LESPYE-TKRVHLTVED--Q----QFGIVS  322 (421)
T ss_pred             ccccccC------chhccccc-----------------------------hhhhhh-cccccccccc--c----cccccc
Confidence            3 22222      77765541                             122333 2333332211  1    112334


Q ss_pred             ccCCCccccc-cccCCCCCccccccccccccCccchhhhhHHHHHHHHHHHHhhhh-ccccccccccHHHHHhhcccCCC
Q 005381          392 WRDESFHNYN-AHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLS-LINCKIGKLTLARLLMAHDAMMC  469 (699)
Q Consensus       392 ~~~~~~~~~~-~~~~~~~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~-~p~nk~~~Ltl~~ll~~~~~l~~  469 (699)
                      |.+ .++.+. +..   ..+-+++      -+.+    .....|+++|++|.+|++ +|++||++++.++++++.++|. 
T Consensus       323 ~~~-~~e~~~~~~~---~~l~~~~------~~e~----~~~a~lqe~ie~c~~l~~~~P~~k~~~l~~~~l~~a~e~~~-  387 (421)
T KOG0529|consen  323 WVA-SNEQWLHALL---DDLDSLD------CNEE----TRRAWLQEQIESCVELQELLPDSKWGLLTSALLLRALEPMD-  387 (421)
T ss_pred             chh-hhhhhHHHHh---hhccccc------hhhh----ccHHHHHHHHHHHHHHHhhCCccchhHHHHHHHHhcccccc-
Confidence            433 223222 111   1111221      1122    366789999999999999 9999999999999999999974 


Q ss_pred             CCCCcCCCcHHHHHhcccccccCCCCCccccchhhhHHhh
Q 005381          470 PPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQ  509 (699)
Q Consensus       470 ~~~~~~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~  509 (699)
                             +.+++++.++.|+.+|+.+.+||+++++.+.++
T Consensus       388 -------~~~~~l~~~~~le~~d~~~~~yykdl~s~~~l~  420 (421)
T KOG0529|consen  388 -------SEEEILQLYNDLEALDPGRHQYYKDLHSRFLLE  420 (421)
T ss_pred             -------chHHHHHHHHHHhccchhhhHHHHhHHHHhccC
Confidence                   348899999999999999999999999987653

>KOG0530 consensus Protein farnesyltransferase, alpha subunit/protein geranylgeranyltransferase type I, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.6e-42  Score=338.54  Aligned_cols=207  Identities=28%  Similarity=0.518  Sum_probs=191.9

Q ss_pred             CCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhH
Q 005381            8 PLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSIL   87 (699)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~   87 (699)
                      +..++++..++++.++|++.|++|++.+..+|+|++||++|+.+|..||.+||+|+||+.+|.+++.           .+
T Consensus        26 qdDg~npvv~I~Yte~fr~~m~YfRAI~~~~E~S~RAl~LT~d~i~lNpAnYTVW~yRr~iL~~l~~-----------dL   94 (318)
T KOG0530|consen   26 QDDGPNPVVKIAYTEDFRDVMDYFRAIIAKNEKSPRALQLTEDAIRLNPANYTVWQYRRVILRHLMS-----------DL   94 (318)
T ss_pred             CCCCCCcceEeeechhHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCcccchHHHHHHHHHHHhHH-----------HH
Confidence            4667888999999999999999999999999999999999999999999999999999999999964           58


Q ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChH-HHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           88 DEELRVVESALRQNFKSYGAWHHRKWILSKGHSSID-NELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        88 ~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~-~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      .+||++.+.++..|||||++||||+|+++.++ ++. +||+++..++..|.||||||.||.|+++.++.+ ++||+|+++
T Consensus        95 ~~El~~l~eI~e~npKNYQvWHHRr~ive~l~-d~s~rELef~~~~l~~DaKNYHaWshRqW~~r~F~~~-~~EL~y~~~  172 (318)
T KOG0530|consen   95 NKELEYLDEIIEDNPKNYQVWHHRRVIVELLG-DPSFRELEFTKLMLDDDAKNYHAWSHRQWVLRFFKDY-EDELAYADE  172 (318)
T ss_pred             HHHHHHHHHHHHhCccchhHHHHHHHHHHHhc-CcccchHHHHHHHHhccccchhhhHHHHHHHHHHhhH-HHHHHHHHH
Confidence            99999999999999999999999999999875 555 999999999999999999999999999999997 899999999


Q ss_pred             HHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          167 MICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       167 ~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      +|+.|..|+|||+||.+++....     |..+ ...+++|+.+..+.|.+.|+|+|||+|+++++..
T Consensus       173 Lle~Di~NNSAWN~Ryfvi~~~~-----~~~~-~~~le~El~yt~~~I~~vP~NeSaWnYL~G~l~~  233 (318)
T KOG0530|consen  173 LLEEDIRNNSAWNQRYFVITNTK-----GVIS-KAELERELNYTKDKILLVPNNESAWNYLKGLLEL  233 (318)
T ss_pred             HHHHhhhccchhheeeEEEEecc-----CCcc-HHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHh
Confidence            99999999999999999987641     2222 2457999999999999999999999999999986

>COG5536 BET4 Protein prenyltransferase, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=8.8e-40  Score=323.78  Aligned_cols=226  Identities=34%  Similarity=0.587  Sum_probs=192.7

Q ss_pred             CCCCcCC-CC----ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhcc
Q 005381            1 MHGRPRK-PL----KPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTE   75 (699)
Q Consensus         1 mhg~~~~-~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~   75 (699)
                      |||-.|+ +.    .-+.+.+++.+.+.|+.+++.|++++..++||.+||++|..+|..||++|++||||+.++.+... 
T Consensus         3 ~~~~~r~~~~~~q~~l~~~l~ri~~~e~y~~l~gr~~a~r~kkeys~~aLklt~elid~npe~ytiwnyr~~I~~h~~~-   81 (328)
T COG5536           3 DLDLRRVKPLPIQFDLLSELQRILYTESYHPLMGRFRAKRRKKEYSVRALKLTQELIDKNPEFYTIWNYRFSILKHVQM-   81 (328)
T ss_pred             cccchhccccccchhhhhHHHHHHhhhccchHHHHHHHHHhhhhcCHHHHHHhHHHHhhCHHHHHHHhhHHHHHhhhhh-
Confidence            5776665 32    23345568888999999999999999999999999999999999999999999999999998421 


Q ss_pred             CCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcC
Q 005381           76 NDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH-SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMN  154 (699)
Q Consensus        76 ~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~-~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~  154 (699)
                         ..+.-...++.|+++++.+++.|||+|++||||+|+|+..+ ++|.+|+.+++++|+.|+||||+|+||+||+....
T Consensus        82 ---~sedk~~~ldneld~~~~~lk~~PK~YqiW~HR~~~Le~~p~~~~~rEl~itkklld~DsrNyH~W~YR~~vl~~ie  158 (328)
T COG5536          82 ---VSEDKEHLLDNELDFLDEALKDNPKNYQIWHHRQWMLELFPKPSWGRELFITKKLLDSDSRNYHVWSYRRWVLRTIE  158 (328)
T ss_pred             ---hcccchhhhhcHHHHHHHHHhcCCchhhhhHHHHHHHHhCCCcccchhHHHHHHHhcccccccceeeeEeeeeecch
Confidence               11223356899999999999999999999999999999653 57999999999999999999999999999995432


Q ss_pred             C-----ChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          155 R-----SEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       155 ~-----~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      .     ...+|++|+..+|+.|++|+||||||..++..+...+   -....+.+++||+++.++++++|+|+|+|+|+||
T Consensus       159 ~~~N~S~~k~e~eytt~~I~tdi~N~SaW~~r~~~~~~~~~~~---~visqk~l~~eL~~i~~~if~~p~~~S~w~y~r~  235 (328)
T COG5536         159 DLFNFSDLKHELEYTTSLIETDIYNNSAWHHRYIWIERRFNRG---DVISQKYLEKELEYIFDKIFTDPDNQSVWGYLRG  235 (328)
T ss_pred             hhccchhHHHHHHhHHHHHhhCCCChHHHHHHHHHHHHHHhhc---ccchHHHHHHHHHHHHhhhhcCccccchhhHHHH
Confidence            1     2378999999999999999999999988888776522   2223346899999999999999999999999999


Q ss_pred             HHcC
Q 005381          230 LLDQ  233 (699)
Q Consensus       230 Ll~~  233 (699)
                      +.+.
T Consensus       236 ~~~~  239 (328)
T COG5536         236 VSSE  239 (328)
T ss_pred             Hhcc
Confidence            9976

>PLN02789 farnesyltranstransferase

Probab=100.00  E-value=1.2e-37  Score=331.16  Aligned_cols=207  Identities=27%  Similarity=0.503  Sum_probs=188.1

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHH
Q 005381           10 KPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDE   89 (699)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~e   89 (699)
                      +++.+..++++.++|++.++.|++....++++++||++|+++|++||++||+|++||.++..++.           .+++
T Consensus        22 ~~~~~~~~i~y~~~~~~a~~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~-----------~l~e   90 (320)
T PLN02789         22 DGPNPVVPIAYTPEFREAMDYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDA-----------DLEE   90 (320)
T ss_pred             CCCCcccceeeCHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcch-----------hHHH
Confidence            33457789999999999999999999999999999999999999999999999999999998852           4899


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381           90 ELRVVESALRQNFKSYGAWHHRKWILSKGHS-SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus        90 EL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~-~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      ||++++++++.|||+|++|+||+|++.++.. .+++|++++++++++||+|||||+||+|++.+++.+ ++|+++|+++|
T Consensus        91 eL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~-~eeL~~~~~~I  169 (320)
T PLN02789         91 ELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGW-EDELEYCHQLL  169 (320)
T ss_pred             HHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhH-HHHHHHHHHHH
Confidence            9999999999999999999999999998742 247899999999999999999999999999999998 78999999999


Q ss_pred             HhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          169 CNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       169 ~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      +.||+|+|||+||++++.+++..+     ....++++|++++.++|.++|+|+|+|+|+++++..
T Consensus       170 ~~d~~N~sAW~~R~~vl~~~~~l~-----~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~  229 (320)
T PLN02789        170 EEDVRNNSAWNQRYFVITRSPLLG-----GLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKD  229 (320)
T ss_pred             HHCCCchhHHHHHHHHHHhccccc-----cccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhc
Confidence            999999999999999998763210     122356889999999999999999999999999976

>PLN02789 farnesyltranstransferase

Probab=99.94  E-value=2e-25  Score=237.68  Aligned_cols=176  Identities=26%  Similarity=0.389  Sum_probs=150.3

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      +...+++|++++++|+.||++|++|++|++++..++.          ..+.+|+.+++++|..+||||+||+||+|++..
T Consensus        85 ~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~----------~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~  154 (320)
T PLN02789         85 DADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGP----------DAANKELEFTRKILSLDAKNYHAWSHRQWVLRT  154 (320)
T ss_pred             chhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCc----------hhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            4444899999999999999999999999999998853          235789999999999999999999999999998


Q ss_pred             CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc---CCC---hHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhh
Q 005381          118 GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASM---NRS---EEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKR  191 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l---~~~---~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~  191 (699)
                      . +.+++|+++|+++|+.||+|++||+||++++.++   +..   .++|++|++++|+.+|.|+|||+|+++++..... 
T Consensus       155 l-~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~-  232 (320)
T PLN02789        155 L-GGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKE-  232 (320)
T ss_pred             h-hhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCc-
Confidence            8 5899999999999999999999999999999887   333   2689999999999999999999999999976311 


Q ss_pred             hccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          192 KVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       192 ~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                         +.    ....++++.+.+++..+|...-|-.++.-++.
T Consensus       233 ---~l----~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~  266 (320)
T PLN02789        233 ---AL----VSDPEVSSVCLEVLSKDSNHVFALSDLLDLLC  266 (320)
T ss_pred             ---cc----ccchhHHHHHHHhhcccCCcHHHHHHHHHHHH
Confidence               00    11345778888888888888877777666664

>KOG0529 consensus Protein geranylgeranyltransferase type II, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.91  E-value=3.3e-24  Score=225.05  Aligned_cols=137  Identities=27%  Similarity=0.517  Sum_probs=124.4

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      .++.|.+...+|++||+.|++||+|+|+|++...          .++..||.+|+++|+.|||||++|+||+|++.+...
T Consensus        91 ld~eL~~~~~~L~~npksY~aW~hR~w~L~~~p~----------~~~~~EL~lcek~L~~D~RNfh~W~YRRfV~~~~~~  160 (421)
T KOG0529|consen   91 LDEELKYVESALKVNPKSYGAWHHRKWVLQKNPH----------SDWNTELQLCEKALKQDPRNFHAWHYRRFVVEQAER  160 (421)
T ss_pred             hHHHHHHHHHHHHhCchhHHHHHHHHHHHHhCCC----------chHHHHHHHHHHHHhcCcccccchHHHHHHHHHHhc
Confidence            3688999999999999999999999999998864          369999999999999999999999999999997654


Q ss_pred             C---hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc------C-CC----hHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          121 S---IDNELRLLDKFQKADSRNFHAWNYRRFVAASM------N-RS----EEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       121 ~---~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l------~-~~----~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +   ..+|+++|++++..+++|||||+||.+++..+      | .+    ...|++++..+|..||.|+|+|+|+.|++.
T Consensus       161 ~~~~~~~El~ftt~~I~~nfSNYsaWhyRs~lL~~l~~~~~~g~~~~~~~l~sEle~v~saiFTdp~DqS~WfY~rWLl~  240 (421)
T KOG0529|consen  161 SRNLEKEELEFTTKLINDNFSNYSAWHYRSLLLSTLHPKEADGNFMPKELLQSELEMVHSAIFTDPEDQSCWFYHRWLLG  240 (421)
T ss_pred             ccccchhHHHHHHHHHhccchhhhHHHHHHHHHHHhccccccCccCCHHHHHHHHHHHHHHHhcCccccceeeehHHhhc
Confidence            4   77999999999999999999999999999965      2 11    267999999999999999999999999987


Q ss_pred             H
Q 005381          187 N  187 (699)
Q Consensus       187 ~  187 (699)
                      +
T Consensus       241 ~  241 (421)
T KOG0529|consen  241 R  241 (421)
T ss_pred             c
Confidence            6

>KOG0530 consensus Protein farnesyltransferase, alpha subunit/protein geranylgeranyltransferase type I, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.86  E-value=1e-21  Score=194.42  Aligned_cols=136  Identities=26%  Similarity=0.502  Sum_probs=128.5

Q ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHH
Q 005381           88 DEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDM  167 (699)
Q Consensus        88 ~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~  167 (699)
                      ..+|++++.+|..||-+|++|++|+-+|..+...+.+|+++.+.+++.+||||..|+|||++++.++.+.-.||+||.++
T Consensus        60 ~RAl~LT~d~i~lNpAnYTVW~yRr~iL~~l~~dL~~El~~l~eI~e~npKNYQvWHHRr~ive~l~d~s~rELef~~~~  139 (318)
T KOG0530|consen   60 PRALQLTEDAIRLNPANYTVWQYRRVILRHLMSDLNKELEYLDEIIEDNPKNYQVWHHRRVIVELLGDPSFRELEFTKLM  139 (318)
T ss_pred             HHHHHHHHHHHHhCcccchHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCccchhHHHHHHHHHHHhcCcccchHHHHHHH
Confidence            58999999999999999999999999999887789999999999999999999999999999999998754899999999


Q ss_pred             HHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          168 ICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       168 I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      |..+..||.||.||.|+++...            .+++||.+++..|+.|--|.|||+++.|++..+.
T Consensus       140 l~~DaKNYHaWshRqW~~r~F~------------~~~~EL~y~~~Lle~Di~NNSAWN~Ryfvi~~~~  195 (318)
T KOG0530|consen  140 LDDDAKNYHAWSHRQWVLRFFK------------DYEDELAYADELLEEDIRNNSAWNQRYFVITNTK  195 (318)
T ss_pred             HhccccchhhhHHHHHHHHHHh------------hHHHHHHHHHHHHHHhhhccchhheeeEEEEecc
Confidence            9999999999999999999873            3899999999999999999999999999997754

>COG5536 BET4 Protein prenyltransferase, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.72  E-value=3.1e-17  Score=163.86  Aligned_cols=136  Identities=24%  Similarity=0.387  Sum_probs=118.0

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC--
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH--  119 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~--  119 (699)
                      +..|+..+.+++-||++|++|+||+++|.....          +.++.|+.+++++|..+|+||++|+||+|++..+.  
T Consensus        91 dneld~~~~~lk~~PK~YqiW~HR~~~Le~~p~----------~~~~rEl~itkklld~DsrNyH~W~YR~~vl~~ie~~  160 (328)
T COG5536          91 DNELDFLDEALKDNPKNYQIWHHRQWMLELFPK----------PSWGRELFITKKLLDSDSRNYHVWSYRRWVLRTIEDL  160 (328)
T ss_pred             hcHHHHHHHHHhcCCchhhhhHHHHHHHHhCCC----------cccchhHHHHHHHhcccccccceeeeEeeeeecchhh
Confidence            567899999999999999999999999998754          34999999999999999999999999999995432  


Q ss_pred             ---CChHHHHHHHHHHHHhCCCChhhhhHHHHHH---HhcCC-----ChHHHHHHHHHHHHhccCchHHHHHHHHHHHH
Q 005381          120 ---SSIDNELRLLDKFQKADSRNFHAWNYRRFVA---ASMNR-----SEEDELKYTEDMICNNFSNYSAWHNRSLLLSN  187 (699)
Q Consensus       120 ---~~~~~EL~~~~k~L~~dprN~haW~yR~~vl---~~l~~-----~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~  187 (699)
                         +.+.+|+++...++.-|+-|+.||+||...+   .+-|.     +-++||+|...++-.+|.|.|+|.|..+++..
T Consensus       161 ~N~S~~k~e~eytt~~I~tdi~N~SaW~~r~~~~~~~~~~~~visqk~l~~eL~~i~~~if~~p~~~S~w~y~r~~~~~  239 (328)
T COG5536         161 FNFSDLKHELEYTTSLIETDIYNNSAWHHRYIWIERRFNRGDVISQKYLEKELEYIFDKIFTDPDNQSVWGYLRGVSSE  239 (328)
T ss_pred             ccchhHHHHHHhHHHHHhhCCCChHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhhhhcCccccchhhHHHHHhcc
Confidence               4577999999999999999999999993322   22222     13789999999999999999999999998876

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

Probab=99.57  E-value=1.8e-16  Score=172.59  Aligned_cols=159  Identities=25%  Similarity=0.323  Sum_probs=122.4

Q ss_pred             cCCCCCccccccccccccCccchhhhhHHHHHHHHHHHHhhhhccccccccccHHHHHhhcccCCCCCCCcCCCcHHHHH
Q 005381          404 SQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLE  483 (699)
Q Consensus       404 ~~~~~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~~~~~l~  483 (699)
                      .++.+.|.+|++||+        +++.+..+..|+..+..|++             +....+.++     ..|.++++| 
T Consensus        48 PeEL~~lqkLEHLs~--------~HN~L~~vhGELs~Lp~LRs-------------v~~R~N~LK-----nsGiP~diF-  100 (1255)
T KOG0444|consen   48 PEELSRLQKLEHLSM--------AHNQLISVHGELSDLPRLRS-------------VIVRDNNLK-----NSGIPTDIF-  100 (1255)
T ss_pred             hHHHHHHhhhhhhhh--------hhhhhHhhhhhhccchhhHH-------------Hhhhccccc-----cCCCCchhc-
Confidence            566778889999999        77788999999988888885             333334433     367778877 


Q ss_pred             hcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc--CCCCCcccCEEE
Q 005381          484 LYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKLLWVQMLD  561 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L~~L~~Ld  561 (699)
                      .+..|++||+|||+                 +...+.....-.++-.       |+||+|+|.+||  -+-+|+.|..||
T Consensus       101 ~l~dLt~lDLShNq-----------------L~EvP~~LE~AKn~iV-------LNLS~N~IetIPn~lfinLtDLLfLD  156 (1255)
T KOG0444|consen  101 RLKDLTILDLSHNQ-----------------LREVPTNLEYAKNSIV-------LNLSYNNIETIPNSLFINLTDLLFLD  156 (1255)
T ss_pred             ccccceeeecchhh-----------------hhhcchhhhhhcCcEE-------EEcccCccccCCchHHHhhHhHhhhc
Confidence            78999999999998                 3444444444344333       999999999998  678999999999


Q ss_pred             ccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          562 LSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       562 LS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      ||+|+|..+|+ +..|..|++|.|++|.+..+ .+..+..+++|++|.+++.+-
T Consensus       157 LS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hf-QLrQLPsmtsL~vLhms~TqR  209 (1255)
T KOG0444|consen  157 LSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHF-QLRQLPSMTSLSVLHMSNTQR  209 (1255)
T ss_pred             cccchhhhcCHHHHHHhhhhhhhcCCChhhHH-HHhcCccchhhhhhhcccccc
Confidence            99999999999 99999999999999998654 234555566666666665544

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

Probab=99.53  E-value=3.3e-15  Score=145.23  Aligned_cols=126  Identities=33%  Similarity=0.514  Sum_probs=63.3

Q ss_pred             CeEEccCCCCCcccCCC-CCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccc-ccccccccccccccc
Q 005381          536 MCLQLKNLSLSRLGSFD-KLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPI-RQLKSLRALNISYNE  613 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~~l~-~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l-~~l~~L~~L~Ls~N~  613 (699)
                      ++|+|++|.|+.|..++ .+.+|+.||||+|.|+.++++..++.|++|++++|+|+++.  +.+ ..+++|+.|+|++|+
T Consensus        22 ~~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~L~~N~   99 (175)
T PF14580_consen   22 RELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSIS--EGLDKNLPNLQELYLSNNK   99 (175)
T ss_dssp             --------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-C--HHHHHH-TT--EEE-TTS-
T ss_pred             ccccccccccccccchhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccc--cchHHhCCcCCEEECcCCc
Confidence            44999999999998887 58999999999999999999999999999999999999872  334 468999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccc
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLK  691 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~  691 (699)
                      |..+.  .                                  ...++.+ +|+.|+|.+||+ ..+.|+..++..+|+|+
T Consensus       100 I~~l~--~----------------------------------l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk  143 (175)
T PF14580_consen  100 ISDLN--E----------------------------------LEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLK  143 (175)
T ss_dssp             --SCC--C----------------------------------CGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-S
T ss_pred             CCChH--H----------------------------------hHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhh
Confidence            98873  1                                  1244556 899999999999 66799999999999999


Q ss_pred             cccCccCC
Q 005381          692 WLDGEQLH  699 (699)
Q Consensus       692 ~LD~~~i~  699 (699)
                      .|||.+|+
T Consensus       144 ~LD~~~V~  151 (175)
T PF14580_consen  144 VLDGQDVT  151 (175)
T ss_dssp             EETTEETT
T ss_pred             eeCCEEcc
Confidence            99999885

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

Probab=99.49  E-value=4.6e-15  Score=161.73  Aligned_cols=258  Identities=17%  Similarity=0.141  Sum_probs=131.9

Q ss_pred             CCCccccccccccccCccchhhhhHHHHHHHHHHHHhhhh--ccccccccccHHHHHhhcccCCC-CCCCcCCCcHHHHH
Q 005381          407 SSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLS--LINCKIGKLTLARLLMAHDAMMC-PPANKISHSEEVLE  483 (699)
Q Consensus       407 ~~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~--~p~nk~~~Ltl~~ll~~~~~l~~-~~~~~~~~~~~~l~  483 (699)
                      -.+++.+++|+|     -.=|++.+...|.+++.-++++-  ...|.+..+....+....+.+-. -..++....+.-..
T Consensus        96 P~diF~l~dLt~-----lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~R  170 (1255)
T KOG0444|consen   96 PTDIFRLKDLTI-----LDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIR  170 (1255)
T ss_pred             Cchhccccccee-----eecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHH
Confidence            347888888888     44477888999999988877653  22222222211111000000000 00112233333344


Q ss_pred             hcccccccCCCCCcc----ccchhhhHHhhhhc-----cchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCC
Q 005381          484 LYNDLMRLDPTHVQY----YKDQHSLVLLQQVT-----SNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDK  553 (699)
Q Consensus       484 ~l~~L~~LDls~n~~----~~~l~sl~~l~~l~-----~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~  553 (699)
                      .+..|++|++|+|..    ...++++-.++-+.     ..+..++..+..+.++..       ++||.|.++.+| .+..
T Consensus       171 RL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~d-------vDlS~N~Lp~vPecly~  243 (1255)
T KOG0444|consen  171 RLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRD-------VDLSENNLPIVPECLYK  243 (1255)
T ss_pred             HHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhh-------ccccccCCCcchHHHhh
Confidence            455555666655543    11122211111100     001111111222222222       666677776666 6666


Q ss_pred             CcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcc
Q 005381          554 LLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH  632 (699)
Q Consensus       554 L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~  632 (699)
                      +++|..|+||+|+|+.+.- .....+|++|+||+|+++.+  |..+.+++.|+.|.+.+|+++--.  .+.++..+..+.
T Consensus       244 l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~L--P~avcKL~kL~kLy~n~NkL~FeG--iPSGIGKL~~Le  319 (1255)
T KOG0444|consen  244 LRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVL--PDAVCKLTKLTKLYANNNKLTFEG--IPSGIGKLIQLE  319 (1255)
T ss_pred             hhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccc--hHHHhhhHHHHHHHhccCcccccC--CccchhhhhhhH
Confidence            6677777777777766655 55566666667777766665  456666666666666666663221  123333333333


Q ss_pred             cccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccccccC
Q 005381          633 SVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       633 ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD~  695 (699)
                      .+...+|.+.+           .|..++.| .|+.|.|++|.+ ..|    ..+..+|.|+.||-
T Consensus       320 vf~aanN~LEl-----------VPEglcRC~kL~kL~L~~NrLiTLP----eaIHlL~~l~vLDl  369 (1255)
T KOG0444|consen  320 VFHAANNKLEL-----------VPEGLCRCVKLQKLKLDHNRLITLP----EAIHLLPDLKVLDL  369 (1255)
T ss_pred             HHHhhcccccc-----------CchhhhhhHHHHHhcccccceeech----hhhhhcCCcceeec
Confidence            34444454433           35677777 777777777777 322    22345677777764

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

Probab=99.43  E-value=3.3e-14  Score=154.61  Aligned_cols=157  Identities=21%  Similarity=0.175  Sum_probs=80.8

Q ss_pred             CCcHHHHHhcccccccCCCCCcc-------ccchhhhHHhhhhccchHHHhhh-hccCCCCCCCCCCCCeEEccCCCCCc
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQY-------YKDQHSLVLLQQVTSNWESLLSR-CFHYSNSPSNRGSPMCLQLKNLSLSR  547 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~-------~~~l~sl~~l~~l~~~~~~l~~~-~~~l~~l~~l~L~~~~L~Ls~n~l~~  547 (699)
                      ....-+|+.+++|+.||+.+|++       |+.+.|+-.++--...+..+..+ +..+.++..       |+|..|+++.
T Consensus       211 tLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~-------l~L~~N~l~~  283 (873)
T KOG4194|consen  211 TLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEH-------LNLETNRLQA  283 (873)
T ss_pred             ccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccce-------eecccchhhh
Confidence            44456778888888888888875       44455543333222222223333 333444444       5555555554


Q ss_pred             cc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCccccc
Q 005381          548 LG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTK  623 (699)
Q Consensus       548 l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~  623 (699)
                      +.  ++.+|+.|+.|+||+|.|..|..  -+..++|+.|+|++|+|+.++ ++.|..|..|+.|+|++|+|+.+.-   .
T Consensus       284 vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~-~~sf~~L~~Le~LnLs~Nsi~~l~e---~  359 (873)
T KOG4194|consen  284 VNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLD-EGSFRVLSQLEELNLSHNSIDHLAE---G  359 (873)
T ss_pred             hhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCC-hhHHHHHHHhhhhcccccchHHHHh---h
Confidence            43  55555555555555555554433  444455555555555555552 2445555555555555555555432   1


Q ss_pred             ccCCCCCcccccCCCCccce
Q 005381          624 YLCSSPLSHSVGSEWNHGQT  643 (699)
Q Consensus       624 ~l~~l~ll~ll~l~~N~l~~  643 (699)
                      .+..++.++.+++..|.+..
T Consensus       360 af~~lssL~~LdLr~N~ls~  379 (873)
T KOG4194|consen  360 AFVGLSSLHKLDLRSNELSW  379 (873)
T ss_pred             HHHHhhhhhhhcCcCCeEEE
Confidence            22223333444555555443

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

Probab=99.41  E-value=1.5e-14  Score=157.30  Aligned_cols=126  Identities=25%  Similarity=0.312  Sum_probs=108.6

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+||.|.|.+|.  ....+..|..||||+|+|+.++.  |..|..|++|+|++|+|+.+.. ..|..+.+|+.|||++|.
T Consensus       298 L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e-~af~~lssL~~LdLr~N~  376 (873)
T KOG4194|consen  298 LDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAE-GAFVGLSSLHKLDLRSNE  376 (873)
T ss_pred             hccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHh-hHHHHhhhhhhhcCcCCe
Confidence            999999999876  78889999999999999999988  9999999999999999998743 568889999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+..--|....+..++.+..+.+.||.+..+..          .+|.++ +|++|||.+|+|
T Consensus       377 ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I~k----------rAfsgl~~LE~LdL~~Nai  428 (873)
T KOG4194|consen  377 LSWCIEDAAVAFNGLPSLRKLRLTGNQLKSIPK----------RAFSGLEALEHLDLGDNAI  428 (873)
T ss_pred             EEEEEecchhhhccchhhhheeecCceeeecch----------hhhccCcccceecCCCCcc
Confidence            977644455556667777777888998876543          589999 999999999999

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

Probab=99.30  E-value=9.8e-11  Score=137.03  Aligned_cols=170  Identities=14%  Similarity=-0.028  Sum_probs=156.2

Q ss_pred             cHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           41 SKEAVELSTKLLET---NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        41 ~~eaL~~~~~~L~~---nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      .++|++++++++..   .|+...+|+.++.+....++            +++++..+++++..+|++..+|..+++++..
T Consensus       310 y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~------------~~eA~~~~~kal~l~P~~~~~~~~la~~~~~  377 (615)
T TIGR00990       310 YEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGK------------HLEALADLSKSIELDPRVTQSYIKRASMNLE  377 (615)
T ss_pred             HHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCcHHHHHHHHHHHHH
Confidence            37899999999987   48888999999999887765            8999999999999999999999999999987


Q ss_pred             CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          118 GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                      . +.+++++..++++++.+|.+..+|.+++.+....|.+ ++++++++++++.+|.+..+|.+++.++..++.       
T Consensus       378 ~-g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~-------  448 (615)
T TIGR00990       378 L-GDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEF-AQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGS-------  448 (615)
T ss_pred             C-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCC-------
Confidence            7 6999999999999999999999999999999999998 789999999999999999999999999887754       


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                           +++++..+.+++..+|++..+|+++..++....+
T Consensus       449 -----~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~  482 (615)
T TIGR00990       449 -----IASSMATFRRCKKNFPEAPDVYNYYGELLLDQNK  482 (615)
T ss_pred             -----HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccC
Confidence                 8999999999999999999999999888866443

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

Probab=99.29  E-value=1.5e-10  Score=135.50  Aligned_cols=163  Identities=13%  Similarity=0.017  Sum_probs=150.0

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      ..|.+ ++|+..+.++|.++|++..+|..++.++..+++            +++++..+++++..+|++..+|++|+.+.
T Consensus       343 ~~g~~-~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~------------~~eA~~~~~~al~~~p~~~~~~~~lg~~~  409 (615)
T TIGR00990       343 LKGKH-LEALADLSKSIELDPRVTQSYIKRASMNLELGD------------PDKAEEDFDKALKLNSEDPDIYYHRAQLH  409 (615)
T ss_pred             HcCCH-HHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            35666 799999999999999999999999999988765            89999999999999999999999999999


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                      ... +.+++++.+++++++++|.+..+|..++.+...+|.+ ++.+.++.++++.+|.+..+|.+++.++...++     
T Consensus       410 ~~~-g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~-~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~-----  482 (615)
T TIGR00990       410 FIK-GEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSI-ASSMATFRRCKKNFPEAPDVYNYYGELLLDQNK-----  482 (615)
T ss_pred             HHc-CCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHccC-----
Confidence            877 6999999999999999999999999999999999998 689999999999999999999999999887654     


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                             ++++++.+.+|+.++|++...|.
T Consensus       483 -------~~~A~~~~~~Al~l~p~~~~~~~  505 (615)
T TIGR00990       483 -------FDEAIEKFDTAIELEKETKPMYM  505 (615)
T ss_pred             -------HHHHHHHHHHHHhcCCccccccc
Confidence                   89999999999999998765543

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

Probab=99.26  E-value=8.5e-13  Score=133.77  Aligned_cols=159  Identities=21%  Similarity=0.253  Sum_probs=124.3

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCc
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLL  555 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~  555 (699)
                      |...+....++.|+++|+|+|.          +..+.       ..+.-+..++       .|++|+|+|..++.+..|+
T Consensus       274 G~~~~~~dTWq~LtelDLS~N~----------I~~iD-------ESvKL~Pkir-------~L~lS~N~i~~v~nLa~L~  329 (490)
T KOG1259|consen  274 GSALVSADTWQELTELDLSGNL----------ITQID-------ESVKLAPKLR-------RLILSQNRIRTVQNLAELP  329 (490)
T ss_pred             CceEEecchHhhhhhccccccc----------hhhhh-------hhhhhcccee-------EEeccccceeeehhhhhcc
Confidence            4444456788999999999998          22222       2222223333       3999999999999999999


Q ss_pred             ccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccc
Q 005381          556 WVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSV  634 (699)
Q Consensus       556 ~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll  634 (699)
                      +|+.||||+|.++.+.+ -.+|.++++|.|+.|.|.++   .++.++.+|..||+++|+|..+.  .             
T Consensus       330 ~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N~iE~L---SGL~KLYSLvnLDl~~N~Ie~ld--e-------------  391 (490)
T KOG1259|consen  330 QLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQNKIETL---SGLRKLYSLVNLDLSSNQIEELD--E-------------  391 (490)
T ss_pred             cceEeecccchhHhhhhhHhhhcCEeeeehhhhhHhhh---hhhHhhhhheeccccccchhhHH--H-------------
Confidence            99999999999999999 88899999999999999887   77899999999999999998873  1             


Q ss_pred             cCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCC---ccccccCcc
Q 005381          635 GSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLP---GLKWLDGEQ  697 (699)
Q Consensus       635 ~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~---~L~~LD~~~  697 (699)
                                           ...++++ .|++|.|.+||| ..++++..+++.+.   +=-.||+.+
T Consensus       392 ---------------------V~~IG~LPCLE~l~L~~NPl~~~vdYRTKVLa~FGERaSE~~LD~~~  438 (490)
T KOG1259|consen  392 ---------------------VNHIGNLPCLETLRLTGNPLAGSVDYRTKVLARFGERASEISLDNEP  438 (490)
T ss_pred             ---------------------hcccccccHHHHHhhcCCCccccchHHHHHHHHHhhhhhheecCCCC
Confidence                                 2356667 899999999999 66788887776552   223466643

>PF07711 RabGGT_insert: Rab geranylgeranyl transferase alpha-subunit, insert domain ; InterPro: IPR009087 Rab geranylgeranyltransferase (RabGGT) catalyses the transfer of geranylgeranyl groups to the C-terminal cysteine residues of Rab proteins, Ras-related small GTPases that function in intracellular vesicular transport []

Probab=99.22  E-value=9.1e-12  Score=105.36  Aligned_cols=93  Identities=19%  Similarity=0.312  Sum_probs=62.7

Q ss_pred             ccccCCCCCCCccccCCCCccceEEeeccccccccccceEEecccCC-CccceeeeCCCCCCccceeEEEeccCCCCCCC
Q 005381          259 RCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNT-NKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTH  337 (699)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~w~~~~~~~~~~~~~w~~~~~~~~~~~~  337 (699)
                      .|+|+         +.|.++  +.++|++||.+   ++.++...+++ |+.|+|+.++.+ .++|++|+++|+...    
T Consensus         4 rCl~V---------Sr~e~~--l~V~FSrPv~v---~~~~LlL~~D~~Pl~VeWRtp~gr-~r~s~vWlcdLP~~s----   64 (102)
T PF07711_consen    4 RCLHV---------SRDEAC--LTVAFSRPVNV---GSETLLLFVDGSPLTVEWRTPDGR-NRPSHVWLCDLPAGS----   64 (102)
T ss_dssp             EEEEE---------ETTTTE--EEEEEEEEE-S---TTB-EEEEESSSEE----B-TTSS---SEEEEEEE--GGG----
T ss_pred             EEEEE---------ecccCe--EEEEecceeee---eeeeEEEEEcCCceEEEeeCCCCC-CCcCeEEEEeCCccc----
Confidence            57888         577777  89999999987   33345555555 899999999854 589999999999832    


Q ss_pred             CCCccceEEecCcccccccCCCCccCCCccceEEEEEeeccc--ccccccccceeeccC
Q 005381          338 SSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVET--QPVEALGKEIISWRD  394 (699)
Q Consensus       338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~  394 (699)
                                      | ++     ..|+| +|+|.|.++++  ||+++ .|..++|.+
T Consensus        65 ----------------l-nd-----~~~qh-~f~v~W~~g~~~keCvL~-~Gr~E~WcR   99 (102)
T PF07711_consen   65 ----------------L-ND-----QRPQH-TFTVHWTAGDAQKECVLY-KGRRESWCR   99 (102)
T ss_dssp             ----------------T-ST-----TSSEE-EEEEEETTTTEEEEEEEE-TT-SEEEEE
T ss_pred             ----------------c-CC-----CCCce-EEEEEEcCCcccceEEEe-CCCccceec
Confidence                            1 33     46777 89999999988  99998 899999943

RabGGT is only able to prenylate Rab when it is complexed to the Rab escort protein (REP), after which REP remains bound to the prenylated Rab and delivers it to its target membrane. RabGGT is a member of the protein prenyltransferase family (IPR008940 from INTERPRO), all of which are heterodimers consisting of alpha and beta subunits. RabGGT is distinct from other members of the prenyltransferase family because of the presence of an Ig-like insert domain in the alpha subunit that is folded into an eight-stranded sandwich between two helices in the helical domain.; GO: 0004663 Rab geranylgeranyltransferase activity, 0008270 zinc ion binding; PDB: 1DCE_C 1LTX_A.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.21  E-value=2.5e-10  Score=108.26  Aligned_cols=126  Identities=10%  Similarity=-0.063  Sum_probs=115.9

Q ss_pred             HHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHH
Q 005381           46 ELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNE  125 (699)
Q Consensus        46 ~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~E  125 (699)
                      .+++++|.++|++   |..++.++...++            +++++..++.++..+|.++.+|..++-++... ++++++
T Consensus        14 ~~~~~al~~~p~~---~~~~g~~~~~~g~------------~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~-g~~~~A   77 (144)
T PRK15359         14 DILKQLLSVDPET---VYASGYASWQEGD------------YSRAVIDFSWLVMAQPWSWRAHIALAGTWMML-KEYTTA   77 (144)
T ss_pred             HHHHHHHHcCHHH---HHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHH-hhHHHH
Confidence            4688999999996   5568888887765            89999999999999999999999999999987 699999


Q ss_pred             HHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          126 LRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       126 L~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      +.+|+++++++|.+..+|.+++.++..+|.+ +++++.+.++|+.+|.|..+|..|+.+...+
T Consensus        78 ~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~-~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~l  139 (144)
T PRK15359         78 INFYGHALMLDASHPEPVYQTGVCLKMMGEP-GLAREAFQTAIKMSYADASWSEIRQNAQIMV  139 (144)
T ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998 7899999999999999999999999876654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.17  E-value=3.5e-10  Score=107.24  Aligned_cols=125  Identities=8%  Similarity=-0.091  Sum_probs=115.4

Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc
Q 005381           92 RVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN  171 (699)
Q Consensus        92 ~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n  171 (699)
                      +.++++++.+|.+   |.++++++.+. +.+++++++|++++..+|.+..+|..++.++..+|.+ ++.++++.++++.+
T Consensus        14 ~~~~~al~~~p~~---~~~~g~~~~~~-g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~-~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSVDPET---VYASGYASWQE-GDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEY-TTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHcCHHH---HHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhH-HHHHHHHHHHHhcC
Confidence            5789999999986   67889999877 6999999999999999999999999999999999999 78999999999999


Q ss_pred             cCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          172 FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       172 ~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      |.+..+|++++.++..+++            ++++++.++.|+..+|+|...|..+......
T Consensus        89 p~~~~a~~~lg~~l~~~g~------------~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGE------------PGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            9999999999999998866            7999999999999999999999888776643

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

Probab=99.16  E-value=1.9e-11  Score=150.27  Aligned_cols=198  Identities=18%  Similarity=0.103  Sum_probs=104.6

Q ss_pred             CCCcHHHHHhcccccccCCCCCccccchhhhHH----hhhhc---cch-HHHhhhhccCCCCCCCCCCCCeEEccCCCCC
Q 005381          475 ISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVL----LQQVT---SNW-ESLLSRCFHYSNSPSNRGSPMCLQLKNLSLS  546 (699)
Q Consensus       475 ~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~----l~~l~---~~~-~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~  546 (699)
                      .+..+..++.+.+|++||+++|.+...++..+.    ++.+.   +.+ ..++..+..+.+++.       |+|++|.++
T Consensus       153 ~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~-------L~L~~n~l~  225 (968)
T PLN00113        153 SGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKW-------IYLGYNNLS  225 (968)
T ss_pred             cccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccE-------EECcCCccC
Confidence            445566778888888888888874333222110    00000   000 011122222222222       666666665


Q ss_pred             -ccc-CCCCCcccCEEEccCCCCC-CCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccc
Q 005381          547 -RLG-SFDKLLWVQMLDLSHNELR-SIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTT  622 (699)
Q Consensus       547 -~l~-~l~~L~~L~~LdLS~N~L~-~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~  622 (699)
                       .++ .+..+++|++|+|++|.+. .+|. +..+++|+.|++++|.+++. .|..+..+++|+.|+|++|.+....   +
T Consensus       226 ~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~-~p~~l~~l~~L~~L~Ls~n~l~~~~---p  301 (968)
T PLN00113        226 GEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGP-IPPSIFSLQKLISLDLSDNSLSGEI---P  301 (968)
T ss_pred             CcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeecc-CchhHhhccCcCEEECcCCeeccCC---C
Confidence             233 5666666666666666663 4444 66666666666666666543 3455566666666666666665431   1


Q ss_pred             cccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccccccC
Q 005381          623 KYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       623 ~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD~  695 (699)
                      ..+..++.+..+.+.+|.+..          ..|..+..+ +|+.|+|++|.+.. .. +..+..+++|+.||-
T Consensus       302 ~~~~~l~~L~~L~l~~n~~~~----------~~~~~~~~l~~L~~L~L~~n~l~~-~~-p~~l~~~~~L~~L~L  363 (968)
T PLN00113        302 ELVIQLQNLEILHLFSNNFTG----------KIPVALTSLPRLQVLQLWSNKFSG-EI-PKNLGKHNNLTVLDL  363 (968)
T ss_pred             hhHcCCCCCcEEECCCCccCC----------cCChhHhcCCCCCEEECcCCCCcC-cC-ChHHhCCCCCcEEEC
Confidence            122222223333444444322          235567778 88888888888821 11 123455777777663

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

Probab=99.13  E-value=3.8e-12  Score=133.60  Aligned_cols=211  Identities=19%  Similarity=0.228  Sum_probs=109.3

Q ss_pred             CCccccccccccccCccchhhhhHHHHHHHHHHHHhhhh----------ccccccccccHHHHHhhcccCCCCCCCcCCC
Q 005381          408 SPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLS----------LINCKIGKLTLARLLMAHDAMMCPPANKISH  477 (699)
Q Consensus       408 ~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~----------~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~  477 (699)
                      +.+..+.+|.|        |...+..||+|+.+...|..          .|+.....+.+..+...        .+....
T Consensus        88 g~l~~l~~l~v--------s~n~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~--------~N~i~s  151 (565)
T KOG0472|consen   88 GELEALKSLNV--------SHNKLSELPEQIGSLISLVKLDCSSNELKELPDSIGRLLDLEDLDAT--------NNQISS  151 (565)
T ss_pred             HHHHHHHHhhc--------ccchHhhccHHHhhhhhhhhhhccccceeecCchHHHHhhhhhhhcc--------cccccc
Confidence            34455556666        56677788888887776655          22222222222222222        222345


Q ss_pred             cHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCCCcc
Q 005381          478 SEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDKLLW  556 (699)
Q Consensus       478 ~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~L~~  556 (699)
                      .++.+..+.+|..+|+..|....-......                 +..+..       ++...|-++.+| .++.|..
T Consensus       152 lp~~~~~~~~l~~l~~~~n~l~~l~~~~i~-----------------m~~L~~-------ld~~~N~L~tlP~~lg~l~~  207 (565)
T KOG0472|consen  152 LPEDMVNLSKLSKLDLEGNKLKALPENHIA-----------------MKRLKH-------LDCNSNLLETLPPELGGLES  207 (565)
T ss_pred             CchHHHHHHHHHHhhccccchhhCCHHHHH-----------------HHHHHh-------cccchhhhhcCChhhcchhh
Confidence            566677788888888888773221111111                 111111       555555555554 5555555


Q ss_pred             cCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccC
Q 005381          557 VQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGS  636 (699)
Q Consensus       557 L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l  636 (699)
                      |..|+|.+|+|..+|.|.++..|..|.++.|+|+-++. +....+++|.+|||..|++++.|..    +|.+..+..+++
T Consensus       208 L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpa-e~~~~L~~l~vLDLRdNklke~Pde----~clLrsL~rLDl  282 (565)
T KOG0472|consen  208 LELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPA-EHLKHLNSLLVLDLRDNKLKEVPDE----ICLLRSLERLDL  282 (565)
T ss_pred             hHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHH-HHhcccccceeeeccccccccCchH----HHHhhhhhhhcc
Confidence            55555555555555555555555555555555554422 2233555555555555555555421    222222222344


Q ss_pred             CCCccceeecCCcchhhhhhccCCCCCccEEEecCCCC
Q 005381          637 EWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAI  674 (699)
Q Consensus       637 ~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l  674 (699)
                      ++|.++.           .|..++++.|+.|-+.|||+
T Consensus       283 SNN~is~-----------Lp~sLgnlhL~~L~leGNPl  309 (565)
T KOG0472|consen  283 SNNDISS-----------LPYSLGNLHLKFLALEGNPL  309 (565)
T ss_pred             cCCcccc-----------CCcccccceeeehhhcCCch
Confidence            4444432           23456666788888889988

>PRK12370 invasion protein regulator; Provisional

Probab=99.13  E-value=2.4e-09  Score=123.64  Aligned_cols=179  Identities=9%  Similarity=-0.034  Sum_probs=148.1

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++|++++.+++.++|++..+|...+.+...+......+   ....+.+++..++++++.+|++..+|..++.++... +.
T Consensus       278 ~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~---~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~-g~  353 (553)
T PRK12370        278 QQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFD---KQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIH-SE  353 (553)
T ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcc---cchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHc-cC
Confidence            69999999999999999999988887655443200000   124579999999999999999999999999988866 58


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhc
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEK  201 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~  201 (699)
                      +++++..++++++++|.+..+|.+.+.++...|.+ ++.++.++++++.+|.+..++.++..++...+            
T Consensus       354 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~-~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g------------  420 (553)
T PRK12370        354 YIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQL-EEALQTINECLKLDPTRAAAGITKLWITYYHT------------  420 (553)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhcCCCChhhHHHHHHHHHhcc------------
Confidence            99999999999999999999999999999999998 67999999999999998877666665544432            


Q ss_pred             hHHHHHHHHHHHHHhC-CCCchhHHHHHHHHcCcCCC
Q 005381          202 VLPDEYEFVHQAIFTD-PDDQSGWFYHLWLLDQTVRV  237 (699)
Q Consensus       202 ~~~eeL~~~~~ai~~d-P~d~SaW~Y~~~Ll~~~~~~  237 (699)
                      .++++++.+.+++... |++..++.++..++....+.
T Consensus       421 ~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~  457 (553)
T PRK12370        421 GIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKH  457 (553)
T ss_pred             CHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCH
Confidence            2789999999999885 78888888888777554443

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

Probab=99.10  E-value=1.2e-10  Score=143.19  Aligned_cols=141  Identities=25%  Similarity=0.232  Sum_probs=97.4

Q ss_pred             EEccCCCCC-ccc-CCCCCcccCEEEccCCCC-CCCcC-CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLS-RLG-SFDKLLWVQMLDLSHNEL-RSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~-~l~-~l~~L~~L~~LdLS~N~L-~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++ .++ .++.+++|++|+|++|.+ +.+|. +.++++|+.|+|++|.+++. .|..++.+++|+.|+|++|.
T Consensus       145 L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~-~p~~l~~l~~L~~L~L~~n~  223 (968)
T PLN00113        145 LDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQ-IPRELGQMKSLKWIYLGYNN  223 (968)
T ss_pred             EECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCc-CChHHcCcCCccEEECcCCc
Confidence            888888876 344 677888888888888887 45666 88888888888888888764 45677888888888888888


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccc
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~  692 (699)
                      +....   +..+..+.-+..+++++|.+..          ..|..++++ +|+.|+|++|.+.. .. +..+..+++|+.
T Consensus       224 l~~~~---p~~l~~l~~L~~L~L~~n~l~~----------~~p~~l~~l~~L~~L~L~~n~l~~-~~-p~~l~~l~~L~~  288 (968)
T PLN00113        224 LSGEI---PYEIGGLTSLNHLDLVYNNLTG----------PIPSSLGNLKNLQYLFLYQNKLSG-PI-PPSIFSLQKLIS  288 (968)
T ss_pred             cCCcC---ChhHhcCCCCCEEECcCceecc----------ccChhHhCCCCCCEEECcCCeeec-cC-chhHhhccCcCE
Confidence            86431   1223333334444555555422          346788889 99999999999821 11 122345778877


Q ss_pred             cc
Q 005381          693 LD  694 (699)
Q Consensus       693 LD  694 (699)
                      ||
T Consensus       289 L~  290 (968)
T PLN00113        289 LD  290 (968)
T ss_pred             EE
Confidence            75

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

Probab=99.08  E-value=1.1e-11  Score=116.68  Aligned_cols=78  Identities=23%  Similarity=0.400  Sum_probs=63.9

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |-||+|.++.++ .+..+.+|+.|++++|+|..+|. ++.|+.|+.|+++-|++..+  |.+|+.++.|++|||++|++.
T Consensus        38 LtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~l--prgfgs~p~levldltynnl~  115 (264)
T KOG0617|consen   38 LTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNIL--PRGFGSFPALEVLDLTYNNLN  115 (264)
T ss_pred             hhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcC--ccccCCCchhhhhhccccccc
Confidence            777888888776 78888888888888888888888 88888888888888888766  678888888888888888885


Q ss_pred             CC
Q 005381          616 AH  617 (699)
Q Consensus       616 ~l  617 (699)
                      .-
T Consensus       116 e~  117 (264)
T KOG0617|consen  116 EN  117 (264)
T ss_pred             cc
Confidence            53

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.07  E-value=6.4e-09  Score=110.63  Aligned_cols=175  Identities=14%  Similarity=0.066  Sum_probs=90.8

Q ss_pred             CCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 005381           39 IYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        39 ~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~  118 (699)
                      ...++|+..+.++|..+|++..+|+.++.++...++            +++++..++++++.+|++..+|..|+.++...
T Consensus        78 g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~  145 (296)
T PRK11189         78 GLRALARNDFSQALALRPDMADAYNYLGIYLTQAGN------------FDAAYEAFDSVLELDPTYNYAYLNRGIALYYG  145 (296)
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            345566666666666666666666666666665543            56666666666666666666666666666554


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVS  198 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~  198 (699)
                       ++++++++.++++++++|.+.....+. .+....+.+ +++++.+.+.+...+.++.+|.....   .+++      ..
T Consensus       146 -g~~~eA~~~~~~al~~~P~~~~~~~~~-~l~~~~~~~-~~A~~~l~~~~~~~~~~~~~~~~~~~---~lg~------~~  213 (296)
T PRK11189        146 -GRYELAQDDLLAFYQDDPNDPYRALWL-YLAESKLDP-KQAKENLKQRYEKLDKEQWGWNIVEF---YLGK------IS  213 (296)
T ss_pred             -CCHHHHHHHHHHHHHhCCCCHHHHHHH-HHHHccCCH-HHHHHHHHHHHhhCCccccHHHHHHH---HccC------CC
Confidence             466666666666666666654211111 112222333 44555555544443322222221111   1111      01


Q ss_pred             hhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCC
Q 005381          199 KEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRV  237 (699)
Q Consensus       199 ~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~  237 (699)
                      ..+.++...+.+..++..+|....+|+|+..++....+.
T Consensus       214 ~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~  252 (296)
T PRK11189        214 EETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDL  252 (296)
T ss_pred             HHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCH
Confidence            112233333444455566677777777777777665443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.06  E-value=5.2e-09  Score=111.31  Aligned_cols=164  Identities=13%  Similarity=0.018  Sum_probs=113.8

Q ss_pred             cHHHHHHHHHHHHhC---CCc-hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           41 SKEAVELSTKLLETN---PEL-YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        41 ~~eaL~~~~~~L~~n---P~~-ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      .+.++..+.++|...   |+. ..+|+.|+.+....+.            +.+++..++++++.+|+++.+|++++.++.
T Consensus        42 ~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~------------~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~  109 (296)
T PRK11189         42 QEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGL------------RALARNDFSQALALRPDMADAYNYLGIYLT  109 (296)
T ss_pred             HHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            466777777777533   333 5677788887777754            677888888888888888888888888887


Q ss_pred             hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchH--HHHHHHHHHHHhhhhhcc
Q 005381          117 KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYS--AWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       117 ~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~S--AW~~R~~ll~~l~~~~~~  194 (699)
                      .. ++++++++.++++++++|.+..+|..|+.++...|++ ++.++.++++++.+|.+..  .|.+..   ...      
T Consensus       110 ~~-g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~-~eA~~~~~~al~~~P~~~~~~~~~~l~---~~~------  178 (296)
T PRK11189        110 QA-GNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRY-ELAQDDLLAFYQDDPNDPYRALWLYLA---ESK------  178 (296)
T ss_pred             HC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHH---Hcc------
Confidence            66 5888888888888888888888888888888878877 6778888888888887752  222111   111      


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                            ..++++++.+.+++...+.+...|......++.
T Consensus       179 ------~~~~~A~~~l~~~~~~~~~~~~~~~~~~~~lg~  211 (296)
T PRK11189        179 ------LDPKQAKENLKQRYEKLDKEQWGWNIVEFYLGK  211 (296)
T ss_pred             ------CCHHHHHHHHHHHHhhCCccccHHHHHHHHccC
Confidence                  125777777776665544444455544444444

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

Probab=99.02  E-value=1.1e-10  Score=133.67  Aligned_cols=209  Identities=23%  Similarity=0.216  Sum_probs=142.7

Q ss_pred             hhhhHHHHHHHHHHHHhhhhccccccccccHHHHHhhcccCCCCCCCcCCCcHHHHHhcccccccCCCCCccccchhhhH
Q 005381          427 FEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLV  506 (699)
Q Consensus       427 ~~~~~~~L~~el~~~~~L~~~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~  506 (699)
                      ++..+..++.++.....|..             +..+.+.        ..++++.++.++.|.+||+..|+. .+++..+
T Consensus       272 n~N~l~~lp~ri~~~~~L~~-------------l~~~~ne--------l~yip~~le~~~sL~tLdL~~N~L-~~lp~~~  329 (1081)
T KOG0618|consen  272 NHNRLVALPLRISRITSLVS-------------LSAAYNE--------LEYIPPFLEGLKSLRTLDLQSNNL-PSLPDNF  329 (1081)
T ss_pred             cchhHHhhHHHHhhhhhHHH-------------HHhhhhh--------hhhCCCcccccceeeeeeehhccc-cccchHH
Confidence            44455666666655555553             4555333        478888888899999999998873 3333211


Q ss_pred             HhhhhccchHHHhhhhccCCCCCCCC---CCC-CeEEccCCCCCc--ccCCCCCcccCEEEccCCCCCCCcC--Cccccc
Q 005381          507 LLQQVTSNWESLLSRCFHYSNSPSNR---GSP-MCLQLKNLSLSR--LGSFDKLLWVQMLDLSHNELRSIEG--LEALQL  578 (699)
Q Consensus       507 ~l~~l~~~~~~l~~~~~~l~~l~~l~---L~~-~~L~Ls~n~l~~--l~~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~  578 (699)
                      .. ........+...+..+..+....   ... +.|++.+|.++.  +|.+.+..+|+.|+|++|+|+++|.  +.+|..
T Consensus       330 l~-v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~  408 (1081)
T KOG0618|consen  330 LA-VLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEE  408 (1081)
T ss_pred             Hh-hhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHH
Confidence            10 00000111222222222221110   000 447889999984  5689999999999999999999999  999999


Q ss_pred             cceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhcc
Q 005381          579 LSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFI  658 (699)
Q Consensus       579 L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~  658 (699)
                      |+.|+||+|+++.+  |..+..|..|++|...+|+|..+|     .+..++-++.++++.|.++...+         |..
T Consensus       409 LeeL~LSGNkL~~L--p~tva~~~~L~tL~ahsN~l~~fP-----e~~~l~qL~~lDlS~N~L~~~~l---------~~~  472 (1081)
T KOG0618|consen  409 LEELNLSGNKLTTL--PDTVANLGRLHTLRAHSNQLLSFP-----ELAQLPQLKVLDLSCNNLSEVTL---------PEA  472 (1081)
T ss_pred             hHHHhcccchhhhh--hHHHHhhhhhHHHhhcCCceeech-----hhhhcCcceEEecccchhhhhhh---------hhh
Confidence            99999999999998  578899999999999999999986     34455666777888888754432         333


Q ss_pred             CCCCCccEEEecCCCC
Q 005381          659 LKGLNLTQFDIVGNAI  674 (699)
Q Consensus       659 l~~L~L~~LdLs~N~l  674 (699)
                      ...-+|++|||+||.-
T Consensus       473 ~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  473 LPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             CCCcccceeeccCCcc
Confidence            3323899999999983

>PRK12370 invasion protein regulator; Provisional

Probab=99.01  E-value=1.6e-08  Score=116.96  Aligned_cols=162  Identities=12%  Similarity=-0.020  Sum_probs=142.0

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++|+..+.+++.++|++..+|..++.++...++            +++++..++++++.+|++..+|++.++++... +.
T Consensus       321 ~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~-G~  387 (553)
T PRK12370        321 IKAKEHAIKATELDHNNPQALGLLGLINTIHSE------------YIVGSLLFKQANLLSPISADIKYYYGWNLFMA-GQ  387 (553)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC-CC
Confidence            799999999999999999999999998877754            89999999999999999999999999999977 69


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc-cCchHHHHHHHHHHHHhhhhhccCccchh
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN-FSNYSAWHNRSLLLSNLLKRKVEGFVSKE  200 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n-~sN~SAW~~R~~ll~~l~~~~~~~~~~~~  200 (699)
                      +++++..++++++++|.+..++.++.++.-..+.+ +++++.+.++++.+ |.+..++.+.+.++..+++          
T Consensus       388 ~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~-eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~----------  456 (553)
T PRK12370        388 LEEALQTINECLKLDPTRAAAGITKLWITYYHTGI-DDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGK----------  456 (553)
T ss_pred             HHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCH-HHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCC----------
Confidence            99999999999999999988777778877778887 77888999999886 6777788888888877655          


Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          201 KVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       201 ~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                        ++++.+.+.++....|++..++....-
T Consensus       457 --~~eA~~~~~~~~~~~~~~~~~~~~l~~  483 (553)
T PRK12370        457 --HELARKLTKEISTQEITGLIAVNLLYA  483 (553)
T ss_pred             --HHHHHHHHHHhhhccchhHHHHHHHHH
Confidence              789999998888888887777775443

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

Probab=99.01  E-value=2.1e-11  Score=114.91  Aligned_cols=122  Identities=20%  Similarity=0.223  Sum_probs=70.9

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |++.+|+|+.+| .++.++.|+.|+++.|++..+|. |+.++.|+.|||++|.+..-..|..|..+..|+.|.|+.|.+.
T Consensus        61 ln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levldltynnl~e~~lpgnff~m~tlralyl~dndfe  140 (264)
T KOG0617|consen   61 LNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFE  140 (264)
T ss_pred             hhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCchhhhhhccccccccccCCcchhHHHHHHHHHhcCCCcc
Confidence            566666666665 66666666666666666666666 6666666666666666655444555666666666666666666


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      -+|.+.    ..+..+..+.+..           +.....|..++.+ .|+.|.+.+|.+
T Consensus       141 ~lp~dv----g~lt~lqil~lrd-----------ndll~lpkeig~lt~lrelhiqgnrl  185 (264)
T KOG0617|consen  141 ILPPDV----GKLTNLQILSLRD-----------NDLLSLPKEIGDLTRLRELHIQGNRL  185 (264)
T ss_pred             cCChhh----hhhcceeEEeecc-----------CchhhCcHHHHHHHHHHHHhccccee
Confidence            665321    1111111111121           2223445666666 777777777766

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

Probab=99.00  E-value=2.2e-11  Score=127.98  Aligned_cols=239  Identities=18%  Similarity=0.114  Sum_probs=130.2

Q ss_pred             hhhhHHHHHHHHHHHHhhhhccccccccccHHHHHhhcccCCCCCCCcCCCcHHHHHhcccccccCCCCCccccchhh--
Q 005381          427 FEWRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHS--  504 (699)
Q Consensus       427 ~~~~~~~L~~el~~~~~L~~~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~~~~~l~~l~~L~~LDls~n~~~~~l~s--  504 (699)
                      |+-.++..|.|+..|.....+.++.|...++..+..+.+.+        ....+-+.++..|++|+..+|+..+-...  
T Consensus        17 snr~l~~vp~~vyq~~~t~~e~e~wW~qv~l~~lils~N~l--------~~l~~dl~nL~~l~vl~~~~n~l~~lp~aig   88 (565)
T KOG0472|consen   17 SNRSLKDVPTEVYQINLTTGEGENWWEQVDLQKLILSHNDL--------EVLREDLKNLACLTVLNVHDNKLSQLPAAIG   88 (565)
T ss_pred             ccchhhhccHHHHHHHhhccchhhhhhhcchhhhhhccCch--------hhccHhhhcccceeEEEeccchhhhCCHHHH
Confidence            45577888999999996666999999999988888886654        45555566677777777777764322221  


Q ss_pred             ----hHHhhhhccchHHHhhhhccCCCCCCCCCCC----------------CeEEccCCCCCccc-CCCCCcccCEEEcc
Q 005381          505 ----LVLLQQVTSNWESLLSRCFHYSNSPSNRGSP----------------MCLQLKNLSLSRLG-SFDKLLWVQMLDLS  563 (699)
Q Consensus       505 ----l~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~----------------~~L~Ls~n~l~~l~-~l~~L~~L~~LdLS  563 (699)
                          +..+......+..+++....+..+..+..++                ..++..+|.++++| .+..+..|..|++.
T Consensus        89 ~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~  168 (565)
T KOG0472|consen   89 ELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLE  168 (565)
T ss_pred             HHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhcc
Confidence                1111112222233333333222222211000                01333444444444 44444555555555


Q ss_pred             CCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccc
Q 005381          564 HNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQ  642 (699)
Q Consensus       564 ~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~  642 (699)
                      +|++..+|+ .-.+..|+.||...|-++.+  |+.++.+.+|.-|+|..|+|..+|     .+.+.+++.-+....|.+ 
T Consensus       169 ~n~l~~l~~~~i~m~~L~~ld~~~N~L~tl--P~~lg~l~~L~~LyL~~Nki~~lP-----ef~gcs~L~Elh~g~N~i-  240 (565)
T KOG0472|consen  169 GNKLKALPENHIAMKRLKHLDCNSNLLETL--PPELGGLESLELLYLRRNKIRFLP-----EFPGCSLLKELHVGENQI-  240 (565)
T ss_pred             ccchhhCCHHHHHHHHHHhcccchhhhhcC--ChhhcchhhhHHHHhhhcccccCC-----CCCccHHHHHHHhcccHH-
Confidence            555555544 33355555555555555554  455666666666666666666655     122222222223334443 


Q ss_pred             eeecCCcchhhhhhccC-CCC-CccEEEecCCCC-CCccchHHHhhcCCccccccC
Q 005381          643 TVIDDDIKSYWEAYFIL-KGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       643 ~~~~~~~~~~~~~p~~l-~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD~  695 (699)
                                ..+|... +++ +|..|||.+|++ ..|+-   + -.+.+|.+||-
T Consensus       241 ----------~~lpae~~~~L~~l~vLDLRdNklke~Pde---~-clLrsL~rLDl  282 (565)
T KOG0472|consen  241 ----------EMLPAEHLKHLNSLLVLDLRDNKLKEVPDE---I-CLLRSLERLDL  282 (565)
T ss_pred             ----------HhhHHHHhcccccceeeeccccccccCchH---H-HHhhhhhhhcc
Confidence                      3344444 478 999999999999 43332   1 23567777764

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

Probab=98.95  E-value=3.3e-09  Score=118.13  Aligned_cols=182  Identities=14%  Similarity=0.118  Sum_probs=134.3

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      +++ +.|++++.++++++|.+.-|+---|.=....            ..++.++.+|..+|..+|.+|-||+.-|.+..+
T Consensus       435 kdh-~~Aik~f~RAiQldp~faYayTLlGhE~~~~------------ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~K  501 (638)
T KOG1126|consen  435 KDH-DTAIKCFKRAIQLDPRFAYAYTLLGHESIAT------------EEFDKAMKSFRKALGVDPRHYNAWYGLGTVYLK  501 (638)
T ss_pred             hHH-HHHHHHHHHhhccCCccchhhhhcCChhhhh------------HHHHhHHHHHHhhhcCCchhhHHHHhhhhheec
Confidence            444 5778888888888886654433222111111            237888888888888888888888888888876


Q ss_pred             CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          118 GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                      . +.++.+.-.+.+|++++|+|-.--.|-|-+..++|.. +++|+++++|+..||.|.-.=++|+.++..+++       
T Consensus       502 q-ek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~-d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~-------  572 (638)
T KOG1126|consen  502 Q-EKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRK-DKALQLYEKAIHLDPKNPLCKYHRASILFSLGR-------  572 (638)
T ss_pred             c-chhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhh-hHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcc-------
Confidence            6 5788888888888888888888888888888888887 678888888888888888888888888888865       


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCCCCcccccC
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSW  246 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~~~~~~~~~  246 (699)
                           |++|+..+++.-..-|++.++.+-..-...+..+.+.+++--.|
T Consensus       573 -----~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~  616 (638)
T KOG1126|consen  573 -----YVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSW  616 (638)
T ss_pred             -----hHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHH
Confidence                 67777777777778888888877665555555444545543344

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.94  E-value=4.7e-08  Score=118.62  Aligned_cols=168  Identities=6%  Similarity=-0.130  Sum_probs=141.3

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|.+ ++|+.++.+++..+|++..+...-...+...+            .+++++..+++++..+|. ..+|...+.+
T Consensus       553 l~~Gd~-~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~G------------r~~eAl~~~~~AL~l~P~-~~a~~~LA~~  618 (987)
T PRK09782        553 QAAGNG-AARDRWLQQAEQRGLGDNALYWWLHAQRYIPG------------QPELALNDLTRSLNIAPS-ANAYVARATI  618 (987)
T ss_pred             HHCCCH-HHHHHHHHHHHhcCCccHHHHHHHHHHHHhCC------------CHHHHHHHHHHHHHhCCC-HHHHHHHHHH
Confidence            445555 67888888888888887655543222222223            489999999999999996 9999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      +.+. +.++++++++.++++++|.|..++...++++...|.+ +++++.+.++++.+|.+..+|.+++.++..+++    
T Consensus       619 l~~l-G~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~-eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd----  692 (987)
T PRK09782        619 YRQR-HNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDI-AQSREMLERAHKGLPDDPALIRQLAYVNQRLDD----  692 (987)
T ss_pred             HHHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC----
Confidence            9987 6999999999999999999999999999999999998 789999999999999999999999999988865    


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                              ++++++.+++|+..+|++...=+-..++
T Consensus       693 --------~~eA~~~l~~Al~l~P~~a~i~~~~g~~  720 (987)
T PRK09782        693 --------MAATQHYARLVIDDIDNQALITPLTPEQ  720 (987)
T ss_pred             --------HHHHHHHHHHHHhcCCCCchhhhhhhHH
Confidence                    7999999999999999876655433333

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.94  E-value=1.9e-07  Score=93.09  Aligned_cols=175  Identities=13%  Similarity=0.056  Sum_probs=149.3

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHH
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHR  111 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR  111 (699)
                      ......+.+ ++|++.+.+++..+|++..+|..++.+....++            +++++..+++++..+|++..+|...
T Consensus        39 ~~~~~~~~~-~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~~  105 (234)
T TIGR02521        39 LGYLEQGDL-EVAKENLDKALEHDPDDYLAYLALALYYQQLGE------------LEKAEDSFRRALTLNPNNGDVLNNY  105 (234)
T ss_pred             HHHHHCCCH-HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCCCCHHHHHHH
Confidence            334456666 799999999999999999999999998887765            8999999999999999999999999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhC--CCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          112 KWILSKGHSSIDNELRLLDKFQKAD--SRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       112 ~w~L~~~~~~~~~EL~~~~k~L~~d--prN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      ++++... +.++++++.++++++..  +....+|...+.+....+.+ ++..+++.++++.+|.+..+|...+.+....+
T Consensus       106 ~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~  183 (234)
T TIGR02521       106 GTFLCQQ-GKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDF-DKAEKYLTRALQIDPQRPESLLELAELYYLRG  183 (234)
T ss_pred             HHHHHHc-ccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCcCChHHHHHHHHHHHHcC
Confidence            9999877 69999999999999853  56677888889998888988 67899999999999999999988888777654


Q ss_pred             hhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          190 KRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       190 ~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      .            ++++++.+.+++...|.+...|.....+...
T Consensus       184 ~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  215 (234)
T TIGR02521       184 Q------------YKDARAYLERYQQTYNQTAESLWLGIRIARA  215 (234)
T ss_pred             C------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            3            7899999999999988887777655555433

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

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

Probab=98.93  E-value=3.2e-08  Score=108.88  Aligned_cols=170  Identities=16%  Similarity=0.087  Sum_probs=149.5

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|.. .||.++|.++|..+|.+..+-|.-+.+....+.            ++++..+|.++|+.+|....+-+.-+-+
T Consensus       331 kd~G~V-~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~------------~e~A~~ly~~al~v~p~~aaa~nNLa~i  397 (966)
T KOG4626|consen  331 KDKGSV-TEAVDCYNKALRLCPNHADAMNNLGNIYREQGK------------IEEATRLYLKALEVFPEFAAAHNNLASI  397 (966)
T ss_pred             Hhccch-HHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcc------------chHHHHHHHHHHhhChhhhhhhhhHHHH
Confidence            344555 689999999999999999999888888877765            8899999999999999999999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      +++. +.+++++.+|+.+|+++|....|.+.+|-++..+|+. .+++++++++|.+||---.|..+.+.+.+.-|.    
T Consensus       398 ~kqq-gnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v-~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGn----  471 (966)
T KOG4626|consen  398 YKQQ-GNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV-SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGN----  471 (966)
T ss_pred             HHhc-ccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH-HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCC----
Confidence            9876 6899999999999999999999999999999999988 689999999999999999999988877654432    


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                              ..++|..|.+|+.++|+-..|..-+..-+
T Consensus       472 --------i~~AI~sY~~aLklkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  472 --------IPEAIQSYRTALKLKPDFPDAYCNLLHCL  500 (966)
T ss_pred             --------cHHHHHHHHHHHccCCCCchhhhHHHHHH
Confidence                    68999999999999999999988766554

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

Probab=98.91  E-value=2.8e-10  Score=124.50  Aligned_cols=159  Identities=26%  Similarity=0.286  Sum_probs=120.1

Q ss_pred             hhHHHHHHHHHHHHhhhhccccccccccHHHHHhhcccCCCCCCCcCCCcHHHHHhcccccccCCCCCccccchhhhHHh
Q 005381          429 WRAATIAKEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLL  508 (699)
Q Consensus       429 ~~~~~L~~el~~~~~L~~~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l  508 (699)
                      .....+|++...|.-|..             +...++.        ...+++.+..++.|+++|+++|+           
T Consensus        85 NR~~elp~~~~~f~~Le~-------------liLy~n~--------~r~ip~~i~~L~~lt~l~ls~Nq-----------  132 (722)
T KOG0532|consen   85 NRFSELPEEACAFVSLES-------------LILYHNC--------IRTIPEAICNLEALTFLDLSSNQ-----------  132 (722)
T ss_pred             cccccCchHHHHHHHHHH-------------HHHHhcc--------ceecchhhhhhhHHHHhhhccch-----------
Confidence            466778899888888874             4444444        36778888999999999999988           


Q ss_pred             hhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-Cccccccceeeccc
Q 005381          509 QQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSN  586 (699)
Q Consensus       509 ~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~  586 (699)
                            +..++..+..+.-        +.+.+++|+++.+| .++.+..|.+||.|.|.|.++|. +.+|.+|+.|++..
T Consensus       133 ------lS~lp~~lC~lpL--------kvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrR  198 (722)
T KOG0532|consen  133 ------LSHLPDGLCDLPL--------KVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRR  198 (722)
T ss_pred             ------hhcCChhhhcCcc--------eeEEEecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhh
Confidence                  3334444333221        33778888888777 67777888888888888888887 88888888888888


Q ss_pred             CCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-Ccc
Q 005381          587 NILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLT  665 (699)
Q Consensus       587 N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~  665 (699)
                      |++..+  |..+..| .|..||+|.|+|..+|+                                      .|.+| .|+
T Consensus       199 n~l~~l--p~El~~L-pLi~lDfScNkis~iPv--------------------------------------~fr~m~~Lq  237 (722)
T KOG0532|consen  199 NHLEDL--PEELCSL-PLIRLDFSCNKISYLPV--------------------------------------DFRKMRHLQ  237 (722)
T ss_pred             hhhhhC--CHHHhCC-ceeeeecccCceeecch--------------------------------------hhhhhhhhe
Confidence            888777  5666644 57888888888888763                                      67788 899


Q ss_pred             EEEecCCCC
Q 005381          666 QFDIVGNAI  674 (699)
Q Consensus       666 ~LdLs~N~l  674 (699)
                      +|-|.+|++
T Consensus       238 ~l~LenNPL  246 (722)
T KOG0532|consen  238 VLQLENNPL  246 (722)
T ss_pred             eeeeccCCC
Confidence            999999999

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

Probab=98.91  E-value=1e-08  Score=114.19  Aligned_cols=157  Identities=18%  Similarity=0.096  Sum_probs=141.3

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      ..|+ +.|..++.++|..+|.||.||+.-|.+..+.++            ++.+.-.+++|+.+||.|-..-.|-+-++.
T Consensus       468 ~ee~-d~a~~~fr~Al~~~~rhYnAwYGlG~vy~Kqek------------~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~  534 (638)
T KOG1126|consen  468 TEEF-DKAMKSFRKALGVDPRHYNAWYGLGTVYLKQEK------------LEFAEFHFQKAVEINPSNSVILCHIGRIQH  534 (638)
T ss_pred             hHHH-HhHHHHHHhhhcCCchhhHHHHhhhhheeccch------------hhHHHHHHHhhhcCCccchhHHhhhhHHHH
Confidence            3445 799999999999999999999999999887765            899999999999999999999999999999


Q ss_pred             hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          117 KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       117 ~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                      ++ +..+++|.++++|+.+||+|.++=.+|+-++-.++++ .+++.-.++.-+.-|.+-++.+-.+.+...++.      
T Consensus       535 ~~-k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~-~eal~~LEeLk~~vP~es~v~~llgki~k~~~~------  606 (638)
T KOG1126|consen  535 QL-KRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRY-VEALQELEELKELVPQESSVFALLGKIYKRLGN------  606 (638)
T ss_pred             Hh-hhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcch-HHHHHHHHHHHHhCcchHHHHHHHHHHHHHHcc------
Confidence            88 5889999999999999999999999999999999999 678888889888999999999999999888865      


Q ss_pred             cchhchHHHHHHHHHHHHHhCCCC
Q 005381          197 VSKEKVLPDEYEFVHQAIFTDPDD  220 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~~dP~d  220 (699)
                            .+.++.-+.=|..+||.-
T Consensus       607 ------~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  607 ------TDLALLHFSWALDLDPKG  624 (638)
T ss_pred             ------chHHHHhhHHHhcCCCcc
Confidence                  466777777788888753

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

Probab=98.89  E-value=1.7e-08  Score=110.96  Aligned_cols=183  Identities=14%  Similarity=0.062  Sum_probs=151.1

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      +..|.. ++||.+|..++++.|++..||-..+.++..-++            .+.+..+|..+|+.||..|.+-.|-+-+
T Consensus       127 kerg~~-~~al~~y~~aiel~p~fida~inla~al~~~~~------------~~~a~~~~~~alqlnP~l~ca~s~lgnL  193 (966)
T KOG4626|consen  127 KERGQL-QDALALYRAAIELKPKFIDAYINLAAALVTQGD------------LELAVQCFFEALQLNPDLYCARSDLGNL  193 (966)
T ss_pred             HHhchH-HHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCC------------CcccHHHHHHHHhcCcchhhhhcchhHH
Confidence            344555 899999999999999999999999999987765            6788999999999999999999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhc-
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKV-  193 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~-  193 (699)
                      +... +++.++-++|-++++.+|...-||..-+-++...|.. ...+..+.++++.+|.--.|+.+.+.+++.+..-.. 
T Consensus       194 lka~-Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei-~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  194 LKAE-GRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEI-WLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHhh-cccchhHHHHHHHHhhCCceeeeehhcchHHhhcchH-HHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHH
Confidence            9876 6999999999999999999999999999999888877 468999999999999999999999999988754100 


Q ss_pred             -----------------cCc----cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          194 -----------------EGF----VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       194 -----------------~~~----~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                                       -|+    -..++.++-+|++|++||..+|+-..|++-+.=.|.
T Consensus       272 vs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALk  331 (966)
T KOG4626|consen  272 VSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALK  331 (966)
T ss_pred             HHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHH
Confidence                             000    012344566777777777777777777776655553

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

Probab=98.88  E-value=2.9e-10  Score=130.32  Aligned_cols=191  Identities=24%  Similarity=0.229  Sum_probs=109.4

Q ss_pred             HHHHHhcccccccCCCCCccccchhh------hHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc--C
Q 005381          479 EEVLELYNDLMRLDPTHVQYYKDQHS------LVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--S  550 (699)
Q Consensus       479 ~~~l~~l~~L~~LDls~n~~~~~l~s------l~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~  550 (699)
                      ++.++.+.+|+.|+..+|.+..-...      +..+.-..+.++.++....++..+++       |+|..|.|..+|  .
T Consensus       257 p~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~t-------LdL~~N~L~~lp~~~  329 (1081)
T KOG0618|consen  257 PEWIGACANLEALNANHNRLVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRT-------LDLQSNNLPSLPDNF  329 (1081)
T ss_pred             hHHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeee-------eeehhccccccchHH
Confidence            47888888888888888875211111      11111122223333333333333333       666666655443  1


Q ss_pred             C-------------------------CCCcccCEEEccCCCCC--CCcCCccccccceeecccCCCCCCCCCcccccccc
Q 005381          551 F-------------------------DKLLWVQMLDLSHNELR--SIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKS  603 (699)
Q Consensus       551 l-------------------------~~L~~L~~LdLS~N~L~--~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~  603 (699)
                      +                         ..++.|+.|.|.+|.|+  .+|.+.+..+|+.|+|++|+|..+++ ..+.++..
T Consensus       330 l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpa-s~~~kle~  408 (1081)
T KOG0618|consen  330 LAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPA-SKLRKLEE  408 (1081)
T ss_pred             HhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCH-HHHhchHH
Confidence            1                         11234566666666662  34457777777777777777777644 55677777


Q ss_pred             ccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHH
Q 005381          604 LRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSF  682 (699)
Q Consensus       604 L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~  682 (699)
                      |+.|+||+|+++.+|.    .+..+..++.+..-+|++..           .| .+..+ .|+.+||+.|.|.--.....
T Consensus       409 LeeL~LSGNkL~~Lp~----tva~~~~L~tL~ahsN~l~~-----------fP-e~~~l~qL~~lDlS~N~L~~~~l~~~  472 (1081)
T KOG0618|consen  409 LEELNLSGNKLTTLPD----TVANLGRLHTLRAHSNQLLS-----------FP-ELAQLPQLKVLDLSCNNLSEVTLPEA  472 (1081)
T ss_pred             hHHHhcccchhhhhhH----HHHhhhhhHHHhhcCCceee-----------ch-hhhhcCcceEEecccchhhhhhhhhh
Confidence            7777777777777762    12233344444444455433           34 67788 99999999999921111111


Q ss_pred             HhhcCCccccccC
Q 005381          683 LIKVLPGLKWLDG  695 (699)
Q Consensus       683 ~~~~l~~L~~LD~  695 (699)
                        .-.|+|++||-
T Consensus       473 --~p~p~LkyLdl  483 (1081)
T KOG0618|consen  473 --LPSPNLKYLDL  483 (1081)
T ss_pred             --CCCcccceeec
Confidence              11268998885

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.86  E-value=8.8e-08  Score=112.82  Aligned_cols=164  Identities=9%  Similarity=-0.079  Sum_probs=137.6

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|.+ ++|+..+.+++..+|++..+|+..+.++...++     .   .....+++..+++++..+|.+..+|...+++
T Consensus       223 ~~~g~~-~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~-----~---~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~  293 (656)
T PRK15174        223 CAVGKY-QEAIQTGESALARGLDGAALRRSLGLAYYQSGR-----S---REAKLQAAEHWRHALQFNSDNVRIVTLYADA  293 (656)
T ss_pred             HHCCCH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCC-----c---hhhHHHHHHHHHHHHhhCCCCHHHHHHHHHH
Confidence            345666 789999999999999999999999988888765     0   0011247999999999999999999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      +... +.+++++..++++++.+|.+..+|.+.+.++...|.+ ++.++.+.++++.+|.+..++.+++.++..+++    
T Consensus       294 l~~~-g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~-~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~----  367 (656)
T PRK15174        294 LIRT-GQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQY-TAASDEFVQLAREKGVTSKWNRYAAAALLQAGK----  367 (656)
T ss_pred             HHHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCccchHHHHHHHHHHHHCCC----
Confidence            9987 6999999999999999999999999999999999998 678888899999999887666666777766644    


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                              ++++++.+.+++..+|++.
T Consensus       368 --------~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        368 --------TSEAESVFEHYIQARASHL  386 (656)
T ss_pred             --------HHHHHHHHHHHHHhChhhc
Confidence                    6888888888888888864

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

Probab=98.85  E-value=1.3e-09  Score=106.17  Aligned_cols=81  Identities=35%  Similarity=0.490  Sum_probs=46.7

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-C-ccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-L-EALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l-~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |+|++|.|+.+..+..++.|+.|++++|.|+.++. + ..+++|+.|+|++|+|..+.....++.+++|+.|+|.+|+++
T Consensus        47 L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~  126 (175)
T PF14580_consen   47 LDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVC  126 (175)
T ss_dssp             EE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGG
T ss_pred             EECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCccc
Confidence            99999999999999999999999999999999965 5 469999999999999999888888999999999999999998


Q ss_pred             CCC
Q 005381          616 AHS  618 (699)
Q Consensus       616 ~lp  618 (699)
                      ..+
T Consensus       127 ~~~  129 (175)
T PF14580_consen  127 EKK  129 (175)
T ss_dssp             GST
T ss_pred             chh
Confidence            754

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.83  E-value=2.5e-07  Score=108.97  Aligned_cols=190  Identities=12%  Similarity=-0.061  Sum_probs=126.8

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------CCchh-----------hhhhHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------SDPDS-----------LKSILDEELR   92 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~~~~~-----------~~~~~~eEL~   92 (699)
                      ....|.+ ++|++.+.+++.++|++..+|..++.++...++..+          ..|+.           ....+++++.
T Consensus       120 l~~~g~~-~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~~~l~~~g~~~eA~~  198 (656)
T PRK15174        120 LLKSKQY-ATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATCLSFLNKSRLPEDHD  198 (656)
T ss_pred             HHHcCCH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHH
Confidence            4456666 788999999999999999998888888776654110          00000           0122344444


Q ss_pred             HHHHHHHhCCCChHHHH-HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChH---HHHHHHHHHH
Q 005381           93 VVESALRQNFKSYGAWH-HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEE---DELKYTEDMI  168 (699)
Q Consensus        93 ~~~~~L~~nPKsy~aW~-hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e---~EL~~~~~~I  168 (699)
                      .++.++..+|.....+. ...-++... +.+++++..++++++.+|.+..+|...+.++...|.+.+   +.++.+++++
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~-g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAV-GKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHC-CCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            44444444432222211 112223223 467778888888888888888888888888888887743   3677888888


Q ss_pred             HhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCC
Q 005381          169 CNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRV  237 (699)
Q Consensus       169 ~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~  237 (699)
                      +.+|.+..+|...+.++...++            +++++..+++++..+|++..+|.++..++....+.
T Consensus       278 ~l~P~~~~a~~~lg~~l~~~g~------------~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~  334 (656)
T PRK15174        278 QFNSDNVRIVTLYADALIRTGQ------------NEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQY  334 (656)
T ss_pred             hhCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH
Confidence            8888888888888888776644            68888888888888888888888877776554443

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

Probab=98.82  E-value=2.8e-07  Score=110.81  Aligned_cols=182  Identities=15%  Similarity=0.038  Sum_probs=93.0

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------C-----------------------
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------S-----------------------   78 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~-----------------------   78 (699)
                      ......|.+ ++|+..+.+++..+|++..+|+.++.++...++..+          .                       
T Consensus        30 ~~~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~  108 (899)
T TIGR02917        30 KSYLQKNKY-KAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKALSLGYPKNQVLPLLARAYLLQGKFQQ  108 (899)
T ss_pred             HHHHHcCCh-HhHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCChhhhHHHHHHHHHHCCCHHH
Confidence            334455666 688888888888888888888888877776543100          0                       


Q ss_pred             -----------Cc-h------------hhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           79 -----------DP-D------------SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        79 -----------~~-~------------~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                                 ++ .            ...+.+++++..+++++..+|++..+|....+++... +.++++++.++++++
T Consensus       109 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~  187 (899)
T TIGR02917       109 VLDELPGKTLLDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAE-NRFDEARALIDEVLT  187 (899)
T ss_pred             HHHhhcccccCCchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHC-CCHHHHHHHHHHHHH
Confidence                       00 0            0012244444455555555555555554444444433 344555555555555


Q ss_pred             hCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHH
Q 005381          135 ADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAI  214 (699)
Q Consensus       135 ~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai  214 (699)
                      .+|.+..+|..++.+....|.+ ++.++++.++++.+|.+..+|..++.++...++            ++++...++.++
T Consensus       188 ~~~~~~~~~~~~~~~~~~~g~~-~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~g~------------~~~A~~~~~~~~  254 (899)
T TIGR02917       188 ADPGNVDALLLKGDLLLSLGNI-ELALAAYRKAIALRPNNPAVLLALATILIEAGE------------FEEAEKHADALL  254 (899)
T ss_pred             hCCCChHHHHHHHHHHHhcCCH-HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHH
Confidence            5555555555555444444444 344444455555555555555444444433322            445555555555


Q ss_pred             HhCCCCchhHHHHH
Q 005381          215 FTDPDDQSGWFYHL  228 (699)
Q Consensus       215 ~~dP~d~SaW~Y~~  228 (699)
                      ..+|++..+++++.
T Consensus       255 ~~~~~~~~~~~~~~  268 (899)
T TIGR02917       255 KKAPNSPLAHYLKA  268 (899)
T ss_pred             HhCCCCchHHHHHH
Confidence            55555444444333

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

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

Probab=98.76  E-value=5.2e-07  Score=97.44  Aligned_cols=175  Identities=17%  Similarity=0.073  Sum_probs=146.0

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ...++.| ++|+++|+.+|...|+-...+..|.-+...++.            +++-++.|.++|+.||+...|...|.-
T Consensus       125 ~f~~kkY-~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd------------~~~Vied~TkALEl~P~Y~KAl~RRA~  191 (606)
T KOG0547|consen  125 FFRNKKY-DEAIKYYTQAIELCPDEPIFYSNRAACYESLGD------------WEKVIEDCTKALELNPDYVKALLRRAS  191 (606)
T ss_pred             hhhcccH-HHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhh------------HHHHHHHHHHHhhcCcHHHHHHHHHHH
Confidence            3467888 799999999999999999999999999999975            999999999999999999999998875


Q ss_pred             HHHhCCC-------------------------------------------------------------------------
Q 005381          114 ILSKGHS-------------------------------------------------------------------------  120 (699)
Q Consensus       114 ~L~~~~~-------------------------------------------------------------------------  120 (699)
                      .-+.+..                                                                         
T Consensus       192 A~E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~  271 (606)
T KOG0547|consen  192 AHEQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDN  271 (606)
T ss_pred             HHHhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccC
Confidence            5443210                                                                         


Q ss_pred             ----------------------Ch-----------------------------------------------HHHHHHHHH
Q 005381          121 ----------------------SI-----------------------------------------------DNELRLLDK  131 (699)
Q Consensus       121 ----------------------~~-----------------------------------------------~~EL~~~~k  131 (699)
                                            .|                                               -.+-+.+++
T Consensus       272 ~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~  351 (606)
T KOG0547|consen  272 KSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDA  351 (606)
T ss_pred             CCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHH
Confidence                                  00                                               022346788


Q ss_pred             HHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHH
Q 005381          132 FQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVH  211 (699)
Q Consensus       132 ~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~  211 (699)
                      ++++||++..-+-+|+-++...... ++-+.++.++..+||.|.+.+|||+.+..-+..            |+++++-|+
T Consensus       352 ~I~l~~~~~~lyI~~a~~y~d~~~~-~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q------------~e~A~aDF~  418 (606)
T KOG0547|consen  352 AIKLDPAFNSLYIKRAAAYADENQS-EKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQ------------YEEAIADFQ  418 (606)
T ss_pred             HHhcCcccchHHHHHHHHHhhhhcc-HHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHH------------HHHHHHHHH
Confidence            8899999998888888777776666 778899999999999999999999999887744            899999999


Q ss_pred             HHHHhCCCCchhHHHHHHHHcCc
Q 005381          212 QAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       212 ~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      +++.++|++.-+..-+-+++-+.
T Consensus       419 Kai~L~pe~~~~~iQl~~a~Yr~  441 (606)
T KOG0547|consen  419 KAISLDPENAYAYIQLCCALYRQ  441 (606)
T ss_pred             HHhhcChhhhHHHHHHHHHHHHH
Confidence            99999999999888766666443

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

Probab=98.75  E-value=7.5e-07  Score=107.12  Aligned_cols=165  Identities=13%  Similarity=0.006  Sum_probs=113.7

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      ..|.+ ++|+..+++++..+|++..+|.....++...++            +++++..+++++..+|.+..+|..++.+.
T Consensus       137 ~~~~~-~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  203 (899)
T TIGR02917       137 GLGQL-ELAQKSYEQALAIDPRSLYAKLGLAQLALAENR------------FDEARALIDEVLTADPGNVDALLLKGDLL  203 (899)
T ss_pred             HcCCH-HHHHHHHHHHHhcCCCChhhHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            34555 678888888888888888888777777766543            77788888888888888888888887777


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                      ... +.++++++.++++++.+|.+..+|..++.++...|.+ ++..+.++++++.+|.+..++..++.+....+.     
T Consensus       204 ~~~-g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  276 (899)
T TIGR02917       204 LSL-GNIELALAAYRKAIALRPNNPAVLLALATILIEAGEF-EEAEKHADALLKKAPNSPLAHYLKALVDFQKKN-----  276 (899)
T ss_pred             Hhc-CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC-----
Confidence            665 5777888888888888888888888777777777776 556677777777777776666666655443322     


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCchhHHHH
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYH  227 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~  227 (699)
                             ++++++.+.+++..+|++..++++.
T Consensus       277 -------~~~A~~~~~~~l~~~~~~~~~~~~~  301 (899)
T TIGR02917       277 -------YEDARETLQDALKSAPEYLPALLLA  301 (899)
T ss_pred             -------HHHHHHHHHHHHHhCCCchhHHHHH
Confidence                   3444444444444444444444333

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.74  E-value=4.8e-07  Score=109.98  Aligned_cols=174  Identities=10%  Similarity=-0.060  Sum_probs=137.0

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      ..|.+ ++|+..+.+++...|. ..+|...+.++...+            .+++++.+++++++.+|..+.....-.-.+
T Consensus       521 ~~Gr~-eeAi~~~rka~~~~p~-~~a~~~la~all~~G------------d~~eA~~~l~qAL~l~P~~~~l~~~La~~l  586 (987)
T PRK09782        521 QVEDY-ATALAAWQKISLHDMS-NEDLLAAANTAQAAG------------NGAARDRWLQQAEQRGLGDNALYWWLHAQR  586 (987)
T ss_pred             HCCCH-HHHHHHHHHHhccCCC-cHHHHHHHHHHHHCC------------CHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            44444 4556666655444333 334444444444443            378899999999999999877665433333


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                      ... +++++++..++++++++|. ..+|...+.++.++|.+ ++.++++.++++.+|.|..++...+.++...+.     
T Consensus       587 ~~~-Gr~~eAl~~~~~AL~l~P~-~~a~~~LA~~l~~lG~~-deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~-----  658 (987)
T PRK09782        587 YIP-GQPELALNDLTRSLNIAPS-ANAYVARATIYRQRHNV-PAAVSDLRAALELEPNNSNYQAALGYALWDSGD-----  658 (987)
T ss_pred             HhC-CCHHHHHHHHHHHHHhCCC-HHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC-----
Confidence            333 6899999999999999995 89999999999999998 678899999999999999999999999888755     


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCC
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVD  238 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~  238 (699)
                             ++++++.+.+|+..+|++..+|+.+.+++....+.+
T Consensus       659 -------~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~  694 (987)
T PRK09782        659 -------IAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMA  694 (987)
T ss_pred             -------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHH
Confidence                   799999999999999999999999999997765543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.71  E-value=7.5e-07  Score=111.70  Aligned_cols=190  Identities=15%  Similarity=0.049  Sum_probs=149.6

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHH--HHH-
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGA--WHH-  110 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~a--W~h-  110 (699)
                      ....|.+ ++|+..+.++|..+|++..+|...+.++...++            +++++..++++++.+|++..+  |.. 
T Consensus       279 ~~~~g~~-~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~------------~~eA~~~l~~Al~~~p~~~~~~~~~~l  345 (1157)
T PRK11447        279 AVDSGQG-GKAIPELQQAVRANPKDSEALGALGQAYSQQGD------------RARAVAQFEKALALDPHSSNRDKWESL  345 (1157)
T ss_pred             HHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCccchhHHHHH
Confidence            3456777 799999999999999999999999999988865            899999999999999987643  321 


Q ss_pred             ----H-------HHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHH
Q 005381          111 ----R-------KWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWH  179 (699)
Q Consensus       111 ----R-------~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~  179 (699)
                          +       +.+..+. +.++++++.++++++++|.+..++...+.+....+.+ ++++++++++++.+|.|..+|.
T Consensus       346 l~~~~~~~~~~~g~~~~~~-g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~-~eA~~~y~~aL~~~p~~~~a~~  423 (1157)
T PRK11447        346 LKVNRYWLLIQQGDAALKA-NNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDY-AAAERYYQQALRMDPGNTNAVR  423 (1157)
T ss_pred             HHhhhHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCHHHHH
Confidence                1       2222233 5899999999999999999999999999999999998 7899999999999999999998


Q ss_pred             HHHHHHHHhhhhhc------------------------------cCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          180 NRSLLLSNLLKRKV------------------------------EGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       180 ~R~~ll~~l~~~~~------------------------------~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      ....++........                              .......+.++++++.+.+++..+|++..+++.+..
T Consensus       424 ~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~  503 (1157)
T PRK11447        424 GLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQ  503 (1157)
T ss_pred             HHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            77766532100000                              000012345789999999999999999988888877


Q ss_pred             HHcCcCCCC
Q 005381          230 LLDQTVRVD  238 (699)
Q Consensus       230 Ll~~~~~~~  238 (699)
                      ++....+.+
T Consensus       504 ~~~~~G~~~  512 (1157)
T PRK11447        504 DLRQAGQRS  512 (1157)
T ss_pred             HHHHcCCHH
Confidence            776544433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.67  E-value=8.8e-07  Score=90.55  Aligned_cols=167  Identities=11%  Similarity=-0.068  Sum_probs=133.1

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCch---HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELY---TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF  102 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~y---taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP  102 (699)
                      .+..........|.+ ++|+..+++++..+|++.   .+|...+.++...++            +++++..++.+++.+|
T Consensus        35 ~~~~~g~~~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~------------~~~A~~~~~~~l~~~p  101 (235)
T TIGR03302        35 ELYEEAKEALDSGDY-TEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGD------------YAEAIAAADRFIRLHP  101 (235)
T ss_pred             HHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCC------------HHHHHHHHHHHHHHCc
Confidence            444555566678888 689999999999999876   588889988888755            8999999999999999


Q ss_pred             CChH---HHHHHHHHHHhCC-------CChHHHHHHHHHHHHhCCCChhhhhHH-----------------HHHHHhcCC
Q 005381          103 KSYG---AWHHRKWILSKGH-------SSIDNELRLLDKFQKADSRNFHAWNYR-----------------RFVAASMNR  155 (699)
Q Consensus       103 Ksy~---aW~hR~w~L~~~~-------~~~~~EL~~~~k~L~~dprN~haW~yR-----------------~~vl~~l~~  155 (699)
                      ++..   +|+.++++..+..       +.++++++.++++++.+|.+-.+|.-.                 +.+....|.
T Consensus       102 ~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~  181 (235)
T TIGR03302       102 NHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGA  181 (235)
T ss_pred             CCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            9988   7999999887541       357889999999999999998776322                 222334466


Q ss_pred             ChHHHHHHHHHHHHhccCc---hHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          156 SEEDELKYTEDMICNNFSN---YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       156 ~~e~EL~~~~~~I~~n~sN---~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                      + ++++..+.++++..|.+   ..||..++.+...++.            +++++++++......|
T Consensus       182 ~-~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~------------~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       182 Y-VAAINRFETVVENYPDTPATEEALARLVEAYLKLGL------------KDLAQDAAAVLGANYP  234 (235)
T ss_pred             h-HHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCC
Confidence            6 68899999999997754   4799999999888755            7888888877766555

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.65  E-value=6.1e-07  Score=83.23  Aligned_cols=126  Identities=10%  Similarity=-0.043  Sum_probs=112.3

Q ss_pred             HHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHH
Q 005381           46 ELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNE  125 (699)
Q Consensus        46 ~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~E  125 (699)
                      +.+.+++..+|++..+-..++..+...++            +++++..++.++..+|.+..+|..++.++... +.++++
T Consensus         4 ~~~~~~l~~~p~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~-~~~~~A   70 (135)
T TIGR02552         4 ATLKDLLGLDSEQLEQIYALAYNLYQQGR------------YDEALKLFQLLAAYDPYNSRYWLGLAACCQML-KEYEEA   70 (135)
T ss_pred             hhHHHHHcCChhhHHHHHHHHHHHHHccc------------HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH-HHHHHH
Confidence            35789999999999887778877776654            89999999999999999999999999999876 589999


Q ss_pred             HHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          126 LRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       126 L~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      ++.++++++.+|.+...|.+++.+....+.+ ++.+++++++++.+|.+...+-.+..+.
T Consensus        71 ~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~~~~~~  129 (135)
T TIGR02552        71 IDAYALAAALDPDDPRPYFHAAECLLALGEP-ESALKALDLAIEICGENPEYSELKERAE  129 (135)
T ss_pred             HHHHHHHHhcCCCChHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            9999999999999999999999999999988 7899999999999999988776666543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.65  E-value=8.3e-07  Score=88.76  Aligned_cols=126  Identities=9%  Similarity=0.026  Sum_probs=113.3

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHH-HhcCCC-hHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA-ASMNRS-EEDELK  162 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl-~~l~~~-~e~EL~  162 (699)
                      ...++.+..+.++++.+|++..+|...+.++... +++++++..++++++++|+|..+|...+.++ ...+.. .++..+
T Consensus        53 ~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~-g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~  131 (198)
T PRK10370         53 QTPEAQLQALQDKIRANPQNSEQWALLGEYYLWR-NDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTRE  131 (198)
T ss_pred             hhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            4468999999999999999999999999999877 6999999999999999999999999999875 566663 378999


Q ss_pred             HHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchh
Q 005381          163 YTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSG  223 (699)
Q Consensus       163 ~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~Sa  223 (699)
                      .++++++.+|.|..++...+......+.            +++++..+.+++..+|.+.+-
T Consensus       132 ~l~~al~~dP~~~~al~~LA~~~~~~g~------------~~~Ai~~~~~aL~l~~~~~~r  180 (198)
T PRK10370        132 MIDKALALDANEVTALMLLASDAFMQAD------------YAQAIELWQKVLDLNSPRVNR  180 (198)
T ss_pred             HHHHHHHhCCCChhHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCCCCccH
Confidence            9999999999999999999999887755            899999999999999987653

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

Probab=98.65  E-value=1.4e-08  Score=108.39  Aligned_cols=196  Identities=23%  Similarity=0.217  Sum_probs=113.6

Q ss_pred             HHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCC------------------CeEEcc
Q 005381          480 EVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSP------------------MCLQLK  541 (699)
Q Consensus       480 ~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~------------------~~L~Ls  541 (699)
                      +..+.|..++.||+|+|-++              .++.+..-+.+|..++.|+|+.                  +.|.|+
T Consensus       140 ~~~k~~~~v~~LdLS~NL~~--------------nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~  205 (505)
T KOG3207|consen  140 EYSKILPNVRDLDLSRNLFH--------------NWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLN  205 (505)
T ss_pred             hhhhhCCcceeecchhhhHH--------------hHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEec
Confidence            56677888888888887632              1333333344444444433333                  446777


Q ss_pred             CCCCC--ccc-CCCCCcccCEEEccCCCC-CCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          542 NLSLS--RLG-SFDKLLWVQMLDLSHNEL-RSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       542 ~n~l~--~l~-~l~~L~~L~~LdLS~N~L-~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      .++++  .+. .+..+|+|.+|+|+.|.. ..-.. ..-+..|+.|||++|++-.++.....+.++.|..|+++.+.|.+
T Consensus       206 ~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~s  285 (505)
T KOG3207|consen  206 SCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIAS  285 (505)
T ss_pred             cCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhccccCcch
Confidence            77777  222 456678888888888843 22111 56677788888888888777555567778888888888888877


Q ss_pred             CCcccccccCC---CCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCc--cchHHHhhcCCcc
Q 005381          617 HSIDTTKYLCS---SPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNE--KFKSFLIKVLPGL  690 (699)
Q Consensus       617 lp~~~~~~l~~---l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~--~~~~~~~~~l~~L  690 (699)
                      +.......++.   .+-+..++...|.+         ..|.....+..+ +|+.|.+..|.+..+  .-.-.+++.+++|
T Consensus       286 i~~~d~~s~~kt~~f~kL~~L~i~~N~I---------~~w~sl~~l~~l~nlk~l~~~~n~ln~e~~~a~~~VIAr~~~l  356 (505)
T KOG3207|consen  286 IAEPDVESLDKTHTFPKLEYLNISENNI---------RDWRSLNHLRTLENLKHLRITLNYLNKETDTAKLLVIARISQL  356 (505)
T ss_pred             hcCCCccchhhhcccccceeeecccCcc---------ccccccchhhccchhhhhhcccccccccccceeEEeeeehhhh
Confidence            75222211111   11111122222222         224434455556 777778778887221  1122345667777


Q ss_pred             ccccCccC
Q 005381          691 KWLDGEQL  698 (699)
Q Consensus       691 ~~LD~~~i  698 (699)
                      ..|++..+
T Consensus       357 ~~LN~~di  364 (505)
T KOG3207|consen  357 VKLNDVDI  364 (505)
T ss_pred             hhhccccc
Confidence            77776544

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

Probab=98.65  E-value=1.2e-09  Score=122.23  Aligned_cols=122  Identities=32%  Similarity=0.384  Sum_probs=94.2

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCcccc-ccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQ-LLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~-~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      |+|++|+++.+..+..|+.|++||||+|.|+.+|.++.-. .|+.|++.+|.++.+   .++.+|.+|+.|||++|-|..
T Consensus       192 LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN~l~tL---~gie~LksL~~LDlsyNll~~  268 (1096)
T KOG1859|consen  192 LNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNNALTTL---RGIENLKSLYGLDLSYNLLSE  268 (1096)
T ss_pred             hccchhhhhhhHHHHhcccccccccccchhccccccchhhhhheeeeecccHHHhh---hhHHhhhhhhccchhHhhhhc
Confidence            8999999998888999999999999999999999843332 399999999999887   678889999999999999987


Q ss_pred             CCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCC-----c
Q 005381          617 HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLP-----G  689 (699)
Q Consensus       617 lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~-----~  689 (699)
                      ..  .                                  ...+..| .|+.|.|.|||+ ..+..+..+.+.+.     .
T Consensus       269 hs--e----------------------------------L~pLwsLs~L~~L~LeGNPl~c~p~hRaataqYl~~~~a~~  312 (1096)
T KOG1859|consen  269 HS--E----------------------------------LEPLWSLSSLIVLWLEGNPLCCAPWHRAATAQYLHKNSAPV  312 (1096)
T ss_pred             ch--h----------------------------------hhHHHHHHHHHHHhhcCCccccCHHHHHHHHhHhccccCCc
Confidence            63  0                                  0123334 789999999999 55566666655443     2


Q ss_pred             cccccCccC
Q 005381          690 LKWLDGEQL  698 (699)
Q Consensus       690 L~~LD~~~i  698 (699)
                      ==.|||..|
T Consensus       313 ~f~LDgk~l  321 (1096)
T KOG1859|consen  313 KFKLDGKAL  321 (1096)
T ss_pred             ceEecceec
Confidence            124777655

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

Probab=98.64  E-value=5.4e-09  Score=110.22  Aligned_cols=88  Identities=22%  Similarity=0.190  Sum_probs=60.4

Q ss_pred             CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchh
Q 005381          573 LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSY  652 (699)
Q Consensus       573 l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~  652 (699)
                      |..|++|+.|+|++|+|+.+. ...|.++..++.|.|..|+|..+.-..+..+..   +..+.+.+|.++++.       
T Consensus       270 f~~L~~L~~lnlsnN~i~~i~-~~aFe~~a~l~eL~L~~N~l~~v~~~~f~~ls~---L~tL~L~~N~it~~~-------  338 (498)
T KOG4237|consen  270 FKKLPNLRKLNLSNNKITRIE-DGAFEGAAELQELYLTRNKLEFVSSGMFQGLSG---LKTLSLYDNQITTVA-------  338 (498)
T ss_pred             HhhcccceEeccCCCccchhh-hhhhcchhhhhhhhcCcchHHHHHHHhhhcccc---ceeeeecCCeeEEEe-------
Confidence            677777788888888877774 366777777777778888777765433433333   233455677776643       


Q ss_pred             hhhhccCCCC-CccEEEecCCCC
Q 005381          653 WEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       653 ~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                         |.+|..+ .|..|+|-+|++
T Consensus       339 ---~~aF~~~~~l~~l~l~~Np~  358 (498)
T KOG4237|consen  339 ---PGAFQTLFSLSTLNLLSNPF  358 (498)
T ss_pred             ---cccccccceeeeeehccCcc
Confidence               5677777 888888888888

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.62  E-value=9e-07  Score=88.52  Aligned_cols=121  Identities=12%  Similarity=0.072  Sum_probs=111.2

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH-HhCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL-SKGHS  120 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L-~~~~~  120 (699)
                      ++++..+.++|..+|++..+|...+.++...++            +++++..++++++.+|++..+|...+-++ ... +
T Consensus        56 ~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~------------~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~-g  122 (198)
T PRK10370         56 EAQLQALQDKIRANPQNSEQWALLGEYYLWRND------------YDNALLAYRQALQLRGENAELYAALATVLYYQA-G  122 (198)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhc-C
Confidence            789999999999999999999999999988865            89999999999999999999999999876 443 3


Q ss_pred             C--hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchH
Q 005381          121 S--IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYS  176 (699)
Q Consensus       121 ~--~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~S  176 (699)
                      .  .+++.+.++++++.||.|..++...+......|.+ ++.+++++++++.+|.+.+
T Consensus       123 ~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~-~~Ai~~~~~aL~l~~~~~~  179 (198)
T PRK10370        123 QHMTPQTREMIDKALALDANEVTALMLLASDAFMQADY-AQAIELWQKVLDLNSPRVN  179 (198)
T ss_pred             CCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCH-HHHHHHHHHHHhhCCCCcc
Confidence            4  58999999999999999999999999999999999 7899999999999888764

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.62  E-value=4.3e-08  Score=115.31  Aligned_cols=111  Identities=23%  Similarity=0.126  Sum_probs=64.6

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |+|++|.|+.+|.+  ..+|+.|++++|+|+.+|.+  ..+|+.|++++|+|+.++  ..   ..+|+.|++++|+|+.+
T Consensus       347 LdLS~N~Ls~LP~l--p~~L~~L~Ls~N~L~~LP~l--~~~L~~LdLs~N~Lt~LP--~l---~s~L~~LdLS~N~LssI  417 (788)
T PRK15387        347 LSVSDNQLASLPTL--PSELYKLWAYNNRLTSLPAL--PSGLKELIVSGNRLTSLP--VL---PSELKELMVSGNRLTSL  417 (788)
T ss_pred             EecCCCccCCCCCC--CcccceehhhccccccCccc--ccccceEEecCCcccCCC--Cc---ccCCCEEEccCCcCCCC
Confidence            66666666655532  23555566666666555542  134666666666666552  11   23566666777766666


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      |. .+.     . +..+++++|.+           ..+|..+..+ +|+.|+|++|+|.
T Consensus       418 P~-l~~-----~-L~~L~Ls~NqL-----------t~LP~sl~~L~~L~~LdLs~N~Ls  458 (788)
T PRK15387        418 PM-LPS-----G-LLSLSVYRNQL-----------TRLPESLIHLSSETTVNLEGNPLS  458 (788)
T ss_pred             Cc-chh-----h-hhhhhhccCcc-----------cccChHHhhccCCCeEECCCCCCC
Confidence            52 111     1 11234444444           3457788889 9999999999993

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

Probab=98.62  E-value=1.7e-08  Score=98.11  Aligned_cols=127  Identities=23%  Similarity=0.349  Sum_probs=104.0

Q ss_pred             CeEEccCCCCCcccCCCCC-cccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          536 MCLQLKNLSLSRLGSFDKL-LWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~~l~~L-~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      ++++|.+..+..+..++.. .+...+||++|.|..++.|..+++|.+|.|++|+|+.+. |.--..+++|..|.|.+|+|
T Consensus        22 ~e~~LR~lkip~ienlg~~~d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~-p~L~~~~p~l~~L~LtnNsi  100 (233)
T KOG1644|consen   22 RELDLRGLKIPVIENLGATLDQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRID-PDLDTFLPNLKTLILTNNSI  100 (233)
T ss_pred             cccccccccccchhhccccccccceecccccchhhcccCCCccccceEEecCCcceeec-cchhhhccccceEEecCcch
Confidence            4588899988877654443 578889999999999999999999999999999999984 34445578899999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCcccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~  692 (699)
                      ..+.  .                                  ..-+..+ +|+.|.+-+|++ .-..|+..++-.+|+|+.
T Consensus       101 ~~l~--d----------------------------------l~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~  144 (233)
T KOG1644|consen  101 QELG--D----------------------------------LDPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRT  144 (233)
T ss_pred             hhhh--h----------------------------------cchhccCCccceeeecCCchhcccCceeEEEEecCcceE
Confidence            8873  1                                  1134556 899999999999 667888889999999999


Q ss_pred             ccCccCC
Q 005381          693 LDGEQLH  699 (699)
Q Consensus       693 LD~~~i~  699 (699)
                      ||...|+
T Consensus       145 LDF~kVt  151 (233)
T KOG1644|consen  145 LDFQKVT  151 (233)
T ss_pred             eehhhhh
Confidence            9988764

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.61  E-value=7.4e-07  Score=82.68  Aligned_cols=128  Identities=10%  Similarity=0.001  Sum_probs=114.6

Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc
Q 005381           92 RVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN  171 (699)
Q Consensus        92 ~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n  171 (699)
                      +.+++++..+|++..+-..++..+... +.++++++.+++++..+|.+..+|...+.+....+.+ .+.++++.++++.+
T Consensus         4 ~~~~~~l~~~p~~~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~   81 (135)
T TIGR02552         4 ATLKDLLGLDSEQLEQIYALAYNLYQQ-GRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEY-EEAIDAYALAAALD   81 (135)
T ss_pred             hhHHHHHcCChhhHHHHHHHHHHHHHc-ccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhcC
Confidence            357889999999999888888888766 6899999999999999999999999999999999988 67888899999999


Q ss_pred             cCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          172 FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       172 ~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      |.+...|++++.+....++            +++++..+..++..+|++...+.+.+.+...
T Consensus        82 p~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  131 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGE------------PESALKALDLAIEICGENPEYSELKERAEAM  131 (135)
T ss_pred             CCChHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            9999999999998887744            7999999999999999999999888776543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.59  E-value=4.6e-07  Score=93.15  Aligned_cols=105  Identities=17%  Similarity=0.128  Sum_probs=51.1

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      +..+.| ++|++.|+++|+++|.+...+-.|.-++.+|+.            |+.+++-|+.+|.+||.+..+|..-+.+
T Consensus        92 m~~~~Y-~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~------------~~~AVkDce~Al~iDp~yskay~RLG~A  158 (304)
T KOG0553|consen   92 MKNKDY-QEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGE------------YEDAVKDCESALSIDPHYSKAYGRLGLA  158 (304)
T ss_pred             HHhhhH-HHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcc------------hHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence            334444 455555555555555555554455555554433            4455555555555555555555444444


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASM  153 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l  153 (699)
                      ..-+ +.++++++.|.|+|++||.|-..|.+-.|+=..+
T Consensus       159 ~~~~-gk~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l  196 (304)
T KOG0553|consen  159 YLAL-GKYEEAIEAYKKALELDPDNESYKSNLKIAEQKL  196 (304)
T ss_pred             HHcc-CcHHHHHHHHHhhhccCCCcHHHHHHHHHHHHHh
Confidence            4433 3445555555555555555554444444444443

>PF01239 PPTA: Protein prenyltransferase alpha subunit repeat; InterPro: IPR002088 Protein prenylation is the posttranslational attachment of either a farnesyl group or a geranylgeranyl group via a thioether linkage (-C-S-C-) to a cysteine at or near the carboxyl terminus of the protein

Probab=98.57  E-value=6.9e-08  Score=66.30  Aligned_cols=27  Identities=41%  Similarity=0.895  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           90 ELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        90 EL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      ||+++..+|..+||||++|+||+|+++
T Consensus         2 El~~~~~~l~~~pknys~W~yR~~ll~   28 (31)
T PF01239_consen    2 ELEFTKKALEKDPKNYSAWNYRRWLLK   28 (31)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCcccccHHHHHHHHHH
Confidence            344444444444444444444444443

Farnesyl and geranylgeranyl groups are polyisoprenes, unsaturated hydrocarbons with a multiple of five carbons; the chain is 15 carbons long in the farnesyl moiety and 20 carbons long in the geranylgeranyl moiety. There are three different protein prenyltransferases in humans: farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) share the same motif (the CaaX box) around the cysteine in their substrates, and are thus called CaaX prenyltransferases, whereas geranylgeranyltransferase 2 (GGT2, also called Rab geranylgeranyltransferase) recognises a different motif and is thus called a non-CaaX prenyltransferase. Protein prenyltransferases are currently known only in eukaryotes, but they are widespread, being found in vertebrates, insects, nematodes, plants, fungi and protozoa, including several parasites. Each protein consists of two subunits, alpha and beta; the alpha subunit of FT and GGT1 is encoded by the same gene, FNTA. The alpha subunit is thought to participate in a stable complex with the isoprenyl substrate; the beta subunit binds the peptide substrate. In the alpha subunits of both types of protein prenyltransferases, seven tetratricopeptide repeats are formed by pairs of helices that are stabilised by conserved intercalating residues. The alpha subunits of GGT2 in mammals and plants also have an immunoglobulin-like domain between the fifth and sixth tetratricopeptide repeat, as well as leucine-rich repeats at the carboxyl terminus. The functions of these additional domains in GGT2 are as yet undefined, but they are apparently not directly involved in the interaction with substrates and Rab escort proteins. The tetratricopeptide repeats of the alpha subunit form a right-handed superhelix, which embraces the (alpha-alpha)6 barrel of the beta subunit []. ; GO: 0008318 protein prenyltransferase activity, 0018342 protein prenylation; PDB: 1S63_A 1LD7_A 1LD8_A 2H6G_A 1SA4_A 1MZC_A 1TN6_A 2F0Y_A 2H6H_A 2H6F_A ....

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.56  E-value=5.5e-06  Score=103.97  Aligned_cols=70  Identities=11%  Similarity=-0.025  Sum_probs=57.9

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....|++ ++|++.+++++.++|++..++.....++...++            +++++..+++++..+|.+..+++-+..
T Consensus       471 ~~~~g~~-~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~------------~~~A~~~l~~al~~~P~~~~~~~a~al  537 (1157)
T PRK11447        471 LENQGKW-AQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQ------------RSQADALMRRLAQQKPNDPEQVYAYGL  537 (1157)
T ss_pred             HHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3456666 899999999999999999999999998888765            888899999999888988888766554


Q ss_pred             HHH
Q 005381          114 ILS  116 (699)
Q Consensus       114 ~L~  116 (699)
                      .+.
T Consensus       538 ~l~  540 (1157)
T PRK11447        538 YLS  540 (1157)
T ss_pred             HHH
Confidence            443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.54  E-value=2.6e-06  Score=94.09  Aligned_cols=180  Identities=16%  Similarity=0.180  Sum_probs=143.6

Q ss_pred             HHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH--
Q 005381           33 HNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH--  110 (699)
Q Consensus        33 ~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h--  110 (699)
                      ..+++|..+ +|.-+++.+++.+|+|..||-+-|.+-.....            =..++..+.+|++.+|+|-.|-.-  
T Consensus       294 ~lm~nG~L~-~A~LafEAAVkqdP~haeAW~~LG~~qaENE~------------E~~ai~AL~rcl~LdP~NleaLmaLA  360 (579)
T KOG1125|consen  294 NLMKNGDLS-EAALAFEAAVKQDPQHAEAWQKLGITQAENEN------------EQNAISALRRCLELDPTNLEALMALA  360 (579)
T ss_pred             HHHhcCCch-HHHHHHHHHHhhChHHHHHHHHhhhHhhhccc------------hHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            345677764 66777999999999999999999988776643            245677777888888887766532  


Q ss_pred             ----------------HHHHHHhCC-------------------------------------------------------
Q 005381          111 ----------------RKWILSKGH-------------------------------------------------------  119 (699)
Q Consensus       111 ----------------R~w~L~~~~-------------------------------------------------------  119 (699)
                                      +.|+.....                                                       
T Consensus       361 VSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy  440 (579)
T KOG1125|consen  361 VSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLY  440 (579)
T ss_pred             HHHhhhhhHHHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHH
Confidence                            345444210                                                       


Q ss_pred             ---CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          120 ---SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       120 ---~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                         +.|++++.|++.+|..+|.||.-|+--|-.+..-.+. +++++.|.++++.-|.-.-+|++.+.-..+++-      
T Consensus       441 ~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s-~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~------  513 (579)
T KOG1125|consen  441 NLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRS-EEAISAYNRALQLQPGYVRVRYNLGISCMNLGA------  513 (579)
T ss_pred             hcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCccc-HHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhh------
Confidence               1367999999999999999999999999999988888 789999999999999999999999988888754      


Q ss_pred             cchhchHHHHHHHHHHHHHhCCC----C------chhHHHHHHHHcCcCCCC
Q 005381          197 VSKEKVLPDEYEFVHQAIFTDPD----D------QSGWFYHLWLLDQTVRVD  238 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~~dP~----d------~SaW~Y~~~Ll~~~~~~~  238 (699)
                            |+|+++.+..||...+.    .      ..+|-++|-.|-...+.+
T Consensus       514 ------ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D  559 (579)
T KOG1125|consen  514 ------YKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSD  559 (579)
T ss_pred             ------HHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCch
Confidence                  99999999999988876    2      359999997776655433

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.53  E-value=4.5e-06  Score=91.68  Aligned_cols=176  Identities=11%  Similarity=-0.010  Sum_probs=135.2

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC----hHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS----YGAWH  109 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs----y~aW~  109 (699)
                      ....|.+ ++|+..+.+++..+|++..+|...+.++...+.            +++++..++.++...+..    ..+|.
T Consensus        45 ~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~------------~~~A~~~~~~~l~~~~~~~~~~~~~~~  111 (389)
T PRK11788         45 FLLNEQP-DKAIDLFIEMLKVDPETVELHLALGNLFRRRGE------------VDRAIRIHQNLLSRPDLTREQRLLALQ  111 (389)
T ss_pred             HHhcCCh-HHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCc------------HHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            3566777 579999999999999999999999988877754            889999999888753332    24566


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHH-----HHHHHHH
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSA-----WHNRSLL  184 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SA-----W~~R~~l  184 (699)
                      ..+.++... +.+++++.+++++++.+|.+..++...+.+....+.+ +++++.+.++++.+|.+...     |...+.+
T Consensus       112 ~La~~~~~~-g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~  189 (389)
T PRK11788        112 ELGQDYLKA-GLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDW-QKAIDVAERLEKLGGDSLRVEIAHFYCELAQQ  189 (389)
T ss_pred             HHHHHHHHC-CCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchH-HHHHHHHHHHHHhcCCcchHHHHHHHHHHHHH
Confidence            667776655 6899999999999999999999999888888888887 67888889999888776431     1122222


Q ss_pred             HHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          185 LSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       185 l~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                      +...            +.+++++..+.+++..+|++..+|.++..++....+
T Consensus       190 ~~~~------------~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~  229 (389)
T PRK11788        190 ALAR------------GDLDAARALLKKALAADPQCVRASILLGDLALAQGD  229 (389)
T ss_pred             HHhC------------CCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCC
Confidence            2222            347899999999999999998888887766655443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.53  E-value=2.9e-06  Score=99.55  Aligned_cols=131  Identities=6%  Similarity=-0.070  Sum_probs=115.7

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      +.|-+ +||+.+++.++.+.|++..|+..+..+|.+.++            +++++..++++|..+|+++.+-++++-++
T Consensus        98 ~~g~~-~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~------------~eeA~~~~~~~l~~~p~~~~~~~~~a~~l  164 (694)
T PRK15179         98 AAHRS-DEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQG------------IEAGRAEIELYFSGGSSSAREILLEAKSW  164 (694)
T ss_pred             HcCCc-HHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhcc------------HHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            34444 899999999999999999999999999999876            89999999999999999999999999999


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHH
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNR  181 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R  181 (699)
                      .++ +.+++++++|++++..+|.+..+|.-++.++...|.. +++...+.++|+..-.-.-++..+
T Consensus       165 ~~~-g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~-~~A~~~~~~a~~~~~~~~~~~~~~  228 (694)
T PRK15179        165 DEI-GQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGAL-WRARDVLQAGLDAIGDGARKLTRR  228 (694)
T ss_pred             HHh-cchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhhCcchHHHHHH
Confidence            988 6999999999999999999999999999999999998 677777799998765554554433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.52  E-value=5.8e-06  Score=97.08  Aligned_cols=157  Identities=11%  Similarity=-0.032  Sum_probs=138.9

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      .+++|.-......--|+...+-..=..+..++++            ++++...++.++...|++..|+.++.-+|.+. .
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~------------~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~-~  134 (694)
T PRK15179         68 PAAALPELLDYVRRYPHTELFQVLVARALEAAHR------------SDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQ-Q  134 (694)
T ss_pred             hHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCC------------cHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHh-c
Confidence            3555555555566788888888888888888876            89999999999999999999999999999988 5


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchh
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKE  200 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~  200 (699)
                      .+++++..+++++..+|.|..+-..++-++..+|.+ +++++.|++++..+|.+..+|..++.++...|+          
T Consensus       135 ~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~-~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~----------  203 (694)
T PRK15179        135 GIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQS-EQADACFERLSRQHPEFENGYVGWAQSLTRRGA----------  203 (694)
T ss_pred             cHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcch-HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCC----------
Confidence            999999999999999999999999999999999999 789999999999999999999999999998876          


Q ss_pred             chHHHHHHHHHHHHHhCCCCchh
Q 005381          201 KVLPDEYEFVHQAIFTDPDDQSG  223 (699)
Q Consensus       201 ~~~~eeL~~~~~ai~~dP~d~Sa  223 (699)
                        .+++...|.+|+...-.-.-.
T Consensus       204 --~~~A~~~~~~a~~~~~~~~~~  224 (694)
T PRK15179        204 --LWRARDVLQAGLDAIGDGARK  224 (694)
T ss_pred             --HHHHHHHHHHHHHhhCcchHH
Confidence              688888998888776554433

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.52  E-value=8.3e-08  Score=113.31  Aligned_cols=73  Identities=22%  Similarity=0.301  Sum_probs=41.7

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |++++|.|+.+| .+  ..+|+.|++++|+|+.+|. +.  ++|+.|++++|.++.++  ..+  .++|+.|++++|.++
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 LDLFHNKISCLPENL--PEELRYLSVYDNSIRTLPAHLP--SGITHLNVQSNSLTALP--ETL--PPGLKTLEAGENALT  338 (754)
T ss_pred             EECcCCccCcccccc--CCCCcEEECCCCccccCcccch--hhHHHHHhcCCccccCC--ccc--cccceeccccCCccc
Confidence            666666666655 22  2466677777777666665 32  35666677777766552  211  135555555555555


Q ss_pred             CCC
Q 005381          616 AHS  618 (699)
Q Consensus       616 ~lp  618 (699)
                      .+|
T Consensus       339 ~LP  341 (754)
T PRK15370        339 SLP  341 (754)
T ss_pred             cCC
Confidence            554

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

Probab=98.51  E-value=5.5e-09  Score=114.51  Aligned_cols=139  Identities=27%  Similarity=0.231  Sum_probs=87.2

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      +.|.+|.+..++ .+..+..|+.|||+.|+++.+|. ++.|+ |+.|-+++|+++.+  |+.++.+..|..|+.+.|.|.
T Consensus       103 liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sNNkl~~l--p~~ig~~~tl~~ld~s~nei~  179 (722)
T KOG0532|consen  103 LILYHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSNNKLTSL--PEEIGLLPTLAHLDVSKNEIQ  179 (722)
T ss_pred             HHHHhccceecchhhhhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEecCccccC--CcccccchhHHHhhhhhhhhh
Confidence            556667777666 67777777777888888777777 65555 77777778877776  456666777777777877777


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCC-CCccchHHHhhcCCcccc--
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAI-VNEKFKSFLIKVLPGLKW--  692 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~--  692 (699)
                      .+|.    .++.+.-+..+...           -+.+...|..+..|.|..||+|.|+| .+|.    -+..|..|++  
T Consensus       180 slps----ql~~l~slr~l~vr-----------Rn~l~~lp~El~~LpLi~lDfScNkis~iPv----~fr~m~~Lq~l~  240 (722)
T KOG0532|consen  180 SLPS----QLGYLTSLRDLNVR-----------RNHLEDLPEELCSLPLIRLDFSCNKISYLPV----DFRKMRHLQVLQ  240 (722)
T ss_pred             hchH----HhhhHHHHHHHHHh-----------hhhhhhCCHHHhCCceeeeecccCceeecch----hhhhhhhheeee
Confidence            7752    11111111111112           22334456677766999999999999 2221    2234555553  


Q ss_pred             ccCccC
Q 005381          693 LDGEQL  698 (699)
Q Consensus       693 LD~~~i  698 (699)
                      ||.+|+
T Consensus       241 LenNPL  246 (722)
T KOG0532|consen  241 LENNPL  246 (722)
T ss_pred             eccCCC
Confidence            565554

>PF01239 PPTA: Protein prenyltransferase alpha subunit repeat; InterPro: IPR002088 Protein prenylation is the posttranslational attachment of either a farnesyl group or a geranylgeranyl group via a thioether linkage (-C-S-C-) to a cysteine at or near the carboxyl terminus of the protein

Probab=98.50  E-value=1.3e-07  Score=64.88  Aligned_cols=31  Identities=39%  Similarity=0.819  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHhCCCChhhhhHHHHHHHhcC
Q 005381          124 NELRLLDKFQKADSRNFHAWNYRRFVAASMN  154 (699)
Q Consensus       124 ~EL~~~~k~L~~dprN~haW~yR~~vl~~l~  154 (699)
                      +||+++.+++..||+||+||+||+|++++++
T Consensus         1 ~El~~~~~~l~~~pknys~W~yR~~ll~~l~   31 (31)
T PF01239_consen    1 DELEFTKKALEKDPKNYSAWNYRRWLLKQLN   31 (31)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHCcccccHHHHHHHHHHHcc
Confidence            5999999999999999999999999998864

Farnesyl and geranylgeranyl groups are polyisoprenes, unsaturated hydrocarbons with a multiple of five carbons; the chain is 15 carbons long in the farnesyl moiety and 20 carbons long in the geranylgeranyl moiety. There are three different protein prenyltransferases in humans: farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) share the same motif (the CaaX box) around the cysteine in their substrates, and are thus called CaaX prenyltransferases, whereas geranylgeranyltransferase 2 (GGT2, also called Rab geranylgeranyltransferase) recognises a different motif and is thus called a non-CaaX prenyltransferase. Protein prenyltransferases are currently known only in eukaryotes, but they are widespread, being found in vertebrates, insects, nematodes, plants, fungi and protozoa, including several parasites. Each protein consists of two subunits, alpha and beta; the alpha subunit of FT and GGT1 is encoded by the same gene, FNTA. The alpha subunit is thought to participate in a stable complex with the isoprenyl substrate; the beta subunit binds the peptide substrate. In the alpha subunits of both types of protein prenyltransferases, seven tetratricopeptide repeats are formed by pairs of helices that are stabilised by conserved intercalating residues. The alpha subunits of GGT2 in mammals and plants also have an immunoglobulin-like domain between the fifth and sixth tetratricopeptide repeat, as well as leucine-rich repeats at the carboxyl terminus. The functions of these additional domains in GGT2 are as yet undefined, but they are apparently not directly involved in the interaction with substrates and Rab escort proteins. The tetratricopeptide repeats of the alpha subunit form a right-handed superhelix, which embraces the (alpha-alpha)6 barrel of the beta subunit []. ; GO: 0008318 protein prenyltransferase activity, 0018342 protein prenylation; PDB: 1S63_A 1LD7_A 1LD8_A 2H6G_A 1SA4_A 1MZC_A 1TN6_A 2F0Y_A 2H6H_A 2H6F_A ....

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

Probab=98.50  E-value=4.5e-06  Score=89.89  Aligned_cols=136  Identities=18%  Similarity=0.145  Sum_probs=123.0

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      .+.|+.++..+|++||....||---|.=...+..            -..++..+..|+.+||++|.||+.-|....-+ .
T Consensus       346 HEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKN------------t~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim-~  412 (559)
T KOG1155|consen  346 HEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKN------------THAAIESYRRAVDINPRDYRAWYGLGQAYEIM-K  412 (559)
T ss_pred             HHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcc------------cHHHHHHHHHHHhcCchhHHHHhhhhHHHHHh-c
Confidence            3899999999999999999999999877666643            57899999999999999999999999998866 3


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      -..-+|-++.++++..|.+-..|.--|-+..++++. +++++++.++|...=-|-+|..+.+.+...+..
T Consensus       413 Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~-~eAiKCykrai~~~dte~~~l~~LakLye~l~d  481 (559)
T KOG1155|consen  413 MHFYALYYFQKALELKPNDSRLWVALGECYEKLNRL-EEAIKCYKRAILLGDTEGSALVRLAKLYEELKD  481 (559)
T ss_pred             chHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccH-HHHHHHHHHHHhccccchHHHHHHHHHHHHHHh
Confidence            567899999999999999999999999999999998 789999999999887799999999999888854

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

Probab=98.50  E-value=1.9e-05  Score=85.25  Aligned_cols=140  Identities=16%  Similarity=0.157  Sum_probs=122.3

Q ss_pred             hhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHH
Q 005381           82 SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDEL  161 (699)
Q Consensus        82 ~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL  161 (699)
                      ...+.-+.++.++.++|+.||+...||.--|.=.-.+ ..-..++++|.+|++++|++|.||+--|.....++-+ .=.|
T Consensus       341 Slr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEm-KNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh-~YaL  418 (559)
T KOG1155|consen  341 SLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEM-KNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMH-FYAL  418 (559)
T ss_pred             HHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHh-cccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcch-HHHH
Confidence            3456679999999999999999999998776655555 3567899999999999999999999999998888766 5688


Q ss_pred             HHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          162 KYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       162 ~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      =|+.++++.-|.|.-.|.-.|....++.+            .++|+.|++.|+...--+.++..++.-|.....
T Consensus       419 yYfqkA~~~kPnDsRlw~aLG~CY~kl~~------------~~eAiKCykrai~~~dte~~~l~~LakLye~l~  480 (559)
T KOG1155|consen  419 YYFQKALELKPNDSRLWVALGECYEKLNR------------LEEAIKCYKRAILLGDTEGSALVRLAKLYEELK  480 (559)
T ss_pred             HHHHHHHhcCCCchHHHHHHHHHHHHhcc------------HHHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            89999999999999999999999988855            799999999999987778899998888887644

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.48  E-value=2.1e-07  Score=109.91  Aligned_cols=74  Identities=22%  Similarity=0.297  Sum_probs=52.9

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |+|++|.++.+| .+  ..+|+.|+|++|+|+.+|. +.  .+|+.|++++|+|+.+  |..+.  ++|+.|++++|.++
T Consensus       246 L~Ls~N~L~~LP~~l--~s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~L--P~~lp--~sL~~L~Ls~N~Lt  317 (754)
T PRK15370        246 MELSINRITELPERL--PSALQSLDLFHNKISCLPENLP--EELRYLSVYDNSIRTL--PAHLP--SGITHLNVQSNSLT  317 (754)
T ss_pred             EECcCCccCcCChhH--hCCCCEEECcCCccCccccccC--CCCcEEECCCCccccC--cccch--hhHHHHHhcCCccc
Confidence            777888877766 22  2468888888888887776 43  4788888888888776  23332  46888888888888


Q ss_pred             CCCc
Q 005381          616 AHSI  619 (699)
Q Consensus       616 ~lp~  619 (699)
                      .+|.
T Consensus       318 ~LP~  321 (754)
T PRK15370        318 ALPE  321 (754)
T ss_pred             cCCc
Confidence            7763

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.47  E-value=2.4e-05  Score=77.77  Aligned_cols=156  Identities=10%  Similarity=-0.013  Sum_probs=127.8

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhC--CCChHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQN--FKSYGAWHHRK  112 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~n--PKsy~aW~hR~  112 (699)
                      ...|++ ++|++.+.+++..+|++..+|...+.++...+.            +++++..+++++...  |....+|...+
T Consensus        76 ~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~------------~~~A~~~~~~~~~~~~~~~~~~~~~~l~  142 (234)
T TIGR02521        76 QQLGEL-EKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGK------------YEQAMQQFEQAIEDPLYPQPARSLENAG  142 (234)
T ss_pred             HHcCCH-HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccc------------HHHHHHHHHHHHhccccccchHHHHHHH
Confidence            345666 799999999999999999999999998887754            899999999999753  66778888888


Q ss_pred             HHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          113 WILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       113 w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                      .++... +.++++...++++++.+|.+..+|...+.+....+.+ ++.++++.++++..|.+...|.....+....+.  
T Consensus       143 ~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  218 (234)
T TIGR02521       143 LCALKA-GDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQY-KDARAYLERYQQTYNQTAESLWLGIRIARALGD--  218 (234)
T ss_pred             HHHHHc-CCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhh--
Confidence            888776 6899999999999999999999999999999999988 678889999999988888888766666555433  


Q ss_pred             ccCccchhchHHHHHHHHHHHHHhC
Q 005381          193 VEGFVSKEKVLPDEYEFVHQAIFTD  217 (699)
Q Consensus       193 ~~~~~~~~~~~~eeL~~~~~ai~~d  217 (699)
                                .+++..+...+....
T Consensus       219 ----------~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       219 ----------VAAAQRYGAQLQKLF  233 (234)
T ss_pred             ----------HHHHHHHHHHHHhhC
Confidence                      455666655554443

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>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=98.47  E-value=6.5e-08  Score=77.47  Aligned_cols=59  Identities=37%  Similarity=0.472  Sum_probs=45.7

Q ss_pred             cccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          555 LWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      ++|+.|++++|+|+.+|.  |.++++|+.|++++|.|+.++ +..|..+++|+.|++++|+|
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~-~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIP-PDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEE-TTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccC-HHHHcCCCCCCEEeCcCCcC
Confidence            467788888888887776  788888888888888887763 46678888888888888865

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.47  E-value=8.7e-07  Score=91.18  Aligned_cols=102  Identities=12%  Similarity=0.054  Sum_probs=95.5

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.|++++..|..||..+|++...+-.|.-++.++ +.++.+++-|+++|.+||+...||.--|.+.-.+|++ ++++++|
T Consensus        95 ~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~L-g~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~-~~A~~ay  172 (304)
T KOG0553|consen   95 KDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKL-GEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKY-EEAIEAY  172 (304)
T ss_pred             hhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHh-cchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcH-HHHHHHH
Confidence            6799999999999999999999999999999998 5999999999999999999999999999999999999 7788889


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHh
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      .++++++|.|.+.|.+..++=..+
T Consensus       173 kKaLeldP~Ne~~K~nL~~Ae~~l  196 (304)
T KOG0553|consen  173 KKALELDPDNESYKSNLKIAEQKL  196 (304)
T ss_pred             HhhhccCCCcHHHHHHHHHHHHHh
Confidence            999999999999999988775555

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.46  E-value=4.5e-07  Score=106.81  Aligned_cols=33  Identities=27%  Similarity=0.201  Sum_probs=18.3

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG  572 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~  572 (699)
                      |++++|.++.+|.  .+++|+.|+|++|+|+.+|.
T Consensus       287 L~Ls~N~Lt~LP~--~p~~L~~LdLS~N~L~~Lp~  319 (788)
T PRK15387        287 LWIFGNQLTSLPV--LPPGLQELSVSDNQLASLPA  319 (788)
T ss_pred             EECcCCccccccc--cccccceeECCCCccccCCC
Confidence            5566666665543  23456666666666655543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.45  E-value=2.1e-05  Score=86.33  Aligned_cols=126  Identities=14%  Similarity=0.007  Sum_probs=77.4

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH-----HHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG-----AWH  109 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~-----aW~  109 (699)
                      ...|.+ ++|+..+.+++..+|....+++....++...++            ++++++.++.++..+|.+..     .|.
T Consensus       118 ~~~g~~-~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~~  184 (389)
T PRK11788        118 LKAGLL-DRAEELFLQLVDEGDFAEGALQQLLEIYQQEKD------------WQKAIDVAERLEKLGGDSLRVEIAHFYC  184 (389)
T ss_pred             HHCCCH-HHHHHHHHHHHcCCcchHHHHHHHHHHHHHhch------------HHHHHHHHHHHHHhcCCcchHHHHHHHH
Confidence            345555 688888888888888888888777776665543            56666666666666655432     122


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      ..+.++.+. +.+++++..++++++.+|.+..+|...+.+....|.+ +++++++.++++.+|.+.
T Consensus       185 ~la~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-~~A~~~~~~~~~~~p~~~  248 (389)
T PRK11788        185 ELAQQALAR-GDLDAARALLKKALAADPQCVRASILLGDLALAQGDY-AAAIEALERVEEQDPEYL  248 (389)
T ss_pred             HHHHHHHhC-CCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHChhhH
Confidence            222222222 3566666666666666666666666666666666655 456666666666666553

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.45  E-value=2.9e-06  Score=92.66  Aligned_cols=106  Identities=12%  Similarity=0.015  Sum_probs=70.5

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      .......+.| ++|++++.++|..+|++..+|..|+.++..+++            +++++..+++++..+|++..+|+.
T Consensus         9 a~~a~~~~~~-~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~------------~~eAl~~~~~Al~l~P~~~~a~~~   75 (356)
T PLN03088          9 AKEAFVDDDF-ALAVDLYTQAIDLDPNNAELYADRAQANIKLGN------------FTEAVADANKAIELDPSLAKAYLR   75 (356)
T ss_pred             HHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCcCCHHHHHH
Confidence            3344455666 577777777777777777777777777666654            677777777777777777777777


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHH
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA  150 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl  150 (699)
                      ++.++..+ +.+++++..++++++++|.|..+....+.+.
T Consensus        76 lg~~~~~l-g~~~eA~~~~~~al~l~P~~~~~~~~l~~~~  114 (356)
T PLN03088         76 KGTACMKL-EEYQTAKAALEKGASLAPGDSRFTKLIKECD  114 (356)
T ss_pred             HHHHHHHh-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            77666655 4677777777777777777666554444333

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

Probab=98.44  E-value=5e-06  Score=90.04  Aligned_cols=166  Identities=13%  Similarity=0.070  Sum_probs=110.9

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      -++-..++++|..+|.+...+-+|..++.....            -++-...++.+..+||.+..++|||+.+..-+ ..
T Consensus       343 ~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~------------~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL-~q  409 (606)
T KOG0547|consen  343 LGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQ------------SEKMWKDFNKAEDLDPENPDVYYHRGQMRFLL-QQ  409 (606)
T ss_pred             hhhhhhHHHHHhcCcccchHHHHHHHHHhhhhc------------cHHHHHHHHHHHhcCCCCCchhHhHHHHHHHH-HH
Confidence            466667777777777777776666655544421            23445677777777777777777777666544 46


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh---------------------------------HHHHHHHHHHH
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE---------------------------------EDELKYTEDMI  168 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~---------------------------------e~EL~~~~~~I  168 (699)
                      ++++++-+++++.+||.|..+.-..++++-+.+...                                 ..+++.++++|
T Consensus       410 ~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai  489 (606)
T KOG0547|consen  410 YEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI  489 (606)
T ss_pred             HHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH
Confidence            777777777777777777777777766665544320                                 24556666666


Q ss_pred             HhccC------chHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          169 CNNFS------NYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       169 ~~n~s------N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      +..|.      |.-...+++.++.+.          + +.+.++++++.+||++||.-+-|.-=..-+.
T Consensus       490 ~LE~~~~~~~v~~~plV~Ka~l~~qw----------k-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~  547 (606)
T KOG0547|consen  490 ELEPREHLIIVNAAPLVHKALLVLQW----------K-EDINQAENLLRKAIELDPKCEQAYETLAQFE  547 (606)
T ss_pred             hhccccccccccchhhhhhhHhhhch----------h-hhHHHHHHHHHHHHccCchHHHHHHHHHHHH
Confidence            66666      555555665555442          1 3468999999999999999888876554444

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

Probab=98.39  E-value=4.4e-06  Score=87.92  Aligned_cols=144  Identities=17%  Similarity=0.140  Sum_probs=108.8

Q ss_pred             hhHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHH
Q 005381           85 SILDEELRVVESALRQN--FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELK  162 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~n--PKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~  162 (699)
                      ..+++...+++.+....  |.+...|.+++.+..+. +..++++++++++++.+|.|..++..-.|++-..|.. .+..+
T Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~-G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~-~~~~~  201 (280)
T PF13429_consen  124 GDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQL-GDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDY-DEARE  201 (280)
T ss_dssp             T-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHC-CHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHH-HHHHH
T ss_pred             hHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCh-HHHHH
Confidence            44677777777766544  78999999999999987 6899999999999999999999999999998877775 34566


Q ss_pred             HHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCCCCcc
Q 005381          163 YTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQL  242 (699)
Q Consensus       163 ~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~~~~~  242 (699)
                      .+..+.+..|.|...|...+.+...++.            +++++..+.+++..+|+|......+..++.+..+.+.+..
T Consensus       202 ~l~~~~~~~~~~~~~~~~la~~~~~lg~------------~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~  269 (280)
T PF13429_consen  202 ALKRLLKAAPDDPDLWDALAAAYLQLGR------------YEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALR  269 (280)
T ss_dssp             HHHHHHHH-HTSCCHCHHHHHHHHHHT-------------HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----------
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHhccccc------------cccccccccccccccccccccccccccccccccccccccc
Confidence            6677777779999999999999988865            7999999999999999999999999999988776665543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.32  E-value=4e-05  Score=92.22  Aligned_cols=133  Identities=6%  Similarity=-0.119  Sum_probs=115.4

Q ss_pred             hhHHHHHHHHHHHHHhCCCCh---------------HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSY---------------GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFV  149 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy---------------~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~v  149 (699)
                      ..+++++..++.+...+|+..               .+...+..++... +.++++++.+++++..+|.|..+|..++.+
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~-g~~~eA~~~l~~al~~~P~n~~l~~~lA~l  402 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYS-NDLPQAEMRARELAYNAPGNQGLRIDYASV  402 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            458899999999999988532               3455566666655 689999999999999999999999999999


Q ss_pred             HHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          150 AASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       150 l~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      ....+.+ ++.++.++++++.+|.|..++..++.+...+++            ++++...+++++..+|+|..+-.+.|-
T Consensus       403 ~~~~g~~-~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~------------~~~A~~~~~~ll~~~Pd~~~~~~~~~~  469 (765)
T PRK10049        403 LQARGWP-RAAENELKKAEVLEPRNINLEVEQAWTALDLQE------------WRQMDVLTDDVVAREPQDPGVQRLARA  469 (765)
T ss_pred             HHhcCCH-HHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            9999998 789999999999999999999999987776643            899999999999999999999888776


Q ss_pred             HH
Q 005381          230 LL  231 (699)
Q Consensus       230 Ll  231 (699)
                      +-
T Consensus       470 ~~  471 (765)
T PRK10049        470 RD  471 (765)
T ss_pred             HH
Confidence            54

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.31  E-value=2.9e-05  Score=79.29  Aligned_cols=170  Identities=11%  Similarity=0.014  Sum_probs=126.4

Q ss_pred             CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh---HHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           55 NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY---GAWHHRKWILSKGHSSIDNELRLLDK  131 (699)
Q Consensus        55 nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy---~aW~hR~w~L~~~~~~~~~EL~~~~k  131 (699)
                      ++....++..++..+...+.            +++++..++.++..+|.++   .+|.+.+-++.+. +.++++++.+++
T Consensus        29 ~~~~~~~~~~~g~~~~~~~~------------~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~-~~~~~A~~~~~~   95 (235)
T TIGR03302        29 EEWPAEELYEEAKEALDSGD------------YTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKS-GDYAEAIAAADR   95 (235)
T ss_pred             ccCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhc-CCHHHHHHHHHH
Confidence            34456677777777766654            8999999999999999986   5889999888877 699999999999


Q ss_pred             HHHhCCCChh---hhhHHHHHHHhc--------CCChHHHHHHHHHHHHhccCchHHHHHHHHH---HHHhhhh--hccC
Q 005381          132 FQKADSRNFH---AWNYRRFVAASM--------NRSEEDELKYTEDMICNNFSNYSAWHNRSLL---LSNLLKR--KVEG  195 (699)
Q Consensus       132 ~L~~dprN~h---aW~yR~~vl~~l--------~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l---l~~l~~~--~~~~  195 (699)
                      +++.+|++..   +|..++.+....        +.+ ++.++.++++++.+|.+..+|.-...+   ...+...  .-+.
T Consensus        96 ~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~  174 (235)
T TIGR03302        96 FIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAA-REAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVAR  174 (235)
T ss_pred             HHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHH-HHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998   799999887654        333 678999999999999998776333221   1111000  0000


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCC---chhHHHHHHHHcCcCCCC
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDD---QSGWFYHLWLLDQTVRVD  238 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d---~SaW~Y~~~Ll~~~~~~~  238 (699)
                      .....+.+++++..+..++...|++   ..+|+.+..++....+.+
T Consensus       175 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~  220 (235)
T TIGR03302       175 FYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKD  220 (235)
T ss_pred             HHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHH
Confidence            1122345799999999999998775   479999988887765543

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

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

Probab=98.29  E-value=9.6e-06  Score=85.38  Aligned_cols=152  Identities=21%  Similarity=0.183  Sum_probs=113.3

Q ss_pred             cCCCCcHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETN--PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~n--P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ..+.+ +++.++.+.+....  |++..+|..++.+....+.            .++++++++++|+.+|++..++..-.|
T Consensus       122 ~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~------------~~~A~~~~~~al~~~P~~~~~~~~l~~  188 (280)
T PF13429_consen  122 RLGDY-DEAEELLEKLEELPAAPDSARFWLALAEIYEQLGD------------PDKALRDYRKALELDPDDPDARNALAW  188 (280)
T ss_dssp             HTT-H-HHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCH------------HHHHHHHHHHHHHH-TT-HHHHHHHHH
T ss_pred             HHhHH-HHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34444 68888888877655  7889999999999998875            899999999999999999999999999


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhc
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKV  193 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~  193 (699)
                      ++-.. +..++..+.+....+..|.|...|..-+++...+|.+ ++++.++.++++.+|.|.....+-+.++...|+   
T Consensus       189 ~li~~-~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~-~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~---  263 (280)
T PF13429_consen  189 LLIDM-GDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRY-EEALEYLEKALKLNPDDPLWLLAYADALEQAGR---  263 (280)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-H-HHHHHHHHHHHHHSTT-HHHHHHHHHHHT-------
T ss_pred             HHHHC-CChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccc-ccccccccccccccccccccccccccccccccc---
Confidence            99766 5778888889888888899999999999999999998 789999999999999999999999999888866   


Q ss_pred             cCccchhchHHHHHHHHHHHH
Q 005381          194 EGFVSKEKVLPDEYEFVHQAI  214 (699)
Q Consensus       194 ~~~~~~~~~~~eeL~~~~~ai  214 (699)
                               .+++++...+++
T Consensus       264 ---------~~~A~~~~~~~~  275 (280)
T PF13429_consen  264 ---------KDEALRLRRQAL  275 (280)
T ss_dssp             ---------------------
T ss_pred             ---------cccccccccccc
Confidence                     455665555544

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

Probab=98.28  E-value=2.5e-07  Score=98.70  Aligned_cols=151  Identities=22%  Similarity=0.154  Sum_probs=91.5

Q ss_pred             EEccCCCCCc-----cc-CCCCCcccCEEEccCCCCCC-----CcC-CccccccceeecccCCCCCCC---CCccccccc
Q 005381          538 LQLKNLSLSR-----LG-SFDKLLWVQMLDLSHNELRS-----IEG-LEALQLLSCLNLSNNILGSFT---ALEPIRQLK  602 (699)
Q Consensus       538 L~Ls~n~l~~-----l~-~l~~L~~L~~LdLS~N~L~~-----l~~-l~~L~~L~~L~Ls~N~l~~l~---~~~~l~~l~  602 (699)
                      |++++|.++.     +. .+..++.|+.|++++|.++.     ++. +..+++|+.|++++|.++...   ....+..++
T Consensus       142 L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~  221 (319)
T cd00116         142 LVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLK  221 (319)
T ss_pred             EEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccC
Confidence            8899998882     22 56677889999999999863     222 455668999999999886532   112355678


Q ss_pred             cccccccccccCCCCCccc-ccccC-CCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccc
Q 005381          603 SLRALNISYNEIGAHSIDT-TKYLC-SSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKF  679 (699)
Q Consensus       603 ~L~~L~Ls~N~I~~lp~~~-~~~l~-~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~  679 (699)
                      +|+.|++++|.++...+.. ...+. ...-+..+++.+|.+..      .....+...+..+ +|+.|++++|.+.....
T Consensus       222 ~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~------~~~~~l~~~~~~~~~L~~l~l~~N~l~~~~~  295 (319)
T cd00116         222 SLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITD------DGAKDLAEVLAEKESLLELDLRGNKFGEEGA  295 (319)
T ss_pred             CCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCc------HHHHHHHHHHhcCCCccEEECCCCCCcHHHH
Confidence            8999999999987632111 11111 01122223555555421      1223334566667 89999999999932211


Q ss_pred             --hHHHhhcC-Ccccccc
Q 005381          680 --KSFLIKVL-PGLKWLD  694 (699)
Q Consensus       680 --~~~~~~~l-~~L~~LD  694 (699)
                        ...++... +.|+.||
T Consensus       296 ~~~~~~~~~~~~~~~~~~  313 (319)
T cd00116         296 QLLAESLLEPGNELESLW  313 (319)
T ss_pred             HHHHHHHhhcCCchhhcc
Confidence              12233334 5666655

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=98.28  E-value=9.7e-08  Score=97.52  Aligned_cols=118  Identities=22%  Similarity=0.260  Sum_probs=96.2

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCCC
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDKL  554 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~L  554 (699)
                      .-+++.....++++.||+|+|++.                 .+.. ...+.++.       .|+||+|.++.+. .-..|
T Consensus       297 ~~iDESvKL~Pkir~L~lS~N~i~-----------------~v~n-La~L~~L~-------~LDLS~N~Ls~~~Gwh~KL  351 (490)
T KOG1259|consen  297 TQIDESVKLAPKLRRLILSQNRIR-----------------TVQN-LAELPQLQ-------LLDLSGNLLAECVGWHLKL  351 (490)
T ss_pred             hhhhhhhhhccceeEEecccccee-----------------eehh-hhhcccce-------EeecccchhHhhhhhHhhh
Confidence            455677788999999999999821                 0110 11122222       2999999999876 55678


Q ss_pred             cccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          555 LWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      .+++.|.|+.|.|..+.++.+|-+|..||+++|+|..++....++++|.|+.|.|.+|+|..++
T Consensus       352 GNIKtL~La~N~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~v  415 (490)
T KOG1259|consen  352 GNIKTLKLAQNKIETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAGSV  415 (490)
T ss_pred             cCEeeeehhhhhHhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCccccc
Confidence            9999999999999999999999999999999999998877788999999999999999998886

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.27  E-value=6.6e-05  Score=74.83  Aligned_cols=137  Identities=14%  Similarity=0.026  Sum_probs=118.0

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHH
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHR  111 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR  111 (699)
                      +.-...|.+ ..|.+-.+++|+++|++|.+|..|..+.+.++.            .+.+-+.|.+++..+|++-.+-+.=
T Consensus        43 l~YL~~gd~-~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge------------~~~A~e~YrkAlsl~p~~GdVLNNY  109 (250)
T COG3063          43 LGYLQQGDY-AQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGE------------NDLADESYRKALSLAPNNGDVLNNY  109 (250)
T ss_pred             HHHHHCCCH-HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCC------------hhhHHHHHHHHHhcCCCccchhhhh
Confidence            334466777 799999999999999999999999999999975            5677789999999999999999999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHH--hCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHH
Q 005381          112 KWILSKGHSSIDNELRLLDKFQK--ADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSL  183 (699)
Q Consensus       112 ~w~L~~~~~~~~~EL~~~~k~L~--~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~  183 (699)
                      +|.|... +.++++...+++++.  ..+.-..+|-+.++|.-+.|.. ...-+++.++++.+|.+-.+---...
T Consensus       110 G~FLC~q-g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~-~~A~~~l~raL~~dp~~~~~~l~~a~  181 (250)
T COG3063         110 GAFLCAQ-GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQF-DQAEEYLKRALELDPQFPPALLELAR  181 (250)
T ss_pred             hHHHHhC-CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCc-hhHHHHHHHHHHhCcCCChHHHHHHH
Confidence            9999977 499999999999987  4455567899999999999998 46777889999999999988544443

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

Probab=98.27  E-value=3e-05  Score=89.58  Aligned_cols=137  Identities=14%  Similarity=0.103  Sum_probs=121.0

Q ss_pred             HHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh
Q 005381           21 AEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ  100 (699)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~  100 (699)
                      ..+++.+++........|++ ++|..+...+|+.+|.++.||..-+.|.+..|+            .++.+.+.-.|-..
T Consensus       136 ~~~l~~ll~eAN~lfarg~~-eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd------------~eK~l~~~llAAHL  202 (895)
T KOG2076|consen  136 APELRQLLGEANNLFARGDL-EEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGD------------IEKALNFWLLAAHL  202 (895)
T ss_pred             CHHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHhCccchhhHHHHHHHHHHccc------------HHHHHHHHHHHHhc
Confidence            44567777777666666888 899999999999999999999999999999875            88999999999999


Q ss_pred             CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc
Q 005381          101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNF  172 (699)
Q Consensus       101 nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~  172 (699)
                      |||++.-|.+-.-...+. +.+++|.-||.++++.+|.|..--.-|.-+.+++|.. ..+++.+.+++..+|
T Consensus       203 ~p~d~e~W~~ladls~~~-~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~-~~Am~~f~~l~~~~p  272 (895)
T KOG2076|consen  203 NPKDYELWKRLADLSEQL-GNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDL-KRAMETFLQLLQLDP  272 (895)
T ss_pred             CCCChHHHHHHHHHHHhc-ccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChH-HHHHHHHHHHHhhCC
Confidence            999999998887777776 6899999999999999999987777778888999988 679999999999888

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.26  E-value=3.4e-05  Score=92.84  Aligned_cols=162  Identities=10%  Similarity=-0.005  Sum_probs=137.0

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHH
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAW  108 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW  108 (699)
                      +...-....|.+ ++|++.+.+++..+|....+|.....++...+.            +++++..+++++..+|.+..+|
T Consensus        20 d~~~ia~~~g~~-~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~------------~~~A~~~~~~al~~~P~~~~a~   86 (765)
T PRK10049         20 DWLQIALWAGQD-AEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQ------------WQNSLTLWQKALSLEPQNDDYQ   86 (765)
T ss_pred             HHHHHHHHcCCH-HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHH
Confidence            333444566777 799999999999999999999999988888765            8999999999999999999999


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      ...+-++... +.+++++..++++++.+|.+.. |...+.++...+.+ +++++.++++++.+|.+..++...+.++...
T Consensus        87 ~~la~~l~~~-g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~-~~Al~~l~~al~~~P~~~~~~~~la~~l~~~  163 (765)
T PRK10049         87 RGLILTLADA-GQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRH-WDELRAMTQALPRAPQTQQYPTEYVQALRNN  163 (765)
T ss_pred             HHHHHHHHHC-CCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            8888877766 6899999999999999999999 99999999999988 7899999999999999999998887776643


Q ss_pred             hhhhccCccchhchHHHHHHHHHHHHHhCCC
Q 005381          189 LKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       189 ~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~  219 (699)
                      +            ..+++++.++++.. +|+
T Consensus       164 ~------------~~e~Al~~l~~~~~-~p~  181 (765)
T PRK10049        164 R------------LSAPALGAIDDANL-TPA  181 (765)
T ss_pred             C------------ChHHHHHHHHhCCC-CHH
Confidence            2            24667777765554 554

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.25  E-value=1.5e-05  Score=79.34  Aligned_cols=127  Identities=16%  Similarity=0.079  Sum_probs=113.2

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      .++..+..-++++|+.+|++|.+|.-|..+.++. +..+.+-+.|.++++++|+|-..-++=||.+...|.| ++...++
T Consensus        49 gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~-Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~-~eA~q~F  126 (250)
T COG3063          49 GDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKL-GENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRP-EEAMQQF  126 (250)
T ss_pred             CCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHc-CChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCCh-HHHHHHH
Confidence            4588999999999999999999999999999987 5889999999999999999999999999999999988 7899999


Q ss_pred             HHHHHh--ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          165 EDMICN--NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       165 ~~~I~~--n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      ++++..  .+.-.-.|-+.+++-.+.++            ...+-+.+++++..||+...+--
T Consensus       127 ~~Al~~P~Y~~~s~t~eN~G~Cal~~gq------------~~~A~~~l~raL~~dp~~~~~~l  177 (250)
T COG3063         127 ERALADPAYGEPSDTLENLGLCALKAGQ------------FDQAEEYLKRALELDPQFPPALL  177 (250)
T ss_pred             HHHHhCCCCCCcchhhhhhHHHHhhcCC------------chhHHHHHHHHHHhCcCCChHHH
Confidence            999984  67777889999988877755            57788899999999999877643

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.21  E-value=1.2e-07  Score=96.16  Aligned_cols=42  Identities=29%  Similarity=0.451  Sum_probs=30.8

Q ss_pred             cCCCC-CccEEEecCCCC---CCccchHHHhhcCCccccccCccCC
Q 005381          658 ILKGL-NLTQFDIVGNAI---VNEKFKSFLIKVLPGLKWLDGEQLH  699 (699)
Q Consensus       658 ~l~~L-~L~~LdLs~N~l---~~~~~~~~~~~~l~~L~~LD~~~i~  699 (699)
                      .+.++ +|+.|-|..|+-   ..+.++..++..||+|+-||..+|+
T Consensus        83 YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLDnv~Vt  128 (388)
T KOG2123|consen   83 YLKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLDNVPVT  128 (388)
T ss_pred             HHhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhccCcccc
Confidence            34455 566666666665   4567888888999999999998875

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

Probab=98.21  E-value=1.9e-07  Score=105.03  Aligned_cols=119  Identities=29%  Similarity=0.381  Sum_probs=96.0

Q ss_pred             CCCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCC
Q 005381          475 ISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKL  554 (699)
Q Consensus       475 ~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L  554 (699)
                      ....++.++.++.|+.||++||++.+              .. ..+.+.++          +.|+|+.|.+..++.++.-
T Consensus       176 L~~mD~SLqll~ale~LnLshNk~~~--------------v~-~Lr~l~~L----------khLDlsyN~L~~vp~l~~~  230 (1096)
T KOG1859|consen  176 LVLMDESLQLLPALESLNLSHNKFTK--------------VD-NLRRLPKL----------KHLDLSYNCLRHVPQLSMV  230 (1096)
T ss_pred             HHhHHHHHHHHHHhhhhccchhhhhh--------------hH-HHHhcccc----------cccccccchhccccccchh
Confidence            46678899999999999999998210              11 11222222          2299999999999854432


Q ss_pred             -cccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          555 -LWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       555 -~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                       ..|+.|.|++|.++.+-++.+|.+|+.|||++|-|.+...+.++..|..|+.|+|.+|++--.|
T Consensus       231 gc~L~~L~lrnN~l~tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl~c~p  295 (1096)
T KOG1859|consen  231 GCKLQLLNLRNNALTTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPLCCAP  295 (1096)
T ss_pred             hhhheeeeecccHHHhhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCccccCH
Confidence             2499999999999999999999999999999999998877788899999999999999997766

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.19  E-value=2.6e-05  Score=85.14  Aligned_cols=102  Identities=7%  Similarity=-0.083  Sum_probs=93.7

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.|.+++..++++|..+|.+..+|.+|+.++... +.+++++..++++++++|.+..+|..++.++..+|.+ +++++++
T Consensus        16 ~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~-g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~-~eA~~~~   93 (356)
T PLN03088         16 DDFALAVDLYTQAIDLDPNNAELYADRAQANIKL-GNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY-QTAKAAL   93 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH-HHHHHHH
Confidence            4599999999999999999999999999999987 6999999999999999999999999999999999999 6899999


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHh
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      +++++.+|.|..+......+...+
T Consensus        94 ~~al~l~P~~~~~~~~l~~~~~kl  117 (356)
T PLN03088         94 EKGASLAPGDSRFTKLIKECDEKI  117 (356)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHH
Confidence            999999999998877776665544

>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=98.18  E-value=1.2e-06  Score=70.03  Aligned_cols=53  Identities=43%  Similarity=0.532  Sum_probs=49.9

Q ss_pred             eEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCC
Q 005381          537 CLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL  589 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l  589 (699)
                      .|++++|.++.++  .|.++++|++|++++|.++.+++  |.++++|+.|++++|+|
T Consensus         5 ~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    5 SLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             EEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             EEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            3999999999887  89999999999999999999987  99999999999999986

...

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

Probab=98.16  E-value=2.7e-07  Score=97.61  Aligned_cols=125  Identities=25%  Similarity=0.295  Sum_probs=97.7

Q ss_pred             CeEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--Cccccccceeec-ccCCCCCCCCCccccccccccccccc
Q 005381          536 MCLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNL-SNNILGSFTALEPIRQLKSLRALNIS  610 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~L-s~N~l~~l~~~~~l~~l~~L~~L~Ls  610 (699)
                      ..++|..|+|+.||  .|+.+++|+.||||+|.|+.|.+  |.+|.+|..|-+ ++|+|+.++. ..|.+|.+|+.|.+.
T Consensus        70 veirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k-~~F~gL~slqrLllN  148 (498)
T KOG4237|consen   70 VEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPK-GAFGGLSSLQRLLLN  148 (498)
T ss_pred             eEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhh-hHhhhHHHHHHHhcC
Confidence            34899999999998  89999999999999999998877  999998776655 5599999854 678999999999999


Q ss_pred             cccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          611 YNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       611 ~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      -|+|..++-+.+..+.+++++.++   .|.++.+..          ..|..+ .++.+.+..|++
T Consensus       149 an~i~Cir~~al~dL~~l~lLsly---Dn~~q~i~~----------~tf~~l~~i~tlhlA~np~  200 (498)
T KOG4237|consen  149 ANHINCIRQDALRDLPSLSLLSLY---DNKIQSICK----------GTFQGLAAIKTLHLAQNPF  200 (498)
T ss_pred             hhhhcchhHHHHHHhhhcchhccc---chhhhhhcc----------ccccchhccchHhhhcCcc
Confidence            999999876666666666665553   233322211          267777 888888888884

>PLN03210 Resistant to P

Probab=98.16  E-value=2.1e-06  Score=107.39  Aligned_cols=29  Identities=14%  Similarity=0.148  Sum_probs=18.8

Q ss_pred             CCCcHHHHHhcccccccCCCCCccccchh
Q 005381          475 ISHSEEVLELYNDLMRLDPTHVQYYKDQH  503 (699)
Q Consensus       475 ~~~~~~~l~~l~~L~~LDls~n~~~~~l~  503 (699)
                      ....+..++.+++|+.|++++|.....++
T Consensus       670 L~~lp~si~~L~~L~~L~L~~c~~L~~Lp  698 (1153)
T PLN03210        670 LVELPSSIQYLNKLEDLDMSRCENLEILP  698 (1153)
T ss_pred             ccccchhhhccCCCCEEeCCCCCCcCccC
Confidence            34455667778888888888766444443

syringae 6; Provisional

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

Probab=98.14  E-value=5.1e-07  Score=100.66  Aligned_cols=112  Identities=28%  Similarity=0.304  Sum_probs=81.5

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      +..+.+|..||+..|.+                 +.+......+.++..       |++++|.|+.+..+..++.|+.|+
T Consensus        91 l~~~~~l~~l~l~~n~i-----------------~~i~~~l~~~~~L~~-------L~ls~N~I~~i~~l~~l~~L~~L~  146 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKI-----------------EKIENLLSSLVNLQV-------LDLSFNKITKLEGLSTLTLLKELN  146 (414)
T ss_pred             cccccceeeeeccccch-----------------hhcccchhhhhcchh-------eeccccccccccchhhccchhhhe
Confidence            55677888888888871                 111110112233333       888889888888888888888999


Q ss_pred             ccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          562 LSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       562 LS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      +++|.|..++.+..+.+|+.+++++|++..+.... +..+.+|+.+.+++|.|..+.
T Consensus       147 l~~N~i~~~~~~~~l~~L~~l~l~~n~i~~ie~~~-~~~~~~l~~l~l~~n~i~~i~  202 (414)
T KOG0531|consen  147 LSGNLISDISGLESLKSLKLLDLSYNRIVDIENDE-LSELISLEELDLGGNSIREIE  202 (414)
T ss_pred             eccCcchhccCCccchhhhcccCCcchhhhhhhhh-hhhccchHHHhccCCchhccc
Confidence            99999988888888888888999999888763201 467788888888888887764

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

Probab=98.14  E-value=9.6e-07  Score=97.66  Aligned_cols=74  Identities=31%  Similarity=0.423  Sum_probs=36.2

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      +++++|.+..++ .+..+++|+.|++++|.+..++. ...++.|..|++++|+++.+  |.....+..|+.|.+++|+
T Consensus       145 L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l--~~~~~~~~~L~~l~~~~N~  220 (394)
T COG4886         145 LDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDL--PPEIELLSALEELDLSNNS  220 (394)
T ss_pred             ccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCccccC--chhhhhhhhhhhhhhcCCc
Confidence            555555555553 45555555555555555555554 22555555555555555544  1222233335555555553

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.13  E-value=0.00016  Score=79.73  Aligned_cols=157  Identities=12%  Similarity=0.048  Sum_probs=125.2

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      .+.++.++.++|.-.=.        ..++.++            +.+++++...+.....+|+-...-..++.-..+. +
T Consensus       314 ~~~ai~~~~kaLte~Rt--------~~~ls~l------------k~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~-g  372 (539)
T KOG0548|consen  314 YEGAIKYYQKALTEHRT--------PDLLSKL------------KEAEKALKEAERKAYINPEKAEEEREKGNEAFKK-G  372 (539)
T ss_pred             HHHHHHHHHHHhhhhcC--------HHHHHHH------------HHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhc-c
Confidence            36677777774442211        3455544            4588999999999999998877777777666655 6


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchh
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKE  200 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~  200 (699)
                      .|..|+..|+++++.+|.+.-++.+|..+.-+++.+ ...++.+++.|+.||.+.-+|..++.++..+-+          
T Consensus       373 dy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~-~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~----------  441 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEY-PEALKDAKKCIELDPNFIKAYLRKGAALRAMKE----------  441 (539)
T ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhH-HHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHH----------
Confidence            899999999999999999999999999999999988 678999999999999999999999999888844          


Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          201 KVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       201 ~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                        |+.+++.|.+++..||++..+=--.+-.+
T Consensus       442 --ydkAleay~eale~dp~~~e~~~~~~rc~  470 (539)
T KOG0548|consen  442 --YDKALEAYQEALELDPSNAEAIDGYRRCV  470 (539)
T ss_pred             --HHHHHHHHHHHHhcCchhHHHHHHHHHHH
Confidence              89999999999999998876644333333

>PLN03150 hypothetical protein; Provisional

Probab=98.13  E-value=2.7e-06  Score=99.59  Aligned_cols=78  Identities=33%  Similarity=0.414  Sum_probs=69.1

Q ss_pred             EEccCCCCC-ccc-CCCCCcccCEEEccCCCC-CCCcC-CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLS-RLG-SFDKLLWVQMLDLSHNEL-RSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~-~l~-~l~~L~~L~~LdLS~N~L-~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++ .++ .+..+++|+.|+|++|.| +.+|. +..+++|+.|+|++|.|++. .|..++.+++|+.|+|++|.
T Consensus       423 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~N~  501 (623)
T PLN03150        423 LGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGS-IPESLGQLTSLRILNLNGNS  501 (623)
T ss_pred             EECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCC-CchHHhcCCCCCEEECcCCc
Confidence            899999988 445 788999999999999999 57887 99999999999999999874 46789999999999999999


Q ss_pred             CCC
Q 005381          614 IGA  616 (699)
Q Consensus       614 I~~  616 (699)
                      ++.
T Consensus       502 l~g  504 (623)
T PLN03150        502 LSG  504 (623)
T ss_pred             ccc
Confidence            964

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.13  E-value=0.00014  Score=87.09  Aligned_cols=176  Identities=13%  Similarity=0.009  Sum_probs=127.1

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHH
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAW  108 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW  108 (699)
                      .+......+|++ ++|++.+.++++.+|++..+.+  .++......          ...++++..+++++  +|.+....
T Consensus        39 ~~aii~~r~Gd~-~~Al~~L~qaL~~~P~~~~av~--dll~l~~~~----------G~~~~A~~~~eka~--~p~n~~~~  103 (822)
T PRK14574         39 DSLIIRARAGDT-APVLDYLQEESKAGPLQSGQVD--DWLQIAGWA----------GRDQEVIDVYERYQ--SSMNISSR  103 (822)
T ss_pred             HHHHHHHhCCCH-HHHHHHHHHHHhhCccchhhHH--HHHHHHHHc----------CCcHHHHHHHHHhc--cCCCCCHH
Confidence            444555678888 5999999999999999964444  222211111          23789999999999  44444444


Q ss_pred             HHH--HHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          109 HHR--KWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       109 ~hR--~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      ..+  +-+.... +.+++++++++++++.+|.|..++..-.-+....+.+ ++.++...++...+|.+... -.+..+..
T Consensus       104 ~llalA~ly~~~-gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~-~eAl~~l~~l~~~dp~~~~~-l~layL~~  180 (822)
T PRK14574        104 GLASAARAYRNE-KRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRG-GVVLKQATELAERDPTVQNY-MTLSYLNR  180 (822)
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCH-HHHHHHHHHhcccCcchHHH-HHHHHHHH
Confidence            445  3355554 6899999999999999999999987554555556666 78999999999999996654 44444443


Q ss_pred             HhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          187 NLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       187 ~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      ..            +...+|++.+++++..+|++..+..-+...+...
T Consensus       181 ~~------------~~~~~AL~~~ekll~~~P~n~e~~~~~~~~l~~~  216 (822)
T PRK14574        181 AT------------DRNYDALQASSEAVRLAPTSEEVLKNHLEILQRN  216 (822)
T ss_pred             hc------------chHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            32            2245699999999999999999988666666543

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

Probab=98.12  E-value=6.4e-07  Score=95.53  Aligned_cols=190  Identities=21%  Similarity=0.137  Sum_probs=111.4

Q ss_pred             HHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcc-----c-CCCC
Q 005381          480 EVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRL-----G-SFDK  553 (699)
Q Consensus       480 ~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l-----~-~l~~  553 (699)
                      ..+..+.+|+.|+++.|.+.....            ..+. .+.....++.       |++++|.++..     . .+..
T Consensus        75 ~~l~~~~~L~~L~l~~~~~~~~~~------------~~~~-~l~~~~~L~~-------L~ls~~~~~~~~~~~l~~~l~~  134 (319)
T cd00116          75 QGLTKGCGLQELDLSDNALGPDGC------------GVLE-SLLRSSSLQE-------LKLNNNGLGDRGLRLLAKGLKD  134 (319)
T ss_pred             HHHHhcCceeEEEccCCCCChhHH------------HHHH-HHhccCcccE-------EEeeCCccchHHHHHHHHHHHh
Confidence            455667788888888877332111            0011 1111012333       88998888731     1 4556


Q ss_pred             C-cccCEEEccCCCCCC-----CcC-CccccccceeecccCCCCCCCC---CccccccccccccccccccCCCCCccc-c
Q 005381          554 L-LWVQMLDLSHNELRS-----IEG-LEALQLLSCLNLSNNILGSFTA---LEPIRQLKSLRALNISYNEIGAHSIDT-T  622 (699)
Q Consensus       554 L-~~L~~LdLS~N~L~~-----l~~-l~~L~~L~~L~Ls~N~l~~l~~---~~~l~~l~~L~~L~Ls~N~I~~lp~~~-~  622 (699)
                      + ++|+.|++++|.++.     +.. +..+..|+.|++++|.+++...   +..+..+++|+.|+|++|.++...... .
T Consensus       135 ~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~  214 (319)
T cd00116         135 LPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALA  214 (319)
T ss_pred             CCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHH
Confidence            6 899999999999862     233 6677789999999999874211   123445568999999999987553211 1


Q ss_pred             cccCCCCCcccccCCCCccceeecCCcchhhhhhccC-CCC-CccEEEecCCCCCCccchH--HHhhcCCccccccC
Q 005381          623 KYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFIL-KGL-NLTQFDIVGNAIVNEKFKS--FLIKVLPGLKWLDG  695 (699)
Q Consensus       623 ~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l-~~L-~L~~LdLs~N~l~~~~~~~--~~~~~l~~L~~LD~  695 (699)
                      ..+...+-+..+++++|.+...      ....+...+ ... .|+.|++++|.|....+..  ..+..+++|++||-
T Consensus       215 ~~~~~~~~L~~L~ls~n~l~~~------~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l  285 (319)
T cd00116         215 ETLASLKSLEVLNLGDNNLTDA------GAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDL  285 (319)
T ss_pred             HHhcccCCCCEEecCCCcCchH------HHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEEC
Confidence            2233334444457777765321      111111122 234 8999999999994333321  23344567777764

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).

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.11  E-value=2.1e-06  Score=88.03  Aligned_cols=194  Identities=20%  Similarity=0.216  Sum_probs=119.0

Q ss_pred             cCCCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCC-cccCC-
Q 005381          474 KISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLS-RLGSF-  551 (699)
Q Consensus       474 ~~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~-~l~~l-  551 (699)
                      ..|...-.-...+.++++|+..|.              ++.+..+..-+.++..++.       |+|+.|.+. .|.++ 
T Consensus        59 ~~gd~~~~~~~~~~v~elDL~~N~--------------iSdWseI~~ile~lP~l~~-------LNls~N~L~s~I~~lp  117 (418)
T KOG2982|consen   59 NEGDVMLFGSSVTDVKELDLTGNL--------------ISDWSEIGAILEQLPALTT-------LNLSCNSLSSDIKSLP  117 (418)
T ss_pred             cchhHHHHHHHhhhhhhhhcccch--------------hccHHHHHHHHhcCccceE-------eeccCCcCCCccccCc
Confidence            344444455667888889998886              3345555555655666555       888888887 44554 


Q ss_pred             CCCcccCEEEccCCCC--CCCcC-CccccccceeecccCCCCCCC-----------CCcccccc----------------
Q 005381          552 DKLLWVQMLDLSHNEL--RSIEG-LEALQLLSCLNLSNNILGSFT-----------ALEPIRQL----------------  601 (699)
Q Consensus       552 ~~L~~L~~LdLS~N~L--~~l~~-l~~L~~L~~L~Ls~N~l~~l~-----------~~~~l~~l----------------  601 (699)
                      ..+.+|..|-|.+-.+  +.... +..+|.++.|.+|.|.+..+.           ....+..+                
T Consensus       118 ~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~  197 (418)
T KOG2982|consen  118 LPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRI  197 (418)
T ss_pred             ccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhh
Confidence            4667888888877777  44444 777888888888877442210           00111122                


Q ss_pred             -ccccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC--CC-
Q 005381          602 -KSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI--VN-  676 (699)
Q Consensus       602 -~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l--~~-  676 (699)
                       +++..+-+..|+|....  ........+....++++.|.+         ..|.....+.++ .|..|.+++||+  +. 
T Consensus       198 Fpnv~sv~v~e~PlK~~s--~ek~se~~p~~~~LnL~~~~i---------dswasvD~Ln~f~~l~dlRv~~~Pl~d~l~  266 (418)
T KOG2982|consen  198 FPNVNSVFVCEGPLKTES--SEKGSEPFPSLSCLNLGANNI---------DSWASVDALNGFPQLVDLRVSENPLSDPLR  266 (418)
T ss_pred             cccchheeeecCcccchh--hcccCCCCCcchhhhhccccc---------ccHHHHHHHcCCchhheeeccCCccccccc
Confidence             34444444444443332  122222233333334444443         567778889999 999999999999  21 


Q ss_pred             -ccchHHHhhcCCccccccCccCC
Q 005381          677 -EKFKSFLIKVLPGLKWLDGEQLH  699 (699)
Q Consensus       677 -~~~~~~~~~~l~~L~~LD~~~i~  699 (699)
                       ..-+..+++.+++++.|+|.+|+
T Consensus       267 ~~err~llIaRL~~v~vLNGskIs  290 (418)
T KOG2982|consen  267 GGERRFLLIARLTKVQVLNGSKIS  290 (418)
T ss_pred             CCcceEEEEeeccceEEecCcccc
Confidence             22223467899999999999875

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

Probab=98.09  E-value=2.5e-06  Score=94.36  Aligned_cols=154  Identities=28%  Similarity=0.334  Sum_probs=103.0

Q ss_pred             HHHHHhc-ccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCC-CCcc
Q 005381          479 EEVLELY-NDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFD-KLLW  556 (699)
Q Consensus       479 ~~~l~~l-~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~-~L~~  556 (699)
                      +.....+ .+|+.||+++|.                 +..++.....+.+++.       |++++|.++.++... .++.
T Consensus       132 ~~~~~~~~~nL~~L~l~~N~-----------------i~~l~~~~~~l~~L~~-------L~l~~N~l~~l~~~~~~~~~  187 (394)
T COG4886         132 PPLIGLLKSNLKELDLSDNK-----------------IESLPSPLRNLPNLKN-------LDLSFNDLSDLPKLLSNLSN  187 (394)
T ss_pred             ccccccchhhcccccccccc-----------------hhhhhhhhhccccccc-------cccCCchhhhhhhhhhhhhh
Confidence            3344445 378888888887                 2222222333344444       888888888887554 8888


Q ss_pred             cCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCccccc
Q 005381          557 VQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVG  635 (699)
Q Consensus       557 L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~  635 (699)
                      |..|++++|++..+|. ...+..|+.|.+++|.+...  +..+.++.++..|.+++|++..++    ..+..++.+..++
T Consensus       188 L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~--~~~~~~~~~l~~l~l~~n~~~~~~----~~~~~l~~l~~L~  261 (394)
T COG4886         188 LNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIEL--LSSLSNLKNLSGLELSNNKLEDLP----ESIGNLSNLETLD  261 (394)
T ss_pred             hhheeccCCccccCchhhhhhhhhhhhhhcCCcceec--chhhhhcccccccccCCceeeecc----chhccccccceec
Confidence            8889999999988888 45566688888888854333  466777888888888888887642    1223333344456


Q ss_pred             CCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          636 SEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       636 l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +++|.+.-+           + .+..+ +|+.|++++|.+
T Consensus       262 ~s~n~i~~i-----------~-~~~~~~~l~~L~~s~n~~  289 (394)
T COG4886         262 LSNNQISSI-----------S-SLGSLTNLRELDLSGNSL  289 (394)
T ss_pred             ccccccccc-----------c-cccccCccCEEeccCccc
Confidence            666666332           2 36777 899999999877

>PLN03210 Resistant to P

Probab=98.09  E-value=1e-05  Score=101.43  Aligned_cols=23  Identities=22%  Similarity=0.197  Sum_probs=17.1

Q ss_pred             hhhhhhccCCCC-CccEEEecCCC
Q 005381          651 SYWEAYFILKGL-NLTQFDIVGNA  673 (699)
Q Consensus       651 ~~~~~p~~l~~L-~L~~LdLs~N~  673 (699)
                      ....+|..++++ +|+.|+|++|.
T Consensus       790 ~l~~lP~si~~L~~L~~L~Ls~C~  813 (1153)
T PLN03210        790 SLVELPSSIQNLHKLEHLEIENCI  813 (1153)
T ss_pred             CccccChhhhCCCCCCEEECCCCC
Confidence            344567778888 88888888764

syringae 6; Provisional

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.06  E-value=0.00047  Score=69.65  Aligned_cols=172  Identities=13%  Similarity=0.089  Sum_probs=135.4

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHH
Q 005381           30 QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWH  109 (699)
Q Consensus        30 ~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~  109 (699)
                      .|.+....+.. .-|..++.++-..-|..+.+=-..+..++..+.            ++++++.++..|..||-+..+.-
T Consensus        58 V~IAAld~~~~-~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~------------~~~A~e~y~~lL~ddpt~~v~~K  124 (289)
T KOG3060|consen   58 VFIAALDTGRD-DLAQKCINQLRDRFPGSKRVGKLKAMLLEATGN------------YKEAIEYYESLLEDDPTDTVIRK  124 (289)
T ss_pred             HHHHHHHhcch-HHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhc------------hhhHHHHHHHHhccCcchhHHHH
Confidence            34444455554 688999999888889999988888888887764            89999999999999999877665


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                       |+-++.+..+.--++++-++..++.-+.+..||.+-.-+.-..+.+ +.+.=|+++.+-++|-|+-..--.+-++.-.+
T Consensus       125 -RKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f-~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~g  202 (289)
T KOG3060|consen  125 -RKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDF-EKAAFCLEELLLIQPFNPLYFQRLAEVLYTQG  202 (289)
T ss_pred             -HHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHH-HHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHh
Confidence             6666555445556899999999999999999999998887777777 56666779999999999876555555555443


Q ss_pred             hhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          190 KRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       190 ~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      .         .+.++-+.+++.+|+.++|.+.-+|+
T Consensus       203 g---------~eN~~~arkyy~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  203 G---------AENLELARKYYERALKLNPKNLRALF  229 (289)
T ss_pred             h---------HHHHHHHHHHHHHHHHhChHhHHHHH
Confidence            3         24468889999999999999988887

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

Probab=98.06  E-value=1e-06  Score=98.23  Aligned_cols=119  Identities=31%  Similarity=0.422  Sum_probs=91.5

Q ss_pred             EEccCCCCCcccC-CCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          538 LQLKNLSLSRLGS-FDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       538 L~Ls~n~l~~l~~-l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      +++.+|.|..+.. +..+++|++|+||+|.|+.+.++..++.|+.|++++|.|+.+   ..+..++.|+.+++++|.+..
T Consensus       100 l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l~~N~i~~~---~~~~~l~~L~~l~l~~n~i~~  176 (414)
T KOG0531|consen  100 LDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNLSGNLISDI---SGLESLKSLKLLDLSYNRIVD  176 (414)
T ss_pred             eeccccchhhcccchhhhhcchheeccccccccccchhhccchhhheeccCcchhc---cCCccchhhhcccCCcchhhh
Confidence            9999999999987 999999999999999999999999999999999999999987   567779999999999999998


Q ss_pred             CCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          617 HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       617 lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      ++.+  . +..+.-+..+.+.+|.+..+            ..+..+ .+..+++..|.+
T Consensus       177 ie~~--~-~~~~~~l~~l~l~~n~i~~i------------~~~~~~~~l~~~~l~~n~i  220 (414)
T KOG0531|consen  177 IEND--E-LSELISLEELDLGGNSIREI------------EGLDLLKKLVLLSLLDNKI  220 (414)
T ss_pred             hhhh--h-hhhccchHHHhccCCchhcc------------cchHHHHHHHHhhcccccc
Confidence            8531  0 12222222234455554332            234444 666678888888

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.03  E-value=8.2e-05  Score=81.88  Aligned_cols=123  Identities=15%  Similarity=0.076  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++++...+....++|+-.+.-..+|....+.+            +|..++..|+++|+++|++..++..|.-++.++ +.
T Consensus       341 Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~g------------dy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL-~~  407 (539)
T KOG0548|consen  341 EKALKEAERKAYINPEKAEEEREKGNEAFKKG------------DYPEAVKHYTEAIKRDPEDARLYSNRAACYLKL-GE  407 (539)
T ss_pred             HHHHHHHHHHHhhChhHHHHHHHHHHHHHhcc------------CHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHH-hh
Confidence            78899999999999999888778877666654            499999999999999999999999999999988 58


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHH
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAW  178 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW  178 (699)
                      +.++++.|++++++||.+.-+|..++-++..+..| .+.++.+.++++.||++-.+-
T Consensus       408 ~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~y-dkAleay~eale~dp~~~e~~  463 (539)
T KOG0548|consen  408 YPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEY-DKALEAYQEALELDPSNAEAI  463 (539)
T ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhcCchhHHHH
Confidence            99999999999999999999999999999999999 679999999999999987543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.96  E-value=0.0013  Score=66.53  Aligned_cols=161  Identities=10%  Similarity=0.110  Sum_probs=129.0

Q ss_pred             CCCcHHHHHHHHHHHHhCCCc---hHHHHHHHHH-HHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           38 HIYSKEAVELSTKLLETNPEL---YTAWNYRKLA-VQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~---ytaWn~R~~~-l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ...|++.+++...++..-+.-   -..|..-..+ +..+-.          ....-+..+++.+-...|+|+.+=--.+.
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~----------~~~~lAq~C~~~L~~~fp~S~RV~~lkam   94 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDT----------GRDDLAQKCINQLRDRFPGSKRVGKLKAM   94 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHh----------cchHHHHHHHHHHHHhCCCChhHHHHHHH
Confidence            344789999999888776665   2456644333 333322          22567778888888889999999988899


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhc
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKV  193 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~  193 (699)
                      .++.. +.+++++++|+..++.||-|+...--|--++...|+. .+.++-..+.+++-+.|..||++.+-+...++.   
T Consensus        95 ~lEa~-~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~-l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~---  169 (289)
T KOG3060|consen   95 LLEAT-GNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKN-LEAIKELNEYLDKFMNDQEAWHELAEIYLSEGD---  169 (289)
T ss_pred             HHHHh-hchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCc-HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhH---
Confidence            88866 6999999999999999999998866555556777887 578888889999999999999999999887744   


Q ss_pred             cCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          194 EGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       194 ~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                               |+.+.=|+.+.+-+.|-+.-
T Consensus       170 ---------f~kA~fClEE~ll~~P~n~l  189 (289)
T KOG3060|consen  170 ---------FEKAAFCLEELLLIQPFNPL  189 (289)
T ss_pred             ---------HHHHHHHHHHHHHcCCCcHH
Confidence                     89999999999999998764

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.93  E-value=0.0008  Score=72.93  Aligned_cols=161  Identities=12%  Similarity=0.040  Sum_probs=120.7

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....+.+ ++|++.+.+++..+|++..+|.. ...+..++...        ..........+.....+|....++...++
T Consensus        53 ~~~~g~~-~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~~~~~~~a~  122 (355)
T cd05804          53 AWIAGDL-PKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFS--------GMRDHVARVLPLWAPENPDYWYLLGMLAF  122 (355)
T ss_pred             HHHcCCH-HHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccc--------cCchhHHHHHhccCcCCCCcHHHHHHHHH
Confidence            3455666 79999999999999999999886 54444443210        11223333334445677777777777888


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch----HHHHHHHHHHHHhh
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY----SAWHNRSLLLSNLL  189 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~----SAW~~R~~ll~~l~  189 (699)
                      ++... +.++++...++++++++|++.+++...+.++...|.+ ++.++++.+++...|.+.    ..|.+.+.+....+
T Consensus       123 ~~~~~-G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~-~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G  200 (355)
T cd05804         123 GLEEA-GQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRF-KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERG  200 (355)
T ss_pred             HHHHc-CCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH-HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCC
Confidence            88876 6899999999999999999999999999999999998 678899999999887543    24555665555443


Q ss_pred             hhhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          190 KRKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       190 ~~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                      +            +++++..+++++...|
T Consensus       201 ~------------~~~A~~~~~~~~~~~~  217 (355)
T cd05804         201 D------------YEAALAIYDTHIAPSA  217 (355)
T ss_pred             C------------HHHHHHHHHHHhcccc
Confidence            3            7999999999987776

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.92  E-value=5.9e-05  Score=61.43  Aligned_cols=68  Identities=15%  Similarity=0.106  Sum_probs=51.6

Q ss_pred             chHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCC
Q 005381           58 LYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADS  137 (699)
Q Consensus        58 ~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dp  137 (699)
                      ...+|..++.++...++            +++++..++++++.+|+++.+|..|+-+..+....++++++.+++++++||
T Consensus         2 ~a~~~~~~g~~~~~~~~------------~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGD------------YEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTH------------HHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            45677778877777654            788888888888888888888888888877662157788888888888776

...

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

Probab=97.89  E-value=0.00018  Score=83.30  Aligned_cols=133  Identities=15%  Similarity=0.136  Sum_probs=115.9

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..++++...+..+++++|+++.+|+.-+-+.++. ++.++.+.+--.|..++|+++.-|..-+-....++.+ ..+.-|+
T Consensus       153 g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqr-Gd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i-~qA~~cy  230 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQR-GDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNI-NQARYCY  230 (895)
T ss_pred             CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHc-ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccH-HHHHHHH
Confidence            4589999999999999999999999999999987 6899999999999999999999999888888888877 5788888


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC------CCchhHHHHHHHH
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP------DDQSGWFYHLWLL  231 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP------~d~SaW~Y~~~Ll  231 (699)
                      .++|..+|.|+---.-|+.++.++|.            +.+|++.+.+++..+|      -+..+|.+-+.-.
T Consensus       231 ~rAI~~~p~n~~~~~ers~L~~~~G~------------~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~  291 (895)
T KOG2076|consen  231 SRAIQANPSNWELIYERSSLYQKTGD------------LKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFI  291 (895)
T ss_pred             HHHHhcCCcchHHHHHHHHHHHHhCh------------HHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHH
Confidence            99999999998888888889888866            6888899999999988      4556666444443

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.81  E-value=8.1e-05  Score=60.59  Aligned_cols=67  Identities=24%  Similarity=0.223  Sum_probs=39.5

Q ss_pred             hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          140 FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       140 ~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                      ..+|..++-+....+.+ ++.+++++++|+.+|++..+|..++.+...+++           .++++++.+++++.++|
T Consensus         3 a~~~~~~g~~~~~~~~~-~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~-----------~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDY-EEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGK-----------DYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHH-HHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTT-----------HHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCH-HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCc-----------cHHHHHHHHHHHHHcCc
Confidence            34566666666666655 456666666666666666666666666555531           15666666666666665

...

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.80  E-value=0.0017  Score=68.12  Aligned_cols=196  Identities=15%  Similarity=0.110  Sum_probs=142.1

Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHH
Q 005381           19 AKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESAL   98 (699)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L   98 (699)
                      +.+++--++=.+++++   +.+ .+||.-|-.++..+|++|.|.+.|..+...+++            -..+|.-++++|
T Consensus        36 advekhlElGk~lla~---~Q~-sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGk------------sk~al~Dl~rVl   99 (504)
T KOG0624|consen   36 ADVEKHLELGKELLAR---GQL-SDALTHYHAAVEGDPNNYQAIFRRATVYLAMGK------------SKAALQDLSRVL   99 (504)
T ss_pred             HHHHHHHHHHHHHHHh---hhH-HHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcC------------CccchhhHHHHH
Confidence            3444444555666654   456 489999999999999999999999999999987            356788899999


Q ss_pred             HhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhh-------------hhHHHHHHHhcC--CChHHHHHH
Q 005381           99 RQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHA-------------WNYRRFVAASMN--RSEEDELKY  163 (699)
Q Consensus        99 ~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~ha-------------W~yR~~vl~~l~--~~~e~EL~~  163 (699)
                      ...|+.+.|=..|+-++-+. +.++++..-++++|+.+|.|-..             |..|..+..-.+  .. ...+++
T Consensus       100 elKpDF~~ARiQRg~vllK~-Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~-~~ai~~  177 (504)
T KOG0624|consen  100 ELKPDFMAARIQRGVVLLKQ-GELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDC-QNAIEM  177 (504)
T ss_pred             hcCccHHHHHHHhchhhhhc-ccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCch-hhHHHH
Confidence            99999999999999999887 68999999999999999977543             344433333332  33 678999


Q ss_pred             HHHHHHhccCchHHHHHHHHHHHHhhhhh----------------ccCcc------chhchHHHHHHHHHHHHHhCCCCc
Q 005381          164 TEDMICNNFSNYSAWHNRSLLLSNLLKRK----------------VEGFV------SKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       164 ~~~~I~~n~sN~SAW~~R~~ll~~l~~~~----------------~~~~~------~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                      ++..|++.|=+.|-..+|...+-.-+.-.                +++.-      ....-.+..|..+..-+.+||++-
T Consensus       178 i~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK  257 (504)
T KOG0624|consen  178 ITHLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHK  257 (504)
T ss_pred             HHHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchh
Confidence            99999999999999999988766443210                00000      001113555666666667777777


Q ss_pred             hhHHHHHHHHc
Q 005381          222 SGWFYHLWLLD  232 (699)
Q Consensus       222 SaW~Y~~~Ll~  232 (699)
                      ..+-++.-|-.
T Consensus       258 ~Cf~~YKklkK  268 (504)
T KOG0624|consen  258 LCFPFYKKLKK  268 (504)
T ss_pred             hHHHHHHHHHH
Confidence            66666555543

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

Probab=97.80  E-value=1.8e-06  Score=79.29  Aligned_cols=79  Identities=24%  Similarity=0.363  Sum_probs=55.0

Q ss_pred             EEccCCCCCccc----CCCCCcccCEEEccCCCCCCCcC-Cccc-cccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          538 LQLKNLSLSRLG----SFDKLLWVQMLDLSHNELRSIEG-LEAL-QLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l~----~l~~L~~L~~LdLS~N~L~~l~~-l~~L-~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      ++|+.+.+--++    .+.....|+..+||+|.+..+|. |... +.+++|+|++|.|+.+  |..+..++.|+.|+++.
T Consensus        32 ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdv--PeE~Aam~aLr~lNl~~  109 (177)
T KOG4579|consen   32 LDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDV--PEELAAMPALRSLNLRF  109 (177)
T ss_pred             cccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhc--hHHHhhhHHhhhccccc
Confidence            666666655443    45556667777888888877777 4443 4677778888888776  56677778888888888


Q ss_pred             ccCCCCC
Q 005381          612 NEIGAHS  618 (699)
Q Consensus       612 N~I~~lp  618 (699)
                      |++...|
T Consensus       110 N~l~~~p  116 (177)
T KOG4579|consen  110 NPLNAEP  116 (177)
T ss_pred             Cccccch
Confidence            8777664

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

Probab=97.80  E-value=1.5e-05  Score=77.93  Aligned_cols=81  Identities=23%  Similarity=0.322  Sum_probs=74.6

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      ++|++|.+-.++.|..++.|..|.|++|.|+.|.+  -..+++|..|.|.+|.|..+..+..+..||.|+.|.+-+|+++
T Consensus        47 iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Npv~  126 (233)
T KOG1644|consen   47 IDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGNPVE  126 (233)
T ss_pred             ecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeeecCCchh
Confidence            89999999999999999999999999999999988  5556789999999999999988899999999999999999998


Q ss_pred             CCC
Q 005381          616 AHS  618 (699)
Q Consensus       616 ~lp  618 (699)
                      ...
T Consensus       127 ~k~  129 (233)
T KOG1644|consen  127 HKK  129 (233)
T ss_pred             ccc
Confidence            764

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.78  E-value=0.00036  Score=74.68  Aligned_cols=170  Identities=15%  Similarity=0.079  Sum_probs=140.2

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHH------------H
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGA------------W  108 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~a------------W  108 (699)
                      +.+|...+-.+++.++.+..+-..|+.++.....            ...++..++++|..+|..+.+            |
T Consensus       185 ~~~a~~ea~~ilkld~~n~~al~vrg~~~yy~~~------------~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  185 YDEAQSEAIDILKLDATNAEALYVRGLCLYYNDN------------ADKAINHFQQALRLDPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             chhHHHHHHHHHhcccchhHHHHhcccccccccc------------hHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHH
Confidence            3799999999999999999999999999887743            677888888888877766654            5


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCC----hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRN----FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN----~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      .-|+--+.+. +.+.++-++|..+|.+||.|    .+++..|+-|.-++++. .+.+.-|+.++++|++-.-|.+-|+..
T Consensus       253 k~~gN~~fk~-G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl-~eaisdc~~Al~iD~syikall~ra~c  330 (486)
T KOG0550|consen  253 KERGNDAFKN-GNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRL-REAISDCNEALKIDSSYIKALLRRANC  330 (486)
T ss_pred             HhhhhhHhhc-cchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCc-hhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence            5555544443 68999999999999999986    47888999999999998 789999999999999999999999988


Q ss_pred             HHHhhhhhccCccchhchHHHHHHHHHHHHHhC--CCCchhHHHHHHHHcCcCC
Q 005381          185 LSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTD--PDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       185 l~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~d--P~d~SaW~Y~~~Ll~~~~~  236 (699)
                      -..+..            ++++++.+.+|+.+.  +.+...|--...-|.+..+
T Consensus       331 ~l~le~------------~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkkSkR  372 (486)
T KOG0550|consen  331 HLALEK------------WEEAVEDYEKAMQLEKDCEIRRTLREAQLALKKSKR  372 (486)
T ss_pred             HHHHHH------------HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhhh
Confidence            766643            899999999999775  4477777777777766543

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

Probab=97.74  E-value=2.1e-05  Score=58.60  Aligned_cols=38  Identities=37%  Similarity=0.469  Sum_probs=26.2

Q ss_pred             cccCEEEccCCCCCCCcC-CccccccceeecccCCCCCC
Q 005381          555 LWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSF  592 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l  592 (699)
                      ++|++|++++|+|+.+|+ +..|++|+.|++++|+|+++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i   39 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDI   39 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBE
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCC
Confidence            357777777777777777 77777777777777777654

...

>PLN03150 hypothetical protein; Provisional

Probab=97.74  E-value=3.1e-05  Score=90.75  Aligned_cols=105  Identities=22%  Similarity=0.246  Sum_probs=78.9

Q ss_pred             ccCEEEccCCCC-CCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCccc
Q 005381          556 WVQMLDLSHNEL-RSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHS  633 (699)
Q Consensus       556 ~L~~LdLS~N~L-~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~l  633 (699)
                      .++.|+|++|.+ +.+|. +..|++|+.|+|++|.|++. .|..++.+++|+.|+|++|+++...   +..+..++.+..
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~-iP~~~~~l~~L~~LdLs~N~lsg~i---P~~l~~L~~L~~  494 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGN-IPPSLGSITSLEVLDLSYNSFNGSI---PESLGQLTSLRI  494 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCc-CChHHhCCCCCCEEECCCCCCCCCC---chHHhcCCCCCE
Confidence            478899999999 56777 99999999999999999864 4677899999999999999997542   233444444555


Q ss_pred             ccCCCCccceeecCCcchhhhhhccCCCC--CccEEEecCCCC
Q 005381          634 VGSEWNHGQTVIDDDIKSYWEAYFILKGL--NLTQFDIVGNAI  674 (699)
Q Consensus       634 l~l~~N~l~~~~~~~~~~~~~~p~~l~~L--~L~~LdLs~N~l  674 (699)
                      +++++|.+..          .+|..+..+  ++..+++.+|+.
T Consensus       495 L~Ls~N~l~g----------~iP~~l~~~~~~~~~l~~~~N~~  527 (623)
T PLN03150        495 LNLNGNSLSG----------RVPAALGGRLLHRASFNFTDNAG  527 (623)
T ss_pred             EECcCCcccc----------cCChHHhhccccCceEEecCCcc
Confidence            5667776643          234455543  677888888875

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.72  E-value=0.0006  Score=66.53  Aligned_cols=99  Identities=20%  Similarity=0.164  Sum_probs=58.9

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      -.+|+| ++|..-|..+|.+.|...+  --|..                                       .+..|+-+
T Consensus       106 F~ngdy-eeA~skY~~Ale~cp~~~~--e~rsI---------------------------------------ly~Nraaa  143 (271)
T KOG4234|consen  106 FKNGDY-EEANSKYQEALESCPSTST--EERSI---------------------------------------LYSNRAAA  143 (271)
T ss_pred             hhcccH-HHHHHHHHHHHHhCccccH--HHHHH---------------------------------------HHhhhHHH
Confidence            356888 8999999999999999876  22222                                       12233333


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHH
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSA  177 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SA  177 (699)
                      +-++ ..++.+++-|.++|+++|.+..|.-.|..+..++..+ ++.++-+.+.++.+|++..|
T Consensus       144 ~iKl-~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~-eealeDyKki~E~dPs~~ea  204 (271)
T KOG4234|consen  144 LIKL-RKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY-EEALEDYKKILESDPSRREA  204 (271)
T ss_pred             HHHh-hhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH-HHHHHHHHHHHHhCcchHHH
Confidence            3333 3455555555566666665555555555555555555 45555556666666655543

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

Probab=97.70  E-value=1.7e-05  Score=80.41  Aligned_cols=111  Identities=29%  Similarity=0.405  Sum_probs=78.5

Q ss_pred             CCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCc-cccccccccccccccccCCCCCcccccccCCCCC
Q 005381          552 DKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE-PIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPL  630 (699)
Q Consensus       552 ~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~-~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~l  630 (699)
                      ..+..|+.|.+.+-.++++..|..|++|+.|.+|.|.+.....+. ....+++|++|+|++|+|..+.  +.        
T Consensus        40 d~~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~ls--tl--------  109 (260)
T KOG2739|consen   40 DEFVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLS--TL--------  109 (260)
T ss_pred             ccccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcccccc--cc--------
Confidence            344566666777777777777888888888888888443221122 2345688999999998887642  11        


Q ss_pred             cccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccccccCccC
Q 005381          631 SHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLDGEQL  698 (699)
Q Consensus       631 l~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD~~~i  698 (699)
                                                .-++.+ +|..|++..|.. ...+++..++..+|+|++||+.-+
T Consensus       110 --------------------------~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen  110 --------------------------RPLKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             --------------------------chhhhhcchhhhhcccCCccccccHHHHHHHHhhhhcccccccc
Confidence                                      134555 788888888877 566888888999999999998754

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.70  E-value=0.00065  Score=77.72  Aligned_cols=121  Identities=12%  Similarity=0.060  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh-HHHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE-EDELKYTE  165 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~-e~EL~~~~  165 (699)
                      -+++.-+...+-.++|-+..+|+-|+-++... +.++++.+.+..++.+||..+.+-.--+-++...|... .+.-.+..
T Consensus       666 ~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~-~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~  744 (799)
T KOG4162|consen  666 DDEARSCLLEASKIDPLSASVYYLRGLLLEVK-GQLEEAKEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLS  744 (799)
T ss_pred             chHHHHHHHHHHhcchhhHHHHHHhhHHHHHH-HhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHH
Confidence            35777788888899999999999998888765 58899999999999999999999998899998888653 22333778


Q ss_pred             HHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC
Q 005381          166 DMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD  220 (699)
Q Consensus       166 ~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d  220 (699)
                      .+++.||.|..||+|.+.+++..|.            .+++.+||+.|+.+++.+
T Consensus       745 dalr~dp~n~eaW~~LG~v~k~~Gd------------~~~Aaecf~aa~qLe~S~  787 (799)
T KOG4162|consen  745 DALRLDPLNHEAWYYLGEVFKKLGD------------SKQAAECFQAALQLEESN  787 (799)
T ss_pred             HHHhhCCCCHHHHHHHHHHHHHccc------------hHHHHHHHHHHHhhccCC
Confidence            9999999999999999999999876            689999999999887654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.70  E-value=0.00056  Score=66.59  Aligned_cols=117  Identities=17%  Similarity=0.126  Sum_probs=92.2

Q ss_pred             HHHHHHHHhCCCchHHHH--HHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHhCCC
Q 005381           46 ELSTKLLETNPELYTAWN--YRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---YGAWHHRKWILSKGHS  120 (699)
Q Consensus        46 ~~~~~~L~~nP~~ytaWn--~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---y~aW~hR~w~L~~~~~  120 (699)
                      +.+..++..+++...++.  .++..+...++            +++++..+++++..+|+.   ..+|++.+.++.+. +
T Consensus        20 ~~~~~~~~~~~~~~~a~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~-g   86 (172)
T PRK02603         20 DLILKILPINKKAKEAFVYYRDGMSAQADGE------------YAEALENYEEALKLEEDPNDRSYILYNMGIIYASN-G   86 (172)
T ss_pred             HHHHHHcccccHhhhHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHc-C
Confidence            445566666666666554  45555555543            899999999999988764   46898899999887 6


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC-------------hHHHHHHHHHHHHhccCch
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS-------------EEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~-------------~e~EL~~~~~~I~~n~sN~  175 (699)
                      .++++++.+.++++.+|.+..+|...+.+....+..             .++.++++.++++.+|.||
T Consensus        87 ~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~~  154 (172)
T PRK02603         87 EHDKALEYYHQALELNPKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNNY  154 (172)
T ss_pred             CHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCchhH
Confidence            999999999999999999999999999999887763             1457777788888888885

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

Probab=97.69  E-value=1.6e-05  Score=85.44  Aligned_cols=133  Identities=24%  Similarity=0.228  Sum_probs=88.3

Q ss_pred             HHHHHhcccccccCCCCCccccchhh--------hHHhhhhcc--chHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcc
Q 005381          479 EEVLELYNDLMRLDPTHVQYYKDQHS--------LVLLQQVTS--NWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRL  548 (699)
Q Consensus       479 ~~~l~~l~~L~~LDls~n~~~~~l~s--------l~~l~~l~~--~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l  548 (699)
                      -++.+.++.|+.|++++|.+..-..+        +-.+.--.|  .+..+....-.+..+..       |+|..|..-.+
T Consensus       165 ~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~-------L~L~~N~~~~~  237 (505)
T KOG3207|consen  165 LKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEV-------LYLEANEIILI  237 (505)
T ss_pred             HHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHH-------hhhhcccccce
Confidence            34567788888888888875221111        100000001  13334433434455444       88888852222


Q ss_pred             c--CCCCCcccCEEEccCCCCCCCcC---CccccccceeecccCCCCCCCCCcc-----ccccccccccccccccCCCCC
Q 005381          549 G--SFDKLLWVQMLDLSHNELRSIEG---LEALQLLSCLNLSNNILGSFTALEP-----IRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       549 ~--~l~~L~~L~~LdLS~N~L~~l~~---l~~L~~L~~L~Ls~N~l~~l~~~~~-----l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      .  ...-+..|+.|||++|.+-..+.   ...++.|..|+++.+.|+++..|+.     ...+++|+.|+++.|+|...+
T Consensus       238 ~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~  317 (505)
T KOG3207|consen  238 KATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWR  317 (505)
T ss_pred             ecchhhhhhHHhhccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeecccCcccccc
Confidence            2  55667889999999999977664   8889999999999999988865554     456789999999999997765

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

Probab=97.67  E-value=6.3e-06  Score=75.80  Aligned_cols=81  Identities=26%  Similarity=0.316  Sum_probs=71.8

Q ss_pred             EEccCCCCCccc-CC-CCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLSRLG-SF-DKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l-~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      ++|++|.+..+| .| ...+.++.|+|++|+|+.+|. +..++.|+.|++++|.|...  |..+..|.+|-.|+..+|.+
T Consensus        58 i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~--p~vi~~L~~l~~Lds~~na~  135 (177)
T KOG4579|consen   58 ISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAE--PRVIAPLIKLDMLDSPENAR  135 (177)
T ss_pred             EecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccc--hHHHHHHHhHHHhcCCCCcc
Confidence            899999999887 33 455689999999999999999 99999999999999999876  56677799999999999999


Q ss_pred             CCCCcc
Q 005381          615 GAHSID  620 (699)
Q Consensus       615 ~~lp~~  620 (699)
                      ..+|.+
T Consensus       136 ~eid~d  141 (177)
T KOG4579|consen  136 AEIDVD  141 (177)
T ss_pred             ccCcHH
Confidence            999854

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.65  E-value=0.00037  Score=67.89  Aligned_cols=119  Identities=14%  Similarity=0.086  Sum_probs=95.1

Q ss_pred             hCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC---hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchH
Q 005381          100 QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN---FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYS  176 (699)
Q Consensus       100 ~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN---~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~S  176 (699)
                      .+|+...+++.++.++... +.+++++.+++++++.+|..   ..+|...+.+...+|.+ ++.++++.+++..+|.+..
T Consensus        30 ~~~~~a~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~p~~~~  107 (172)
T PRK02603         30 KKAKEAFVYYRDGMSAQAD-GEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEH-DKALEYYHQALELNPKQPS  107 (172)
T ss_pred             cHhhhHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCcccHH
Confidence            3456666677778777766 69999999999999987653   46888899999999998 7899999999999999999


Q ss_pred             HHHHHHHHHHHhhhhhc--cCccchhchHHHHHHHHHHHHHhCCCC
Q 005381          177 AWHNRSLLLSNLLKRKV--EGFVSKEKVLPDEYEFVHQAIFTDPDD  220 (699)
Q Consensus       177 AW~~R~~ll~~l~~~~~--~~~~~~~~~~~eeL~~~~~ai~~dP~d  220 (699)
                      +|..++.++..++....  .........++++++++.+++..+|++
T Consensus       108 ~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~  153 (172)
T PRK02603        108 ALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNN  153 (172)
T ss_pred             HHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCchh
Confidence            99999988877654211  112233455789999999999999998

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.64  E-value=0.0021  Score=69.61  Aligned_cols=154  Identities=12%  Similarity=-0.033  Sum_probs=116.7

Q ss_pred             HHHHHHHHHHHHhCCCchH---HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 005381           42 KEAVELSTKLLETNPELYT---AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~yt---aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~  118 (699)
                      +++...+.++...+|...+   .+..+..+....+            .+++++..+++++..+|++..+|.. ++.+...
T Consensus        23 ~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g------------~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~   89 (355)
T cd05804          23 PAAAAKAAAAAQALAARATERERAHVEALSAWIAG------------DLPKALALLEQLLDDYPRDLLALKL-HLGAFGL   89 (355)
T ss_pred             chHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcC------------CHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHh
Confidence            5667778888888886644   5555655555443            3889999999999999999999885 4443322


Q ss_pred             ---CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          119 ---HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       119 ---~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                         .+..+...+.+......+|...+++...++++...|.+ ++..+.+.++++.+|.+..+++..+.++...++     
T Consensus        90 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~-~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~-----  163 (355)
T cd05804          90 GDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQY-DRAEEAARRALELNPDDAWAVHAVAHVLEMQGR-----  163 (355)
T ss_pred             cccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCC-----
Confidence               12334444445444456777777778888899999988 678899999999999999999999998887654     


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                             +++++.++.+++...|.+.
T Consensus       164 -------~~eA~~~l~~~l~~~~~~~  182 (355)
T cd05804         164 -------FKEGIAFMESWRDTWDCSS  182 (355)
T ss_pred             -------HHHHHHHHHhhhhccCCCc
Confidence                   7999999999999988644

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK11906 transcriptional regulator; Provisional

Probab=97.63  E-value=0.0014  Score=72.17  Aligned_cols=158  Identities=7%  Similarity=-0.015  Sum_probs=129.0

Q ss_pred             HHHhCCCch---HHH----HHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHH---HhCCCChHHHHHHHHHHHhCC-
Q 005381           51 LLETNPELY---TAW----NYRKLAVQHKLTENDSDPDSLKSILDEELRVVESAL---RQNFKSYGAWHHRKWILSKGH-  119 (699)
Q Consensus        51 ~L~~nP~~y---taW----n~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L---~~nPKsy~aW~hR~w~L~~~~-  119 (699)
                      +...-|++.   .+|    ..|+.-..+-     .+|    ...+.++.++.+|+   ..+|....++-.+.|+-.... 
T Consensus       240 ~~r~~~~~l~~~~a~~~d~ylrg~~~~~~-----~t~----~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~  310 (458)
T PRK11906        240 SVRLAKQDQGYKNHYLSDEMLAGKKELYD-----FTP----ESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLAL  310 (458)
T ss_pred             hhcCCCCCcccccchhhHHHHHHHHHhhc-----cCH----HHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHH
Confidence            344447777   777    4455433222     223    45789999999999   999999999999888876421 


Q ss_pred             -------CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          120 -------SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       120 -------~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                             ....+++++-++++++||.|..|-...++++...+.+ ...+..+++++..+|+.-.+|+|++++...-++  
T Consensus       311 ~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~-~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~--  387 (458)
T PRK11906        311 HGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSGQA-KVSHILFEQAKIHSTDIASLYYYRALVHFHNEK--  387 (458)
T ss_pred             hcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcch-hhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCC--
Confidence                   1245889999999999999999999999999888887 567778899999999999999999999887655  


Q ss_pred             ccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          193 VEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       193 ~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                                .+++++.+++|+.++|....+=.-+.|+
T Consensus       388 ----------~~~a~~~i~~alrLsP~~~~~~~~~~~~  415 (458)
T PRK11906        388 ----------IEEARICIDKSLQLEPRRRKAVVIKECV  415 (458)
T ss_pred             ----------HHHHHHHHHHHhccCchhhHHHHHHHHH
Confidence                      6999999999999999999988888888

>PRK11906 transcriptional regulator; Provisional

Probab=97.60  E-value=0.0018  Score=71.27  Aligned_cols=135  Identities=9%  Similarity=-0.011  Sum_probs=112.8

Q ss_pred             CcHHHHHHHHHHH---HhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           40 YSKEAVELSTKLL---ETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        40 ~~~eaL~~~~~~L---~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      --++|+.++.+++   .++|++..++-...++-....-.--++   ......+++++-++++..+|.+..|-...+.++.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~---~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~  349 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSE---LELAAQKALELLDYVSDITTVDGKILAIMGLITG  349 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCC---chHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            3468999999999   999999999888887765541100111   2355789999999999999999999988888877


Q ss_pred             hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHH
Q 005381          117 KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWH  179 (699)
Q Consensus       117 ~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~  179 (699)
                      .. +.++.++..+++++.++|+...+|.|++|+.-.-|+. ++.++..+++++.+|.---|=-
T Consensus       350 ~~-~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~-~~a~~~i~~alrLsP~~~~~~~  410 (458)
T PRK11906        350 LS-GQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKI-EEARICIDKSLQLEPRRRKAVV  410 (458)
T ss_pred             hh-cchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCH-HHHHHHHHHHhccCchhhHHHH
Confidence            55 5699999999999999999999999999999999998 7899999999999998665533

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.59  E-value=0.0024  Score=72.01  Aligned_cols=140  Identities=18%  Similarity=0.250  Sum_probs=119.6

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      .++......+..+.| ...|.+.+.+|...|+|-..--.+|..|..+++            -+++...+...++.++||+
T Consensus         9 ~lF~~~lk~yE~kQY-kkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~------------~~ea~~~vr~glr~d~~S~   75 (700)
T KOG1156|consen    9 ALFRRALKCYETKQY-KKGLKLIKQILKKFPEHGESLAMKGLTLNCLGK------------KEEAYELVRLGLRNDLKSH   75 (700)
T ss_pred             HHHHHHHHHHHHHHH-HhHHHHHHHHHHhCCccchhHHhccchhhcccc------------hHHHHHHHHHHhccCcccc
Confidence            444555556677888 689999999999999999999999999999986            5899999999999999999


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN  180 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~  180 (699)
                      -+||--+.+...- ..|++++++|..|+.++|.|-.-|.--..+-.+++.+ +.-++--...++.+|++.-.|.-
T Consensus        76 vCwHv~gl~~R~d-K~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~-~~~~~tr~~LLql~~~~ra~w~~  148 (700)
T KOG1156|consen   76 VCWHVLGLLQRSD-KKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDY-EGYLETRNQLLQLRPSQRASWIG  148 (700)
T ss_pred             hhHHHHHHHHhhh-hhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhh-hhHHHHHHHHHHhhhhhHHHHHH
Confidence            9998888777654 5899999999999999999999999988888888887 44555556778888998888853

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.58  E-value=0.0057  Score=64.25  Aligned_cols=138  Identities=13%  Similarity=0.104  Sum_probs=103.9

Q ss_pred             CCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh-------------
Q 005381           39 IYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY-------------  105 (699)
Q Consensus        39 ~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy-------------  105 (699)
                      ..+.-||.-.+++|+..||++.|=-.|+.++...+.            ++++..-++.+|..+|.+-             
T Consensus        86 Gksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Ge------------le~A~~DF~~vl~~~~s~~~~~eaqskl~~~~  153 (504)
T KOG0624|consen   86 GKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGE------------LEQAEADFDQVLQHEPSNGLVLEAQSKLALIQ  153 (504)
T ss_pred             cCCccchhhHHHHHhcCccHHHHHHHhchhhhhccc------------HHHHHHHHHHHHhcCCCcchhHHHHHHHHhHH
Confidence            346788999999999999999999999999998876            8999999999999999443             


Q ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          106 GAWHHRKWILSKG-HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       106 ~aW~hR~w~L~~~-~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      +-|.-|..+.+.. .+++..++++++.+|++.|=+..-..+|.-++-.-+.+ ..++.-...+-+..-.|-.+.+--+.|
T Consensus       154 e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i~~~e~-k~AI~Dlk~askLs~DnTe~~ykis~L  232 (504)
T KOG0624|consen  154 EHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYIAEGEP-KKAIHDLKQASKLSQDNTEGHYKISQL  232 (504)
T ss_pred             HHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHHhcCcH-HHHHHHHHHHHhccccchHHHHHHHHH
Confidence            3344454444432 36788999999999999999999989998887766655 445555455555555555665555555


Q ss_pred             HHHhh
Q 005381          185 LSNLL  189 (699)
Q Consensus       185 l~~l~  189 (699)
                      +..++
T Consensus       233 ~Y~vg  237 (504)
T KOG0624|consen  233 LYTVG  237 (504)
T ss_pred             HHhhh
Confidence            55554

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.58  E-value=0.0011  Score=54.84  Aligned_cols=99  Identities=21%  Similarity=0.165  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +|..++-++... +.+++++..+.++++.+|.+..+|..++.+....+.+ ++.++++.+++..+|.+..+|...+.+..
T Consensus         2 ~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKL-GDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKY-EEALEDYEKALELDPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHH-hcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhCCCcchhHHHHHHHHHH
Confidence            455666666554 5788899999999998888888888888888888777 67888888889888888888888887776


Q ss_pred             HhhhhhccCccchhchHHHHHHHHHHHHHhCCC
Q 005381          187 NLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       187 ~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~  219 (699)
                      ..+.            ++++.+.+..++..+|.
T Consensus        80 ~~~~------------~~~a~~~~~~~~~~~~~  100 (100)
T cd00189          80 KLGK------------YEEALEAYEKALELDPN  100 (100)
T ss_pred             HHHh------------HHHHHHHHHHHHccCCC
Confidence            6543            67788888888877763

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.58  E-value=0.00075  Score=55.82  Aligned_cols=98  Identities=17%  Similarity=0.052  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh
Q 005381           61 AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF  140 (699)
Q Consensus        61 aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~  140 (699)
                      +|..++.++...+.            +++++..++.++..+|++..+|..++.++... +.+++++++++++++..|.+.
T Consensus         2 ~~~~~a~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~a~~~~~~~~~~~~~~~   68 (100)
T cd00189           2 ALLNLGNLYYKLGD------------YDEALEYYEKALELDPDNADAYYNLAAAYYKL-GKYEEALEDYEKALELDPDNA   68 (100)
T ss_pred             HHHHHHHHHHHHhc------------HHHHHHHHHHHHhcCCccHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCCCcch
Confidence            45566666655543            89999999999999999999999999999876 588999999999999999999


Q ss_pred             hhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc
Q 005381          141 HAWNYRRFVAASMNRSEEDELKYTEDMICNNF  172 (699)
Q Consensus       141 haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~  172 (699)
                      .+|...+.+....+.+ ++..+++.++++.+|
T Consensus        69 ~~~~~~~~~~~~~~~~-~~a~~~~~~~~~~~~   99 (100)
T cd00189          69 KAYYNLGLAYYKLGKY-EEALEAYEKALELDP   99 (100)
T ss_pred             hHHHHHHHHHHHHHhH-HHHHHHHHHHHccCC
Confidence            9999999888888876 677888888888776

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.56  E-value=0.00078  Score=74.96  Aligned_cols=104  Identities=13%  Similarity=0.206  Sum_probs=92.9

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.|++++++++.||..+|.+|..|+.-|-.|.+. .+.++++..|.+|+++.|....+|+.-+...-++|-| .++.+++
T Consensus       444 ~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~-~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~y-kEA~~hl  521 (579)
T KOG1125|consen  444 GEFDRAVDCFEAALQVKPNDYLLWNRLGATLANG-NRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAY-KEAVKHL  521 (579)
T ss_pred             hHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCC-cccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhH-HHHHHHH
Confidence            3499999999999999999999999999999977 5889999999999999999999999999999999999 7899999


Q ss_pred             HHHHHhccC----------chHHHHHHHHHHHHhhh
Q 005381          165 EDMICNNFS----------NYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       165 ~~~I~~n~s----------N~SAW~~R~~ll~~l~~  190 (699)
                      -.+|.....          +...|.+.+..|..+.+
T Consensus       522 L~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~  557 (579)
T KOG1125|consen  522 LEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNR  557 (579)
T ss_pred             HHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCC
Confidence            999998766          23589999877776644

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.55  E-value=0.0018  Score=57.82  Aligned_cols=100  Identities=13%  Similarity=0.025  Sum_probs=70.5

Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhCCCc---hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC
Q 005381           28 QSQFLHNHHNHIYSKEAVELSTKLLETNPEL---YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS  104 (699)
Q Consensus        28 ~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~---ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs  104 (699)
                      ..........|.+ ++|++.+.+++..+|++   ..++...+.++...++            +++++..++.++..+|.+
T Consensus         6 ~~~~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~~~~~~p~~   72 (119)
T TIGR02795         6 YDAALLVLKAGDY-ADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGK------------YADAAKAFLAVVKKYPKS   72 (119)
T ss_pred             HHHHHHHHHcCCH-HHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhcc------------HHHHHHHHHHHHHHCCCC
Confidence            3344444556666 67888888888888776   4667777777776654            777888888888777775


Q ss_pred             ---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChh
Q 005381          105 ---YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH  141 (699)
Q Consensus       105 ---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~h  141 (699)
                         ..+|...++++.+. +.+++++..++++++.+|.+-.
T Consensus        73 ~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~~~~~~p~~~~  111 (119)
T TIGR02795        73 PKAPDALLKLGMSLQEL-GDKEKAKATLQQVIKRYPGSSA  111 (119)
T ss_pred             CcccHHHHHHHHHHHHh-CChHHHHHHHHHHHHHCcCChh
Confidence               45677777777766 4777788888888888777643

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

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

Probab=97.52  E-value=2.2e-05  Score=82.48  Aligned_cols=75  Identities=19%  Similarity=0.115  Sum_probs=42.6

Q ss_pred             CCCccccccccccccCccchhhhhHHHHHHHHHHHHhhhh-ccccccccccHHHHHhhcccCCCCCCCcCCCcHHHHHhc
Q 005381          407 SSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLS-LINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELY  485 (699)
Q Consensus       407 ~~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~-~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~~~~~l~~l  485 (699)
                      .+++.++ +||=+|--++     ..+.+-.-|.+.++|.. .-.+.++.........+           ..+..+++...
T Consensus        29 ~~s~~~l-~lsgnt~G~E-----Aa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~-----------L~~l~~aL~~~   91 (382)
T KOG1909|consen   29 MDSLTKL-DLSGNTFGTE-----AARAIAKVLASKKELREVNLSDMFTGRLKDEIPEA-----------LKMLSKALLGC   91 (382)
T ss_pred             cCceEEE-eccCCchhHH-----HHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHH-----------HHHHHHHHhcC
Confidence            3455566 6666666666     55667777777777775 11112221111111111           23345566667


Q ss_pred             ccccccCCCCCcc
Q 005381          486 NDLMRLDPTHVQY  498 (699)
Q Consensus       486 ~~L~~LDls~n~~  498 (699)
                      .+|++||+|.|.+
T Consensus        92 ~~L~~ldLSDNA~  104 (382)
T KOG1909|consen   92 PKLQKLDLSDNAF  104 (382)
T ss_pred             CceeEeecccccc
Confidence            7999999999985

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.47  E-value=0.0017  Score=74.46  Aligned_cols=125  Identities=18%  Similarity=0.106  Sum_probs=108.5

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      ...+++|..+..++=.+.|-....|+-||.++...+.            ..++...|..++..||....+-.--+-++.+
T Consensus       663 ~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~------------~~EA~~af~~Al~ldP~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  663 SGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQ------------LEEAKEAFLVALALDPDHVPSMTALAELLLE  730 (799)
T ss_pred             cCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHh------------hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            4446789999999999999999999999988876654            8999999999999999999999999998887


Q ss_pred             CC-CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          118 GH-SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       118 ~~-~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      .+ ......-.+...++++||.|..||+|-|-+++..|.. +++-+|++.++...+++.
T Consensus       731 ~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~-~~Aaecf~aa~qLe~S~P  788 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDS-KQAAECFQAALQLEESNP  788 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccch-HHHHHHHHHHHhhccCCC
Confidence            64 3344555588889999999999999999999999998 688999999999888764

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.47  E-value=0.0048  Score=70.64  Aligned_cols=147  Identities=10%  Similarity=-0.021  Sum_probs=100.1

Q ss_pred             HhCCCchHHHHH--HHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC---CC----ChH
Q 005381           53 ETNPELYTAWNY--RKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG---HS----SID  123 (699)
Q Consensus        53 ~~nP~~ytaWn~--R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~---~~----~~~  123 (699)
                      ..-|.+..||-.  |++-.....     +    ...+..++++++++++.+|.+..+|..+.++....   .+    .+.
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~-----~----~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~  401 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSG-----D----AKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLA  401 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcC-----C----HHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHH
Confidence            455666666663  443222211     1    24578999999999999999999998877755421   11    123


Q ss_pred             HHHHHHHHHHHh--CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhc
Q 005381          124 NELRLLDKFQKA--DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEK  201 (699)
Q Consensus       124 ~EL~~~~k~L~~--dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~  201 (699)
                      ...+...+++.+  ++....++.=.+.+....+.+ +++...++++++.+|+ .-+|..++.+....|+           
T Consensus       402 ~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~-~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~-----------  468 (517)
T PRK10153        402 ALSTELDNIVALPELNVLPRIYEILAVQALVKGKT-DEAYQAINKAIDLEMS-WLNYVLLGKVYELKGD-----------  468 (517)
T ss_pred             HHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCC-----------
Confidence            444455555553  666655444334443344555 6788888999999994 6789999888777655           


Q ss_pred             hHHHHHHHHHHHHHhCCCCch
Q 005381          202 VLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       202 ~~~eeL~~~~~ai~~dP~d~S  222 (699)
                       .+++++.+.+|+.++|.++.
T Consensus       469 -~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        469 -NRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             -HHHHHHHHHHHHhcCCCCch
Confidence             79999999999999999985

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.47  E-value=0.0056  Score=73.62  Aligned_cols=136  Identities=10%  Similarity=0.045  Sum_probs=102.8

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHH--HHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYR--KLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R--~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ..|.+ ++|+..+++++  +|++....-.+  ..+....+            .+.++++.++++++.+|++..++..-.-
T Consensus        80 ~~G~~-~~A~~~~eka~--~p~n~~~~~llalA~ly~~~g------------dyd~Aiely~kaL~~dP~n~~~l~gLa~  144 (822)
T PRK14574         80 WAGRD-QEVIDVYERYQ--SSMNISSRGLASAARAYRNEK------------RWDQALALWQSSLKKDPTNPDLISGMIM  144 (822)
T ss_pred             HcCCc-HHHHHHHHHhc--cCCCCCHHHHHHHHHHHHHcC------------CHHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            33555 79999999998  66655555555  33444443            3889999999999999999999875533


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      +.... +..+++++.++++...+|.+... -.+.++....+.. .++++.++++++.+|.|..+..-+..++..++
T Consensus       145 ~y~~~-~q~~eAl~~l~~l~~~dp~~~~~-l~layL~~~~~~~-~~AL~~~ekll~~~P~n~e~~~~~~~~l~~~~  217 (822)
T PRK14574        145 TQADA-GRGGVVLKQATELAERDPTVQNY-MTLSYLNRATDRN-YDALQASSEAVRLAPTSEEVLKNHLEILQRNR  217 (822)
T ss_pred             HHhhc-CCHHHHHHHHHHhcccCcchHHH-HHHHHHHHhcchH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            33444 57889999999999999997776 6667777666666 35999999999999999999888887777664

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.46  E-value=0.0026  Score=60.52  Aligned_cols=82  Identities=6%  Similarity=-0.072  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      ++++..+|..+...+|.++..|..-+-+.+.. +.|++++.+|.+++.++|.|+.+-.|-+-+.-.+|.. +...+.+..
T Consensus        51 l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~-g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~-~~A~~aF~~  128 (157)
T PRK15363         51 FAGAARLFQLLTIYDAWSFDYWFRLGECCQAQ-KHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACDNV-CYAIKALKA  128 (157)
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH-hhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCH-HHHHHHHHH
Confidence            66666677766677777777776666666655 4666677777777777776666666666666666665 445555555


Q ss_pred             HHHh
Q 005381          167 MICN  170 (699)
Q Consensus       167 ~I~~  170 (699)
                      +|..
T Consensus       129 Ai~~  132 (157)
T PRK15363        129 VVRI  132 (157)
T ss_pred             HHHH
Confidence            5554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.41  E-value=0.0037  Score=60.51  Aligned_cols=134  Identities=10%  Similarity=0.003  Sum_probs=102.8

Q ss_pred             hHHHHHHHHHHHHHhCCCC--hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh---hhhhHHHHHHHhcCCChHHH
Q 005381           86 ILDEELRVVESALRQNFKS--YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF---HAWNYRRFVAASMNRSEEDE  160 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKs--y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~---haW~yR~~vl~~l~~~~e~E  160 (699)
                      .+....+.+...++.+++.  ..+|+..+.+.... +.+++++..+.+++.+.|..+   .+|...+.+....+.+ +++
T Consensus        14 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~-g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~-~eA   91 (168)
T CHL00033         14 TFTIVADILLRILPTTSGEKEAFTYYRDGMSAQSE-GEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEH-TKA   91 (168)
T ss_pred             ccccchhhhhHhccCCchhHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCH-HHH
Confidence            3555556666666666665  67778888877766 689999999999999877643   4889999999999998 689


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHHhhhhh--ccCccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          161 LKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK--VEGFVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       161 L~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~--~~~~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                      ++++.+++..+|.+..+|.+++.+...+++..  ..........++++++.+.+++..+|.+.
T Consensus        92 ~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~  154 (168)
T CHL00033         92 LEYYFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNY  154 (168)
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccH
Confidence            99999999999999999999999988665321  11122233456788899999999999654

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

Probab=97.39  E-value=0.0069  Score=68.36  Aligned_cols=180  Identities=17%  Similarity=0.205  Sum_probs=128.1

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      +||+++.+.+|+..|++.-.|...|.+..+++.            ++.+-+.|..-++..|.+...|---.-+=++. +.
T Consensus       668 eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~------------ie~aR~aY~~G~k~cP~~ipLWllLakleEk~-~~  734 (913)
T KOG0495|consen  668 EEALRLLEEALKSFPDFHKLWLMLGQIEEQMEN------------IEMAREAYLQGTKKCPNSIPLWLLLAKLEEKD-GQ  734 (913)
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHH------------HHHHHHHHHhccccCCCCchHHHHHHHHHHHh-cc
Confidence            799999999999999999999999999988854            67777778888888888888875544444433 35


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh--------c
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK--------V  193 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~--------~  193 (699)
                      +-++-..++++.-.+|+|.--|--..-+=.+.|...+ +-....+++..-|++--.|.---++..+-.+..        .
T Consensus       735 ~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~-a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkc  813 (913)
T KOG0495|consen  735 LVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQ-AELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKC  813 (913)
T ss_pred             hhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHH-HHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhc
Confidence            6677777888888888888877766555555565533 333447777778888877776666555433321        0


Q ss_pred             cCcc----------chhchHHHHHHHHHHHHHhCCC--CchhHHHHHHHHcCcC
Q 005381          194 EGFV----------SKEKVLPDEYEFVHQAIFTDPD--DQSGWFYHLWLLDQTV  235 (699)
Q Consensus       194 ~~~~----------~~~~~~~eeL~~~~~ai~~dP~--d~SaW~Y~~~Ll~~~~  235 (699)
                      ....          -.+..++.+.+.|.+|+..||+  |.-+|||+--|...++
T Consensus       814 e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~e  867 (913)
T KOG0495|consen  814 EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTE  867 (913)
T ss_pred             cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCH
Confidence            0000          1234578999999999999997  6666777777776644

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

Probab=97.39  E-value=2.3e-05  Score=82.30  Aligned_cols=69  Identities=26%  Similarity=0.213  Sum_probs=34.3

Q ss_pred             CCCCCcccCEEEccCCCCCC--CcC----CccccccceeecccCCCCCCCC------------Ccccccccccccccccc
Q 005381          550 SFDKLLWVQMLDLSHNELRS--IEG----LEALQLLSCLNLSNNILGSFTA------------LEPIRQLKSLRALNISY  611 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~--l~~----l~~L~~L~~L~Ls~N~l~~l~~------------~~~l~~l~~L~~L~Ls~  611 (699)
                      .+..++.|+.||||.|-++.  +++    +..+..|+.|.|++|.+.....            ....+.-+.|+++..++
T Consensus        87 aL~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~r  166 (382)
T KOG1909|consen   87 ALLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGR  166 (382)
T ss_pred             HHhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeec
Confidence            34445566666666666632  222    4555556666666665533210            01122234566666666


Q ss_pred             ccCCCCC
Q 005381          612 NEIGAHS  618 (699)
Q Consensus       612 N~I~~lp  618 (699)
                      |++..-+
T Consensus       167 Nrlen~g  173 (382)
T KOG1909|consen  167 NRLENGG  173 (382)
T ss_pred             ccccccc
Confidence            6665543

>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=97.38  E-value=6.6e-05  Score=55.92  Aligned_cols=40  Identities=35%  Similarity=0.419  Sum_probs=33.7

Q ss_pred             cccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          577 QLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       577 ~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      ++|+.|++++|+|+.+  +..++.|++|+.|++++|+|+.++
T Consensus         1 ~~L~~L~l~~N~i~~l--~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQITDL--PPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-SSH--GGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCCCCccc--CchHhCCCCCCEEEecCCCCCCCc
Confidence            4799999999999987  344899999999999999999875

...

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

Probab=97.33  E-value=0.011  Score=69.69  Aligned_cols=179  Identities=14%  Similarity=0.095  Sum_probs=144.3

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHH-HHhhhccC-----------------------------------CCCchhhh
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLA-VQHKLTEN-----------------------------------DSDPDSLK   84 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~-l~~l~~~~-----------------------------------~~~~~~~~   84 (699)
                      ..+|......++.+|.++.++|-+-|.+ +.......                                   ..+|+...
T Consensus       546 ~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~k  625 (1018)
T KOG2002|consen  546 LYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEK  625 (1018)
T ss_pred             cHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHH
Confidence            3799999999999999999999999843 32221110                                   01344566


Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.++.++.+|.++|+.+|||-.|=+.-+.||... +.+.+++..+.++.+--..+..+|-+-+-|+-..+.| ..+++-|
T Consensus       626 k~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~k-g~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy-~~AIqmY  703 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEK-GRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQY-RLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHHhcCcchhhhccchhhhhhhc-cCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHH-HHHHHHH
Confidence            7789999999999999999999999999999866 6899999999998887778999999999998888888 5788888


Q ss_pred             HHHHHhcc--CchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          165 EDMICNNF--SNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       165 ~~~I~~n~--sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      ...++...  .++...||.+.++...+            .|+++.+....|+...|.|.+.=|-+..++.+
T Consensus       704 e~~lkkf~~~~~~~vl~~Lara~y~~~------------~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kk  762 (1018)
T KOG2002|consen  704 ENCLKKFYKKNRSEVLHYLARAWYEAG------------KLQEAKEALLKARHLAPSNTSVKFNLALVLKK  762 (1018)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHhh------------hHHHHHHHHHHHHHhCCccchHHhHHHHHHHH
Confidence            88887643  34566777776665543            38999999999999999999998888888765

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.29  E-value=0.0028  Score=60.39  Aligned_cols=102  Identities=7%  Similarity=-0.063  Sum_probs=89.1

Q ss_pred             CCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHH
Q 005381          102 FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNR  181 (699)
Q Consensus       102 PKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R  181 (699)
                      ++.-..-+-.+..+.+. ++++++..++..+..+||.|+..|..-+-+.+.++.+ +++++.+.+++..+|+|+.+..|.
T Consensus        32 ~~~l~~lY~~A~~ly~~-G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~-~~AI~aY~~A~~L~~ddp~~~~~a  109 (157)
T PRK15363         32 TQPLNTLYRYAMQLMEV-KEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHW-GEAIYAYGRAAQIKIDAPQAPWAA  109 (157)
T ss_pred             HHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhH-HHHHHHHHHHHhcCCCCchHHHHH
Confidence            44445555666667666 6999999999999999999999999999999999999 789999999999999999999999


Q ss_pred             HHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhC
Q 005381          182 SLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTD  217 (699)
Q Consensus       182 ~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~d  217 (699)
                      +..+..++.            .+.+.++++.||...
T Consensus       110 g~c~L~lG~------------~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        110 AECYLACDN------------VCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHcCC------------HHHHHHHHHHHHHHh
Confidence            999998866            578888888888665

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.24  E-value=0.018  Score=63.48  Aligned_cols=121  Identities=12%  Similarity=0.031  Sum_probs=84.3

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      |.-..+|+-+.......+.            +++++..++.+++..|+|...|..+.-++-.. ....++++.+++++..
T Consensus       303 ~~~~aa~YG~A~~~~~~~~------------~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~-nk~~~A~e~~~kal~l  369 (484)
T COG4783         303 RGGLAAQYGRALQTYLAGQ------------YDEALKLLQPLIAAQPDNPYYLELAGDILLEA-NKAKEAIERLKKALAL  369 (484)
T ss_pred             ccchHHHHHHHHHHHHhcc------------cchHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CChHHHHHHHHHHHhc
Confidence            6666677666554444432            66777777777777777777777777777655 3667777777777777


Q ss_pred             CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          136 DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       136 dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      +|...-.|...+-++-+.|.+ .+.+....+.+..+|.|--.|.+.......++.
T Consensus       370 ~P~~~~l~~~~a~all~~g~~-~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~  423 (484)
T COG4783         370 DPNSPLLQLNLAQALLKGGKP-QEAIRILNRYLFNDPEDPNGWDLLAQAYAELGN  423 (484)
T ss_pred             CCCccHHHHHHHHHHHhcCCh-HHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCc
Confidence            777777777777777777777 466677777777777777777777776666554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.23  E-value=0.0045  Score=59.93  Aligned_cols=120  Identities=15%  Similarity=0.119  Sum_probs=91.6

Q ss_pred             HHHHHHHHHHHhCCCc--hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh---HHHHHHHHHHHh
Q 005381           43 EAVELSTKLLETNPEL--YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY---GAWHHRKWILSK  117 (699)
Q Consensus        43 eaL~~~~~~L~~nP~~--ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy---~aW~hR~w~L~~  117 (699)
                      .+.+....++..++..  ..+|+..+.+....+.            +++++..+.+++...|+..   .+|...+.++..
T Consensus        17 ~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~------------~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~   84 (168)
T CHL00033         17 IVADILLRILPTTSGEKEAFTYYRDGMSAQSEGE------------YAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTS   84 (168)
T ss_pred             cchhhhhHhccCCchhHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhccccchhhHHHHHHHHHHHHH
Confidence            4444455555566666  5677777777776654            8999999999999888754   488888888887


Q ss_pred             CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH-------hcCCCh------HHHHHHHHHHHHhccCch
Q 005381          118 GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA-------SMNRSE------EDELKYTEDMICNNFSNY  175 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~-------~l~~~~------e~EL~~~~~~I~~n~sN~  175 (699)
                      . +.+++++++++++++++|.+..+|...+.+..       .+|.+.      .+.++.+.+++..+|.++
T Consensus        85 ~-g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~  154 (168)
T CHL00033         85 N-GEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNY  154 (168)
T ss_pred             c-CCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccH
Confidence            7 69999999999999999999999999999998       444441      244555666777777665

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.23  E-value=0.0013  Score=52.75  Aligned_cols=53  Identities=26%  Similarity=0.323  Sum_probs=45.2

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      .+++++..++.+++.+|++..+|...++++... +.+++++..++++++.+|.|
T Consensus        12 ~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~-g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen   12 DYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQ-GRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHT-T-HHHHHHHHHHHHHHSTT-
T ss_pred             CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCcCC
Confidence            488999999999999999999999999999877 58899999999999999876

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.22  E-value=0.008  Score=53.57  Aligned_cols=90  Identities=10%  Similarity=-0.025  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC---hhhhhHHHHHHHhcCCChHH
Q 005381           86 ILDEELRVVESALRQNFKS---YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN---FHAWNYRRFVAASMNRSEED  159 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKs---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN---~haW~yR~~vl~~l~~~~e~  159 (699)
                      .+++++..++.++..+|++   ..++...+.++.+. +.+++++..+++++..+|.+   ..+|...++++..++.+ ++
T Consensus        17 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~-~~   94 (119)
T TIGR02795        17 DYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQ-GKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDK-EK   94 (119)
T ss_pred             CHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCCh-HH
Confidence            4899999999999999987   56888888888876 68999999999999999986   45788889999999988 67


Q ss_pred             HHHHHHHHHHhccCchHH
Q 005381          160 ELKYTEDMICNNFSNYSA  177 (699)
Q Consensus       160 EL~~~~~~I~~n~sN~SA  177 (699)
                      .++++.++++.+|.+-.+
T Consensus        95 A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        95 AKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHHHHHHHHHHCcCChhH
Confidence            889999999999987643

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.22  E-value=0.0041  Score=72.98  Aligned_cols=160  Identities=10%  Similarity=0.082  Sum_probs=92.4

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      +..++..+-++|.++|....+|-+-|.+....-            +...+-.+|++|...+|-.+.+|-.-.-+.-.. +
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~------------Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~-~  540 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSD------------DMKRAKKCFDKAFELDATDAEAAAASADTYAEE-S  540 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH------------HHHHHHHHHHHHhcCCchhhhhHHHHHHHhhcc-c
Confidence            678888888888888888888888887776552            366777788888888888888877666555543 3


Q ss_pred             ChHHHHHHHHHHHHhCCCCh--hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccc
Q 005381          121 SIDNELRLLDKFQKADSRNF--HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVS  198 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~--haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~  198 (699)
                      .|+.+++.|-++-+.+|.--  ..|.+||-..-..+.. .+.+..+..+++.+|.++.+|--.+.+...-++        
T Consensus       541 ~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~-h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGr--------  611 (1238)
T KOG1127|consen  541 TWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNL-HGAVCEFQSALRTDPKDYNLWLGLGEAYPESGR--------  611 (1238)
T ss_pred             cHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccch-hhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCc--------
Confidence            55555555555555544333  2333333222111111 234444455555555555555555544443322        


Q ss_pred             hhchHHHHHHHHHHHHHhCCCCchhHHH
Q 005381          199 KEKVLPDEYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       199 ~~~~~~eeL~~~~~ai~~dP~d~SaW~Y  226 (699)
                          |..++..+++|..++|.+--+=|+
T Consensus       612 ----y~~AlKvF~kAs~LrP~s~y~~fk  635 (1238)
T KOG1127|consen  612 ----YSHALKVFTKASLLRPLSKYGRFK  635 (1238)
T ss_pred             ----eehHHHhhhhhHhcCcHhHHHHHH
Confidence                445555555555555554444333

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.19  E-value=0.00098  Score=53.51  Aligned_cols=62  Identities=21%  Similarity=0.180  Sum_probs=54.2

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      .......|++ ++|+..+.+++..+|++..+|...+.++...++            +++++..+++++..+|.+.
T Consensus         4 a~~~~~~g~~-~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    4 ARALYQQGDY-DEAIAAFEQALKQDPDNPEAWYLLGRILYQQGR------------YDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHCTHH-HHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-------------HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHcCCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCcCCC
Confidence            3445667787 899999999999999999999999999998866            9999999999999999874

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.19  E-value=0.0041  Score=70.20  Aligned_cols=127  Identities=13%  Similarity=0.182  Sum_probs=111.2

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.|..-|.+.+.+|+..|+....-.-+|-.|..+ +.-+++.++|...+..|++..-||+=-|.+.+.-+.| .++++++
T Consensus        21 kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~l-g~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y-~eaiKcy   98 (700)
T KOG1156|consen   21 KQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCL-GKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKY-DEAIKCY   98 (700)
T ss_pred             HHHHhHHHHHHHHHHhCCccchhHHhccchhhcc-cchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhH-HHHHHHH
Confidence            4588999999999999999999999999999987 5889999999999999999999999999998888888 5799999


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      ..++...+.|-+.|.-.+.|-.+|+.            |+--++.=...+..+|.....|.
T Consensus        99 ~nAl~~~~dN~qilrDlslLQ~QmRd------------~~~~~~tr~~LLql~~~~ra~w~  147 (700)
T KOG1156|consen   99 RNALKIEKDNLQILRDLSLLQIQMRD------------YEGYLETRNQLLQLRPSQRASWI  147 (700)
T ss_pred             HHHHhcCCCcHHHHHHHHHHHHHHHh------------hhhHHHHHHHHHHhhhhhHHHHH
Confidence            99999999999999999988888755            44455555566677777777775

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

Probab=97.16  E-value=0.012  Score=65.58  Aligned_cols=179  Identities=14%  Similarity=0.066  Sum_probs=131.0

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC---------------CCch-------hhhhhHHHHHHHHH
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND---------------SDPD-------SLKSILDEELRVVE   95 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~---------------~~~~-------~~~~~~~eEL~~~~   95 (699)
                      +.+ .||=+++.++-.++|.+..||-.-|..+.-.+..+.               .-|-       .....++-+=.|+.
T Consensus       326 ~k~-seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~  404 (611)
T KOG1173|consen  326 GKY-SEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFK  404 (611)
T ss_pred             cCc-HHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHH
Confidence            444 588888899999999999999888877654432100               0010       00123455556777


Q ss_pred             HHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh-------CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381           96 SALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA-------DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus        96 ~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~-------dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      .|+.++|..+-+-|.-+-+.... ..|.+|+..+.+++..       -++-...|..-|-+.++++.+ ++++.++.+++
T Consensus       405 ~A~ai~P~Dplv~~Elgvvay~~-~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~-~eAI~~~q~aL  482 (611)
T KOG1173|consen  405 QALAIAPSDPLVLHELGVVAYTY-EEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKY-EEAIDYYQKAL  482 (611)
T ss_pred             HHHhcCCCcchhhhhhhheeehH-hhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhH-HHHHHHHHHHH
Confidence            78888888877777766666544 4788899999888831       122334588889999999999 78999999999


Q ss_pred             HhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          169 CNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       169 ~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      ...|.|.++..-.+++-..++.            ++.|++.+++|+.++|+|+.+=--+.-.+
T Consensus       483 ~l~~k~~~~~asig~iy~llgn------------ld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  483 LLSPKDASTHASIGYIYHLLGN------------LDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HcCCCchhHHHHHHHHHHHhcC------------hHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            9999999998888888776644            79999999999999999987755444333

>TIGR00540 hemY_coli hemY protein

Probab=97.12  E-value=0.038  Score=61.63  Aligned_cols=184  Identities=13%  Similarity=-0.066  Sum_probs=128.8

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccC-------------CCCchhhh----hh----HH-----
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEN-------------DSDPDSLK----SI----LD-----   88 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~-------------~~~~~~~~----~~----~~-----   88 (699)
                      ...|.+ ++|++..+.++..+|++..++..-+.+....+.-.             ..+++...    ..    +.     
T Consensus       164 l~~~~~-~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~  242 (409)
T TIGR00540       164 LAQNEL-HAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMAD  242 (409)
T ss_pred             HHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            345666 79999999999999999999887777665554311             01111110    00    11     


Q ss_pred             HHHHHHHHHHHhCC----CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhh--hHHHHHHHhcCCChHHHHH
Q 005381           89 EELRVVESALRQNF----KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAW--NYRRFVAASMNRSEEDELK  162 (699)
Q Consensus        89 eEL~~~~~~L~~nP----Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW--~yR~~vl~~l~~~~e~EL~  162 (699)
                      +..+.+..+....|    ++..++..-.-.+... +.++++++.++++++.+|.+....  ..+....-.-+.. .+.++
T Consensus       243 ~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~-g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~-~~~~~  320 (409)
T TIGR00540       243 EGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDC-DDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDN-EKLEK  320 (409)
T ss_pred             cCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHC-CChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCCh-HHHHH
Confidence            11235556666677    5888888877777666 589999999999999999987642  4444433222333 67888


Q ss_pred             HHHHHHHhccCch--HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHH--HHHHhCCCCchhHHHHHHHHcCc
Q 005381          163 YTEDMICNNFSNY--SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVH--QAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       163 ~~~~~I~~n~sN~--SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~--~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      ..+++++.+|.|.  ......+++..+.+.            ++++.+++.  .++..+|+++... .+.-++.+.
T Consensus       321 ~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~------------~~~A~~~le~a~a~~~~p~~~~~~-~La~ll~~~  383 (409)
T TIGR00540       321 LIEKQAKNVDDKPKCCINRALGQLLMKHGE------------FIEAADAFKNVAACKEQLDANDLA-MAADAFDQA  383 (409)
T ss_pred             HHHHHHHhCCCChhHHHHHHHHHHHHHccc------------HHHHHHHHHHhHHhhcCCCHHHHH-HHHHHHHHc
Confidence            9999999999999  777788888876643            899999999  6888999988866 445555443

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

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.11  E-value=0.011  Score=67.72  Aligned_cols=128  Identities=9%  Similarity=0.002  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ--NFKSYGAWHHRKWILSKGH  119 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~--nPKsy~aW~hR~w~L~~~~  119 (699)
                      ++|+++++++++.+|++..+|-.+..+......   -++ .....+....+..++++..  +|....++.-.+.+... .
T Consensus       359 ~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~---~~~-~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~-~  433 (517)
T PRK10153        359 NKASDLLEEILKSEPDFTYAQAEKALADIVRHS---QQP-LDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALV-K  433 (517)
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHh---cCC-ccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHh-c
Confidence            689999999999999999999987765433321   111 1112345556666666664  55555444433333332 3


Q ss_pred             CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchH
Q 005381          120 SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYS  176 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~S  176 (699)
                      ++++++...++++++++| +.-+|.+.+.+....|++ +++++.+.+++..+|.+..
T Consensus       434 g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~-~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        434 GKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDN-RLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             CCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhcCCCCch
Confidence            689999999999999999 688999999999999999 7899999999999999884

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.01  E-value=0.075  Score=58.69  Aligned_cols=119  Identities=18%  Similarity=0.174  Sum_probs=99.1

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      ..+....+++ ++|+..+..++...|++...|-.+..++....+            ..++++.+++++..+|.++..|..
T Consensus       313 A~~~~~~~~~-d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk------------~~~A~e~~~kal~l~P~~~~l~~~  379 (484)
T COG4783         313 ALQTYLAGQY-DEALKLLQPLIAAQPDNPYYLELAGDILLEANK------------AKEAIERLKKALALDPNSPLLQLN  379 (484)
T ss_pred             HHHHHHhccc-chHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------hHHHHHHHHHHHhcCCCccHHHHH
Confidence            3445566777 588888999999999999999999988887765            789999999999999999999999


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHH
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKY  163 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~  163 (699)
                      .+-++-+. +.+.+++..++..+..+|.|...|+|-.-....+|...++...+
T Consensus       380 ~a~all~~-g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~  431 (484)
T COG4783         380 LAQALLKG-GKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLAR  431 (484)
T ss_pred             HHHHHHhc-CChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHH
Confidence            99888877 57889999999999999999999999988888888775444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.00  E-value=0.0027  Score=69.79  Aligned_cols=70  Identities=13%  Similarity=0.007  Sum_probs=52.4

Q ss_pred             hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHH---HHHHHHHHHhCCCChHHHHHHHH
Q 005381           54 TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGA---WHHRKWILSKGHSSIDNELRLLD  130 (699)
Q Consensus        54 ~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~a---W~hR~w~L~~~~~~~~~EL~~~~  130 (699)
                      .+|+++.+|+.++.++..+++            |++++..++++|+++|.+..+   |++++.++..+ +.+++++++++
T Consensus        70 ~dP~~a~a~~NLG~AL~~lGr------------yeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~L-Gr~dEAla~Lr  136 (453)
T PLN03098         70 ADVKTAEDAVNLGLSLFSKGR------------VKDALAQFETALELNPNPDEAQAAYYNKACCHAYR-EEGKKAADCLR  136 (453)
T ss_pred             CCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            577777777777777777755            777777777777777777743   77777777766 57777777777


Q ss_pred             HHHHhC
Q 005381          131 KFQKAD  136 (699)
Q Consensus       131 k~L~~d  136 (699)
                      +++++.
T Consensus       137 rALels  142 (453)
T PLN03098        137 TALRDY  142 (453)
T ss_pred             HHHHhc
Confidence            777763

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.92  E-value=0.0032  Score=69.32  Aligned_cols=74  Identities=7%  Similarity=0.023  Sum_probs=66.8

Q ss_pred             hCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh---hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          100 QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF---HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       100 ~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~---haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      .+|+.+.+|++++.++... ++|++++..|+++|+++|.+.   .+|++++.++..+|.. +++++++.++|+.++..+
T Consensus        70 ~dP~~a~a~~NLG~AL~~l-GryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~-dEAla~LrrALelsn~~f  146 (453)
T PLN03098         70 ADVKTAEDAVNLGLSLFSK-GRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEG-KKAADCLRTALRDYNLKF  146 (453)
T ss_pred             CCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhcchhH
Confidence            5999999999999999987 699999999999999999998   4599999999999998 789999999999843334

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

Probab=96.91  E-value=0.0098  Score=69.96  Aligned_cols=136  Identities=14%  Similarity=0.089  Sum_probs=118.2

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      -+.|+++|.++|..+|++..|=|.-+.||.+-++            +.++++++.++-.--.+++.+|-.-+.++-.. +
T Consensus       628 ~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~------------~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~-~  694 (1018)
T KOG2002|consen  628 QEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGR------------FSEARDIFSQVREATSDFEDVWLNLAHCYVEQ-G  694 (1018)
T ss_pred             HHHHHHHHHHHHhcCcchhhhccchhhhhhhccC------------chHHHHHHHHHHHHHhhCCceeeeHHHHHHHH-H
Confidence            4699999999999999999999999999998865            89999999999987779999999998888766 5


Q ss_pred             ChHHHHHHHHHHHHhC--CCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          121 SIDNELRLLDKFQKAD--SRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~d--prN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      .|..+++.|+.+++..  ..+.+.-+|-+-+.-..+.+ .+..++..+++...|+|++.-++++.++.++..
T Consensus       695 qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~-~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~  765 (1018)
T KOG2002|consen  695 QYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKL-QEAKEALLKARHLAPSNTSVKFNLALVLKKLAE  765 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhH-HHHHHHHHHHHHhCCccchHHhHHHHHHHHHHH
Confidence            8999999999999854  34567777777666666666 788899999999999999999999999998864

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.0045  Score=66.56  Aligned_cols=138  Identities=15%  Similarity=0.093  Sum_probs=110.4

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      |.+.++=.++..|+..++.            +.+++..+-.+++.++++..+-+-|+-++... ...+.++..++++|++
T Consensus       166 pac~~a~~lka~cl~~~~~------------~~~a~~ea~~ilkld~~n~~al~vrg~~~yy~-~~~~ka~~hf~qal~l  232 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGD------------YDEAQSEAIDILKLDATNAEALYVRGLCLYYN-DNADKAINHFQQALRL  232 (486)
T ss_pred             chhhHHHHhhhhhhhhccc------------chhHHHHHHHHHhcccchhHHHHhcccccccc-cchHHHHHHHhhhhcc
Confidence            6667777778888887754            88999999999999999999999999999865 5789999999999999


Q ss_pred             CCCChhh------------hhHHHHHHHhcCCChHHHHHHHHHHHHhccCch----HHHHHHHHHHHHhhhhhccCccch
Q 005381          136 DSRNFHA------------WNYRRFVAASMNRSEEDELKYTEDMICNNFSNY----SAWHNRSLLLSNLLKRKVEGFVSK  199 (699)
Q Consensus       136 dprN~ha------------W~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~----SAW~~R~~ll~~l~~~~~~~~~~~  199 (699)
                      ||....+            |.-|+--.-+-|.+ ...-++++.+|.++|+|-    -.+.+|..+...|++         
T Consensus       233 dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y-~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgr---------  302 (486)
T KOG0550|consen  233 DPDHQKSKSASMMPKKLEVKKERGNDAFKNGNY-RKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGR---------  302 (486)
T ss_pred             ChhhhhHHhHhhhHHHHHHHHhhhhhHhhccch-hHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCC---------
Confidence            9876654            44444444444566 678888899999999976    335666666666654         


Q ss_pred             hchHHHHHHHHHHHHHhCCC
Q 005381          200 EKVLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       200 ~~~~~eeL~~~~~ai~~dP~  219 (699)
                         +.++|..+..|+.+||.
T Consensus       303 ---l~eaisdc~~Al~iD~s  319 (486)
T KOG0550|consen  303 ---LREAISDCNEALKIDSS  319 (486)
T ss_pred             ---chhhhhhhhhhhhcCHH
Confidence               79999999999999975

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.89  E-value=0.011  Score=69.45  Aligned_cols=139  Identities=16%  Similarity=0.136  Sum_probs=103.2

Q ss_pred             HHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHH
Q 005381           33 HNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRK  112 (699)
Q Consensus        33 ~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~  112 (699)
                      .....++| ++||+.+.++|+.+|++|.||.+-|..+..++.           +.+++-+.|-.+.+.+|++.-||.+-+
T Consensus        11 ~al~nk~Y-eealEqskkvLk~dpdNYnA~vFLGvAl~sl~q-----------~le~A~ehYv~AaKldpdnlLAWkGL~   78 (1238)
T KOG1127|consen   11 DALRNKEY-EEALEQSKKVLKEDPDNYNAQVFLGVALWSLGQ-----------DLEKAAEHYVLAAKLDPDNLLAWKGLG   78 (1238)
T ss_pred             HHHhhccH-HHHHHHHHHHHhcCCCcchhhhHHHHHHHhccC-----------CHHHHHHHHHHHHhcChhhhHHHHHHH
Confidence            33456788 999999999999999999999999999998853           378888999999999999999999998


Q ss_pred             HHHHhCC--CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc-CC------------ChHHHHH-HHHHHHHhccCchH
Q 005381          113 WILSKGH--SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASM-NR------------SEEDELK-YTEDMICNNFSNYS  176 (699)
Q Consensus       113 w~L~~~~--~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l-~~------------~~e~EL~-~~~~~I~~n~sN~S  176 (699)
                      -+.++.+  ..+++...+|.+++.+.++--   -.++-.+.+. ..            ....|+- +-.+..+.||.-.-
T Consensus        79 nLye~~~dIl~ld~~~~~yq~~~l~le~q~---~nk~~~lcKk~~d~~~~fk~hll~a~eigei~~trq~~se~N~~k~~  155 (1238)
T KOG1127|consen   79 NLYERYNDILDLDRAAKCYQRAVLILENQS---KNKGEALCKKFDDQYYQFKKHLLVAKEIGEIAVTRQDASEKNPKKFW  155 (1238)
T ss_pred             HHHHccchhhhhhHhHHHHHHHHHhhhhhh---hhHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHhchHhhhhhCHHHHH
Confidence            8888743  357788889998887776544   2222222221 11            0122333 33477788888888


Q ss_pred             HHHHHHHHHH
Q 005381          177 AWHNRSLLLS  186 (699)
Q Consensus       177 AW~~R~~ll~  186 (699)
                      +|.-.+.++.
T Consensus       156 a~~rl~Qi~l  165 (1238)
T KOG1127|consen  156 AFCRLGQIQL  165 (1238)
T ss_pred             hhCchHHHHh
Confidence            8877776655

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=96.87  E-value=0.015  Score=69.70  Aligned_cols=156  Identities=12%  Similarity=-0.007  Sum_probs=111.4

Q ss_pred             HhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChH---------
Q 005381           53 ETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSID---------  123 (699)
Q Consensus        53 ~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~---------  123 (699)
                      ...|++..+|-.--......            ..++++++.++.++..+|+...+|++-+.+..+.. .++         
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~------------~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~-~~~~~~lv~~l~   91 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSE------------NLTDEAKDICEEHLKEHKKSISALYISGILSLSRR-PLNDSNLLNLID   91 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhc------------CCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhc-chhhhhhhhhhh
Confidence            35677777766554444333            34899999999999999999999999999776542 111         


Q ss_pred             --------HHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          124 --------NELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       124 --------~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                              ..++++...+-..+.|-+|-...+.++.++|.+ ++.++.++++++.||.|..|-++-++.+... .-..+.
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~-~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNEN-KKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             hcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCCh-HHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHH
Confidence                    445555555555777778999999999999998 7899999999999999999999999888765 211100


Q ss_pred             --------ccchhchHHHHHHHHHHHHHhCCCCchh
Q 005381          196 --------FVSKEKVLPDEYEFVHQAIFTDPDDQSG  223 (699)
Q Consensus       196 --------~~~~~~~~~eeL~~~~~ai~~dP~d~Sa  223 (699)
                              .-...+.|.+..+.-.+.++.+|+|-.-
T Consensus       170 ~m~~KAV~~~i~~kq~~~~~e~W~k~~~~~~~d~d~  205 (906)
T PRK14720        170 TYLKKAIYRFIKKKQYVGIEEIWSKLVHYNSDDFDF  205 (906)
T ss_pred             HHHHHHHHHHHhhhcchHHHHHHHHHHhcCcccchH
Confidence                    0011223455556666667777776554

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

Probab=96.84  E-value=0.028  Score=62.73  Aligned_cols=167  Identities=15%  Similarity=0.105  Sum_probs=114.8

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      +.+.+.+.-++....|+..-.|.-=+......++            +.++-+++.++...+|+.-.+|-.-+..+... +
T Consensus       294 ~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i~k------------~seARry~SKat~lD~~fgpaWl~fghsfa~e-~  360 (611)
T KOG1173|consen  294 SNKLFLLSHKLVDLYPSKALSWFAVGCYYLMIGK------------YSEARRYFSKATTLDPTFGPAWLAFGHSFAGE-G  360 (611)
T ss_pred             cchHHHHHHHHHHhCCCCCcchhhHHHHHHHhcC------------cHHHHHHHHHHhhcCccccHHHHHHhHHhhhc-c
Confidence            4789999999999999999999999988877765            78999999999999999999999888777633 2


Q ss_pred             ChHHHHHHHHHHHHh----------------------------------CCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381          121 SIDNELRLLDKFQKA----------------------------------DSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~----------------------------------dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      .-+.++.+|.+|-++                                  .|.+.-.-++-|-|.-+.+.+ .++..++.+
T Consensus       361 EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y-~~A~~~f~~  439 (611)
T KOG1173|consen  361 EHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEY-PEALKYFQK  439 (611)
T ss_pred             hHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhh-HHHHHHHHH
Confidence            334455555555544                                  444444444444333333333 344445454


Q ss_pred             HHHh--ccCchH-----HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          167 MICN--NFSNYS-----AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       167 ~I~~--n~sN~S-----AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      ++..  ...+.+     -|.+.|.+.+++            ..++++|.++++|+.+.|.|.+...=..++...
T Consensus       440 ~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl------------~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~l  501 (611)
T KOG1173|consen  440 ALEVIKSVLNEKIFWEPTLNNLGHAYRKL------------NKYEEAIDYYQKALLLSPKDASTHASIGYIYHL  501 (611)
T ss_pred             HHHHhhhccccccchhHHHHhHHHHHHHH------------hhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHH
Confidence            4421  122222     255555555555            448999999999999999999887755554433

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

Probab=96.83  E-value=0.00065  Score=69.18  Aligned_cols=80  Identities=30%  Similarity=0.432  Sum_probs=64.3

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCC---CCCcC-CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNEL---RSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L---~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      +.+.+..++++..+-.|++|+.|++|.|.+   ..++. ...+++|++|+|++|+|..+.....+..+.+|..|++.++.
T Consensus        48 ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~  127 (260)
T KOG2739|consen   48 LSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCS  127 (260)
T ss_pred             hhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCC
Confidence            556667777777888889999999999944   44555 66679999999999999877666778888889999999887


Q ss_pred             CCCC
Q 005381          614 IGAH  617 (699)
Q Consensus       614 I~~l  617 (699)
                      .+.+
T Consensus       128 ~~~l  131 (260)
T KOG2739|consen  128 VTNL  131 (260)
T ss_pred             cccc
Confidence            7664

>TIGR00540 hemY_coli hemY protein

Probab=96.79  E-value=0.039  Score=61.49  Aligned_cols=141  Identities=5%  Similarity=-0.153  Sum_probs=102.8

Q ss_pred             HHHHHHHhCC----CchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHH--HHHHHHHHhCCC
Q 005381           47 LSTKLLETNP----ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAW--HHRKWILSKGHS  120 (699)
Q Consensus        47 ~~~~~L~~nP----~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW--~hR~w~L~~~~~  120 (699)
                      ....+....|    +...++..-...+...+            .++++++..+.+++.+|++....  ..+....... .
T Consensus       247 ~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g------------~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~-~  313 (409)
T TIGR00540       247 GLLNWWKNQPRHRRHNIALKIALAEHLIDCD------------DHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKP-E  313 (409)
T ss_pred             HHHHHHHHCCHHHhCCHHHHHHHHHHHHHCC------------ChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCC-C
Confidence            3334444455    35555555555555443            38999999999999999998653  3333333222 4


Q ss_pred             ChHHHHHHHHHHHHhCCCCh--hhhhHHHHHHHhcCCChHHHHHHHH--HHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          121 SIDNELRLLDKFQKADSRNF--HAWNYRRFVAASMNRSEEDELKYTE--DMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~--haW~yR~~vl~~l~~~~e~EL~~~~--~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                      ..+..++.++++++.+|.|.  .....-+|+.-+.+.+ +++.++++  .+++.+|++..+. +.+.++..+++      
T Consensus       314 ~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~-~~A~~~le~a~a~~~~p~~~~~~-~La~ll~~~g~------  385 (409)
T TIGR00540       314 DNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEF-IEAADAFKNVAACKEQLDANDLA-MAADAFDQAGD------  385 (409)
T ss_pred             ChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccH-HHHHHHHHHhHHhhcCCCHHHHH-HHHHHHHHcCC------
Confidence            56789999999999999999  7778889999999998 78899999  6888999998866 66778777755      


Q ss_pred             cchhchHHHHHHHHHHHH
Q 005381          197 VSKEKVLPDEYEFVHQAI  214 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai  214 (699)
                            .+++.+++.+++
T Consensus       386 ------~~~A~~~~~~~l  397 (409)
T TIGR00540       386 ------KAEAAAMRQDSL  397 (409)
T ss_pred             ------HHHHHHHHHHHH
Confidence                  356666666654

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

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=96.75  E-value=0.026  Score=67.80  Aligned_cols=142  Identities=12%  Similarity=0.016  Sum_probs=105.1

Q ss_pred             HHHHHHHHHh-cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCc------hhhhhhHHHHHHHHHHHH
Q 005381           26 VLQSQFLHNH-HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDP------DSLKSILDEELRVVESAL   98 (699)
Q Consensus        26 ~~~~~~~~~~-~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~------~~~~~~~~eEL~~~~~~L   98 (699)
                      ....++.... ..+++ ++|++.++..+..+|+...+|.+.+.+..+.....+...      -.....+ ..+..+-.++
T Consensus        32 ~a~~~Li~~~~~~~~~-deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~-~~ve~~~~~i  109 (906)
T PRK14720         32 KELDDLIDAYKSENLT-DEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKW-AIVEHICDKI  109 (906)
T ss_pred             HHHHHHHHHHHhcCCH-HHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccch-hHHHHHHHHH
Confidence            3444444454 56666 899999999999999999999999996655432111000      0000113 4455555566


Q ss_pred             HhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc
Q 005381           99 RQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNF  172 (699)
Q Consensus        99 ~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~  172 (699)
                      ...|.+-.|-...+-++.++ +..+++.+.++++|+.||.|..|-++=++.+... .. +++++++.++++...
T Consensus       110 ~~~~~~k~Al~~LA~~Ydk~-g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL-~KA~~m~~KAV~~~i  180 (906)
T PRK14720        110 LLYGENKLALRTLAEAYAKL-NENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DK-EKAITYLKKAIYRFI  180 (906)
T ss_pred             HhhhhhhHHHHHHHHHHHHc-CChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hH-HHHHHHHHHHHHHHH
Confidence            66777778999999999988 5899999999999999999999999999998887 33 778888888888643

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.75  E-value=0.025  Score=59.13  Aligned_cols=93  Identities=12%  Similarity=0.026  Sum_probs=69.9

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCc---hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC---ChHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPEL---YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK---SYGAWH  109 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~---ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK---sy~aW~  109 (699)
                      ..+.| ++|+..+...+...|+.   ..++.+.+.++...+.            +++++..+..++..+|+   .+.+|.
T Consensus       155 ~~~~y-~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~------------~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        155 DKSRQ-DDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGK------------KDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             hcCCH-HHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            34666 68888888888888887   3677777777776654            78888888888866555   577777


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhh
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHA  142 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~ha  142 (699)
                      ..+.+.... +.++++.+.++++++.+|...+|
T Consensus       222 klg~~~~~~-g~~~~A~~~~~~vi~~yP~s~~a  253 (263)
T PRK10803        222 KVGVIMQDK-GDTAKAKAVYQQVIKKYPGTDGA  253 (263)
T ss_pred             HHHHHHHHc-CCHHHHHHHHHHHHHHCcCCHHH
Confidence            777777765 57888888888888888877665

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=96.74  E-value=0.1  Score=58.00  Aligned_cols=159  Identities=14%  Similarity=0.008  Sum_probs=109.9

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC----------
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK----------  103 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK----------  103 (699)
                      ....|++ ++|++.+++++..+|++..+......+....++            ++++++.+..+.+..+.          
T Consensus       163 ~l~~g~~-~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gd------------w~~a~~~l~~l~k~~~~~~~~~~~l~~  229 (398)
T PRK10747        163 QLARNEN-HAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGA------------WSSLLDILPSMAKAHVGDEEHRAMLEQ  229 (398)
T ss_pred             HHHCCCH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHh------------HHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3456666 799999999999999999888877776665543            55555555555544443          


Q ss_pred             --------------------------------ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH
Q 005381          104 --------------------------------SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA  151 (699)
Q Consensus       104 --------------------------------sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~  151 (699)
                                                      +..++..-.-.+... +..+++.+..+++++. +-+.......+.+. 
T Consensus       230 ~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~-g~~~~A~~~L~~~l~~-~~~~~l~~l~~~l~-  306 (398)
T PRK10747        230 QAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIEC-DDHDTAQQIILDGLKR-QYDERLVLLIPRLK-  306 (398)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhc-CCCHHHHHHHhhcc-
Confidence                                            333333333333333 4677889999999884 33443332222221 


Q ss_pred             hcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          152 SMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       152 ~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                       .+.+ .+.++..+++++.+|.|.......+.+....            +.+.++.+.+..++..+|++..
T Consensus       307 -~~~~-~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~------------~~~~~A~~~le~al~~~P~~~~  363 (398)
T PRK10747        307 -TNNP-EQLEKVLRQQIKQHGDTPLLWSTLGQLLMKH------------GEWQEASLAFRAALKQRPDAYD  363 (398)
T ss_pred             -CCCh-HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHC------------CCHHHHHHHHHHHHhcCCCHHH
Confidence             1444 6789999999999999999888888887765            3389999999999999999876

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=96.70  E-value=0.083  Score=57.10  Aligned_cols=146  Identities=14%  Similarity=0.056  Sum_probs=104.1

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHH---------------
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFV---------------  149 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~v---------------  149 (699)
                      +.++.+|.+.++++..+|.+.++.--+|-+|.++ ++.++++-.+..+..+-|..-.+  |||.+               
T Consensus       314 K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~-~R~~~A~IaFR~Aq~Lap~rL~~--Y~GL~hsYLA~~~~kEA~~~  390 (564)
T KOG1174|consen  314 KKFERALNFVEKCIDSEPRNHEALILKGRLLIAL-ERHTQAVIAFRTAQMLAPYRLEI--YRGLFHSYLAQKRFKEANAL  390 (564)
T ss_pred             hhHHHHHHHHHHHhccCcccchHHHhccHHHHhc-cchHHHHHHHHHHHhcchhhHHH--HHHHHHHHHhhchHHHHHHH
Confidence            6689999999999999999999999999999887 47777766666666666654443  33332               


Q ss_pred             ----HHhcCC------------------ChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc-------------
Q 005381          150 ----AASMNR------------------SEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE-------------  194 (699)
Q Consensus       150 ----l~~l~~------------------~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~-------------  194 (699)
                          +..++.                  -.|++-.|+++.++++|.-.-|-.-..-++..=++.++.             
T Consensus       391 An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D  470 (564)
T KOG1174|consen  391 ANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPD  470 (564)
T ss_pred             HHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccc
Confidence                222211                  126778889999999998888877777666544433210             


Q ss_pred             --------CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          195 --------GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       195 --------~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                              .+......++++++.|..|+.+||+|+.+--=.+-|-..
T Consensus       471 ~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~Gl~~lEK~  517 (564)
T KOG1174|consen  471 VNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLRGLRLLEKS  517 (564)
T ss_pred             cHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHHHHHHHHhc
Confidence                    011233458999999999999999999987665555443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.69  E-value=0.0095  Score=58.39  Aligned_cols=92  Identities=10%  Similarity=0.079  Sum_probs=75.8

Q ss_pred             CChHHHHHHHHHHHHhCCCChh-----hhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          120 SSIDNELRLLDKFQKADSRNFH-----AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~h-----aW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      +.|+++..-|..+|++-|.-+.     ++.+|+-++-+++.+ +..++-|.++|+++|.+.-|.--|..+..++      
T Consensus       109 gdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~-e~aI~dcsKaiel~pty~kAl~RRAeayek~------  181 (271)
T KOG4234|consen  109 GDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKW-ESAIEDCSKAIELNPTYEKALERRAEAYEKM------  181 (271)
T ss_pred             ccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhH-HHHHHHHHhhHhcCchhHHHHHHHHHHHHhh------
Confidence            5677888888888887776654     455666666667766 8899999999999999999999889888776      


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhH
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGW  224 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW  224 (699)
                            +.|+++|+-|++.++.||....+-
T Consensus       182 ------ek~eealeDyKki~E~dPs~~ear  205 (271)
T KOG4234|consen  182 ------EKYEEALEDYKKILESDPSRREAR  205 (271)
T ss_pred             ------hhHHHHHHHHHHHHHhCcchHHHH
Confidence                  458999999999999999988654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.66  E-value=0.0059  Score=51.83  Aligned_cols=75  Identities=13%  Similarity=0.107  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           87 LDEELRVVESALRQNFK--SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPK--sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +++++.++++++..+|.  +..+|...+.++.+. +.++++++++++ ++.++++..+....+-++-.++.+ +++++.+
T Consensus         5 y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~-~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y-~eAi~~l   81 (84)
T PF12895_consen    5 YENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQ-GKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKY-EEAIKAL   81 (84)
T ss_dssp             HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHT-THHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-H-HHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHC-CCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCH-HHHHHHH
Confidence            44555555555554443  233444444444444 344555555555 444444444444444444445544 3344433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.64  E-value=0.0078  Score=49.27  Aligned_cols=61  Identities=25%  Similarity=0.272  Sum_probs=54.7

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWH  109 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~  109 (699)
                      +.+.+ ++|++.++.++..+|++..+|..++.++...++            +.+++..++.+++.+|.+..+=.
T Consensus         7 ~~~~~-~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~------------~~~A~~~l~~~l~~~p~~~~~~~   67 (73)
T PF13371_consen    7 QQEDY-EEALEVLERALELDPDDPELWLQRARCLFQLGR------------YEEALEDLERALELSPDDPDARA   67 (73)
T ss_pred             hCCCH-HHHHHHHHHHHHhCcccchhhHHHHHHHHHhcc------------HHHHHHHHHHHHHHCCCcHHHHH
Confidence            44555 899999999999999999999999999999976            99999999999999998877643

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=96.64  E-value=0.0015  Score=79.01  Aligned_cols=81  Identities=28%  Similarity=0.341  Sum_probs=59.5

Q ss_pred             CeEEccCCCCCcccCCCCCcccCEEEccCCC--CCCCcC--CccccccceeecccCC-CCCCCCCccccccccccccccc
Q 005381          536 MCLQLKNLSLSRLGSFDKLLWVQMLDLSHNE--LRSIEG--LEALQLLSCLNLSNNI-LGSFTALEPIRQLKSLRALNIS  610 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~--L~~l~~--l~~L~~L~~L~Ls~N~-l~~l~~~~~l~~l~~L~~L~Ls  610 (699)
                      +.+.+-+|.+..++.-..++.|+.|-+..|.  +..++.  |..|+.|.+|||++|. +..+  |..++.|.+|++|+|+
T Consensus       526 rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~L--P~~I~~Li~LryL~L~  603 (889)
T KOG4658|consen  526 RRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKL--PSSIGELVHLRYLDLS  603 (889)
T ss_pred             eEEEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcC--ChHHhhhhhhhccccc
Confidence            4466677777766655556678888888886  666666  7778888888888764 4444  6777888888888888


Q ss_pred             cccCCCCC
Q 005381          611 YNEIGAHS  618 (699)
Q Consensus       611 ~N~I~~lp  618 (699)
                      +..|..+|
T Consensus       604 ~t~I~~LP  611 (889)
T KOG4658|consen  604 DTGISHLP  611 (889)
T ss_pred             CCCccccc
Confidence            88888877

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.55  E-value=0.0068  Score=51.44  Aligned_cols=80  Identities=14%  Similarity=0.082  Sum_probs=67.8

Q ss_pred             CChHHHHHHHHHHHHhCCC--ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          120 SSIDNELRLLDKFQKADSR--NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dpr--N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                      +.+++++.+++++++.+|.  +...|.+.+.+.-+.+.+ ++.++++++ .+.++.+..+....+..+..+++       
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y-~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~-------   73 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKY-EEAIELLQK-LKLDPSNPDIHYLLARCLLKLGK-------   73 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHH-HHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT--------
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCH-HHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCC-------
Confidence            4789999999999999996  467788899999999999 788999888 88999998777777888888855       


Q ss_pred             chhchHHHHHHHHHHH
Q 005381          198 SKEKVLPDEYEFVHQA  213 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~a  213 (699)
                           ++++++.+.+|
T Consensus        74 -----y~eAi~~l~~~   84 (84)
T PF12895_consen   74 -----YEEAIKALEKA   84 (84)
T ss_dssp             -----HHHHHHHHHHH
T ss_pred             -----HHHHHHHHhcC
Confidence                 89999988765

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=96.55  E-value=0.065  Score=61.26  Aligned_cols=163  Identities=14%  Similarity=0.146  Sum_probs=110.7

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      .-|.+ +||...+..+|..||+++.....-..++.--..   .+.    ...+.-+.+++..-...|++..+   |+..|
T Consensus        50 kLg~~-~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~---~~~----~~~~~~~~~y~~l~~~yp~s~~~---~rl~L  118 (517)
T PF12569_consen   50 KLGRK-EEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQ---LSD----EDVEKLLELYDELAEKYPRSDAP---RRLPL  118 (517)
T ss_pred             HcCCH-HHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcc---ccc----ccHHHHHHHHHHHHHhCccccch---hHhhc
Confidence            34555 799999999999999998865544443321110   011    23567788999999999997765   55556


Q ss_pred             HhCCC--------------------C--------hH--HHHHHHHHHHH-------------------hCCCCh--hhhh
Q 005381          116 SKGHS--------------------S--------ID--NELRLLDKFQK-------------------ADSRNF--HAWN  144 (699)
Q Consensus       116 ~~~~~--------------------~--------~~--~EL~~~~k~L~-------------------~dprN~--haW~  144 (699)
                      ....+                    +        |.  .-...+..++.                   ..|.-.  .+|+
T Consensus       119 ~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~  198 (517)
T PF12569_consen  119 DFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLY  198 (517)
T ss_pred             ccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHH
Confidence            53321                    0        00  00111111111                   112222  3447


Q ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          145 YRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       145 yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                      |.......+|.+ +++++|++++|+..|.......-++.++.+.|.            +++|.+.++.|-.+|+.|--
T Consensus       199 ~lAqhyd~~g~~-~~Al~~Id~aI~htPt~~ely~~KarilKh~G~------------~~~Aa~~~~~Ar~LD~~DRy  263 (517)
T PF12569_consen  199 FLAQHYDYLGDY-EKALEYIDKAIEHTPTLVELYMTKARILKHAGD------------LKEAAEAMDEARELDLADRY  263 (517)
T ss_pred             HHHHHHHHhCCH-HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHhCChhhHH
Confidence            778888888988 689999999999999999999999999999876            78888888888888887743

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=96.51  E-value=0.017  Score=66.16  Aligned_cols=117  Identities=14%  Similarity=0.257  Sum_probs=96.3

Q ss_pred             hhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHH
Q 005381           84 KSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKY  163 (699)
Q Consensus        84 ~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~  163 (699)
                      ++.|.+..+.++..+++||=..+.|+.++.+--++ ..++.+.++|.++...+|.|+.||++-.-..-+++.- .++...
T Consensus       498 ~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALql-ek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k-~ra~~~  575 (777)
T KOG1128|consen  498 NKDFSEADKHLERSLEINPLQLGTWFGLGCAALQL-EKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKK-KRAFRK  575 (777)
T ss_pred             chhHHHHHHHHHHHhhcCccchhHHHhccHHHHHH-hhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhh-HHHHHH
Confidence            46789999999999999999999999998888777 5889999999999999999999999887776666655 567778


Q ss_pred             HHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHH
Q 005381          164 TEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAI  214 (699)
Q Consensus       164 ~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai  214 (699)
                      ..++++-|-.|.-.|-+-..+...++.            ++++++.+++.+
T Consensus       576 l~EAlKcn~~~w~iWENymlvsvdvge------------~eda~~A~~rll  614 (777)
T KOG1128|consen  576 LKEALKCNYQHWQIWENYMLVSVDVGE------------FEDAIKAYHRLL  614 (777)
T ss_pred             HHHHhhcCCCCCeeeechhhhhhhccc------------HHHHHHHHHHHH
Confidence            889999888888888777766655533            678888887755

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.50  E-value=0.012  Score=48.14  Aligned_cols=56  Identities=21%  Similarity=0.235  Sum_probs=36.6

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhh
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHA  142 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~ha  142 (699)
                      .+++++.+++.++..+|.+..+|..|+.++.+. +.++++++.++++++.+|.+-.+
T Consensus        10 ~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~-g~~~~A~~~l~~~l~~~p~~~~~   65 (73)
T PF13371_consen   10 DYEEALEVLERALELDPDDPELWLQRARCLFQL-GRYEEALEDLERALELSPDDPDA   65 (73)
T ss_pred             CHHHHHHHHHHHHHhCcccchhhHHHHHHHHHh-ccHHHHHHHHHHHHHHCCCcHHH
Confidence            366666666666666666666666666666665 46666666666666666655443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=96.47  E-value=0.077  Score=57.33  Aligned_cols=161  Identities=13%  Similarity=0.165  Sum_probs=113.7

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      .|.+ .+|...+++++.+||...++----+.+|..-++            +++-=.+...++.+.--...-|.--+-++.
T Consensus       245 ~Gdn-~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~------------~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~  311 (564)
T KOG1174|consen  245 NGDY-FQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGG------------CEQDSALMDYLFAKVKYTASHWFVHAQLLY  311 (564)
T ss_pred             hcCc-hHHHHHHHHHhhCChhhhhhHHHHHHHHHhccC------------HhhHHHHHHHHHhhhhcchhhhhhhhhhhh
Confidence            4555 577888888899999888887777777665543            566566667777666444444544444443


Q ss_pred             hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          117 KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       117 ~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                      .- .+++++|.+.+|+++.+|||..|.--+|-++..++++.+..+.| ..++..-|+.-..  |+|.+-.-+-.      
T Consensus       312 ~~-K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaF-R~Aq~Lap~rL~~--Y~GL~hsYLA~------  381 (564)
T KOG1174|consen  312 DE-KKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAF-RTAQMLAPYRLEI--YRGLFHSYLAQ------  381 (564)
T ss_pred             hh-hhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHH-HHHHhcchhhHHH--HHHHHHHHHhh------
Confidence            22 37889999999999999999999999999999999997666766 8888888877654  55544333322      


Q ss_pred             cchhchHHHHHHHHHHHHHhCCCCchhH
Q 005381          197 VSKEKVLPDEYEFVHQAIFTDPDDQSGW  224 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~~dP~d~SaW  224 (699)
                          +...|++-....++.+-|++.-+-
T Consensus       382 ----~~~kEA~~~An~~~~~~~~sA~~L  405 (564)
T KOG1174|consen  382 ----KRFKEANALANWTIRLFQNSARSL  405 (564)
T ss_pred             ----chHHHHHHHHHHHHHHhhcchhhh
Confidence                335777777777776666655443

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

Probab=96.43  E-value=0.0024  Score=75.28  Aligned_cols=156  Identities=21%  Similarity=0.238  Sum_probs=96.4

Q ss_pred             hcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcc--c-CCCCCcccCEE
Q 005381          484 LYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRL--G-SFDKLLWVQML  560 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l--~-~l~~L~~L~~L  560 (699)
                      .-++|+.||++....+   .        ..+...+.   ..+..+++       |.+++-.+..-  . ...++++|..|
T Consensus       120 sr~nL~~LdI~G~~~~---s--------~~W~~kig---~~LPsL~s-------L~i~~~~~~~~dF~~lc~sFpNL~sL  178 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELF---S--------NGWPKKIG---TMLPSLRS-------LVISGRQFDNDDFSQLCASFPNLRSL  178 (699)
T ss_pred             HHHhhhhcCccccchh---h--------ccHHHHHh---hhCcccce-------EEecCceecchhHHHHhhccCcccee
Confidence            3467888888775522   1        11112222   22355555       44444433311  1 45678899999


Q ss_pred             EccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCc
Q 005381          561 DLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH  640 (699)
Q Consensus       561 dLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~  640 (699)
                      |+|+-.++.+.+++.|++|+.|.+.+=.+..-..+..+..|++|++||+|..+....+. .         .         
T Consensus       179 DIS~TnI~nl~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~-i---------i---------  239 (699)
T KOG3665|consen  179 DISGTNISNLSGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTK-I---------I---------  239 (699)
T ss_pred             ecCCCCccCcHHHhccccHHHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchH-H---------H---------
Confidence            99999999998899999999998887777665445567789999999999776655430 0         0         


Q ss_pred             cceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccc
Q 005381          641 GQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       641 l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~  692 (699)
                               ..|.+   .-..| +|+.||.|++.+.. .+....+..-|+|+.
T Consensus       240 ---------~qYle---c~~~LpeLrfLDcSgTdi~~-~~le~ll~sH~~L~~  279 (699)
T KOG3665|consen  240 ---------EQYLE---CGMVLPELRFLDCSGTDINE-EILEELLNSHPNLQQ  279 (699)
T ss_pred             ---------HHHHH---hcccCccccEEecCCcchhH-HHHHHHHHhCccHhh
Confidence                     01111   23335 89999999998832 233344444555543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=96.26  E-value=0.65  Score=51.58  Aligned_cols=188  Identities=10%  Similarity=-0.036  Sum_probs=113.1

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHH-HHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYR-KLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R-~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      .+.|++ +++.+.+.++.+.+|+...+-..+ ..+....+            .+++++..++++++.+|++..+.....-
T Consensus       129 ~~~g~~-~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g------------~~~~Al~~l~~~~~~~P~~~~al~ll~~  195 (398)
T PRK10747        129 QQRGDE-ARANQHLERAAELADNDQLPVEITRVRIQLARN------------ENHAARHGVDKLLEVAPRHPEVLRLAEQ  195 (398)
T ss_pred             HHCCCH-HHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            556666 799999999999999987554434 44444433            4899999999999999999999888877


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhh---HHHH---HHHhcCCChHHHH-HHHHHHHHhccCchHHHHHHHHHHH
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWN---YRRF---VAASMNRSEEDEL-KYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~---yR~~---vl~~l~~~~e~EL-~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +..+. ++|+++++.+.++.+..+.+-....   .+.+   +-......+.+.+ ++....-+..|.+..++.-....+.
T Consensus       196 ~~~~~-gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~  274 (398)
T PRK10747        196 AYIRT-GAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLI  274 (398)
T ss_pred             HHHHH-HhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHH
Confidence            77766 5899999888888877766543222   1111   1111111000111 1111111122223333322222222


Q ss_pred             Hhhhhhc----------cCc---------cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          187 NLLKRKV----------EGF---------VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       187 ~l~~~~~----------~~~---------~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                      ..+....          ...         ....+..+++++.+.+++..+|+|......+..+.-....
T Consensus       275 ~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~  343 (398)
T PRK10747        275 ECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGE  343 (398)
T ss_pred             HCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCC
Confidence            2211100          000         0011336889999999999999999999888888766543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.19  E-value=0.17  Score=57.02  Aligned_cols=130  Identities=17%  Similarity=0.204  Sum_probs=95.1

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC--
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK--  103 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK--  103 (699)
                      .+...+-...++++| ++|+....++|.+.|+..+|.+.+=.++..+.+            |+++|    ..++.++.  
T Consensus        14 ~l~t~ln~~~~~~e~-e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~k------------y~~AL----k~ikk~~~~~   76 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEY-EEAVKTANKILSIVPDDEDAIRCKVVALIQLDK------------YEDAL----KLIKKNGALL   76 (652)
T ss_pred             HHHHHHHHhccchHH-HHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhH------------HHHHH----HHHHhcchhh
Confidence            444455555678888 899999999999999999998888777777754            88888    44555552  


Q ss_pred             ChHHH-HHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHH
Q 005381          104 SYGAW-HHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSA  177 (699)
Q Consensus       104 sy~aW-~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SA  177 (699)
                      .+... .+|.++..++ ...++++..++ .++.++  --.-.-|+-++-++++| .+.++.|...++.+-.++.+
T Consensus        77 ~~~~~~fEKAYc~Yrl-nk~Dealk~~~-~~~~~~--~~ll~L~AQvlYrl~~y-dealdiY~~L~kn~~dd~d~  146 (652)
T KOG2376|consen   77 VINSFFFEKAYCEYRL-NKLDEALKTLK-GLDRLD--DKLLELRAQVLYRLERY-DEALDIYQHLAKNNSDDQDE  146 (652)
T ss_pred             hcchhhHHHHHHHHHc-ccHHHHHHHHh-cccccc--hHHHHHHHHHHHHHhhH-HHHHHHHHHHHhcCCchHHH
Confidence            23333 6899999888 47889999888 333333  33556788888888888 56788777777777666654

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=96.14  E-value=0.03  Score=54.30  Aligned_cols=98  Identities=13%  Similarity=0.031  Sum_probs=65.2

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC---
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG---  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~---  118 (699)
                      +.|.+.++.....||.+..+++.-+-+|..+...  .+..+....+++++.-++.||.+||+...|...-+-++...   
T Consensus         8 E~ark~aea~y~~nP~DadnL~~WG~ALLELAqf--k~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l   85 (186)
T PF06552_consen    8 EHARKKAEAAYAKNPLDADNLTNWGGALLELAQF--KQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFL   85 (186)
T ss_dssp             HHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH--S-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhc--cCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhh
Confidence            4677888899999999999999999999888531  22234557899999999999999999988876666666532   


Q ss_pred             CC-------ChHHHHHHHHHHHHhCCCChh
Q 005381          119 HS-------SIDNELRLLDKFQKADSRNFH  141 (699)
Q Consensus       119 ~~-------~~~~EL~~~~k~L~~dprN~h  141 (699)
                      .+       .|+++.+++.++...+|.|-.
T Consensus        86 ~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~  115 (186)
T PF06552_consen   86 TPDTAEAEEYFEKATEYFQKAVDEDPNNEL  115 (186)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHH-TT-HH
T ss_pred             cCChHHHHHHHHHHHHHHHHHHhcCCCcHH
Confidence            11       134555555555555555443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.14  E-value=0.09  Score=54.98  Aligned_cols=90  Identities=9%  Similarity=-0.035  Sum_probs=79.9

Q ss_pred             hHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC---ChhhhhHHHHHHHhcCCChHH
Q 005381           86 ILDEELRVVESALRQNFKS---YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR---NFHAWNYRRFVAASMNRSEED  159 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKs---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr---N~haW~yR~~vl~~l~~~~e~  159 (699)
                      .|++++..++.++..+|++   ..+++..+.++... +.+++++..+.++++.+|.   ...||...+.+...++.+ .+
T Consensus       158 ~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~-g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~-~~  235 (263)
T PRK10803        158 RQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNK-GKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT-AK  235 (263)
T ss_pred             CHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH-HH
Confidence            4899999999999999999   47999999998876 6999999999999988776   578888889999889887 68


Q ss_pred             HHHHHHHHHHhccCchHH
Q 005381          160 ELKYTEDMICNNFSNYSA  177 (699)
Q Consensus       160 EL~~~~~~I~~n~sN~SA  177 (699)
                      ..+++.+.|+.+|....|
T Consensus       236 A~~~~~~vi~~yP~s~~a  253 (263)
T PRK10803        236 AKAVYQQVIKKYPGTDGA  253 (263)
T ss_pred             HHHHHHHHHHHCcCCHHH
Confidence            999999999999988765

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.11  E-value=0.069  Score=56.08  Aligned_cols=167  Identities=9%  Similarity=-0.013  Sum_probs=130.5

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      .+.||..+...|..-|.+.|.---..++.+.++.            +++++++|..+++.+|.+..+-.--+--.. ...
T Consensus       272 P~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~------------~~~a~~lYk~vlk~~~~nvEaiAcia~~yf-Y~~  338 (478)
T KOG1129|consen  272 PERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQ------------QEDALQLYKLVLKLHPINVEAIACIAVGYF-YDN  338 (478)
T ss_pred             HHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHh------------HHHHHHHHHHHHhcCCccceeeeeeeeccc-cCC
Confidence            4789999999999999999998888888888865            899999999999999999887421111111 114


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc--cC-chHHHHHHHHHHHHhhhhhccCcc
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN--FS-NYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n--~s-N~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                      ..+-++.+|.++|.+-..+..-+.+-+.+.-..+.+ .-.|..+.+++..-  |. -...|++.+++.-.++.       
T Consensus       339 ~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~-D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD-------  410 (478)
T KOG1129|consen  339 NPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQI-DLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGD-------  410 (478)
T ss_pred             ChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcch-hhhHHHHHHHHhhccCcchhhhhhhccceeEEeccc-------
Confidence            568899999999999999999999888876655655 34666777777753  32 23689999998776654       


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                           +.-+-.|+.-|+.-||++..+.+-+.-|-.+
T Consensus       411 -----~nlA~rcfrlaL~~d~~h~ealnNLavL~~r  441 (478)
T KOG1129|consen  411 -----FNLAKRCFRLALTSDAQHGEALNNLAVLAAR  441 (478)
T ss_pred             -----hHHHHHHHHHHhccCcchHHHHHhHHHHHhh
Confidence                 5667789999999999999999987766544

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=96.04  E-value=0.14  Score=56.57  Aligned_cols=68  Identities=15%  Similarity=0.176  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC
Q 005381           88 DEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS  156 (699)
Q Consensus        88 ~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~  156 (699)
                      .+++++..++|+.+|.++..+.--.-.+-+. .+++.|+++..++.+..|.+|.+|.+-.-+.-.+|.+
T Consensus       217 ~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k-~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~  284 (395)
T PF09295_consen  217 VEAIRLLNEALKENPQDSELLNLQAEFLLSK-KKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDF  284 (395)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCH
Confidence            3556666666666666666665554444333 3556666666666666666666666666666566655

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.02  E-value=0.069  Score=57.84  Aligned_cols=85  Identities=18%  Similarity=0.056  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      |.+++..|+++|..+|+|.-|-+.|+-++..+ +.|+.|...+.++++++|.|-.+=.--.-+.++...+.+.|-+.+.+
T Consensus       273 ~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~-~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~  351 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPNNVKALYRRGQALLAL-GEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYAN  351 (397)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHhh-ccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888888888888888888888888766 57888888888888888888666444455555555555666777777


Q ss_pred             HHHhcc
Q 005381          167 MICNNF  172 (699)
Q Consensus       167 ~I~~n~  172 (699)
                      ++..-.
T Consensus       352 mF~k~~  357 (397)
T KOG0543|consen  352 MFAKLA  357 (397)
T ss_pred             Hhhccc
Confidence            766544

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=0.15  Score=55.34  Aligned_cols=78  Identities=13%  Similarity=-0.014  Sum_probs=65.3

Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      .-..+..++ ..|.+++..|+++|+++|+|--|-+.|+-++..++.+ +.+...+.++++.+|+|--|=.....+-.++-
T Consensus       262 NlA~c~lKl-~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~-~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~  339 (397)
T KOG0543|consen  262 NLAACYLKL-KEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEY-DLARDDFQKALKLEPSNKAARAELIKLKQKIR  339 (397)
T ss_pred             HHHHHHHhh-hhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            344555566 4889999999999999999999999999999999999 67888889999999999877666665555543

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=95.98  E-value=0.018  Score=46.38  Aligned_cols=62  Identities=24%  Similarity=0.189  Sum_probs=54.4

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      ..|.+ ++|++.+.+++..+|++..+|.....++...++            ++++...+++++..+|++..+|.-
T Consensus         3 ~~~~~-~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~------------~~~A~~~l~~~~~~~~~~~~~~~l   64 (68)
T PF14559_consen    3 KQGDY-DEAIELLEKALQRNPDNPEARLLLAQCYLKQGQ------------YDEAEELLERLLKQDPDNPEYQQL   64 (68)
T ss_dssp             HTTHH-HHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-------------HHHHHHHHHCCHGGGTTHHHHHHH
T ss_pred             hccCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCcCHHHHHHH
Confidence            45666 799999999999999999999999999998876            999999999999999998666643

...

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

Probab=95.91  E-value=0.14  Score=55.63  Aligned_cols=177  Identities=14%  Similarity=0.035  Sum_probs=132.0

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ...+|++ +.|++.....=..+.+-..|--.--..|.-+..         .+.+-++-.+.+.++.++-=|..|-..++-
T Consensus       429 ~lk~~d~-~~aieilkv~~~kdnk~~saaa~nl~~l~flqg---------gk~~~~aqqyad~aln~dryn~~a~~nkgn  498 (840)
T KOG2003|consen  429 LLKNGDI-EGAIEILKVFEKKDNKTASAAANNLCALRFLQG---------GKDFADAQQYADIALNIDRYNAAALTNKGN  498 (840)
T ss_pred             HHhccCH-HHHHHHHHHHHhccchhhHHHhhhhHHHHHHhc---------ccchhHHHHHHHHHhcccccCHHHhhcCCc
Confidence            3445555 556655554444444444333222222222211         145778888899999988888888887777


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhc
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKV  193 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~  193 (699)
                      +.... +++++++++|..+|.-|..--.|...-+...+.++.. +++|+|+-++-.+=-.|..+..+...+...+..   
T Consensus       499 ~~f~n-gd~dka~~~ykeal~ndasc~ealfniglt~e~~~~l-deald~f~klh~il~nn~evl~qianiye~led---  573 (840)
T KOG2003|consen  499 IAFAN-GDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNL-DEALDCFLKLHAILLNNAEVLVQIANIYELLED---  573 (840)
T ss_pred             eeeec-CcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCH-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhC---
Confidence            76643 7999999999999999999999999999999999988 689999888877777788888777777666532   


Q ss_pred             cCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          194 EGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       194 ~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                               -.++++.+.++..+-|+|...-.-+.-|.++-
T Consensus       574 ---------~aqaie~~~q~~slip~dp~ilskl~dlydqe  605 (840)
T KOG2003|consen  574 ---------PAQAIELLMQANSLIPNDPAILSKLADLYDQE  605 (840)
T ss_pred             ---------HHHHHHHHHHhcccCCCCHHHHHHHHHHhhcc
Confidence                     47899999999999999999999999998874

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=95.91  E-value=0.051  Score=52.79  Aligned_cols=102  Identities=11%  Similarity=0.014  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC---------hHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          124 NELRLLDKFQKADSRNFHAWNYRRFVAASMNRS---------EEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       124 ~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~---------~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      .+.+-++.....||.+..++++-|-++..+...         .++.++-++++|.+||..+.|....+..+..+..... 
T Consensus         9 ~ark~aea~y~~nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~-   87 (186)
T PF06552_consen    9 HARKKAEAAYAKNPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTP-   87 (186)
T ss_dssp             HHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcC-
Confidence            344444444555555555555444444433211         1456666677788888888887777777776655221 


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHH
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y  226 (699)
                      ......+.++++.++|++|...+|+++..+.=
T Consensus        88 d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ks  119 (186)
T PF06552_consen   88 DTAEAEEYFEKATEYFQKAVDEDPNNELYRKS  119 (186)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHH
Confidence            12234467899999999999999999976654

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=95.89  E-value=0.48  Score=48.58  Aligned_cols=168  Identities=14%  Similarity=0.064  Sum_probs=129.6

Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCCh
Q 005381           43 EAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSI  122 (699)
Q Consensus        43 eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~  122 (699)
                      .+....-+.-..+|++..+ ......+...+.            -.+.+....+++..+||...+-+--+-..-+. +.+
T Consensus        51 ~a~~al~~~~~~~p~d~~i-~~~a~a~~~~G~------------a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~-g~~  116 (257)
T COG5010          51 GAAAALGAAVLRNPEDLSI-AKLATALYLRGD------------ADSSLAVLQKSAIAYPKDRELLAAQGKNQIRN-GNF  116 (257)
T ss_pred             HHHHHHHHHHhcCcchHHH-HHHHHHHHhccc------------ccchHHHHhhhhccCcccHHHHHHHHHHHHHh-cch
Confidence            4788888889999999998 434444443332            24556777778888999977765444333333 689


Q ss_pred             HHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhch
Q 005381          123 DNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKV  202 (699)
Q Consensus       123 ~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~  202 (699)
                      .+++..+.++...+|.|..+|+-++.++.+.|+.++....| .++++..|.+.++-++.+..+.--+            .
T Consensus       117 ~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay-~qAl~L~~~~p~~~nNlgms~~L~g------------d  183 (257)
T COG5010         117 GEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAY-RQALELAPNEPSIANNLGMSLLLRG------------D  183 (257)
T ss_pred             HHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHH-HHHHHhccCCchhhhhHHHHHHHcC------------C
Confidence            99999999999999999999999999999999996666666 9999999999999999887654332            2


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCC
Q 005381          203 LPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRV  237 (699)
Q Consensus       203 ~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~  237 (699)
                      ++.+-.++..+...-|.|..+=.-+-++.+...+.
T Consensus       184 ~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~  218 (257)
T COG5010         184 LEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDF  218 (257)
T ss_pred             HHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCCh
Confidence            68888888888877777888888888877664443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.89  E-value=0.0035  Score=64.89  Aligned_cols=81  Identities=27%  Similarity=0.313  Sum_probs=61.7

Q ss_pred             EEccCCCCCcc---c-CCCCCcccCEEEccCCCCCC-CcCC-ccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          538 LQLKNLSLSRL---G-SFDKLLWVQMLDLSHNELRS-IEGL-EALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l---~-~l~~L~~L~~LdLS~N~L~~-l~~l-~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      ++|.+|.|+.-   . -+.+||.|+.|+||+|.+.+ |..+ ..+.+|++|-|.+..+.--..-..+..+|.++.|.+|.
T Consensus        76 lDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~  155 (418)
T KOG2982|consen   76 LDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSD  155 (418)
T ss_pred             hhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhcc
Confidence            89999999853   3 57889999999999999954 4334 36678999999888775432224467788999999999


Q ss_pred             ccCCCCC
Q 005381          612 NEIGAHS  618 (699)
Q Consensus       612 N~I~~lp  618 (699)
                      |.+..+-
T Consensus       156 N~~rq~n  162 (418)
T KOG2982|consen  156 NSLRQLN  162 (418)
T ss_pred             chhhhhc
Confidence            9776554

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=95.81  E-value=0.6  Score=47.91  Aligned_cols=141  Identities=11%  Similarity=-0.018  Sum_probs=113.7

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      +..|+- +..+..-.+++..+|+...+-+--+......+            .+.+++..+.++...+|++..+|+-++.+
T Consensus        77 ~~~G~a-~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g------------~~~~A~~~~rkA~~l~p~d~~~~~~lgaa  143 (257)
T COG5010          77 YLRGDA-DSSLAVLQKSAIAYPKDRELLAAQGKNQIRNG------------NFGEAVSVLRKAARLAPTDWEAWNLLGAA  143 (257)
T ss_pred             Hhcccc-cchHHHHhhhhccCcccHHHHHHHHHHHHHhc------------chHHHHHHHHHHhccCCCChhhhhHHHHH
Confidence            334444 45666677778888888888766555555443            48999999999999999999999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      +.+. ++.+.+-.-|.+++++.|++...-++-+..+---|++ ++.-.++..+...-+.|..+=+++..++...+.
T Consensus       144 ldq~-Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~-~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~  217 (257)
T COG5010         144 LDQL-GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDL-EDAETLLLPAYLSPAADSRVRQNLALVVGLQGD  217 (257)
T ss_pred             HHHc-cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCH-HHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCC
Confidence            9998 6999999999999999999999988887776655666 677777777777777799998999888776654

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=95.78  E-value=0.029  Score=45.11  Aligned_cols=59  Identities=24%  Similarity=0.193  Sum_probs=47.4

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhh
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWN  144 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~  144 (699)
                      +.+++++..+++++..+|++..+|.....++.+. +.++++.+.+++++..+|.|...|.
T Consensus         5 ~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~-g~~~~A~~~l~~~~~~~~~~~~~~~   63 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQ-GQYDEAEELLERLLKQDPDNPEYQQ   63 (68)
T ss_dssp             THHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHT-T-HHHHHHHHHCCHGGGTTHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCcCHHHHHH
Confidence            4588888888888888888888888888888877 5888888888888888888755443

...

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

Probab=95.67  E-value=0.008  Score=61.62  Aligned_cols=120  Identities=22%  Similarity=0.130  Sum_probs=70.7

Q ss_pred             CCCCCcccCEEEccCCCCCC-CcC-----CccccccceeecccCCCCCCCCC------------cccccccccccccccc
Q 005381          550 SFDKLLWVQMLDLSHNELRS-IEG-----LEALQLLSCLNLSNNILGSFTAL------------EPIRQLKSLRALNISY  611 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~-l~~-----l~~L~~L~~L~Ls~N~l~~l~~~------------~~l~~l~~L~~L~Ls~  611 (699)
                      .+-+|+.|+..+||.|.++. .|.     ++.-+.|.+|.|++|.+..+..-            .....-|.|++.....
T Consensus        87 aLlkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgr  166 (388)
T COG5238          87 ALLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGR  166 (388)
T ss_pred             HHhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEecc
Confidence            57788999999999998843 332     66777899999999987654310            1122347788888899


Q ss_pred             ccCCCCCccc-ccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          612 NEIGAHSIDT-TKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       612 N~I~~lp~~~-~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |++..-|... ...+.+...++.+.+..|.+.---     .-.-+...+..+ +|+.|||..|-+
T Consensus       167 NRlengs~~~~a~~l~sh~~lk~vki~qNgIrpeg-----v~~L~~~gl~y~~~LevLDlqDNtf  226 (388)
T COG5238         167 NRLENGSKELSAALLESHENLKEVKIQQNGIRPEG-----VTMLAFLGLFYSHSLEVLDLQDNTF  226 (388)
T ss_pred             chhccCcHHHHHHHHHhhcCceeEEeeecCcCcch-----hHHHHHHHHHHhCcceeeeccccch
Confidence            9887765211 112333333344344444442100     000111123334 788888888887

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.66  E-value=2  Score=40.62  Aligned_cols=164  Identities=24%  Similarity=0.200  Sum_probs=94.9

Q ss_pred             HHHHHHHHHHHH--hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH-HHHhC
Q 005381           42 KEAVELSTKLLE--TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW-ILSKG  118 (699)
Q Consensus        42 ~eaL~~~~~~L~--~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w-~L~~~  118 (699)
                      .+++......+.  ..+....++...+.+...++.            +.+++..+..++...+.....+.+... ++...
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  143 (291)
T COG0457          76 EEALELLEKALELELLPNLAEALLNLGLLLEALGK------------YEEALELLEKALALDPDPDLAEALLALGALYEL  143 (291)
T ss_pred             HHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhh------------HHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHc
Confidence            455555555555  566666666666666555533            667777777777766666666666665 45544


Q ss_pred             CCChHHHHHHHHHHHHhCCC---ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC-chHHHHHHHHHHHHhhhhhcc
Q 005381          119 HSSIDNELRLLDKFQKADSR---NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFS-NYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dpr---N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s-N~SAW~~R~~ll~~l~~~~~~  194 (699)
                       +.+++++..+.+++..+|.   .......+.......+.+ +..+..+.++++..+. ...++...+......+     
T Consensus       144 -~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  216 (291)
T COG0457         144 -GDYEEALELYEKALELDPELNELAEALLALGALLEALGRY-EEALELLEKALKLNPDDDAEALLNLGLLYLKLG-----  216 (291)
T ss_pred             -CCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCH-HHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc-----
Confidence             4677777777777666652   223333333333333444 5566666777777766 4555555555554432     


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                             .+++++..+..++...|.....+......+
T Consensus       217 -------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  246 (291)
T COG0457         217 -------KYEEALEYYEKALELDPDNAEALYNLALLL  246 (291)
T ss_pred             -------cHHHHHHHHHHHHhhCcccHHHHhhHHHHH
Confidence                   246666777777777766444444444433

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.66  E-value=0.9  Score=43.06  Aligned_cols=152  Identities=26%  Similarity=0.228  Sum_probs=121.7

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHH-HHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC---ChHHHHHHHHHHHh
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKL-AVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK---SYGAWHHRKWILSK  117 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~-~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK---sy~aW~hR~w~L~~  117 (699)
                      ++++..+..++...++....+.+... ++...+.            +.+++..+++++..+|.   .......+......
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (291)
T COG0457         112 EEALELLEKALALDPDPDLAEALLALGALYELGD------------YEEALELYEKALELDPELNELAEALLALGALLEA  179 (291)
T ss_pred             HHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHH
Confidence            78999999999999998777777777 6666654            89999999999998873   44444444444333


Q ss_pred             CCCChHHHHHHHHHHHHhCCC-ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          118 GHSSIDNELRLLDKFQKADSR-NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dpr-N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                      . +.+++++..+.+++...+. ...++...+......+.+ +..+..+..++...+.....+......+. ..       
T Consensus       180 ~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-------  249 (291)
T COG0457         180 L-GRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY-EEALEYYEKALELDPDNAEALYNLALLLL-EL-------  249 (291)
T ss_pred             h-cCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH-HHHHHHHHHHHhhCcccHHHHhhHHHHHH-Hc-------
Confidence            3 5789999999999999999 688999999888888866 68999999999999997777777777766 31       


Q ss_pred             cchhchHHHHHHHHHHHHHhCCC
Q 005381          197 VSKEKVLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~~dP~  219 (699)
                          ..++++...+.+++..+|.
T Consensus       250 ----~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         250 ----GRYEEALEALEKALELDPD  268 (291)
T ss_pred             ----CCHHHHHHHHHHHHHhCcc
Confidence                1368888999999999997

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.61  E-value=0.0012  Score=67.71  Aligned_cols=95  Identities=25%  Similarity=0.327  Sum_probs=82.4

Q ss_pred             HHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCC
Q 005381          516 ESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTAL  595 (699)
Q Consensus       516 ~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~  595 (699)
                      -.....|+.+.++++       |++-++.|+.|.-...|+.|++|.||-|+|+++.+|..+++|+.|+|..|.|.++..+
T Consensus         9 V~~raK~sdl~~vkK-------LNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL   81 (388)
T KOG2123|consen    9 VYIRAKCSDLENVKK-------LNCWGCGLDDISICEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDEL   81 (388)
T ss_pred             HHHHHHhhHHHHhhh-------hcccCCCccHHHHHHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHH
Confidence            334445666777666       8899999999988899999999999999999999999999999999999999998766


Q ss_pred             ccccccccccccccccccCCCC
Q 005381          596 EPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       596 ~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      .-+.++++|+.|.|..|+-..-
T Consensus        82 ~YLknlpsLr~LWL~ENPCc~~  103 (388)
T KOG2123|consen   82 EYLKNLPSLRTLWLDENPCCGE  103 (388)
T ss_pred             HHHhcCchhhhHhhccCCcccc
Confidence            7788999999999999987553

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

Probab=95.46  E-value=0.0089  Score=70.62  Aligned_cols=106  Identities=23%  Similarity=0.265  Sum_probs=72.7

Q ss_pred             CCCcccCEEEccCCCCCC--CcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCC
Q 005381          552 DKLLWVQMLDLSHNELRS--IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSS  628 (699)
Q Consensus       552 ~~L~~L~~LdLS~N~L~~--l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l  628 (699)
                      ..||+|+.|.+++=.+..  +.. +.++++|..||+|+..++.+   .+++.|.+|++|.+.+=.+...+          
T Consensus       145 ~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl---~GIS~LknLq~L~mrnLe~e~~~----------  211 (699)
T KOG3665|consen  145 TMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL---SGISRLKNLQVLSMRNLEFESYQ----------  211 (699)
T ss_pred             hhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc---HHHhccccHHHHhccCCCCCchh----------
Confidence            457889999888866622  333 77888999999999988876   67888888998887654443321          


Q ss_pred             CCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchH---HHhhcCCccccccCc
Q 005381          629 PLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKS---FLIKVLPGLKWLDGE  696 (699)
Q Consensus       629 ~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~---~~~~~l~~L~~LD~~  696 (699)
                                                ....+-+| +|+.||+|...- ..+....   .....+|.|+.||..
T Consensus       212 --------------------------~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcS  258 (699)
T KOG3665|consen  212 --------------------------DLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCS  258 (699)
T ss_pred             --------------------------hHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecC
Confidence                                      01234567 899999998877 2221111   112458999999975

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.44  E-value=0.27  Score=45.02  Aligned_cols=96  Identities=16%  Similarity=0.098  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC---hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC---chHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN---FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFS---NYSAWH  179 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN---~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s---N~SAW~  179 (699)
                      .+++++.|+.... +..++++.+|.+++......   ..++-..+..+..+|++ ++.+...++.+...|.   +-..+.
T Consensus         2 ~~~~~~A~a~d~~-G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~-deA~~~L~~~~~~~p~~~~~~~l~~   79 (120)
T PF12688_consen    2 RALYELAWAHDSL-GREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRY-DEALALLEEALEEFPDDELNAALRV   79 (120)
T ss_pred             chHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHHCCCccccHHHHH
Confidence            5789999999987 68999999999999975444   46888889999999999 6788888999999888   777777


Q ss_pred             HHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHH
Q 005381          180 NRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       180 ~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~  215 (699)
                      .....+..+++            .+++++.+..++-
T Consensus        80 f~Al~L~~~gr------------~~eAl~~~l~~la  103 (120)
T PF12688_consen   80 FLALALYNLGR------------PKEALEWLLEALA  103 (120)
T ss_pred             HHHHHHHHCCC------------HHHHHHHHHHHHH
Confidence            77777777655            5777777766653

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.30  E-value=0.43  Score=50.02  Aligned_cols=122  Identities=14%  Similarity=0.013  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC--
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH--  119 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~--  119 (699)
                      ++.+.-.+.-|..||.+..-|-.-+.+...+++            +..++..|.+++++.|+|..+|---.-++....  
T Consensus       139 ~~l~a~Le~~L~~nP~d~egW~~Lg~~ym~~~~------------~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~  206 (287)
T COG4235         139 EALIARLETHLQQNPGDAEGWDLLGRAYMALGR------------ASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQ  206 (287)
T ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcc------------hhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCC
Confidence            456677788899999999999999999998876            899999999999999999999988887776432  


Q ss_pred             CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchH
Q 005381          120 SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYS  176 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~S  176 (699)
                      ..-.+.-.++++++..||.|..+-.|-++-...-++| .+.......+++..|-|-.
T Consensus       207 ~~ta~a~~ll~~al~~D~~~iral~lLA~~afe~g~~-~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         207 QMTAKARALLRQALALDPANIRALSLLAFAAFEQGDY-AEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             cccHHHHHHHHHHHhcCCccHHHHHHHHHHHHHcccH-HHHHHHHHHHHhcCCCCCc
Confidence            2235788899999999999999999999998888998 6788888898888776654

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

Probab=95.18  E-value=1.5  Score=50.40  Aligned_cols=184  Identities=13%  Similarity=0.065  Sum_probs=133.6

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccC----------CCCc-----------hhhhhhHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEN----------DSDP-----------DSLKSILDEELRVVE   95 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~----------~~~~-----------~~~~~~~~eEL~~~~   95 (699)
                      .|+. ..|..+.+.++..||.+-.+|...-.+.......+          ...|           +-.....++++++++
T Consensus       597 agdv-~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllE  675 (913)
T KOG0495|consen  597 AGDV-PAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLE  675 (913)
T ss_pred             cCCc-HHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHH
Confidence            3444 68999999999999999999986544433221100          0111           123355788888888


Q ss_pred             HHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381           96 SALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus        96 ~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      .||+..|.....|...+.+..++ ...+.+-+.|..-++.-|...--|---.-+=++-+.. -.+-...+++.-.||.|.
T Consensus       676 e~lk~fp~f~Kl~lmlGQi~e~~-~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~-~rAR~ildrarlkNPk~~  753 (913)
T KOG0495|consen  676 EALKSFPDFHKLWLMLGQIEEQM-ENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQL-VRARSILDRARLKNPKNA  753 (913)
T ss_pred             HHHHhCCchHHHHHHHhHHHHHH-HHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcch-hhHHHHHHHHHhcCCCcc
Confidence            88888888888888888888877 4777888888888888888888887655555555544 456667788888999999


Q ss_pred             HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          176 SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       176 SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      --|--.-.+=.++            +..+++-..+.+|+.-.|+.--.|--.-||-....
T Consensus       754 ~lwle~Ir~ElR~------------gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~  801 (913)
T KOG0495|consen  754 LLWLESIRMELRA------------GNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQ  801 (913)
T ss_pred             hhHHHHHHHHHHc------------CCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcc
Confidence            8886554433333            23567778889999999999999999999986644

>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]

Probab=95.15  E-value=0.0094  Score=66.54  Aligned_cols=40  Identities=33%  Similarity=0.561  Sum_probs=29.9

Q ss_pred             CCCCCccEEEecCCCC-----CCccchHHHhhcCCccccccCccC
Q 005381          659 LKGLNLTQFDIVGNAI-----VNEKFKSFLIKVLPGLKWLDGEQL  698 (699)
Q Consensus       659 l~~L~L~~LdLs~N~l-----~~~~~~~~~~~~l~~L~~LD~~~i  698 (699)
                      ++++.|+.|-|.||+|     ....+...+...+|+|..|||..|
T Consensus       267 ~k~l~Leel~l~GNPlc~tf~~~s~yv~~i~~~FPKL~~LDG~ev  311 (585)
T KOG3763|consen  267 LKGLPLEELVLEGNPLCTTFSDRSEYVSAIRELFPKLLRLDGVEV  311 (585)
T ss_pred             hcCCCHHHeeecCCccccchhhhHHHHHHHHHhcchheeecCccc
Confidence            4444788999999999     122344566778999999999876

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=95.10  E-value=0.0091  Score=72.37  Aligned_cols=75  Identities=29%  Similarity=0.361  Sum_probs=62.4

Q ss_pred             EEccCCC--CCccc--CCCCCcccCEEEccCC-CCCCCcC-CccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          538 LQLKNLS--LSRLG--SFDKLLWVQMLDLSHN-ELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~--l~~l~--~l~~L~~L~~LdLS~N-~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      |-+.+|.  +..++  .|..++.|..||||+| .++.+|. ++.|-+|+.|+|++..+..+  |..+++|..|.+||+..
T Consensus       550 Lll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~L--P~~l~~Lk~L~~Lnl~~  627 (889)
T KOG4658|consen  550 LLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHL--PSGLGNLKKLIYLNLEV  627 (889)
T ss_pred             EEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCcccc--chHHHHHHhhheecccc
Confidence            6677775  55555  4888999999999987 5688998 99999999999999999887  68889999999999987


Q ss_pred             ccC
Q 005381          612 NEI  614 (699)
Q Consensus       612 N~I  614 (699)
                      +.-
T Consensus       628 ~~~  630 (889)
T KOG4658|consen  628 TGR  630 (889)
T ss_pred             ccc
Confidence            764

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.94  E-value=0.83  Score=47.90  Aligned_cols=124  Identities=9%  Similarity=-0.045  Sum_probs=101.7

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcC--CChHHHHHH
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMN--RSEEDELKY  163 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~--~~~e~EL~~  163 (699)
                      ..++-+.-.+.-|..||.+..-|..-+-+.-.. ++++.++..|.+++++.|+|...|---+-++-...  ....+.-+.
T Consensus       137 ~~~~l~a~Le~~L~~nP~d~egW~~Lg~~ym~~-~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~l  215 (287)
T COG4235         137 EMEALIARLETHLQQNPGDAEGWDLLGRAYMAL-GRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARAL  215 (287)
T ss_pred             cHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh-cchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            366777888999999999999999888888776 58999999999999999999999886666654442  233567778


Q ss_pred             HHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          164 TEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       164 ~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                      .++++..||.|..+-.|.++-...-            ..|.+++......+...|.|..
T Consensus       216 l~~al~~D~~~iral~lLA~~afe~------------g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         216 LRQALALDPANIRALSLLAFAAFEQ------------GDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHhcCCccHHHHHHHHHHHHHc------------ccHHHHHHHHHHHHhcCCCCCc
Confidence            8999999999999988888766544            3389999999999888877654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=94.85  E-value=0.29  Score=56.57  Aligned_cols=118  Identities=16%  Similarity=0.209  Sum_probs=102.7

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      +++| +++.+..+..+++||=....|+.+|-+-.++++            ++.+...|..|+...|.+..+|+.-.-..-
T Consensus       498 ~~~f-s~~~~hle~sl~~nplq~~~wf~~G~~ALqlek------------~q~av~aF~rcvtL~Pd~~eaWnNls~ayi  564 (777)
T KOG1128|consen  498 NKDF-SEADKHLERSLEINPLQLGTWFGLGCAALQLEK------------EQAAVKAFHRCVTLEPDNAEAWNNLSTAYI  564 (777)
T ss_pred             chhH-HHHHHHHHHHhhcCccchhHHHhccHHHHHHhh------------hHHHHHHHHHHhhcCCCchhhhhhhhHHHH
Confidence            4666 799999999999999999999999999888865            899999999999999999999999877666


Q ss_pred             hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHH
Q 005381          117 KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMIC  169 (699)
Q Consensus       117 ~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~  169 (699)
                      ++ ..-.++......+++-+-.|...|-+=.-+....|.+ ++.++.+.+...
T Consensus       565 ~~-~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~-eda~~A~~rll~  615 (777)
T KOG1128|consen  565 RL-KKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEF-EDAIKAYHRLLD  615 (777)
T ss_pred             HH-hhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccH-HHHHHHHHHHHH
Confidence            65 3567899999999999999999999888888888887 678877666544

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=94.73  E-value=0.045  Score=60.38  Aligned_cols=88  Identities=14%  Similarity=0.029  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      |..++.++.+||+.+|.+...|..|....-+. ..+..++.-+.++++.||...-|+..|+-+...++.+ .+++.-+.+
T Consensus        20 fd~avdlysKaI~ldpnca~~~anRa~a~lK~-e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~-~~A~~~l~~   97 (476)
T KOG0376|consen   20 FDVAVDLYSKAIELDPNCAIYFANRALAHLKV-ESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEF-KKALLDLEK   97 (476)
T ss_pred             HHHHHHHHHHHHhcCCcceeeechhhhhheee-chhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHH-HHHHHHHHH
Confidence            55555555555555555555555554333333 3444555555555555555555554444444444444 233333344


Q ss_pred             HHHhccCchH
Q 005381          167 MICNNFSNYS  176 (699)
Q Consensus       167 ~I~~n~sN~S  176 (699)
                      +....|++..
T Consensus        98 ~~~l~Pnd~~  107 (476)
T KOG0376|consen   98 VKKLAPNDPD  107 (476)
T ss_pred             hhhcCcCcHH
Confidence            4444444433

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.66  E-value=0.027  Score=39.30  Aligned_cols=28  Identities=14%  Similarity=0.048  Sum_probs=14.6

Q ss_pred             HHHHHHhCCCChhhhhHHHHHHHhcCCC
Q 005381          129 LDKFQKADSRNFHAWNYRRFVAASMNRS  156 (699)
Q Consensus       129 ~~k~L~~dprN~haW~yR~~vl~~l~~~  156 (699)
                      |.++|+++|+|..+|+..++++...|.+
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~   29 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDY   29 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCH
Confidence            4455555555555555555555555444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.60  E-value=0.069  Score=36.73  Aligned_cols=33  Identities=12%  Similarity=0.081  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      .+|.+++.+.... +.+++++.+|++++++||.|
T Consensus         2 ~~~~~~g~~~~~~-~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    2 EAYYNLGNAYFQL-GDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHT-T-HHHHHHHHHHHHHHSTTH
T ss_pred             HHHHHHHHHHHHh-CCchHHHHHHHHHHHHCcCC
Confidence            4788888888877 58888888888888888864

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.38  E-value=0.58  Score=46.81  Aligned_cols=143  Identities=13%  Similarity=0.000  Sum_probs=99.6

Q ss_pred             HHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhh
Q 005381           63 NYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHA  142 (699)
Q Consensus        63 n~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~ha  142 (699)
                      .-||....+++-            ..=+-.-+.++|.++||-..++++-+.-+... +.++-+++.++..+++||.+-.|
T Consensus        69 fERGvlYDSlGL------------~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a-~~fdaa~eaFds~~ELDp~y~Ya  135 (297)
T COG4785          69 FERGVLYDSLGL------------RALARNDFSQALAIRPDMPEVFNYLGIYLTQA-GNFDAAYEAFDSVLELDPTYNYA  135 (297)
T ss_pred             HHhcchhhhhhH------------HHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhc-ccchHHHHHhhhHhccCCcchHH
Confidence            446666666653            23333457789999999999999999988866 69999999999999999999999


Q ss_pred             hhHHHHHHHhcCCChHHHHHHHHHHHHhccCch--HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC
Q 005381          143 WNYRRFVAASMNRSEEDELKYTEDMICNNFSNY--SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD  220 (699)
Q Consensus       143 W~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~--SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d  220 (699)
                      --+|+..+---|++. =+.+-+.+.-..||+|.  +-|-|.--.  ++-+             +++-....+-.....++
T Consensus       136 ~lNRgi~~YY~gR~~-LAq~d~~~fYQ~D~~DPfR~LWLYl~E~--k~dP-------------~~A~tnL~qR~~~~d~e  199 (297)
T COG4785         136 HLNRGIALYYGGRYK-LAQDDLLAFYQDDPNDPFRSLWLYLNEQ--KLDP-------------KQAKTNLKQRAEKSDKE  199 (297)
T ss_pred             HhccceeeeecCchH-hhHHHHHHHHhcCCCChHHHHHHHHHHh--hCCH-------------HHHHHHHHHHHHhccHh
Confidence            999998888888883 34444566677788887  666664321  1111             22222222222334456


Q ss_pred             chhHHHHHHHHcCc
Q 005381          221 QSGWFYHLWLLDQT  234 (699)
Q Consensus       221 ~SaW~Y~~~Ll~~~  234 (699)
                      +-+|+--.+.|++.
T Consensus       200 ~WG~~iV~~yLgki  213 (297)
T COG4785         200 QWGWNIVEFYLGKI  213 (297)
T ss_pred             hhhHHHHHHHHhhc
Confidence            77888777777764

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=94.37  E-value=0.68  Score=51.22  Aligned_cols=110  Identities=13%  Similarity=0.102  Sum_probs=88.3

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.+++++.+++++.+.+|.   ++..-.-++... ..-.+++.+.+++++.+|+++..+....-.+-..+++ +.+++..
T Consensus       183 ~~~~~ai~lle~L~~~~pe---v~~~LA~v~l~~-~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~-~lAL~iA  257 (395)
T PF09295_consen  183 QRYDEAIELLEKLRERDPE---VAVLLARVYLLM-NEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKKY-ELALEIA  257 (395)
T ss_pred             ccHHHHHHHHHHHHhcCCc---HHHHHHHHHHhc-CcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH-HHHHHHH
Confidence            4589999999999999986   333333333223 3556899999999999999999999887777777877 7899999


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHH
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVH  211 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~  211 (699)
                      +++++..|++..+|++...+...+++            +++||-...
T Consensus       258 k~av~lsP~~f~~W~~La~~Yi~~~d------------~e~ALlaLN  292 (395)
T PF09295_consen  258 KKAVELSPSEFETWYQLAECYIQLGD------------FENALLALN  292 (395)
T ss_pred             HHHHHhCchhHHHHHHHHHHHHhcCC------------HHHHHHHHh
Confidence            99999999999999999988887754            677774433

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.30  E-value=0.05  Score=37.98  Aligned_cols=33  Identities=9%  Similarity=0.130  Sum_probs=28.8

Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHH
Q 005381           93 VVESALRQNFKSYGAWHHRKWILSKGHSSIDNEL  126 (699)
Q Consensus        93 ~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL  126 (699)
                      +++++|+.+|+++.+|+..++++... +++++++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~-g~~~~A~   33 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQ-GDYEEAI   33 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHC-cCHHhhc
Confidence            47899999999999999999999977 5777664

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=94.28  E-value=2.3  Score=39.83  Aligned_cols=117  Identities=15%  Similarity=0.014  Sum_probs=83.7

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCc-h--HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---hHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPEL-Y--TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---YGAWH  109 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~-y--taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---y~aW~  109 (699)
                      ..+.. ..+-..++.++..+|+. |  .++.....+....+            .++++...++.++...|..   ..++.
T Consensus        23 ~~~~~-~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g------------~~~~A~~~l~~~~~~~~d~~l~~~a~l   89 (145)
T PF09976_consen   23 QAGDP-AKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQG------------DYDEAKAALEKALANAPDPELKPLARL   89 (145)
T ss_pred             HCCCH-HHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHhhCCCHHHHHHHHH
Confidence            45555 56677899999999999 3  44444555554443            4899999999999987655   33555


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      ....++-.. +.+++++..++. +...+-...++..+|-++...|.+ ++..+.+.++|
T Consensus        90 ~LA~~~~~~-~~~d~Al~~L~~-~~~~~~~~~~~~~~Gdi~~~~g~~-~~A~~~y~~Al  145 (145)
T PF09976_consen   90 RLARILLQQ-GQYDEALATLQQ-IPDEAFKALAAELLGDIYLAQGDY-DEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHHc-CCHHHHHHHHHh-ccCcchHHHHHHHHHHHHHHCCCH-HHHHHHHHHhC
Confidence            556666555 689999999976 334444556788889999999988 67777777653

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

Probab=94.22  E-value=0.024  Score=58.25  Aligned_cols=226  Identities=14%  Similarity=0.037  Sum_probs=122.2

Q ss_pred             CCCccccccccccccCccchhhhhHHHHHHHHHHHHhhhh-ccccccccccHHHHHhhcccCCCCCCCcCCCcHHHHHhc
Q 005381          407 SSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLS-LINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELY  485 (699)
Q Consensus       407 ~~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~-~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~~~~~l~~l  485 (699)
                      +..+.+. +||=.|--++     ..+.|-.-|.+.++|.. .-...++...--.+..+           ....-.++-.|
T Consensus        29 ~d~~~ev-dLSGNtigtE-----A~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~-----------L~~Ll~aLlkc   91 (388)
T COG5238          29 MDELVEV-DLSGNTIGTE-----AMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSN-----------LVMLLKALLKC   91 (388)
T ss_pred             hcceeEE-eccCCcccHH-----HHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHH-----------HHHHHHHHhcC
Confidence            3455555 5665444444     44555555666666664 22222222111111111           23334566788


Q ss_pred             ccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc--C-------------
Q 005381          486 NDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--S-------------  550 (699)
Q Consensus       486 ~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~-------------  550 (699)
                      ++|..+|+|.|.+-...+            +.+...++.-.     +|.+  |.|++|.+-.+.  .             
T Consensus        92 p~l~~v~LSDNAfg~~~~------------e~L~d~is~~t-----~l~H--L~l~NnGlGp~aG~rigkal~~la~nKK  152 (388)
T COG5238          92 PRLQKVDLSDNAFGSEFP------------EELGDLISSST-----DLVH--LKLNNNGLGPIAGGRIGKALFHLAYNKK  152 (388)
T ss_pred             CcceeeeccccccCcccc------------hHHHHHHhcCC-----Ccee--EEeecCCCCccchhHHHHHHHHHHHHhh
Confidence            999999999998432221            11222222222     2333  999999987654  1             


Q ss_pred             CCCCcccCEEEccCCCCCCCcC------CccccccceeecccCCCCCC--CC--CccccccccccccccccccCCCCCcc
Q 005381          551 FDKLLWVQMLDLSHNELRSIEG------LEALQLLSCLNLSNNILGSF--TA--LEPIRQLKSLRALNISYNEIGAHSID  620 (699)
Q Consensus       551 l~~L~~L~~LdLS~N~L~~l~~------l~~L~~L~~L~Ls~N~l~~l--~~--~~~l~~l~~L~~L~Ls~N~I~~lp~~  620 (699)
                      ...-|.|+..+...|++..-+.      |..-.+|.++-+..|.|..-  ..  ...+..+.+|++|||..|-++.....
T Consensus       153 aa~kp~Le~vicgrNRlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~  232 (388)
T COG5238         153 AADKPKLEVVICGRNRLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSR  232 (388)
T ss_pred             hccCCCceEEEeccchhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHH
Confidence            2344789999999999965543      44445789999999987531  11  12344578999999999988765310


Q ss_pred             -cccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC---CccEEEecCCCC
Q 005381          621 -TTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL---NLTQFDIVGNAI  674 (699)
Q Consensus       621 -~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L---~L~~LdLs~N~l  674 (699)
                       ....++..+++.-+.+....++..   +.   -.....|...   +|..|-..+|.+
T Consensus       233 ~La~al~~W~~lrEL~lnDClls~~---G~---~~v~~~f~e~~~p~l~~L~~~Yne~  284 (388)
T COG5238         233 YLADALCEWNLLRELRLNDCLLSNE---GV---KSVLRRFNEKFVPNLMPLPGDYNER  284 (388)
T ss_pred             HHHHHhcccchhhhccccchhhccc---cH---HHHHHHhhhhcCCCccccccchhhh
Confidence             112234444433222222222110   11   1112233333   778888888877

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

Probab=94.21  E-value=2  Score=47.16  Aligned_cols=170  Identities=12%  Similarity=0.053  Sum_probs=107.0

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      +|++ +.|++.|..+|.-+..+..|.+.-+.....++.            ++++|+|+-++-.+=-.+.++.+.-.-+.+
T Consensus       503 ngd~-dka~~~ykeal~ndasc~ealfniglt~e~~~~------------ldeald~f~klh~il~nn~evl~qianiye  569 (840)
T KOG2003|consen  503 NGDL-DKAAEFYKEALNNDASCTEALFNIGLTAEALGN------------LDEALDCFLKLHAILLNNAEVLVQIANIYE  569 (840)
T ss_pred             cCcH-HHHHHHHHHHHcCchHHHHHHHHhcccHHHhcC------------HHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4666 688999999999999998888887777776654            777777776665555556666666655555


Q ss_pred             hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcC---------------------------------CChHHHHHH
Q 005381          117 KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMN---------------------------------RSEEDELKY  163 (699)
Q Consensus       117 ~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~---------------------------------~~~e~EL~~  163 (699)
                      -+ .....+++++-++-.+-|.+.....--+-+..+-|                                 .++|+.+.|
T Consensus       570 ~l-ed~aqaie~~~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y  648 (840)
T KOG2003|consen  570 LL-EDPAQAIELLMQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINY  648 (840)
T ss_pred             Hh-hCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHH
Confidence            44 34455666666655555555444333333322222                                 123667777


Q ss_pred             HHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          164 TEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       164 ~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                      ++++--+.| |.+-|.---   ..-++        ....|+++++.|+..-...|+|-..--|+-.+-+
T Consensus       649 ~ekaaliqp-~~~kwqlmi---asc~r--------rsgnyqka~d~yk~~hrkfpedldclkflvri~~  705 (840)
T KOG2003|consen  649 FEKAALIQP-NQSKWQLMI---ASCFR--------RSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAG  705 (840)
T ss_pred             HHHHHhcCc-cHHHHHHHH---HHHHH--------hcccHHHHHHHHHHHHHhCccchHHHHHHHHHhc
Confidence            776666655 455563221   11111        1234899999999999999999888766555443

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

Probab=94.17  E-value=0.0032  Score=65.23  Aligned_cols=83  Identities=27%  Similarity=0.251  Sum_probs=50.7

Q ss_pred             ccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCc-cc-CCCCCcccCEEEcc
Q 005381          486 NDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSR-LG-SFDKLLWVQMLDLS  563 (699)
Q Consensus       486 ~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~-l~-~l~~L~~L~~LdLS  563 (699)
                      ..|+.+|+|+..+          .-.  .+..+...|.++++          |.|.++.+.. |. .+..-.+|..||||
T Consensus       185 sRlq~lDLS~s~i----------t~s--tl~~iLs~C~kLk~----------lSlEg~~LdD~I~~~iAkN~~L~~lnls  242 (419)
T KOG2120|consen  185 SRLQHLDLSNSVI----------TVS--TLHGILSQCSKLKN----------LSLEGLRLDDPIVNTIAKNSNLVRLNLS  242 (419)
T ss_pred             hhhHHhhcchhhe----------eHH--HHHHHHHHHHhhhh----------ccccccccCcHHHHHHhccccceeeccc
Confidence            4588888887651          111  13445566765554          6666666662 22 56666777788877


Q ss_pred             C-CCCCCCcC---CccccccceeecccCCCC
Q 005381          564 H-NELRSIEG---LEALQLLSCLNLSNNILG  590 (699)
Q Consensus       564 ~-N~L~~l~~---l~~L~~L~~L~Ls~N~l~  590 (699)
                      + |.+++...   +..+..|..|+|+.+.+.
T Consensus       243 m~sG~t~n~~~ll~~scs~L~~LNlsWc~l~  273 (419)
T KOG2120|consen  243 MCSGFTENALQLLLSSCSRLDELNLSWCFLF  273 (419)
T ss_pred             cccccchhHHHHHHHhhhhHhhcCchHhhcc
Confidence            6 34554433   777777777888777654

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.12  E-value=0.051  Score=57.52  Aligned_cols=103  Identities=17%  Similarity=0.120  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh
Q 005381           21 AEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ  100 (699)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~  100 (699)
                      .++-.+...+..+....|++ ++|++.+..+|.+||....+.-.|.-++..+.+            ...|++-|+.++.+
T Consensus       111 ~eqa~e~k~~A~eAln~G~~-~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~k------------p~~airD~d~A~ei  177 (377)
T KOG1308|consen  111 MDQANDKKVQASEALNDGEF-DTAIELFTSAIELNPPLAILYAKRASVFLKLKK------------PNAAIRDCDFAIEI  177 (377)
T ss_pred             HHHHHHHHHHHHHHhcCcch-hhhhcccccccccCCchhhhcccccceeeeccC------------Cchhhhhhhhhhcc
Confidence            33333445555666677887 799999999999999999999999999888865            57888999999999


Q ss_pred             CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCC
Q 005381          101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADS  137 (699)
Q Consensus       101 nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dp  137 (699)
                      ||.+..-+-.|+..=.-+ +.|++|-..+..++++|-
T Consensus       178 n~Dsa~~ykfrg~A~rll-g~~e~aa~dl~~a~kld~  213 (377)
T KOG1308|consen  178 NPDSAKGYKFRGYAERLL-GNWEEAAHDLALACKLDY  213 (377)
T ss_pred             CcccccccchhhHHHHHh-hchHHHHHHHHHHHhccc
Confidence            999998888887766544 678888888888887663

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.77  E-value=1.1  Score=41.40  Aligned_cols=106  Identities=19%  Similarity=0.125  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHH
Q 005381           19 AKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESAL   98 (699)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L   98 (699)
                      ..++..+++.-+..+.-..|+. ++||+.+.++|.+.|+...++|.|...+.--++            .+++|+-+++++
T Consensus        38 ~~~e~S~~LEl~~valaE~g~L-d~AlE~F~qal~l~P~raSayNNRAQa~RLq~~------------~e~ALdDLn~Al  104 (175)
T KOG4555|consen   38 QAIKASRELELKAIALAEAGDL-DGALELFGQALCLAPERASAYNNRAQALRLQGD------------DEEALDDLNKAL  104 (175)
T ss_pred             HHHHHHHHHHHHHHHHHhccch-HHHHHHHHHHHHhcccchHhhccHHHHHHHcCC------------hHHHHHHHHHHH
Confidence            3455555665555666678888 699999999999999999999999887754433            577888888888


Q ss_pred             Hh-CCCC---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC
Q 005381           99 RQ-NFKS---YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR  138 (699)
Q Consensus        99 ~~-nPKs---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr  138 (699)
                      +. .|+-   .+++..|+-+.... ++-+.+-.-++.+.++-.+
T Consensus       105 eLag~~trtacqa~vQRg~lyRl~-g~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  105 ELAGDQTRTACQAFVQRGLLYRLL-GNDDAARADFEAAAQLGSK  147 (175)
T ss_pred             HhcCccchHHHHHHHHHHHHHHHh-CchHHHHHhHHHHHHhCCH
Confidence            63 3442   35677777777654 5666666666666665543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.69  E-value=0.18  Score=34.39  Aligned_cols=33  Identities=15%  Similarity=0.208  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      .+|++.+.++.+. +.+++++++++++++++|+|
T Consensus         2 ~~~~~lg~~~~~~-~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQL-GNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHT-T-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHh-CCHHHHHHHHHHHHHHCcCC
Confidence            5788888888877 58888999999999888876

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.33  E-value=0.83  Score=45.77  Aligned_cols=81  Identities=17%  Similarity=0.149  Sum_probs=67.9

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHH
Q 005381           47 LSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNEL  126 (699)
Q Consensus        47 ~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL  126 (699)
                      -++++|.++|+-..++||-|..+..-+.            |+.+++.++.+++.+|.+--|--.|+..+-.. +++.-+.
T Consensus        87 DftQaLai~P~m~~vfNyLG~Yl~~a~~------------fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~-gR~~LAq  153 (297)
T COG4785          87 DFSQALAIRPDMPEVFNYLGIYLTQAGN------------FDAAYEAFDSVLELDPTYNYAHLNRGIALYYG-GRYKLAQ  153 (297)
T ss_pred             hhhhhhhcCCCcHHHHHHHHHHHHhccc------------chHHHHHhhhHhccCCcchHHHhccceeeeec-CchHhhH
Confidence            4678999999999999999998876543            99999999999999999988888888877755 5777777


Q ss_pred             HHHHHHHHhCCCCh
Q 005381          127 RLLDKFQKADSRNF  140 (699)
Q Consensus       127 ~~~~k~L~~dprN~  140 (699)
                      +-+-+.-..||++.
T Consensus       154 ~d~~~fYQ~D~~DP  167 (297)
T COG4785         154 DDLLAFYQDDPNDP  167 (297)
T ss_pred             HHHHHHHhcCCCCh
Confidence            77777777777775

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

Probab=93.31  E-value=0.034  Score=57.84  Aligned_cols=165  Identities=15%  Similarity=0.107  Sum_probs=86.6

Q ss_pred             hHHHHHHHHHHHHhhhh--ccccccccccHHHHHhhcccCCC-CCCCcCCCcH----HHHHhcccccccCCCCCccccch
Q 005381          430 RAATIAKEIDHFRELLS--LINCKIGKLTLARLLMAHDAMMC-PPANKISHSE----EVLELYNDLMRLDPTHVQYYKDQ  502 (699)
Q Consensus       430 ~~~~L~~el~~~~~L~~--~p~nk~~~Ltl~~ll~~~~~l~~-~~~~~~~~~~----~~l~~l~~L~~LDls~n~~~~~l  502 (699)
                      -...|..-+..|++|..  ..++.....-..-+-.+. .+.. .-..-.|+.+    -.+..++.|..|+++.+..+.+.
T Consensus       198 t~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~-~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~  276 (419)
T KOG2120|consen  198 TVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNS-NLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEK  276 (419)
T ss_pred             eHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccc-cceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchh
Confidence            45788888999998876  333322221111111110 0000 0011123332    24567778888888877754443


Q ss_pred             hhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEccCCC-CCC--CcCCcccccc
Q 005381          503 HSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNE-LRS--IEGLEALQLL  579 (699)
Q Consensus       503 ~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~-L~~--l~~l~~L~~L  579 (699)
                       ....+..+.             .++..|||++..-+|..+.+..  -...+++|.+||||.|. |+.  +..|.+++.|
T Consensus       277 -Vtv~V~his-------------e~l~~LNlsG~rrnl~~sh~~t--L~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L  340 (419)
T KOG2120|consen  277 -VTVAVAHIS-------------ETLTQLNLSGYRRNLQKSHLST--LVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYL  340 (419)
T ss_pred             -hhHHHhhhc-------------hhhhhhhhhhhHhhhhhhHHHH--HHHhCCceeeeccccccccCchHHHHHHhcchh
Confidence             111111111             2344444444222232222222  34578999999999874 433  1127888999


Q ss_pred             ceeecccCCCCCCCCCcccccccccccccccc
Q 005381          580 SCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       580 ~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      ++|.|+.+..-.-...-.+...|+|.+|++-+
T Consensus       341 ~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g  372 (419)
T KOG2120|consen  341 QHLSLSRCYDIIPETLLELNSKPSLVYLDVFG  372 (419)
T ss_pred             eeeehhhhcCCChHHeeeeccCcceEEEEecc
Confidence            99999988732211123466778899888753

>PRK15331 chaperone protein SicA; Provisional

Probab=93.15  E-value=1.5  Score=42.32  Aligned_cols=95  Identities=8%  Similarity=-0.032  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      ++++..++.-+...+|-++.-|.--+-+.+.. ..|++++.+|..+..+++.|+..-.|-+.+.-.++.. +.+.+++..
T Consensus        53 ~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~-k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~-~~A~~~f~~  130 (165)
T PRK15331         53 LDEAETFFRFLCIYDFYNPDYTMGLAAVCQLK-KQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA-AKARQCFEL  130 (165)
T ss_pred             HHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH-HHHHHHHHH
Confidence            88889999988899999988888888888766 5889999999999999999999988889998888887 677888788


Q ss_pred             HHHhccCchHHHHHHHHHH
Q 005381          167 MICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       167 ~I~~n~sN~SAW~~R~~ll  185 (699)
                      +|+ +|. +..-..|...+
T Consensus       131 a~~-~~~-~~~l~~~A~~~  147 (165)
T PRK15331        131 VNE-RTE-DESLRAKALVY  147 (165)
T ss_pred             HHh-Ccc-hHHHHHHHHHH
Confidence            877 344 44444444433

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=93.06  E-value=2.8  Score=38.38  Aligned_cols=96  Identities=15%  Similarity=0.101  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhC
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---YGAWHHRKWILSKGHSSIDNELRLLDKFQKAD  136 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~d  136 (699)
                      .+++.+.++...+++            .++++.+|++++..-...   ..++...+..+..+ +++++++..+++.+...
T Consensus         2 ~~~~~~A~a~d~~G~------------~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~L-G~~deA~~~L~~~~~~~   68 (120)
T PF12688_consen    2 RALYELAWAHDSLGR------------EEEAIPLYRRALAAGLSGADRRRALIQLASTLRNL-GRYDEALALLEEALEEF   68 (120)
T ss_pred             chHHHHHHHHHhcCC------------HHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHC
Confidence            367788888888876            789999999999865444   56788888888877 79999999999999998


Q ss_pred             CC---ChhhhhHHHHHHHhcCCChHHHHHHHHHHHH
Q 005381          137 SR---NFHAWNYRRFVAASMNRSEEDELKYTEDMIC  169 (699)
Q Consensus       137 pr---N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~  169 (699)
                      |.   +-..+.....++...|++ ++.++.+-.++.
T Consensus        69 p~~~~~~~l~~f~Al~L~~~gr~-~eAl~~~l~~la  103 (120)
T PF12688_consen   69 PDDELNAALRVFLALALYNLGRP-KEALEWLLEALA  103 (120)
T ss_pred             CCccccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHH
Confidence            88   777777778888889998 567776665554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.91  E-value=0.2  Score=34.32  Aligned_cols=33  Identities=18%  Similarity=0.060  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS  104 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs  104 (699)
                      .+|..++.+...+++            +++++..++++|+++|++
T Consensus         2 ~~~~~~g~~~~~~~~------------~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGD------------YEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-------------HHHHHHHHHHHHHHSTTH
T ss_pred             HHHHHHHHHHHHhCC------------chHHHHHHHHHHHHCcCC
Confidence            589999999998865            999999999999999974

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.69  E-value=0.24  Score=33.68  Aligned_cols=33  Identities=21%  Similarity=0.372  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC
Q 005381          176 SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD  220 (699)
Q Consensus       176 SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d  220 (699)
                      .+|++++.+....++            ++++++++++++.++|+|
T Consensus         2 ~~~~~lg~~~~~~~~------------~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGN------------YEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-------------HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCC------------HHHHHHHHHHHHHHCcCC
Confidence            478899999888755            899999999999999986

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.49  E-value=1.3  Score=50.18  Aligned_cols=121  Identities=14%  Similarity=0.112  Sum_probs=91.5

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..|++++..++++|.+.|+...|.+-+--.+-+. +.|+++|.+.++-......|..- ..|.+|.-+++.. ++.+...
T Consensus        26 ~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~-~ky~~ALk~ikk~~~~~~~~~~~-fEKAYc~Yrlnk~-Dealk~~  102 (652)
T KOG2376|consen   26 GEYEEAVKTANKILSIVPDDEDAIRCKVVALIQL-DKYEDALKLIKKNGALLVINSFF-FEKAYCEYRLNKL-DEALKTL  102 (652)
T ss_pred             hHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhh-hHHHHHHHHHHhcchhhhcchhh-HHHHHHHHHcccH-HHHHHHH
Confidence            4599999999999999999999985555555455 68999998877755444333332 7899999999987 4566665


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchh
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSG  223 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~Sa  223 (699)
                      +   ..++.+--.-+-|+.++.++++            |+++++.|...+.-+-+|+..
T Consensus       103 ~---~~~~~~~~ll~L~AQvlYrl~~------------ydealdiY~~L~kn~~dd~d~  146 (652)
T KOG2376|consen  103 K---GLDRLDDKLLELRAQVLYRLER------------YDEALDIYQHLAKNNSDDQDE  146 (652)
T ss_pred             h---cccccchHHHHHHHHHHHHHhh------------HHHHHHHHHHHHhcCCchHHH
Confidence            5   4556666678888888888855            899999999888777766654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.45  E-value=0.64  Score=49.35  Aligned_cols=92  Identities=13%  Similarity=0.083  Sum_probs=53.2

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      .+|.| +||++||.+.+...|-+.-..-.|.....++.+            +..+=.-|+.++..|-....|+..|+-.=
T Consensus       109 KQgKy-~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~------------FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR  175 (536)
T KOG4648|consen  109 KQGKY-EEAIDCYSTAIAVYPHNPVYHINRALAYLKQKS------------FAQAEEDCEAAIALDKLYVKAYSRRMQAR  175 (536)
T ss_pred             hccch-hHHHHHhhhhhccCCCCccchhhHHHHHHHHHH------------HHHHHHhHHHHHHhhHHHHHHHHHHHHHH
Confidence            34555 577777777777777665555556655555533            33444445556665555555555555444


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChh
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFH  141 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~h  141 (699)
                      ..+ +...++-+-|+.+|++.|++..
T Consensus       176 ~~L-g~~~EAKkD~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  176 ESL-GNNMEAKKDCETVLALEPKNIE  200 (536)
T ss_pred             HHH-hhHHHHHHhHHHHHhhCcccHH
Confidence            433 3556666677777777776543

>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=92.12  E-value=0.058  Score=33.71  Aligned_cols=16  Identities=50%  Similarity=0.654  Sum_probs=9.0

Q ss_pred             cCEEEccCCCCCCCcC
Q 005381          557 VQMLDLSHNELRSIEG  572 (699)
Q Consensus       557 L~~LdLS~N~L~~l~~  572 (699)
                      |++|||++|.|+.+|.
T Consensus         2 L~~Ldls~n~l~~ip~   17 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPS   17 (22)
T ss_dssp             ESEEEETSSEESEEGT
T ss_pred             ccEEECCCCcCEeCCh
Confidence            4555555555555554

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.12  E-value=0.54  Score=49.88  Aligned_cols=101  Identities=11%  Similarity=-0.041  Sum_probs=79.9

Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      ||--..+. +.|++++.||.+.+..+|-|.-...+|....-+++++...|-+| +.+|..|-+..-|+.-|+..=..|+.
T Consensus       103 ~GN~yFKQ-gKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC-~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  103 RGNTYFKQ-GKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDC-EAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhhc-cchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhH-HHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            44444333 57999999999999999999988889988887777775566655 88899999888999988887776644


Q ss_pred             hhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          191 RKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       191 ~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                                  +.|+-+-+..++.+.|+....--
T Consensus       181 ------------~~EAKkD~E~vL~LEP~~~ELkK  203 (536)
T KOG4648|consen  181 ------------NMEAKKDCETVLALEPKNIELKK  203 (536)
T ss_pred             ------------HHHHHHhHHHHHhhCcccHHHHH
Confidence                        67888888889999999766543

>PRK15386 type III secretion protein GogB; Provisional

Probab=91.91  E-value=0.46  Score=52.56  Aligned_cols=65  Identities=18%  Similarity=0.256  Sum_probs=45.6

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccC-CCCCCCcC-CccccccceeecccC-CCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSH-NELRSIEG-LEALQLLSCLNLSNN-ILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~-N~L~~l~~-l~~L~~L~~L~Ls~N-~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      |+++++.|+.+|.  -..+|+.|.+++ +.++.+|. +  ..+|+.|++++| .+..+  |      .+|+.|+++.|.+
T Consensus        57 L~Is~c~L~sLP~--LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sL--P------~sLe~L~L~~n~~  124 (426)
T PRK15386         57 LYIKDCDIESLPV--LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGL--P------ESVRSLEIKGSAT  124 (426)
T ss_pred             EEeCCCCCcccCC--CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccccc--c------cccceEEeCCCCC
Confidence            8889888888773  234699999987 66777776 4  257889999888 55544  2      2466666766654

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

Probab=91.61  E-value=0.013  Score=58.96  Aligned_cols=67  Identities=22%  Similarity=0.232  Sum_probs=54.5

Q ss_pred             CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          550 SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      .+......+.||+|.|++..+.. |+.++.|..|+++.|+|..+  |..++.+..+..+++..|..+..|
T Consensus        37 ei~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~--~~d~~q~~e~~~~~~~~n~~~~~p  104 (326)
T KOG0473|consen   37 EIASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFL--PKDAKQQRETVNAASHKNNHSQQP  104 (326)
T ss_pred             hhhccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhC--hhhHHHHHHHHHHHhhccchhhCC
Confidence            56667778888999998877776 88888888999999988776  567777888888888888887776

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.57  E-value=0.36  Score=35.53  Aligned_cols=40  Identities=23%  Similarity=0.367  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHH
Q 005381          177 AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHL  228 (699)
Q Consensus       177 AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~  228 (699)
                      +|...+.++..+++            ++++++.+.+++..+|+|..+|..+.
T Consensus         3 ~~~~la~~~~~~G~------------~~~A~~~~~~~l~~~P~~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQ------------PDEAERLLRRALALDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCcCCHHHHHHhh
Confidence            56677777776654            89999999999999999999998753

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=91.37  E-value=6.5  Score=44.98  Aligned_cols=155  Identities=15%  Similarity=0.098  Sum_probs=99.5

Q ss_pred             hcCCCCcHHHHHHHHHHHHh--------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH-------
Q 005381           35 HHNHIYSKEAVELSTKLLET--------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR-------   99 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~--------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~-------   99 (699)
                      -..|+| ++|..++..+|.+        .|.-++.-+.-+.++..+.+            +.+++..|+++|.       
T Consensus       210 ~~~g~~-e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k------------~~eAv~ly~~AL~i~e~~~G  276 (508)
T KOG1840|consen  210 AVQGRL-EKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGK------------YDEAVNLYEEALTIREEVFG  276 (508)
T ss_pred             HHhccH-HHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhcc------------HHHHHHHHHHHHHHHHHhcC
Confidence            457888 8999999999999        88888888877777777754            5566666666654       


Q ss_pred             -hCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhh--------hhHHHHHHHhcCCChHHHHHHHHHHHHh
Q 005381          100 -QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHA--------WNYRRFVAASMNRSEEDELKYTEDMICN  170 (699)
Q Consensus       100 -~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~ha--------W~yR~~vl~~l~~~~e~EL~~~~~~I~~  170 (699)
                       .+|....+.+.-..++.+. +.++++-.+|++++++..+.+-+        -..-+-+...++.+ +++..++.+++++
T Consensus       277 ~~h~~va~~l~nLa~ly~~~-GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~-Eea~~l~q~al~i  354 (508)
T KOG1840|consen  277 EDHPAVAATLNNLAVLYYKQ-GKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEY-EEAKKLLQKALKI  354 (508)
T ss_pred             CCCHHHHHHHHHHHHHHhcc-CChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcch-hHHHHHHHHHHHH
Confidence             3444433433334444333 68999999999999887663222        22333444455666 5677777777765


Q ss_pred             cc-----CchHH---HHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHh
Q 005381          171 NF-----SNYSA---WHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFT  216 (699)
Q Consensus       171 n~-----sN~SA---W~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~  216 (699)
                      .-     .|+..   ..+.+.++..+++            |+++.+++.+||..
T Consensus       355 ~~~~~g~~~~~~a~~~~nl~~l~~~~gk------------~~ea~~~~k~ai~~  396 (508)
T KOG1840|consen  355 YLDAPGEDNVNLAKIYANLAELYLKMGK------------YKEAEELYKKAIQI  396 (508)
T ss_pred             HHhhccccchHHHHHHHHHHHHHHHhcc------------hhHHHHHHHHHHHH
Confidence            32     33233   3344445555544            78888888888864

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=91.07  E-value=8.3  Score=38.47  Aligned_cols=110  Identities=17%  Similarity=0.074  Sum_probs=76.1

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCch---HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELY---TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF  102 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~y---taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP  102 (699)
                      .+..........|.| .+|++.++.++...|...   .++...+.+....+            .+.+++..++..++.+|
T Consensus         7 ~lY~~a~~~~~~g~y-~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~------------~y~~A~~~~~~fi~~yP   73 (203)
T PF13525_consen    7 ALYQKALEALQQGDY-EEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQG------------DYEEAIAAYERFIKLYP   73 (203)
T ss_dssp             HHHHHHHHHHHCT-H-HHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-------------HHHHHHHHHHHHHH-T
T ss_pred             HHHHHHHHHHHCCCH-HHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcC------------CHHHHHHHHHHHHHHCC
Confidence            444555666788888 799999999999998765   55555555555553            49999999999999999


Q ss_pred             CChH---HHHHHHHHHHhCC----------CChHHHHHHHHHHHHhCCCChhhhhHHHH
Q 005381          103 KSYG---AWHHRKWILSKGH----------SSIDNELRLLDKFQKADSRNFHAWNYRRF  148 (699)
Q Consensus       103 Ksy~---aW~hR~w~L~~~~----------~~~~~EL~~~~k~L~~dprN~haW~yR~~  148 (699)
                      ++..   |++.++.......          ....+++..+..+++..|..-++-.=+..
T Consensus        74 ~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~  132 (203)
T PF13525_consen   74 NSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKR  132 (203)
T ss_dssp             T-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHH
T ss_pred             CCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHH
Confidence            9875   7777877654221          12347888888888888888877554433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=90.68  E-value=0.61  Score=34.25  Aligned_cols=40  Identities=23%  Similarity=0.285  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYR  146 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR  146 (699)
                      .+|...+.++... +.++++.+.++++++.+|.|..+|..-
T Consensus         2 ~~~~~la~~~~~~-G~~~~A~~~~~~~l~~~P~~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRL-GQPDEAERLLRRALALDPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCcCCHHHHHHh
Confidence            4566666666666 577777777777777777777777643

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=90.68  E-value=22  Score=38.36  Aligned_cols=123  Identities=13%  Similarity=0.077  Sum_probs=85.6

Q ss_pred             HHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHH
Q 005381           46 ELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNE  125 (699)
Q Consensus        46 ~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~E  125 (699)
                      .-+.+.+..||.+..+|--=-.....+...............+.-|..+++||+.||.+...|....-+..+.- +-++-
T Consensus         6 ~el~~~v~~~P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~np~~~~L~l~~l~~~~~~~-~~~~l   84 (321)
T PF08424_consen    6 AELNRRVRENPHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHNPDSERLLLGYLEEGEKVW-DSEKL   84 (321)
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhC-CHHHH
Confidence            34678899999999999854444444322000002345567889999999999999999999988877777663 55566


Q ss_pred             HHHHHHHHHhCCCChhhhhHH-HHHHHhcCCCh-HHHHHHHHHHHH
Q 005381          126 LRLLDKFQKADSRNFHAWNYR-RFVAASMNRSE-EDELKYTEDMIC  169 (699)
Q Consensus       126 L~~~~k~L~~dprN~haW~yR-~~vl~~l~~~~-e~EL~~~~~~I~  169 (699)
                      .+-.++++..+|.++.-|--. .|....++.+. .+-.+.+.++|.
T Consensus        85 ~~~we~~l~~~~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~  130 (321)
T PF08424_consen   85 AKKWEELLFKNPGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLR  130 (321)
T ss_pred             HHHHHHHHHHCCCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Confidence            778899999999999999755 55555555432 334444444443

>PRK15331 chaperone protein SicA; Provisional

Probab=90.36  E-value=14  Score=35.77  Aligned_cols=93  Identities=8%  Similarity=-0.151  Sum_probs=82.0

Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHH
Q 005381           28 QSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGA  107 (699)
Q Consensus        28 ~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~a  107 (699)
                      -+......++|.+ ++|..++.-+...+|-++..|.--+-+.+.++.            |++++.+|..+....+++|..
T Consensus        41 Y~~Ay~~y~~Gk~-~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~------------y~~Ai~~Y~~A~~l~~~dp~p  107 (165)
T PRK15331         41 YAHAYEFYNQGRL-DEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQ------------FQKACDLYAVAFTLLKNDYRP  107 (165)
T ss_pred             HHHHHHHHHCCCH-HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHcccCCCCc
Confidence            3445667788999 799999999999999999999888888887754            999999999999999999999


Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381          108 WHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus       108 W~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      -.|-+-+.-.+ +..+.+..++..+++
T Consensus       108 ~f~agqC~l~l-~~~~~A~~~f~~a~~  133 (165)
T PRK15331        108 VFFTGQCQLLM-RKAAKARQCFELVNE  133 (165)
T ss_pred             cchHHHHHHHh-CCHHHHHHHHHHHHh
Confidence            99999988877 588999999999988

>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=90.25  E-value=0.18  Score=29.47  Aligned_cols=16  Identities=44%  Similarity=0.578  Sum_probs=7.0

Q ss_pred             ccCEEEccCCCCCCCc
Q 005381          556 WVQMLDLSHNELRSIE  571 (699)
Q Consensus       556 ~L~~LdLS~N~L~~l~  571 (699)
                      +|+.|+|++|+|+.+|
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            4556666666655543

...

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=90.12  E-value=4.4  Score=37.56  Aligned_cols=70  Identities=19%  Similarity=0.152  Sum_probs=50.0

Q ss_pred             CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHh-ccCch---HHHHHHHHHHHHhhh
Q 005381          120 SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICN-NFSNY---SAWHNRSLLLSNLLK  190 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~-n~sN~---SAW~~R~~ll~~l~~  190 (699)
                      ++++.+|+.+.++|.+-|.+.+|+++|...++--++. ++.++-..++++. .+.--   .|+.+|+.+.+.++.
T Consensus        57 g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~-e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   57 GDLDGALELFGQALCLAPERASAYNNRAQALRLQGDD-EEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             cchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCCh-HHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            5777888888888888888888888887777766666 6777777777775 23322   466777777766654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=90.04  E-value=0.54  Score=38.79  Aligned_cols=68  Identities=16%  Similarity=0.069  Sum_probs=51.6

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh----C---CCChHHHHHHHHHHHhCCCChHHHHHH
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ----N---FKSYGAWHHRKWILSKGHSSIDNELRL  128 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~----n---PKsy~aW~hR~w~L~~~~~~~~~EL~~  128 (699)
                      |+-..+++..+.++..+++            ++++++++++++.+    .   |.-..+++..+++.... +++++++++
T Consensus         2 ~~~a~~~~~la~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~-g~~~~A~~~   68 (78)
T PF13424_consen    2 PDTANAYNNLARVYRELGR------------YDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRL-GDYEEALEY   68 (78)
T ss_dssp             HHHHHHHHHHHHHHHHTT-------------HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHT-THHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            4556788889999988865            89999999999954    1   22344566667777776 689999999


Q ss_pred             HHHHHHhC
Q 005381          129 LDKFQKAD  136 (699)
Q Consensus       129 ~~k~L~~d  136 (699)
                      +++++++.
T Consensus        69 ~~~al~i~   76 (78)
T PF13424_consen   69 YQKALDIF   76 (78)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhhh
Confidence            99999864

...

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=89.69  E-value=0.39  Score=53.24  Aligned_cols=70  Identities=14%  Similarity=0.065  Sum_probs=61.6

Q ss_pred             CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          120 SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      ..++.++.+|.|+|++||.+.+-|..|....-+.+.+ ..++.-..++|+.+|...-|++-|+.....+++
T Consensus        18 ~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~-~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~   87 (476)
T KOG0376|consen   18 KVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESF-GGALHDALKAIELDPTYIKAYVRRGTAVMALGE   87 (476)
T ss_pred             chHHHHHHHHHHHHhcCCcceeeechhhhhheeechh-hhHHHHHHhhhhcCchhhheeeeccHHHHhHHH
Confidence            3688999999999999999999999999776666666 568888899999999999999999888887765

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=89.30  E-value=0.8  Score=31.17  Aligned_cols=33  Identities=15%  Similarity=0.179  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      .+|..++-+.... +.+++++++++++++++|+|
T Consensus         2 ~~~~~lg~~y~~~-~~~~~A~~~~~~a~~~~~~n   34 (34)
T PF13181_consen    2 EAYYNLGKIYEQL-GDYEEALEYFEKALELNPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHT-TSHHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCCC
Confidence            5677777777776 57888888888888888754

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=89.17  E-value=23  Score=36.54  Aligned_cols=136  Identities=11%  Similarity=0.089  Sum_probs=85.9

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHH---HHHHHHHHhCCCChHHHHHHHHHHHHhCCCChh---hhhHHHHHHHhcC----
Q 005381           85 SILDEELRVVESALRQNFKSYGAW---HHRKWILSKGHSSIDNELRLLDKFQKADSRNFH---AWNYRRFVAASMN----  154 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW---~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~h---aW~yR~~vl~~l~----  154 (699)
                      +.+++++..++.++..+|.+..+=   ..-+.+.-+. ..+++++..++++++.+|.+..   |+.-++.+-..++    
T Consensus        46 g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~-~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~  124 (243)
T PRK10866         46 GNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKN-ADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSAL  124 (243)
T ss_pred             CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhh
Confidence            349999999999999999986553   2223333444 6899999999999999998864   4455554422221    


Q ss_pred             -CC------------hHHHHHHHHHHHHhccCchHHHHHHH--HHH-HHhhhhh--ccCccchhchHHHHHHHHHHHHHh
Q 005381          155 -RS------------EEDELKYTEDMICNNFSNYSAWHNRS--LLL-SNLLKRK--VEGFVSKEKVLPDEYEFVHQAIFT  216 (699)
Q Consensus       155 -~~------------~e~EL~~~~~~I~~n~sN~SAW~~R~--~ll-~~l~~~~--~~~~~~~~~~~~eeL~~~~~ai~~  216 (699)
                       .+            ..+.++.+.+.|+..|.-..+--=+.  ..+ .++....  .+.+-.+.+.|..++..++..+..
T Consensus       125 ~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~  204 (243)
T PRK10866        125 QGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRD  204 (243)
T ss_pred             hhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHH
Confidence             00            14577888999999996654432222  122 2221110  011122334577888888888888


Q ss_pred             CCCCc
Q 005381          217 DPDDQ  221 (699)
Q Consensus       217 dP~d~  221 (699)
                      .|+-.
T Consensus       205 Yp~t~  209 (243)
T PRK10866        205 YPDTQ  209 (243)
T ss_pred             CCCCc
Confidence            88743

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=89.15  E-value=7.3  Score=36.42  Aligned_cols=113  Identities=11%  Similarity=-0.062  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHHHhCCCC-hH--HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh---hhhhHHHHHHHhcCCChHHH
Q 005381           87 LDEELRVVESALRQNFKS-YG--AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF---HAWNYRRFVAASMNRSEEDE  160 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKs-y~--aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~---haW~yR~~vl~~l~~~~e~E  160 (699)
                      ....-..++.+...+|++ |.  ++....-+.... +.++++.+.+++++...|...   -++.....++-..+.+ ++.
T Consensus        27 ~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~-g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~-d~A  104 (145)
T PF09976_consen   27 PAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQ-GDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY-DEA  104 (145)
T ss_pred             HHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH-HHH
Confidence            455556789999999999 43  333333444333 689999999999999875542   3555557777777887 567


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHH
Q 005381          161 LKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAI  214 (699)
Q Consensus       161 L~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai  214 (699)
                      ++.... +...+....++..++-++...++            ++++...|.+|+
T Consensus       105 l~~L~~-~~~~~~~~~~~~~~Gdi~~~~g~------------~~~A~~~y~~Al  145 (145)
T PF09976_consen  105 LATLQQ-IPDEAFKALAAELLGDIYLAQGD------------YDEARAAYQKAL  145 (145)
T ss_pred             HHHHHh-ccCcchHHHHHHHHHHHHHHCCC------------HHHHHHHHHHhC
Confidence            777544 55555566777788888777655            688999888874

>PRK15386 type III secretion protein GogB; Provisional

Probab=89.06  E-value=0.6  Score=51.68  Aligned_cols=62  Identities=19%  Similarity=0.211  Sum_probs=46.5

Q ss_pred             CCCCcccCEEEccCCCCCCCcCCccccccceeeccc-CCCCCCCCCccccccccccccccccc-cCCCCC
Q 005381          551 FDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSN-NILGSFTALEPIRQLKSLRALNISYN-EIGAHS  618 (699)
Q Consensus       551 l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~-N~l~~l~~~~~l~~l~~L~~L~Ls~N-~I~~lp  618 (699)
                      +..+.++..|++++|.|+.+|.+  ..+|+.|.+++ +.++.+  |..+  .++|+.|++++| .+..+|
T Consensus        48 ~~~~~~l~~L~Is~c~L~sLP~L--P~sLtsL~Lsnc~nLtsL--P~~L--P~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         48 IEEARASGRLYIKDCDIESLPVL--PNELTEITIENCNNLTTL--PGSI--PEGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             HHHhcCCCEEEeCCCCCcccCCC--CCCCcEEEccCCCCcccC--Cchh--hhhhhheEccCcccccccc
Confidence            44468899999999999999842  23699999987 556655  3333  258999999998 777765

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

Probab=88.43  E-value=39  Score=36.22  Aligned_cols=120  Identities=14%  Similarity=0.180  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHHHhCCCchHHH--H-HHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 005381           42 KEAVELSTKLLETNPELYTAW--N-YRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaW--n-~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~  118 (699)
                      ++|++.-.++.++.|+.|.+=  . |=-.....+.          ...++.++..+.+++..|||+.-|=--.+-+.-..
T Consensus       158 ~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~----------~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~  227 (389)
T COG2956         158 EKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALA----------SSDVDRARELLKKALQADKKCVRASIILGRVELAK  227 (389)
T ss_pred             HHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhh----------hhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhc
Confidence            466666666777777766432  1 2222222222          25578899999999999999998877777766654


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhh-hhHHHHHHHhcCCChHHHHHHHHHHHHhccC
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHA-WNYRRFVAASMNRSEEDELKYTEDMICNNFS  173 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~ha-W~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s  173 (699)
                       +.++.+++.++.+++.||..-.- -.--.-+..++|++ ++-+.|..++++.++.
T Consensus       228 -g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~-~~~~~fL~~~~~~~~g  281 (389)
T COG2956         228 -GDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKP-AEGLNFLRRAMETNTG  281 (389)
T ss_pred             -cchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHccCC
Confidence             68999999999999999853321 11112233445666 5566676666665543

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

Probab=88.43  E-value=0.61  Score=42.30  Aligned_cols=75  Identities=20%  Similarity=0.390  Sum_probs=41.6

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      +.+.. .+..++  .|.++++|+.+.+..+ +..++.  |..+++|+.+.+.+ .+..++. ..|..+++|+.+.+..| 
T Consensus        17 i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~-~~F~~~~~l~~i~~~~~-   91 (129)
T PF13306_consen   17 ITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGD-NAFSNCTNLKNIDIPSN-   91 (129)
T ss_dssp             EEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-T-TTTTT-TTECEEEETTT-
T ss_pred             EEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccc-ccccccccccccccCcc-
Confidence            55553 456555  6777777888888775 766666  77777788888765 4444422 45666777877777654 


Q ss_pred             CCCC
Q 005381          614 IGAH  617 (699)
Q Consensus       614 I~~l  617 (699)
                      +..+
T Consensus        92 ~~~i   95 (129)
T PF13306_consen   92 ITEI   95 (129)
T ss_dssp             -BEE
T ss_pred             ccEE
Confidence            4444

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=88.17  E-value=5.8  Score=44.53  Aligned_cols=151  Identities=19%  Similarity=0.251  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      +.-+++-.++|++||++.+||..-.+        ++.      ..+.++.+++.++++....++.    |....+.....
T Consensus       185 ~aRIkaA~eALei~pdCAdAYILLAE--------EeA------~Ti~Eae~l~rqAvkAgE~~lg----~s~~~~~~g~~  246 (539)
T PF04184_consen  185 QARIKAAKEALEINPDCADAYILLAE--------EEA------STIVEAEELLRQAVKAGEASLG----KSQFLQHHGHF  246 (539)
T ss_pred             HHHHHHHHHHHHhhhhhhHHHhhccc--------ccc------cCHHHHHHHHHHHHHHHHHhhc----hhhhhhcccch
Confidence            67788999999999999999864332        111      1134444455554443333222    11111111000


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHH--HHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccch
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYR--RFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSK  199 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR--~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~  199 (699)
                      ++       .....| -|-...--|  +.++.++|+. +++++-+.++++.+| +-+.-.-|..|+..+..         
T Consensus       247 ~e-------~~~~Rd-t~~~~y~KrRLAmCarklGr~-~EAIk~~rdLlke~p-~~~~l~IrenLie~LLe---------  307 (539)
T PF04184_consen  247 WE-------AWHRRD-TNVLVYAKRRLAMCARKLGRL-REAIKMFRDLLKEFP-NLDNLNIRENLIEALLE---------  307 (539)
T ss_pred             hh-------hhhccc-cchhhhhHHHHHHHHHHhCCh-HHHHHHHHHHHhhCC-ccchhhHHHHHHHHHHh---------
Confidence            01       001111 111111222  3456678887 678888899998887 33444567777776643         


Q ss_pred             hchHHHHHHHHHHHHHhCCCC----chhHHHHHHHHcC
Q 005381          200 EKVLPDEYEFVHQAIFTDPDD----QSGWFYHLWLLDQ  233 (699)
Q Consensus       200 ~~~~~eeL~~~~~ai~~dP~d----~SaW~Y~~~Ll~~  233 (699)
                          .++..-++..+..+.++    ..+|+|-+-||..
T Consensus       308 ----lq~Yad~q~lL~kYdDi~lpkSAti~YTaALLka  341 (539)
T PF04184_consen  308 ----LQAYADVQALLAKYDDISLPKSATICYTAALLKA  341 (539)
T ss_pred             ----cCCHHHHHHHHHHhccccCCchHHHHHHHHHHHH
Confidence                23444555566666553    6889999999864

The molecular function of this protein is uncertain.

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=87.64  E-value=13  Score=42.71  Aligned_cols=148  Identities=10%  Similarity=0.043  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh
Q 005381           61 AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF  140 (699)
Q Consensus        61 aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~  140 (699)
                      +|++.......++.            ++++|.+.++||...|..+....-++-++... +.+.++.+..+.+-.+|..+-
T Consensus       196 ~~~~lAqhyd~~g~------------~~~Al~~Id~aI~htPt~~ely~~KarilKh~-G~~~~Aa~~~~~Ar~LD~~DR  262 (517)
T PF12569_consen  196 TLYFLAQHYDYLGD------------YEKALEYIDKAIEHTPTLVELYMTKARILKHA-GDLKEAAEAMDEARELDLADR  262 (517)
T ss_pred             HHHHHHHHHHHhCC------------HHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhCChhhH
Confidence            34677777777754            89999999999999999999999999999987 699999999999999998764


Q ss_pred             hhhhHHHHHHHhcCCChHHHHHHHHHHHHhc--cCc-----hHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHH
Q 005381          141 HAWNYRRFVAASMNRSEEDELKYTEDMICNN--FSN-----YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQA  213 (699)
Q Consensus       141 haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n--~sN-----~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~a  213 (699)
                      .-=+--.-.+-+.|.. +++.+.+....+.+  |..     .+.|+.....-....          .+.+-.+|..++..
T Consensus       263 yiNsK~aKy~LRa~~~-e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r----------~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  263 YINSKCAKYLLRAGRI-EEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLR----------QGDYGLALKRFHAV  331 (517)
T ss_pred             HHHHHHHHHHHHCCCH-HHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHH----------HhhHHHHHHHHHHH
Confidence            3211111112223443 44444444443333  222     357766554333221          12355666655544


Q ss_pred             H------HhCCCCchhHHHHHHHHc
Q 005381          214 I------FTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       214 i------~~dP~d~SaW~Y~~~Ll~  232 (699)
                      .      ..|-=|-..|+.++..+.
T Consensus       332 ~k~f~~~~~DQfDFH~Yc~RK~t~r  356 (517)
T PF12569_consen  332 LKHFDDFEEDQFDFHSYCLRKMTLR  356 (517)
T ss_pred             HHHHHHHhcccccHHHHHHhhccHH
Confidence            3      233345556666655443

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.48  E-value=2.5  Score=43.01  Aligned_cols=84  Identities=13%  Similarity=0.097  Sum_probs=68.2

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      +.+...|+++|.++|.+||-..+.|-.|..+-.++.            .++....-+.+++...|+..-+=+.-+-.+.+
T Consensus        23 ~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~------------~~~~v~~dcrralql~~N~vk~h~flg~~~l~   90 (284)
T KOG4642|consen   23 PKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLK------------HWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQ   90 (284)
T ss_pred             hhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhh------------hhhhhhhhHHHHHhcChHHHHHHHHHHHHHHh
Confidence            444579999999999999999999888887776653            47888889999999999999988887655554


Q ss_pred             CCCChHHHHHHHHHHHH
Q 005381          118 GHSSIDNELRLLDKFQK  134 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~  134 (699)
                      .+ .+++++..+.++..
T Consensus        91 s~-~~~eaI~~Lqra~s  106 (284)
T KOG4642|consen   91 SK-GYDEAIKVLQRAYS  106 (284)
T ss_pred             hc-cccHHHHHHHHHHH
Confidence            53 68889998888843

>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=87.25  E-value=0.22  Score=29.07  Aligned_cols=15  Identities=33%  Similarity=0.558  Sum_probs=5.8

Q ss_pred             cccccccccccCCCC
Q 005381          603 SLRALNISYNEIGAH  617 (699)
Q Consensus       603 ~L~~L~Ls~N~I~~l  617 (699)
                      +|+.|+|++|+|+.+
T Consensus         2 ~L~~L~l~~n~L~~l   16 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSL   16 (17)
T ss_dssp             T-SEEEETSS--SSE
T ss_pred             ccCEEECCCCCCCCC
Confidence            344555555554443

...

>KOG1310 consensus WD40 repeat protein [General function prediction only]

Probab=87.00  E-value=2.4  Score=47.52  Aligned_cols=112  Identities=10%  Similarity=-0.021  Sum_probs=85.9

Q ss_pred             CCChHHHHHHHHHHHhCCC-----ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcC--CChHHHHHHHHHHHHhccCc
Q 005381          102 FKSYGAWHHRKWILSKGHS-----SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMN--RSEEDELKYTEDMICNNFSN  174 (699)
Q Consensus       102 PKsy~aW~hR~w~L~~~~~-----~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~--~~~e~EL~~~~~~I~~n~sN  174 (699)
                      ||.|+.--+-.|..+....     .+..|+..+.+++..-|.+..+.-.|.-++.+-+  -..-.++.-|..+++.||+-
T Consensus       365 ~~~~eL~e~ie~~~~egnd~ly~~~~~~~i~~~s~a~q~~~~~~~~l~nraa~lmkRkW~~d~~~AlrDch~Alrln~s~  444 (758)
T KOG1310|consen  365 PRFYELPENIEKFKTEGNDGLYESIVSGAISHYSRAIQYVPDAIYLLENRAAALMKRKWRGDSYLALRDCHVALRLNPSI  444 (758)
T ss_pred             cchhhchHHHHHHHhhccchhhhHHHHHHHHHHHHHhhhccchhHHHHhHHHHHHhhhccccHHHHHHhHHhhccCChHH
Confidence            5667777777777776542     3458899999999999999999888866653321  11135777789999999999


Q ss_pred             hHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          175 YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       175 ~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      .-||++..-.|..+.+            +.+++++...+....|.|..-=.
T Consensus       445 ~kah~~la~aL~el~r------------~~eal~~~~alq~~~Ptd~a~~~  483 (758)
T KOG1310|consen  445 QKAHFRLARALNELTR------------YLEALSCHWALQMSFPTDVARQN  483 (758)
T ss_pred             HHHHHHHHHHHHHHhh------------HHHhhhhHHHHhhcCchhhhhhh
Confidence            9999999999998865            89999998888888887665433

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=86.06  E-value=6.4  Score=41.78  Aligned_cols=88  Identities=8%  Similarity=0.024  Sum_probs=62.5

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHH
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTE  165 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~  165 (699)
                      .++++..+|+.+....|.+....+...++.-.. +.|+++-+.+..+++.||+|..+..+..-+-..+|...+..-++..
T Consensus       182 ~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~-~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  182 KYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQL-GHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             CCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHC-T-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            367888888888777788888877777777666 5888888888888889999988888887777788877443445655


Q ss_pred             HHHHhccCc
Q 005381          166 DMICNNFSN  174 (699)
Q Consensus       166 ~~I~~n~sN  174 (699)
                      .+-..+|..
T Consensus       261 qL~~~~p~h  269 (290)
T PF04733_consen  261 QLKQSNPNH  269 (290)
T ss_dssp             HCHHHTTTS
T ss_pred             HHHHhCCCC
Confidence            555566663

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PLN03077 Protein ECB2; Provisional

Probab=85.83  E-value=33  Score=42.16  Aligned_cols=165  Identities=8%  Similarity=-0.021  Sum_probs=103.9

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH--hCCCChHHHHHHHHHH
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR--QNFKSYGAWHHRKWIL  115 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~--~nPKsy~aW~hR~w~L  115 (699)
                      |.. ++|++.++.+    +.+...||.--..+...+.            .++++++++++..  ..|...+...--. ..
T Consensus       538 G~~-~~A~~~f~~~----~~d~~s~n~lI~~~~~~G~------------~~~A~~lf~~M~~~g~~Pd~~T~~~ll~-a~  599 (857)
T PLN03077        538 GRM-NYAWNQFNSH----EKDVVSWNILLTGYVAHGK------------GSMAVELFNRMVESGVNPDEVTFISLLC-AC  599 (857)
T ss_pred             CCH-HHHHHHHHhc----CCChhhHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCCCcccHHHHHH-HH
Confidence            444 7888888775    5677789976655555544            7899999999887  4566555332222 22


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChhhhhHH--HHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhc
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFHAWNYR--RFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKV  193 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~haW~yR--~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~  193 (699)
                      .+. +.+++++++++.+.+.++-.....+|-  .-++.+.|.. +++.++++++ ...| |...|.-.-..... +    
T Consensus       600 ~~~-g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~-~eA~~~~~~m-~~~p-d~~~~~aLl~ac~~-~----  670 (857)
T PLN03077        600 SRS-GMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKL-TEAYNFINKM-PITP-DPAVWGALLNACRI-H----  670 (857)
T ss_pred             hhc-ChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCH-HHHHHHHHHC-CCCC-CHHHHHHHHHHHHH-c----
Confidence            233 578999999999986554444444444  4446666776 5677776664 2333 34555443333221 1    


Q ss_pred             cCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          194 EGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       194 ~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                             +..+.+-...+++++++|++.+.+..+.+++....+
T Consensus       671 -------~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~  706 (857)
T PLN03077        671 -------RHVELGELAAQHIFELDPNSVGYYILLCNLYADAGK  706 (857)
T ss_pred             -------CChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCC
Confidence                   112334445677889999999998888888765443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.67  E-value=4.7  Score=42.88  Aligned_cols=156  Identities=15%  Similarity=0.092  Sum_probs=115.9

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      +++ ++|+++|..+|+..|.+..+--.-+-  ...-   +       ..-+-+|.+|.++|..--.|.+.+..-+.+-..
T Consensus       304 ~~~-~~a~~lYk~vlk~~~~nvEaiAcia~--~yfY---~-------~~PE~AlryYRRiLqmG~~speLf~NigLCC~y  370 (478)
T KOG1129|consen  304 EQQ-EDALQLYKLVLKLHPINVEAIACIAV--GYFY---D-------NNPEMALRYYRRILQMGAQSPELFCNIGLCCLY  370 (478)
T ss_pred             HhH-HHHHHHHHHHHhcCCccceeeeeeee--cccc---C-------CChHHHHHHHHHHHHhcCCChHHHhhHHHHHHh
Confidence            444 79999999999999998765321110  0010   1       124678999999999999999999888777665


Q ss_pred             CCCChHHHHHHHHHHHHhC---CCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          118 GHSSIDNELRLLDKFQKAD---SRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~d---prN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      . ..+|-.|.++.+++..-   .--...|++-++|.-..|... -+-.++.-++..|+.+-.|.++.+.+-.+-+.    
T Consensus       371 a-qQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~n-lA~rcfrlaL~~d~~h~ealnNLavL~~r~G~----  444 (478)
T KOG1129|consen  371 A-QQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFN-LAKRCFRLALTSDAQHGEALNNLAVLAARSGD----  444 (478)
T ss_pred             h-cchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchH-HHHHHHHHHhccCcchHHHHHhHHHHHhhcCc----
Confidence            4 57889999999998754   344578999999998888873 45566788888999999999999877554332    


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCC
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDD  220 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d  220 (699)
                              ++++-.++..|-...|+-
T Consensus       445 --------i~~Arsll~~A~s~~P~m  462 (478)
T KOG1129|consen  445 --------ILGARSLLNAAKSVMPDM  462 (478)
T ss_pred             --------hHHHHHHHHHhhhhCccc
Confidence                    577777888777777753

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=84.91  E-value=1.2  Score=36.75  Aligned_cols=65  Identities=12%  Similarity=0.129  Sum_probs=48.6

Q ss_pred             ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhC---C-CC---hhhhhHHHHHHHhcCCChHHHHHHHHHHHHh
Q 005381          104 SYGAWHHRKWILSKGHSSIDNELRLLDKFQKAD---S-RN---FHAWNYRRFVAASMNRSEEDELKYTEDMICN  170 (699)
Q Consensus       104 sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~d---p-rN---~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~  170 (699)
                      -..++...+.++... ++++++++++++++++-   + .+   ..++...+.+...+|.+ +++++++++++++
T Consensus         4 ~a~~~~~la~~~~~~-~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~-~~A~~~~~~al~i   75 (78)
T PF13424_consen    4 TANAYNNLARVYREL-GRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDY-EEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHHT-T-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhh
Confidence            346778888888877 69999999999999652   2 22   34555668888888887 7899998888875

...

>PLN03218 maturation of RBCL 1; Provisional

Probab=84.89  E-value=63  Score=40.70  Aligned_cols=133  Identities=14%  Similarity=0.015  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhC-CCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           87 LDEELRVVESALRQN-FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKAD-SRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        87 ~~eEL~~~~~~L~~n-PKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~d-prN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +++++++++.+.+.+ +.+..+|+--.-.+.+. +.+++++++++.+.+.. .-|..+|..-.-.+.+.+.. ++.++.+
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~-G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~-eeA~~l~  672 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQK-GDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDL-DKAFEIL  672 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCH-HHHHHHH
Confidence            666777777777655 33445555444444444 46677777777776642 11334444444444455555 5566666


Q ss_pred             HHHHHhcc-CchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHh--CCCCchhHHHHHHHHcCc
Q 005381          165 EDMICNNF-SNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFT--DPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       165 ~~~I~~n~-sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~--dP~d~SaW~Y~~~Ll~~~  234 (699)
                      .++++... -|...|......+.+.            +.++++++.+++....  .| |...|+.....+.+.
T Consensus       673 ~eM~k~G~~pd~~tynsLI~ay~k~------------G~~eeA~~lf~eM~~~g~~P-dvvtyN~LI~gy~k~  732 (1060)
T PLN03218        673 QDARKQGIKLGTVSYSSLMGACSNA------------KNWKKALELYEDIKSIKLRP-TVSTMNALITALCEG  732 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhC------------CCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHC
Confidence            66666542 2334443333333322            2367777777766442  34 455676655555443

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

Probab=84.80  E-value=0.72  Score=29.78  Aligned_cols=18  Identities=39%  Similarity=0.440  Sum_probs=10.6

Q ss_pred             cccCEEEccCCCCCCCcC
Q 005381          555 LWVQMLDLSHNELRSIEG  572 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~  572 (699)
                      ++|+.|+|++|.|..+|.
T Consensus         2 ~~L~~L~L~~N~l~~lp~   19 (26)
T smart00369        2 PNLRELDLSNNQLSSLPP   19 (26)
T ss_pred             CCCCEEECCCCcCCcCCH
Confidence            455666666666665554

>smart00370 LRR Leucine-rich repeats, outliers

Probab=84.80  E-value=0.72  Score=29.78  Aligned_cols=18  Identities=39%  Similarity=0.440  Sum_probs=10.6

Q ss_pred             cccCEEEccCCCCCCCcC
Q 005381          555 LWVQMLDLSHNELRSIEG  572 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~  572 (699)
                      ++|+.|+|++|.|..+|.
T Consensus         2 ~~L~~L~L~~N~l~~lp~   19 (26)
T smart00370        2 PNLRELDLSNNQLSSLPP   19 (26)
T ss_pred             CCCCEEECCCCcCCcCCH
Confidence            455666666666665554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=84.80  E-value=23  Score=42.42  Aligned_cols=90  Identities=13%  Similarity=0.079  Sum_probs=79.5

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.+..++.-++++++++|+...|=..++.++.++ ++.++++++.+..-...+.+-..-..-..|++.++.. ++...++
T Consensus        23 ~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~-gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~-d~~~~~Y  100 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKKHPNALYAKVLKALSLFRL-GKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKL-DEAVHLY  100 (932)
T ss_pred             HHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHh-cCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhh-hHHHHHH
Confidence            5689999999999999999999999999999998 6999999888887777777777777778889999998 6799999


Q ss_pred             HHHHHhccCchHH
Q 005381          165 EDMICNNFSNYSA  177 (699)
Q Consensus       165 ~~~I~~n~sN~SA  177 (699)
                      ++++..+|+ +.-
T Consensus       101 e~~~~~~P~-eel  112 (932)
T KOG2053|consen  101 ERANQKYPS-EEL  112 (932)
T ss_pred             HHHHhhCCc-HHH
Confidence            999999999 543

>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=84.66  E-value=0.31  Score=30.35  Aligned_cols=13  Identities=54%  Similarity=0.580  Sum_probs=6.3

Q ss_pred             cceeecccCCCCC
Q 005381          579 LSCLNLSNNILGS  591 (699)
Q Consensus       579 L~~L~Ls~N~l~~  591 (699)
                      |+.|+|++|+|+.
T Consensus         2 L~~Ldls~n~l~~   14 (22)
T PF00560_consen    2 LEYLDLSGNNLTS   14 (22)
T ss_dssp             ESEEEETSSEESE
T ss_pred             ccEEECCCCcCEe
Confidence            4445555554443

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 ....

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

Probab=83.29  E-value=0.07  Score=53.79  Aligned_cols=77  Identities=18%  Similarity=0.131  Sum_probs=68.3

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |+++.|.+-.++ .|+.++.|..||+|.|.+.-+|. +..+..+..+++.+|..+..  |..++.++.++.+++-.|.+.
T Consensus        47 ld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~--p~s~~k~~~~k~~e~k~~~~~  124 (326)
T KOG0473|consen   47 LDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQ--PKSQKKEPHPKKNEQKKTEFF  124 (326)
T ss_pred             ehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhC--CccccccCCcchhhhccCcch
Confidence            888989888777 78889999999999999999998 99999999999999999876  677899999999999998864


Q ss_pred             C
Q 005381          616 A  616 (699)
Q Consensus       616 ~  616 (699)
                      .
T Consensus       125 ~  125 (326)
T KOG0473|consen  125 R  125 (326)
T ss_pred             H
Confidence            3

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=83.11  E-value=14  Score=34.86  Aligned_cols=67  Identities=22%  Similarity=0.267  Sum_probs=50.2

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCch---HHHHHHHHHHHhhhc-------cCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           36 HNHIYSKEAVELSTKLLETNPELY---TAWNYRKLAVQHKLT-------ENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~y---taWn~R~~~l~~l~~-------~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      .++++ ++|+..++..|++||.|.   -|+..||.+-.....       ..+.|+    ....+++.-++.++...|+|.
T Consensus        59 ~~~~y-~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~~~~~~~~~~drD~----~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   59 KQGDY-EEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDEGSLQSFFRSDRDP----TPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HccCH-HHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhhhHHhhhcccccCc----HHHHHHHHHHHHHHHHCcCCh
Confidence            45666 699999999999999997   567778866554432       233444    447899999999999999986


Q ss_pred             HH
Q 005381          106 GA  107 (699)
Q Consensus       106 ~a  107 (699)
                      -+
T Consensus       134 ya  135 (142)
T PF13512_consen  134 YA  135 (142)
T ss_pred             hH
Confidence            54

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

Probab=82.81  E-value=1.7  Score=39.28  Aligned_cols=65  Identities=17%  Similarity=0.291  Sum_probs=40.8

Q ss_pred             CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          550 SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      .|.++.+|+.+.+.. .+..++.  |..+.+|+.+.+.++ +..+.. ..|..+++|+.+.+.. .+..++
T Consensus         7 ~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~-~~F~~~~~l~~i~~~~-~~~~i~   73 (129)
T PF13306_consen    7 AFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGD-NAFSNCKSLESITFPN-NLKSIG   73 (129)
T ss_dssp             TTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-T-TTTTT-TT-EEEEETS-TT-EE-
T ss_pred             HHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccce-eeeecccccccccccc-cccccc
Confidence            677888999999984 6877877  999989999999886 777643 5688888899999865 555443

>PRK10941 hypothetical protein; Provisional

Probab=82.46  E-value=7  Score=41.02  Aligned_cols=67  Identities=18%  Similarity=-0.015  Sum_probs=58.1

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      .+.+.+ +.||.+.+.+|.+.|++..-|.-||.+..+++.            +..|+.-++..+...|+...+=.-|..+
T Consensus       192 ~~~~~~-~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c------------~~~A~~DL~~fl~~~P~dp~a~~ik~ql  258 (269)
T PRK10941        192 MEEKQM-ELALRASEALLQFDPEDPYEIRDRGLIYAQLDC------------EHVALSDLSYFVEQCPEDPISEMIRAQI  258 (269)
T ss_pred             HHcCcH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------cHHHHHHHHHHHHhCCCchhHHHHHHHH
Confidence            345555 899999999999999999999999999999976            7899999999999999998886555444

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=82.11  E-value=23  Score=35.20  Aligned_cols=102  Identities=11%  Similarity=0.019  Sum_probs=49.1

Q ss_pred             CChHHHHHHHHHHHHhCCCCh---hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch---HHHHHHHHHHHHhhhhhc
Q 005381          120 SSIDNELRLLDKFQKADSRNF---HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY---SAWHNRSLLLSNLLKRKV  193 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~---haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~---SAW~~R~~ll~~l~~~~~  193 (699)
                      +.++++++.++++....|...   .|+...+.+.-..+.+ ++++..+++.|+.+|...   .|++.++.......+..-
T Consensus        19 g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y-~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~   97 (203)
T PF13525_consen   19 GDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDY-EEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGIL   97 (203)
T ss_dssp             T-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-H-HHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccch
Confidence            456666666666666555433   3444444444444555 445555566666666554   244444444333322110


Q ss_pred             cCccchhchHHHHHHHHHHHHHhCCCCchh
Q 005381          194 EGFVSKEKVLPDEYEFVHQAIFTDPDDQSG  223 (699)
Q Consensus       194 ~~~~~~~~~~~eeL~~~~~ai~~dP~d~Sa  223 (699)
                       ..........+++..+...+...|+..-+
T Consensus        98 -~~~~D~~~~~~A~~~~~~li~~yP~S~y~  126 (203)
T PF13525_consen   98 -RSDRDQTSTRKAIEEFEELIKRYPNSEYA  126 (203)
T ss_dssp             --TT---HHHHHHHHHHHHHHHH-TTSTTH
T ss_pred             -hcccChHHHHHHHHHHHHHHHHCcCchHH
Confidence             00122234577788888888888876544

>PLN03218 maturation of RBCL 1; Provisional

Probab=81.98  E-value=99  Score=39.02  Aligned_cols=147  Identities=12%  Similarity=0.071  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhC
Q 005381           42 KEAVELSTKLLETN-PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ--NFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~n-P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~--nPKsy~aW~hR~w~L~~~  118 (699)
                      ++|+++++.+...+ +.+...|+.--..+.+.            ..+++++++++.+.+.  .|. ...|..-...+.+.
T Consensus       596 deA~elf~~M~e~gi~p~~~tynsLI~ay~k~------------G~~deAl~lf~eM~~~Gv~PD-~~TynsLI~a~~k~  662 (1060)
T PLN03218        596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQK------------GDWDFALSIYDDMKKKGVKPD-EVFFSALVDVAGHA  662 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc------------CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhC
Confidence            45555555555554 22334444333333333            3378888999888875  454 44555555555555


Q ss_pred             CCChHHHHHHHHHHHHhC-CCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc-cCchHHHHHHHHHHHHhhhhhccCc
Q 005381          119 HSSIDNELRLLDKFQKAD-SRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN-FSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~d-prN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n-~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                       +.+++++++++.+.+.. +-|..+|+.-.-.+.+.+.. +++++.++++.+.. .-|...|+.....+.+.        
T Consensus       663 -G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~-eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~--------  732 (1060)
T PLN03218        663 -GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNW-KKALELYEDIKSIKLRPTVSTMNALITALCEG--------  732 (1060)
T ss_pred             -CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCH-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC--------
Confidence             57889999999988765 34566777666667777776 66777777776542 23556666554444433        


Q ss_pred             cchhchHHHHHHHHHHHHH
Q 005381          197 VSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~  215 (699)
                          +.++++++.+++...
T Consensus       733 ----G~~eeAlelf~eM~~  747 (1060)
T PLN03218        733 ----NQLPKALEVLSEMKR  747 (1060)
T ss_pred             ----CCHHHHHHHHHHHHH
Confidence                236778888776654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=81.87  E-value=29  Score=35.79  Aligned_cols=118  Identities=8%  Similarity=-0.107  Sum_probs=78.0

Q ss_pred             ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhh---hHHHHHHHhcCCChHHHHHHHHHHHHhccCch---HH
Q 005381          104 SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAW---NYRRFVAASMNRSEEDELKYTEDMICNNFSNY---SA  177 (699)
Q Consensus       104 sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW---~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~---SA  177 (699)
                      ....++..+-..-+. +.++++++.+++++..+|....+=   ..-+.+.-+.+.+ ++++..+++.|+.+|.+.   .|
T Consensus        31 ~~~~~Y~~A~~~~~~-g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y-~~A~~~~e~fi~~~P~~~~~~~a  108 (243)
T PRK10866         31 PPSEIYATAQQKLQD-GNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADL-PLAQAAIDRFIRLNPTHPNIDYV  108 (243)
T ss_pred             CHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHhCcCCCchHHH
Confidence            556666666655544 699999999999999999876443   2234444556777 689999999999999886   34


Q ss_pred             HHHHHHHHHHhhhh------hccCccchhchHHHHHHHHHHHHHhCCCCchh
Q 005381          178 WHNRSLLLSNLLKR------KVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSG  223 (699)
Q Consensus       178 W~~R~~ll~~l~~~------~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~Sa  223 (699)
                      ++.++..-..+.+.      .............++++.+++.+...|+-+-+
T Consensus       109 ~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya  160 (243)
T PRK10866        109 LYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYT  160 (243)
T ss_pred             HHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhH
Confidence            45554432222110      00011122334578999999999999986544

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

Probab=81.21  E-value=41  Score=40.24  Aligned_cols=45  Identities=18%  Similarity=0.372  Sum_probs=21.2

Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHH
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMIC  169 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~  169 (699)
                      .++++.+.++++.+   +|..+|+--.-.+.+.|.. +++++.++++.+
T Consensus       375 ~~~~A~~vf~~m~~---~d~~t~n~lI~~y~~~G~~-~~A~~lf~~M~~  419 (697)
T PLN03081        375 RMEDARNVFDRMPR---KNLISWNALIAGYGNHGRG-TKAVEMFERMIA  419 (697)
T ss_pred             CHHHHHHHHHhCCC---CCeeeHHHHHHHHHHcCCH-HHHHHHHHHHHH
Confidence            44555555554432   3444555444444444444 445555555544

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=81.10  E-value=2.9  Score=28.27  Aligned_cols=34  Identities=21%  Similarity=0.105  Sum_probs=28.6

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS  104 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs  104 (699)
                      +.+|..++.+...++.            +++++..++++++.+|++
T Consensus         1 a~~~~~lg~~y~~~~~------------~~~A~~~~~~a~~~~~~n   34 (34)
T PF13181_consen    1 AEAYYNLGKIYEQLGD------------YEEALEYFEKALELNPDN   34 (34)
T ss_dssp             -HHHHHHHHHHHHTTS------------HHHHHHHHHHHHHHHTT-
T ss_pred             CHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCCCC
Confidence            3578999999998865            999999999999999953

...

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=80.68  E-value=26  Score=33.10  Aligned_cols=78  Identities=13%  Similarity=-0.029  Sum_probs=42.7

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh---
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY---  105 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy---  105 (699)
                      +...+...+|.| ++|.+.++.+...-|-...+=.-+-++....-.         ...+.+++..+++.++.||++.   
T Consensus        15 ~~a~~~l~~~~Y-~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~---------~~~y~~A~a~~~rFirLhP~hp~vd   84 (142)
T PF13512_consen   15 QEAQEALQKGNY-EEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYK---------QGDYEEAIAAYDRFIRLHPTHPNVD   84 (142)
T ss_pred             HHHHHHHHhCCH-HHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHH---------ccCHHHHHHHHHHHHHhCCCCCCcc
Confidence            333444455666 566666666666666554443333332222211         1346777777777777776664   


Q ss_pred             HHHHHHHHHHH
Q 005381          106 GAWHHRKWILS  116 (699)
Q Consensus       106 ~aW~hR~w~L~  116 (699)
                      -|++.|+..-.
T Consensus        85 Ya~Y~~gL~~~   95 (142)
T PF13512_consen   85 YAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHHHHHH
Confidence            35666665443

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=80.46  E-value=30  Score=37.29  Aligned_cols=123  Identities=13%  Similarity=0.067  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHhCC-----------CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh
Q 005381           89 EELRVVESALRQNFKSYGAWHHRKWILSKGH-----------SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE  157 (699)
Q Consensus        89 eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~-----------~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~  157 (699)
                      +...-+++.++.||.+..+|-----.-....           +..++.+..+++||+.+|.+..-|....-+..++... 
T Consensus         3 ~r~~el~~~v~~~P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~np~~~~L~l~~l~~~~~~~~~-   81 (321)
T PF08424_consen    3 KRTAELNRRVRENPHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHNPDSERLLLGYLEEGEKVWDS-   81 (321)
T ss_pred             hHHHHHHHHHHhCcccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCH-
Confidence            4456678899999999999954333322221           1246889999999999999888888776666655432 


Q ss_pred             HHHHHHHHHHHHhccCchHHHHHH-HHHHHHhhhhhccCccchhchHHHHHHHHHHHHH
Q 005381          158 EDELKYTEDMICNNFSNYSAWHNR-SLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       158 e~EL~~~~~~I~~n~sN~SAW~~R-~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~  215 (699)
                      ++-.+-.++++..+|.++..|-.. .+......   ........++|.+.|........
T Consensus        82 ~~l~~~we~~l~~~~~~~~LW~~yL~~~q~~~~---~f~v~~~~~~y~~~l~~L~~~~~  137 (321)
T PF08424_consen   82 EKLAKKWEELLFKNPGSPELWREYLDFRQSNFA---SFTVSDVRDVYEKCLRALSRRRS  137 (321)
T ss_pred             HHHHHHHHHHHHHCCCChHHHHHHHHHHHHHhc---cCcHHHHHHHHHHHHHHHHHhhc
Confidence            444556799999999999999433 33332221   11222344556666666555443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	699
1ltx_A	567	Structure Of Rab Escort Protein-1 In Complex With R		3e-42
1dce_A	567	Crystal Structure Of Rab Geranylgeranyltransferase		2e-41
4ehm_A	330	Rabggtase In Complex With Covalently Bound Psoromic		8e-38
3pz1_A	332	Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)		8e-38
3dss_A	331	Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)		9e-38
3c72_A	334	Engineered Rabggtase In Complex With A Peptidomimet		1e-37
1o1r_A	380	Structure Of Fpt Bound To Ggpp Length = 380		2e-11
1o5m_A	377	Structure Of Fpt Bound To The Inhibitor Sch66336 Le		2e-11
1qbq_A	333	Structure Of Rat Farnesyl Protein Transferase Compl		2e-11
1nl4_A	312	Crystal Structure Of Rat Farnesyl Transferase In Co		2e-11
2bed_A	313	Structure Of Fpt Bound To Inhibitor Sch207736 Lengt		2e-11
2r2l_A	315	Structure Of Farnesyl Protein Transferase Bound To		2e-11
1n95_A	315	Aryl Tetrahydrophyridine Inhbitors Of Farnesyltranf		2e-11
1ft1_A	377	Crystal Structure Of Protein Farnesyltransferase At		3e-11
3pz4_A	379	Crystal Structure Of Ftase(Alpha-Subunit; Beta-Subu		3e-11
1ft2_A	315	Co-Crystal Structure Of Protein Farnesyltransferase		3e-11
2f0y_A	379	Crystal Structure Of Human Protein Farnesyltransfer		2e-10
1jcq_A	382	Crystal Structure Of Human Protein Farnesyltransfer		2e-10
3dra_A	306	Candida Albicans Protein Geranylgeranyltransferase-		1e-07
3q73_A	349	Cryptococcus Neoformans Protein Farnesyltransferase		6e-06
3q73_A	349	Cryptococcus Neoformans Protein Farnesyltransferase		9e-05
3sfx_A	349	Cryptococcus Neoformans Protein Farnesyltransferase		7e-06
3sfx_A	349	Cryptococcus Neoformans Protein Farnesyltransferase		9e-05

>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab Geranylgeranyl Transferase And Isoprenoid Length = 567

Iteration: 1
 Score =  169 bits (429), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 162/578 (28%), Positives = 239/578 (41%), Gaps = 108/578 (18%)
Query: 1   MHGRPRKPLKPEDXXXXXXXXE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E         E KL++ QS               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60
Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 61  DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118
Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178
Query: 176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR 238
Query: 234 TVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVN 293
               D    V          +   + CL  C S P T   + SR   L+L  ++A     
Sbjct: 239 AEPHDVLCCVH---------VSREEACLSVCFSRPLT---VGSRMGTLLLMVDEA----- 281
Query: 294 SSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQG 353
                              PLS         W T    PDG    S V+  ++       
Sbjct: 282 -------------------PLSV-------EWRT----PDGRNRPSHVWLCDLPAASLND 311
Query: 354 IISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSL 413
            +              FRV     ++Q      KE +  +D          +DS+    L
Sbjct: 312 QLPQ----------HTFRVIWTGSDSQ------KECVLLKDRP----ECWCRDSATDEQL 351
Query: 414 YQLSIKNDNELTDFEWRAATIAKEIDHFRELLSL-INCKIGKLTLARLLMAHDAMMCPPA 472
           ++  +  +        ++  +  E++  +EL  L    K   LT+  L+ A D ++    
Sbjct: 352 FRCELSVE--------KSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLL---- 399
Query: 473 NKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNR 532
               + +E L+ ++ L  +DP    Y  D  S  LL+      E    R  H ++     
Sbjct: 400 ----YEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHK---- 451
Query: 533 GSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI 570
                       L+ L   ++LL V  LDLSHN LR++
Sbjct: 452 -----------DLTVLCHLEQLLLVTHLDLSHNRLRAL 478

>pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From Rat Brain Length = 567

Iteration: 1
 Score =  167 bits (423), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 152/531 (28%), Positives = 225/531 (42%), Gaps = 104/531 (19%)
Query: 44  AVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK 103
            +EL++++L  NP+  T WN R+  +QH   E +  P+   +++  EL  +ES LR N K
Sbjct: 48  VLELTSQILGANPDFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPK 105
Query: 104 SYGAWHHRKWILSK-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELK 162
           SYG WHHR W+LS+    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL 
Sbjct: 106 SYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELA 165
Query: 163 YTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDD 220
           +T+ +I  NFSNYS+WH               G   +  E VL  E E V  A FTDP+D
Sbjct: 166 FTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPND 225
Query: 221 QSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFP 280
           QS WFYH WLL +    D    V          +   + CL  C S P T   + SR   
Sbjct: 226 QSAWFYHRWLLGRAEPHDVLCCVH---------VSREEACLSVCFSRPLT---VGSRMGT 273
Query: 281 LVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSK 340
           L+L  ++A                        PLS         W T    PDG    S 
Sbjct: 274 LLLMVDEA------------------------PLSV-------EWRT----PDGRNRPSH 298
Query: 341 VFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNY 400
           V+  ++        +              FRV     ++Q      KE +  +D      
Sbjct: 299 VWLCDLPAASLNDQLPQ----------HTFRVIWTGSDSQ------KECVLLKDRP---- 338
Query: 401 NAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLSL-INCKIGKLTLAR 459
               +DS+    L++  +  +        ++  +  E++  +EL  L    K   LT+  
Sbjct: 339 ECWCRDSATDEQLFRCELSVE--------KSTVLQSELESCKELQELEPENKWCLLTIIL 390
Query: 460 LLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLL 519
           L+ A D ++        + +E L+ ++ L  +DP    Y  D  S  LL+      E   
Sbjct: 391 LMRALDPLL--------YEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYAD 442
Query: 520 SRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI 570
            R  H ++                 L+ L   ++LL V  LDLSHN LR++
Sbjct: 443 VRVLHLAHK---------------DLTVLCHLEQLLLVTHLDLSHNRLRAL 478

>pdb|4EHM|A Chain A, Rabggtase In Complex With Covalently Bound Psoromic Acid Length = 330

Iteration: 1
 Score =  155 bits (392), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 93/238 (39%), Positives = 125/238 (52%), Gaps = 9/238 (3%)
Query: 1   MHGRPRKPLKPEDXXXXXXXXE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E         E KL++ QS               +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60
Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 61  DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118
Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178
Query: 176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
           S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLL 236

>pdb|3PZ1|A Chain A, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig) In Complex With Bms3 Length = 332

Iteration: 1
 Score =  155 bits (391), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 93/238 (39%), Positives = 125/238 (52%), Gaps = 9/238 (3%)
Query: 1   MHGRPRKPLKPEDXXXXXXXXE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E         E KL++ QS               +  +EL++++L  NP
Sbjct: 3   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 62
Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 63  DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 120
Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 121 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 180
Query: 176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
           S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct: 181 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLL 238

>pdb|3DSS|A Chain A, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig) Length = 331

Iteration: 1
 Score =  155 bits (391), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 93/238 (39%), Positives = 125/238 (52%), Gaps = 9/238 (3%)
Query: 1   MHGRPRKPLKPEDXXXXXXXXE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E         E KL++ QS               +  +EL++++L  NP
Sbjct: 2   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 61
Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 62  DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 119
Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 120 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 179
Query: 176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
           S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct: 180 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLL 237

>pdb|3C72|A Chain A, Engineered Rabggtase In Complex With A Peptidomimetic Inhibitor Length = 334

Iteration: 1
 Score =  155 bits (391), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 93/238 (39%), Positives = 125/238 (52%), Gaps = 9/238 (3%)
Query: 1   MHGRPRKPLKPEDXXXXXXXXE-KLRVLQSQ---FLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E         E KL++ QS               +  +EL++++L  NP
Sbjct: 5   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 64
Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 65  DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 122
Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 123 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 182
Query: 176 SAWHXXXXXXXXXXXXXVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL 231
           S+WH               G   +  E VL  E E V  A FTDP+DQS WFYH WLL
Sbjct: 183 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLL 240

>pdb|1O1R|A Chain A, Structure Of Fpt Bound To Ggpp Length = 380

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/205 (24%), Positives = 93/205 (45%), Gaps = 19/205 (9%)
Query: 22  EKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPD 81
           EK R +   F         S+ A +L+   +E N   YT W++R++ ++           
Sbjct: 97  EKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLR----------- 145
Query: 82  SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH 141
           SL+  L EE+  + + + +  K+Y  WHHR+ +L +       EL  +      D++N+H
Sbjct: 146 SLQKDLQEEMNYITAIIEEQPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYH 204
Query: 142 AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEK 201
           AW +R++V     R  ++EL+Y + ++  +  N S W+               G+ S   
Sbjct: 205 AWQHRQWVIQEF-RLWDNELQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRA 257
Query: 202 VLPDEYEFVHQAIFTDPDDQSGWFY 226
           VL  E ++  + I   P ++S W Y
Sbjct: 258 VLEREVQYTLEMIKLVPHNESAWNY 282

>pdb|1O5M|A Chain A, Structure Of Fpt Bound To The Inhibitor Sch66336 Length = 377

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/205 (24%), Positives = 93/205 (45%), Gaps = 19/205 (9%)
Query: 22  EKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPD 81
           EK R +   F         S+ A +L+   +E N   YT W++R++ ++           
Sbjct: 94  EKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLR----------- 142
Query: 82  SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH 141
           SL+  L EE+  + + + +  K+Y  WHHR+ +L +       EL  +      D++N+H
Sbjct: 143 SLQKDLQEEMNYITAIIEEQPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYH 201
Query: 142 AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEK 201
           AW +R++V     R  ++EL+Y + ++  +  N S W+               G+ S   
Sbjct: 202 AWQHRQWVIQEF-RLWDNELQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRA 254
Query: 202 VLPDEYEFVHQAIFTDPDDQSGWFY 226
           VL  E ++  + I   P ++S W Y
Sbjct: 255 VLEREVQYTLEMIKLVPHNESAWNY 279

>pdb|1QBQ|A Chain A, Structure Of Rat Farnesyl Protein Transferase Complexed With A Cvim Peptide And Alpha-Hydroxyfarnesylphosphonic Acid Length = 333

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/205 (24%), Positives = 93/205 (45%), Gaps = 19/205 (9%)
Query: 22  EKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPD 81
           EK R +   F         S+ A +L+   +E N   YT W++R++ ++           
Sbjct: 50  EKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLR----------- 98
Query: 82  SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH 141
           SL+  L EE+  + + + +  K+Y  WHHR+ +L +       EL  +      D++N+H
Sbjct: 99  SLQKDLQEEMNYITAIIEEQPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYH 157
Query: 142 AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEK 201
           AW +R++V     R  ++EL+Y + ++  +  N S W+               G+ S   
Sbjct: 158 AWQHRQWVIQEF-RLWDNELQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRA 210
Query: 202 VLPDEYEFVHQAIFTDPDDQSGWFY 226
           VL  E ++  + I   P ++S W Y
Sbjct: 211 VLEREVQYTLEMIKLVPHNESAWNY 235

>pdb|1NL4|A Chain A, Crystal Structure Of Rat Farnesyl Transferase In Complex With A Potent Biphenyl Inhibitor Length = 312

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/186 (25%), Positives = 88/186 (47%), Gaps = 19/186 (10%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A +L+   +E N   YT W++R++ ++           SL+  L EE+  + + + +
Sbjct: 59  SERAFKLTRDAIELNAANYTVWHFRRVLLR-----------SLQKDLQEEMNYITAIIEE 107
Query: 101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE 160
             K+Y  WHHR+ +L +       EL  +      D++N+HAW +R++V     R  ++E
Sbjct: 108 QPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF-RLWDNE 165
Query: 161 LKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDD 220
           L+Y + ++  +  N S W+               G+ S   VL  E ++  + I   P +
Sbjct: 166 LQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRAVLEREVQYTLEMIKLVPHN 219
Query: 221 QSGWFY 226
           +S W Y
Sbjct: 220 ESAWNY 225

>pdb|2BED|A Chain A, Structure Of Fpt Bound To Inhibitor Sch207736 Length = 313

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/186 (25%), Positives = 88/186 (47%), Gaps = 19/186 (10%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A +L+   +E N   YT W++R++ ++           SL+  L EE+  + + + +
Sbjct: 60  SERAFKLTRDAIELNAANYTVWHFRRVLLR-----------SLQKDLQEEMNYITAIIEE 108
Query: 101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE 160
             K+Y  WHHR+ +L +       EL  +      D++N+HAW +R++V     R  ++E
Sbjct: 109 QPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF-RLWDNE 166
Query: 161 LKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDD 220
           L+Y + ++  +  N S W+               G+ S   VL  E ++  + I   P +
Sbjct: 167 LQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRAVLEREVQYTLEMIKLVPHN 220
Query: 221 QSGWFY 226
           +S W Y
Sbjct: 221 ESAWNY 226

>pdb|2R2L|A Chain A, Structure Of Farnesyl Protein Transferase Bound To Pb-93 Length = 315

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/186 (25%), Positives = 88/186 (47%), Gaps = 19/186 (10%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A +L+   +E N   YT W++R++ ++           SL+  L EE+  + + + +
Sbjct: 60  SERAFKLTRDAIELNAANYTVWHFRRVLLR-----------SLQKDLQEEMNYITAIIEE 108
Query: 101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE 160
             K+Y  WHHR+ +L +       EL  +      D++N+HAW +R++V     R  ++E
Sbjct: 109 QPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF-RLWDNE 166
Query: 161 LKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDD 220
           L+Y + ++  +  N S W+               G+ S   VL  E ++  + I   P +
Sbjct: 167 LQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRAVLEREVQYTLEMIKLVPHN 220
Query: 221 QSGWFY 226
           +S W Y
Sbjct: 221 ESAWNY 226

>pdb|1N95|A Chain A, Aryl Tetrahydrophyridine Inhbitors Of Farnesyltranferase: Glycine, Phenylalanine And Histidine Derivatives Length = 315

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/186 (25%), Positives = 88/186 (47%), Gaps = 19/186 (10%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A +L+   +E N   YT W++R++ ++           SL+  L EE+  + + + +
Sbjct: 59  SERAFKLTRDAIELNAANYTVWHFRRVLLR-----------SLQKDLQEEMNYITAIIEE 107
Query: 101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE 160
             K+Y  WHHR+ +L +       EL  +      D++N+HAW +R++V     R  ++E
Sbjct: 108 QPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF-RLWDNE 165
Query: 161 LKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDD 220
           L+Y + ++  +  N S W+               G+ S   VL  E ++  + I   P +
Sbjct: 166 LQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRAVLEREVQYTLEMIKLVPHN 219
Query: 221 QSGWFY 226
           +S W Y
Sbjct: 220 ESAWNY 225

>pdb|1FT1|A Chain A, Crystal Structure Of Protein Farnesyltransferase At 2.25 Angstroms Resolution Length = 377

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 51/205 (24%), Positives = 93/205 (45%), Gaps = 19/205 (9%)
Query: 22  EKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPD 81
           EK R +   F         S+ A +L+   +E N   YT W++R++ ++           
Sbjct: 94  EKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLR----------- 142
Query: 82  SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH 141
           SL+  L EE+  + + + +  K+Y  WHHR+ +L +       EL  +      D++N+H
Sbjct: 143 SLQKDLQEEMNYIIAIIEEQPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYH 201
Query: 142 AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEK 201
           AW +R++V     R  ++EL+Y + ++  +  N S W+               G+ S   
Sbjct: 202 AWQHRQWVIQEF-RLWDNELQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRA 254
Query: 202 VLPDEYEFVHQAIFTDPDDQSGWFY 226
           VL  E ++  + I   P ++S W Y
Sbjct: 255 VLEREVQYTLEMIKLVPHNESAWNY 279

>pdb|3PZ4|A Chain A, Crystal Structure Of Ftase(Alpha-Subunit; Beta-Subunit Delta C10) In Complex With Bms3 And Lipid Substrate Fpp Length = 379

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 51/205 (24%), Positives = 93/205 (45%), Gaps = 19/205 (9%)
Query: 22  EKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPD 81
           EK R +   F         S+ A +L+   +E N   YT W++R++ ++           
Sbjct: 96  EKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLR----------- 144
Query: 82  SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH 141
           SL+  L EE+  + + + +  K+Y  WHHR+ +L +       EL  +      D++N+H
Sbjct: 145 SLQKDLQEEMNYIIAIIEEQPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYH 203
Query: 142 AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEK 201
           AW +R++V     R  ++EL+Y + ++  +  N S W+               G+ S   
Sbjct: 204 AWQHRQWVIQEF-RLWDNELQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRA 256
Query: 202 VLPDEYEFVHQAIFTDPDDQSGWFY 226
           VL  E ++  + I   P ++S W Y
Sbjct: 257 VLEREVQYTLEMIKLVPHNESAWNY 281

>pdb|1FT2|A Chain A, Co-Crystal Structure Of Protein Farnesyltransferase Complexed With A Farnesyl Diphosphate Substrate Length = 315

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/186 (25%), Positives = 88/186 (47%), Gaps = 19/186 (10%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A +L+   +E N   YT W++R++ ++           SL+  L EE+  + + + +
Sbjct: 59  SERAFKLTRDAIELNAANYTVWHFRRVLLR-----------SLQKDLQEEMNYIIAIIEE 107
Query: 101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE 160
             K+Y  WHHR+ +L +       EL  +      D++N+HAW +R++V     R  ++E
Sbjct: 108 QPKNYQVWHHRR-VLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF-RLWDNE 165
Query: 161 LKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDD 220
           L+Y + ++  +  N S W+               G+ S   VL  E ++  + I   P +
Sbjct: 166 LQYVDQLLKEDVRNNSVWNQRHFVISNTT-----GY-SDRAVLEREVQYTLEMIKLVPHN 219
Query: 221 QSGWFY 226
           +S W Y
Sbjct: 220 ESAWNY 225

>pdb|2F0Y|A Chain A, Crystal Structure Of Human Protein Farnesyltransferase Complexed With Farnesyl Diphosphate And Hydantoin Derivative Length = 379

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/186 (24%), Positives = 88/186 (47%), Gaps = 19/186 (10%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A +L+   +E N   YT W++R++ ++           SL+  L EE+  + + + +
Sbjct: 113 SERAFKLTRDAIELNAANYTVWHFRRVLLK-----------SLQKDLHEEMNYITAIIEE 161
Query: 101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE 160
             K+Y  WHHR+ +L +       EL  +      D++N+HAW +R++V     +  ++E
Sbjct: 162 QPKNYQVWHHRR-VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF-KLWDNE 219
Query: 161 LKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDD 220
           L+Y + ++  +  N S W+               G+ +   VL  E ++  + I   P +
Sbjct: 220 LQYVDQLLKEDVRNNSVWNQRYFVISNTT-----GY-NDRAVLEREVQYTLEMIKLVPHN 273
Query: 221 QSGWFY 226
           +S W Y
Sbjct: 274 ESAWNY 279

>pdb|1JCQ|A Chain A, Crystal Structure Of Human Protein Farnesyltransferase Complexed With Farnesyl Diphosphate And The Peptidomimetic Inhibitor L-739,750 Length = 382

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/186 (24%), Positives = 88/186 (47%), Gaps = 19/186 (10%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A +L+   +E N   YT W++R++ ++           SL+  L EE+  + + + +
Sbjct: 113 SERAFKLTRDAIELNAANYTVWHFRRVLLK-----------SLQKDLHEEMNYITAIIEE 161
Query: 101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE 160
             K+Y  WHHR+ +L +       EL  +      D++N+HAW +R++V     +  ++E
Sbjct: 162 QPKNYQVWHHRR-VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF-KLWDNE 219
Query: 161 LKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDD 220
           L+Y + ++  +  N S W+               G+ +   VL  E ++  + I   P +
Sbjct: 220 LQYVDQLLKEDVRNNSVWNQRYFVISNTT-----GY-NDRAVLEREVQYTLEMIKLVPHN 273
Query: 221 QSGWFY 226
           +S W Y
Sbjct: 274 ESAWNY 279

>pdb|3DRA|A Chain A, Candida Albicans Protein Geranylgeranyltransferase-I Complexed With Ggpp Length = 306

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 43/196 (21%), Positives = 83/196 (42%), Gaps = 23/196 (11%)
Query: 40  YSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR 99
           YS+ A+ ++   +      YT W YR   +++    N          L +EL   E    
Sbjct: 48  YSERALHITELGINELASHYTIWIYRFNILKNLPNRN----------LYDELDWCEEIAL 97
Query: 100 QNFKSYGAWHHRKWILSKGHSSIDN------ELRLLDKFQKADSRNFHAWNYRRFVAASM 153
            N K+Y  W++R+ I+ +     +N      E  +L+    +D +N H W+YR+++  + 
Sbjct: 98  DNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTF 157
Query: 154 N-RSEEDELKYTEDMICNNFSNYSAWHXXXXXXXXXXXXXVEGFVSKEKVLPDEYEFVHQ 212
           +  ++  EL + + +I  +  N SAW               +  ++ +  + +E  +V  
Sbjct: 158 DLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFS------KKHLATDNTIDEELNYVKD 211
Query: 213 AIFTDPDDQSGWFYHL 228
            I   P + S W Y L
Sbjct: 212 KIVKCPQNPSTWNYLL 227

>pdb|3Q73|A Chain A, Cryptococcus Neoformans Protein Farnesyltransferase, Apo Enzyme Length = 349

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 49/188 (26%), Positives = 73/188 (38%), Gaps = 60/188 (31%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A+EL+  ++  NP  YT W YR   +            SL   L++ELR++     Q
Sbjct: 70  SERALELTEIIVRMNPAHYTVWQYRFSLLT-----------SLNKSLEDELRLMNEFAVQ 118
Query: 101 NFKSYGAWHHRKWILSKG------------HSSI-------------------------- 122
           N KSY  WHHR  +L +             H S+                          
Sbjct: 119 NLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRI 178
Query: 123 -----DNELRLLDKFQKADSRNFHAWNYRRFV------AASMNRSEEDELKYTEDMICNN 171
                 +EL   ++  + D RN  AW +R ++      A + +RS +DEL Y    I   
Sbjct: 179 SEAQWGSELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI 238
Query: 172 FSNYSAWH 179
             N SAW+
Sbjct: 239 PHNVSAWN 246

>pdb|3Q73|A Chain A, Cryptococcus Neoformans Protein Farnesyltransferase, Apo Enzyme Length = 349

Iteration: 1
 Score = 45.8 bits (107), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 26/108 (24%), Positives = 47/108 (43%), Gaps = 10/108 (9%)
Query: 123 DNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHXXX 182
           +  L L +   + +  ++  W YR  +  S+N+S EDEL+   +    N  +Y  WH   
Sbjct: 71  ERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWH--- 127
Query: 183 XXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL 230
                     ++    ++ V   E E++H ++  DP +   W Y  WL
Sbjct: 128 -----HRLLLLDRISPQDPV--SEIEYIHGSLLPDPKNYHTWAYLHWL 168

>pdb|3SFX|A Chain A, Cryptococcus Neoformans Protein Farnesyltransferase In Complex With Fpt-Ii And Tipifarnib Length = 349

Iteration: 1
 Score = 49.3 bits (116), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 49/188 (26%), Positives = 73/188 (38%), Gaps = 60/188 (31%)
Query: 41  SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ 100
           S+ A+EL+  ++  NP  YT W YR   +            SL   L++ELR++     Q
Sbjct: 69  SERALELTEIIVRMNPAHYTVWQYRFSLLT-----------SLNKSLEDELRLMNEFAVQ 117
Query: 101 NFKSYGAWHHRKWILSKG------------HSSI-------------------------- 122
           N KSY  WHHR  +L +             H S+                          
Sbjct: 118 NLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRI 177
Query: 123 -----DNELRLLDKFQKADSRNFHAWNYRRFV------AASMNRSEEDELKYTEDMICNN 171
                 +EL   ++  + D RN  AW +R ++      A + +RS +DEL Y    I   
Sbjct: 178 SEAQWGSELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI 237
Query: 172 FSNYSAWH 179
             N SAW+
Sbjct: 238 PHNVSAWN 245

>pdb|3SFX|A Chain A, Cryptococcus Neoformans Protein Farnesyltransferase In Complex With Fpt-Ii And Tipifarnib Length = 349

Iteration: 1
 Score = 45.8 bits (107), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 26/108 (24%), Positives = 47/108 (43%), Gaps = 10/108 (9%)
Query: 123 DNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHXXX 182
           +  L L +   + +  ++  W YR  +  S+N+S EDEL+   +    N  +Y  WH   
Sbjct: 70  ERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWH--- 126
Query: 183 XXXXXXXXXXVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL 230
                     ++    ++ V   E E++H ++  DP +   W Y  WL
Sbjct: 127 -----HRLLLLDRISPQDPV--SEIEYIHGSLLPDPKNYHTWAYLHWL 167

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	699
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-98
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	9e-70
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	4e-09
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	3e-07
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	9e-56
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	5e-11
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	2e-55
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	2e-11
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	4e-07
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	2e-52
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	9e-22
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	5e-12
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-11
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	4e-11
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-10
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	7e-11
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-10
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	8e-11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-09
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-09
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	4e-08
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	7e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-10
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	2e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	9e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-09
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-08
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-08
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	5e-06
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	6e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	3e-09
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-08
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	7e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	8e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	8e-06
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	8e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-07
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-06
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-06
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	8e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	7e-08
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-08
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	2e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	5e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	5e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	8e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	6e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	9e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	9e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-07
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-07
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-07
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	8e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	8e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	8e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-05
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	7e-07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-04
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	6e-06
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-05
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	7e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	9e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	6e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	7e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	9e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	6e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	1e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	1e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	6e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	1e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	6e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	7e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	3e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	5e-04
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	3e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	5e-04
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	5e-04
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	6e-04

>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 =  314 bits (804), Expect = 1e-98
 Identities = 154/633 (24%), Positives = 237/633 (37%), Gaps = 107/633 (16%)

Query: 1   MHGRPRKPLKPEDAAA----SAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A       K +  +                +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 61  DFATLWNCRREVLQHL--ETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR 238

Query: 234 TVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVN 293
               D                                  H+      L + F++ +   +
Sbjct: 239 AEPHDVLC-----------------------------CVHVSREEACLSVCFSRPLTVGS 269

Query: 294 SSTITVDSELNTNKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQG 353
                +         + W+     N  +  VW+  L     N    +     +       
Sbjct: 270 RMGTLLLMVDEAPLSVEWRTPDGRNRPS-HVWLCDLPAASLNDQLPQHTFRVI------- 321

Query: 354 IISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSL 413
                                                 W            +D       
Sbjct: 322 --------------------------------------WTGSDSQKECVLLKDRPECWCR 343

Query: 414 YQLSIKNDNELTDFEWRAATIAKEIDHFRELLSL-INCKIGKLTLARLLMAHDAMMCPPA 472
              + +          ++  +  E++  +EL  L    K   LT+  L+ A D       
Sbjct: 344 DSATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALD------- 396

Query: 473 NKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNR 532
             + + +E L+ ++ L  +DP    Y  D  S  LL+      E    R  H ++     
Sbjct: 397 -PLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAH---KD 452

Query: 533 -----GSPMCLQLKNLSLSR------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSC 581
                     L + +L LS         +   L  +++L  S N L +++G+  L  L  
Sbjct: 453 LTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQE 512

Query: 582 LNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           L L NN L    A++P+     L  LN+  N +
Sbjct: 513 LLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSL 545

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* Length = 331

 Score =  230 bits (586), Expect = 9e-70
 Identities = 96/243 (39%), Positives = 129/243 (53%), Gaps = 9/243 (3%)

Query: 1   MHGRPRKPLKPEDAAAS----AAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A       K +  +                +  +EL++++L  NP
Sbjct: 2   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 61

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 62  DFATLWNCRREVLQHL--ETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 119

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 120 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 179

Query: 176 SAWHNRSLLLSNLLKRKVEGFVSK--EKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +   G   +  E VL  E E V  A FTDP+DQS WFYH WLL  
Sbjct: 180 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGA 239

Query: 234 TVR 236
              
Sbjct: 240 GSG 242

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* Length = 331

 Score = 57.9 bits (139), Expect = 4e-09
 Identities = 32/164 (19%), Positives = 55/164 (33%), Gaps = 19/164 (11%)

Query: 88  DEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRR 147
           +E+         Q  K Y +     +   +     ++ L L  +   A+      WN RR
Sbjct: 12  EEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRR 71

Query: 148 FVAASMNRSE---------EDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVS 198
            V   +   +         + EL + E  +  N  +Y  WH+R  LLS L          
Sbjct: 72  EVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRL---------- 121

Query: 199 KEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQL 242
            E     E E   + +  D  +   W Y  ++  Q     + +L
Sbjct: 122 PEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEEL 165

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* Length = 331

 Score = 52.1 bits (124), Expect = 3e-07
 Identities = 24/143 (16%), Positives = 52/143 (36%), Gaps = 11/143 (7%)

Query: 30  QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPD--SLKSIL 87
           +F+        ++E +  +  L+  N   Y++W+YR   +     + DS P     +++L
Sbjct: 151 RFVAAQAAVAPAEE-LAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVL 209

Query: 88  DEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA--------DSRN 139
            +EL +V++A   +     AW + +W+L  G    +  +      Q          +   
Sbjct: 210 LKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEP 269

Query: 140 FHAWNYRRFVAASMNRSEEDELK 162
            + W     +            K
Sbjct: 270 ENKWCLLTIILLMRALDPLLYEK 292

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3CX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A* Length = 349

 Score =  193 bits (490), Expect = 9e-56
 Identities = 59/273 (21%), Positives = 99/273 (36%), Gaps = 24/273 (8%)

Query: 5   PRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNY 64
           P       +       +E+ +     F         S+ A+EL+  ++  NP  YT W Y
Sbjct: 34  PIMQDDGPNPVVPIMYSEEYKDAMDYFRAIAAKEEKSERALELTEIIVRMNPAHYTVWQY 93

Query: 65  RKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK-GHSSID 123
           R   +             L   L++ELR++     QN KSY  WHHR  +L +       
Sbjct: 94  RFSLLTS-----------LNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPV 142

Query: 124 NELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE-------EDELKYTEDMICNNFSNYS 176
           +E+  +      D +N+H W Y  ++ +  +            EL +  +M+  +  N S
Sbjct: 143 SEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGRNNS 202

Query: 177 AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR 236
           AW  R  L  +    +     +  + L DE  ++ ++I   P + S W Y    L     
Sbjct: 203 AWGWRWYLRVSRPGAE-----TSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSL 257

Query: 237 VDSPQLVSSWPTPGSDLILLGDRCLDGCASSPF 269
              P L +  P   S L    +         P 
Sbjct: 258 PLVPILPAILPYTASKLNPDIETVEAFGFPMPS 290

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3CX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A* Length = 349

 Score = 63.7 bits (154), Expect = 5e-11
 Identities = 25/163 (15%), Positives = 44/163 (26%), Gaps = 10/163 (6%)

Query: 34  NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRV 93
           +  +       +E     L  +P+ Y  W Y      H      +     ++    EL  
Sbjct: 134 DRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSH----FSTLGRISEAQWGSELDW 189

Query: 94  VESALRQNFKSYGAWHHRKWILSK------GHSSIDNELRLLDKFQKADSRNFHAWNYRR 147
               LR + ++  AW  R ++            S+ +EL  + K       N  AWNY R
Sbjct: 190 CNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLR 249

Query: 148 FVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK 190
                 +      L        +  +                 
Sbjct: 250 GFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDP 292

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans} Length = 306

 Score =  190 bits (484), Expect = 2e-55
 Identities = 49/236 (20%), Positives = 94/236 (39%), Gaps = 23/236 (9%)

Query: 5   PRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNY 64
           P      E         E  + +    L       YS+ A+ ++   +      YT W Y
Sbjct: 13  PVDINTEEPQICQILYDEDYKQIMGLLLALMKAEEYSERALHITELGINELASHYTIWIY 72

Query: 65  RKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK------G 118
           R   +++    N          L +EL   E     N K+Y  W++R+ I+ +       
Sbjct: 73  RFNILKNLPNRN----------LYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNN 122

Query: 119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR-SEEDELKYTEDMICNNFSNYSA 177
                 E  +L+    +D +N H W+YR+++  + +  ++  EL + + +I  +  N SA
Sbjct: 123 DFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSA 182

Query: 178 WHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           W +R  LL +         ++ +  + +E  +V   I   P + S W Y L + ++
Sbjct: 183 WSHRFFLLFSK------KHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHER 232

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans} Length = 306

 Score = 64.3 bits (156), Expect = 2e-11
 Identities = 29/166 (17%), Positives = 62/166 (37%), Gaps = 15/166 (9%)

Query: 25  RVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLK 84
           +++  Q +  ++N        ++   +L ++P+ +  W+YRK  V               
Sbjct: 110 QLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDT----------FDL 159

Query: 85  SILDEELRVVESALRQNFKSYGAWHHRKWILSKGH-----SSIDNELRLLDKFQKADSRN 139
               +EL  V+  +  + K+  AW HR ++L         ++ID EL  +        +N
Sbjct: 160 HNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQN 219

Query: 140 FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL 185
              WNY   +    +RS     +++   +       ++      L 
Sbjct: 220 PSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLA 265

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans} Length = 306

 Score = 51.6 bits (123), Expect = 4e-07
 Identities = 18/131 (13%), Positives = 50/131 (38%), Gaps = 6/131 (4%)

Query: 30  QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDE 89
           ++L +  +     + +    K+++T+ +  +AW++R   +  K            + +DE
Sbjct: 151 KWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLAT------DNTIDE 204

Query: 90  ELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFV 149
           EL  V+  + +  ++   W++   I  +   SI        +F   +     +      +
Sbjct: 205 ELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETL 264

Query: 150 AASMNRSEEDE 160
           A    + ++  
Sbjct: 265 AKIYTQQKKYN 275

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ... Length = 382

 Score =  184 bits (469), Expect = 2e-52
 Identities = 52/242 (21%), Positives = 101/242 (41%), Gaps = 19/242 (7%)

Query: 5   PRKPLKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNY 64
           P       +       ++K R +   F         S+ A +L+   +E N   YT W++
Sbjct: 77  PVPQNDGPNPVVQIIYSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHF 136

Query: 65  RKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDN 124
           R++ ++            L+  L EE+  + + + +  K+Y  WHHR+ ++         
Sbjct: 137 RRVLLKS-----------LQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEW-LRDPSQ 184

Query: 125 ELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL 184
           EL  +      D++N+HAW +R++V       +  EL+Y + ++  +  N S W+ R  +
Sbjct: 185 ELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDN-ELQYVDQLLKEDVRNNSVWNQRYFV 243

Query: 185 LSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVS 244
           +SN          +   VL  E ++  + I   P ++S W Y   +L        P L++
Sbjct: 244 ISNTTGY------NDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLN 297

Query: 245 SW 246
             
Sbjct: 298 QL 299

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ... Length = 382

 Score = 97.1 bits (241), Expect = 9e-22
 Identities = 50/196 (25%), Positives = 84/196 (42%), Gaps = 32/196 (16%)

Query: 42  KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQN 101
            E +   T ++E  P+ Y  W++R++ V+                  +EL  +   L Q+
Sbjct: 149 HEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRD------------PSQELEFIADILNQD 196

Query: 102 FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE---- 157
            K+Y AW HR+W++ +     DNEL+ +D+  K D RN   WN R FV ++         
Sbjct: 197 AKNYHAWQHRQWVIQE-FKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAV 255

Query: 158 -EDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFT 216
            E E++YT +MI     N SAW+    +L +    K                 ++Q +  
Sbjct: 256 LEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYP-------------NLLNQLLDL 302

Query: 217 DPDDQSGWFYHLWLLD 232
            P   S +    +L+D
Sbjct: 303 QPSHSSPY-LIAFLVD 317

>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 = 64.7 bits (158), Expect = 5e-12
 Identities = 22/85 (25%), Positives = 44/85 (51%), Gaps = 6/85 (7%)

Query: 536 MCLQLKNLSLSR-----LGSFDKLL-WVQMLDLSHNELRSIEGLEALQLLSCLNLSNNIL 589
               L+ LSL R     + + D +   ++ L +S+N++ S+ G+E L  L  L +SNN +
Sbjct: 68  GMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLYMSNNKI 127

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
            ++  ++ +  L  L  L ++ N +
Sbjct: 128 TNWGEIDKLAALDKLEDLLLAGNPL 152

>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 = 62.8 bits (153), Expect = 2e-11
 Identities = 40/170 (23%), Positives = 66/170 (38%), Gaps = 28/170 (16%)

Query: 538 LQLKNLSLSRL-GSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE 596
           L      + ++  +   L   + L LS N +  I  L  ++ L  L+L  N++     L+
Sbjct: 30  LHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLD 89

Query: 597 PIRQLKSLRALNISYNEIGA-HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEA 655
            +    +L  L ISYN+I +   I+    L    +S+      N     I +     W  
Sbjct: 90  AV--ADTLEELWISYNQIASLSGIEKLVNLRVLYMSN------NK----ITN-----WGE 132

Query: 656 YFILKGL-NLTQFDIVGNAIVNEKF--------KSFLIKVLPGLKWLDGE 696
              L  L  L    + GN + N+          +  ++K LP LK LDG 
Sbjct: 133 IDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLDGM 182

>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 = 67.2 bits (163), Expect = 1e-11
 Identities = 101/689 (14%), Positives = 208/689 (30%), Gaps = 218/689 (31%)

Query: 109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEED-ELKYTEDM 167
           HH        H  +D E               H + Y+  ++   +   ++ + K  +DM
Sbjct: 1   HHH-------HHHMDFET------------GEHQYQYKDILSVFEDAFVDNFDCKDVQDM 41

Query: 168 ICNNFSNYSAWH--------NRSLLLSNLLKRK----VEGFVSKEKVLPDEYEFVHQAIF 215
             +  S     H        + +L L   L  K    V+ FV  E+VL   Y+F+   I 
Sbjct: 42  PKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFV--EEVLRINYKFLMSPIK 99

Query: 216 TDPDDQSG----WFYHLWLLDQTVRVDSPQLVSSWPT------------PGSDLILLGDR 259
           T+    S     +      L    +V +   VS                P  ++++ G  
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG-- 157

Query: 260 CLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKPLSSCNS 319
            + G   +               +    A++   S  +    +   +  + W  L +CNS
Sbjct: 158 -VLGSGKT--------------WV----ALDVCLSYKV----QCKMDFKIFWLNLKNCNS 194

Query: 320 KAAQVWVTQLNL-----PDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSL 374
               + + Q  L     P+  + S     +++ +   Q                   +  
Sbjct: 195 PETVLEMLQ-KLLYQIDPNWTSRSDHSSNIKLRIHSIQA-----------------ELRR 236

Query: 375 QFVETQPVEALGKEII---SWRDESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRA 431
                     L   ++       ++++ +N   +          L      ++TDF   A
Sbjct: 237 LLKSKPYENCL---LVLLNVQNAKAWNAFNLSCK---------ILLTTRFKQVTDFLSAA 284

Query: 432 ATIAKEIDHFR------ELLSL----INCKIGKLTLARLLMAHDAMMCPPANKISHSEEV 481
            T    +DH        E+ SL    ++C+   L               P   ++ +   
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL---------------PREVLTTNPRR 329

Query: 482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLK 541
           L +  + +R        +K     V   ++T    +++    +       R         
Sbjct: 330 LSIIAESIRDGLATWDNWKH----VNCDKLT----TIIESSLNVLEPAEYRK-----MFD 376

Query: 542 NLSLSRLGSFDK----------LLWVQM--------LDLSHNEL-------RSIEGLEAL 576
            LS+     F            L+W  +        ++  H           S   + ++
Sbjct: 377 RLSV-----FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431

Query: 577 QLLSCLNLSN------NILGSFTALE--PIRQLKSLRALNISYNEIGAH----------S 618
            L   + L N      +I+  +   +      L         Y+ IG H          +
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491

Query: 619 IDTTKYL----CSSPLSHSVGSEWNHGQTVIDD--DIKSYWEAYFILKGLNLTQFDIVGN 672
           +    +L        + H   + WN   ++++    +K Y + Y      N  +++ + N
Sbjct: 492 LFRMVFLDFRFLEQKIRHD-STAWNASGSILNTLQQLKFY-KPYIC---DNDPKYERLVN 546

Query: 673 AIVNEKFKSFLIKVLPGL---KWLDGEQL 698
           AI++     FL K+   L   K+ D  ++
Sbjct: 547 AILD-----FLPKIEENLICSKYTDLLRI 570

>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 = 60.9 bits (148), Expect = 4e-11
 Identities = 26/86 (30%), Positives = 46/86 (53%), Gaps = 7/86 (8%)

Query: 536 MCLQLKNLSLS-----RLGSFDKLLWVQMLDLSHNELRSIEGL--EALQLLSCLNLSNNI 588
             + L+ LSL       + +  KL  ++ L+LS N +     +  E L  L+ LNLS N 
Sbjct: 47  EFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNK 106

Query: 589 LGSFTALEPIRQLKSLRALNISYNEI 614
           L   + LEP+++L+ L++L++   E+
Sbjct: 107 LKDISTLEPLKKLECLKSLDLFNCEV 132

>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 = 59.8 bits (145), Expect = 1e-10
 Identities = 33/166 (19%), Positives = 56/166 (33%), Gaps = 45/166 (27%)

Query: 539 QLKNLSLSRLGS--------FDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILG 590
            ++ L L    S          + + ++ L L +  L S+  L  L  L  L LS N + 
Sbjct: 25  AVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIF 84

Query: 591 SFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIK 650
               +    +L +L  LN+S N++    I T + L                         
Sbjct: 85  GGLDMLA-EKLPNLTHLNLSGNKLK--DISTLEPLKKLE--------------------- 120

Query: 651 SYWEAYFILKGLNLTQFDIVGNAIVNEK-FKSFLIKVLPGLKWLDG 695
                        L   D+    + N   ++  + K+LP L +LDG
Sbjct: 121 ------------CLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDG 154

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 59.7 bits (145), Expect = 7e-11
 Identities = 32/157 (20%), Positives = 54/157 (34%), Gaps = 37/157 (23%)

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
            ++      G  D+   ++ L   +  L SI  L  L  L  L LS+N +     +    
Sbjct: 27  SRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEVLA-E 85

Query: 600 QLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFIL 659
           +  +L  LN+S N+I    + T + L                                  
Sbjct: 86  KCPNLTHLNLSGNKI--KDLSTIEPLKKLE------------------------------ 113

Query: 660 KGLNLTQFDIVGNAIVNEK-FKSFLIKVLPGLKWLDG 695
              NL   D+    + N   ++  + K+LP L +LDG
Sbjct: 114 ---NLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDG 147

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 58.9 bits (143), Expect = 1e-10
 Identities = 22/85 (25%), Positives = 45/85 (52%), Gaps = 7/85 (8%)

Query: 537 CLQLKNLSLS-----RLGSFDKLLWVQMLDLSHNELRSIEGL--EALQLLSCLNLSNNIL 589
             +L+ LS        + +  KL  ++ L+LS N +     +  E    L+ LNLS N +
Sbjct: 41  FEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKI 100

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
              + +EP+++L++L++L++   E+
Sbjct: 101 KDLSTIEPLKKLENLKSLDLFNCEV 125

>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 = 64.0 bits (155), Expect = 8e-11
 Identities = 39/161 (24%), Positives = 61/161 (37%), Gaps = 24/161 (14%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           L L    +  L S   L  ++ L L HN +  I GL  L  L  L L NN +   T +  
Sbjct: 92  LFLDENKIKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKI---TDITV 148

Query: 598 IRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVG-SEWNHGQTVIDDDIKSYWEAY 656
           + +L  L  L++  N+I    I         PL+           +  I  D+++     
Sbjct: 149 LSRLTKLDTLSLEDNQI--SDI--------VPLAGLTKLQNLYLSKNHI-SDLRA----- 192

Query: 657 FILKGL-NLTQFDIVGNAIVNEKF-KSFLIKVLPGLKWLDG 695
             L GL NL   ++     +N+       + V   +K  DG
Sbjct: 193 --LAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDG 231

>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 = 60.5 bits (146), Expect = 1e-09
 Identities = 19/77 (24%), Positives = 45/77 (58%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
             LK  S++   + ++L  +  +  ++++++S++G++ L  ++ L L+ N L   T ++P
Sbjct: 26  DNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL---TDIKP 82

Query: 598 IRQLKSLRALNISYNEI 614
           +  LK+L  L +  N+I
Sbjct: 83  LTNLKNLGWLFLDENKI 99

>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 = 58.6 bits (141), Expect = 5e-09
 Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           +   N  +  +     L  V  L L+ N+L  I+ L  L+ L  L L  N +     L  
Sbjct: 48  IIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKI---KDLSS 104

Query: 598 IRQLKSLRALNISYNEI 614
           ++ LK L++L++ +N I
Sbjct: 105 LKDLKKLKSLSLEHNGI 121

>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 = 55.5 bits (133), Expect = 4e-08
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 537 CLQLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
             QL++L L       +    +L  +  L L  N++  I  L  L  L  L LS N +  
Sbjct: 130 LPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHI-- 187

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
            + L  +  LK+L  L +   E 
Sbjct: 188 -SDLRALAGLKNLDVLELFSQEC 209

>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 = 50.1 bits (119), Expect = 2e-06
 Identities = 8/75 (10%), Positives = 29/75 (38%), Gaps = 3/75 (4%)

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
             +  + ++   D        +L    +        L  +  +  +N+ +    +++ I+
Sbjct: 6   TVSTPIKQIFPDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDI---KSVQGIQ 62

Query: 600 QLKSLRALNISYNEI 614
            L ++  L ++ N++
Sbjct: 63  YLPNVTKLFLNGNKL 77

>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 = 42.0 bits (98), Expect = 7e-04
 Identities = 9/55 (16%), Positives = 18/55 (32%), Gaps = 3/55 (5%)

Query: 560 LDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
                  ++ I   +A       NL      S T      +L S+  +  + ++I
Sbjct: 4   TITVSTPIKQIFPDDAFAETIKDNLKKK---SVTDAVTQNELNSIDQIIANNSDI 55

>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 Length = 176

 Score = 60.1 bits (146), Expect = 1e-10
 Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 7/85 (8%)

Query: 537 CLQLKNLSLS-----RLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
             Q   +  S     +L  F  L  ++ L +++N +  I     +AL  L+ L L+NN L
Sbjct: 41  LDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSL 100

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
                L+P+  LKSL  L I  N +
Sbjct: 101 VELGDLDPLASLKSLTYLCILRNPV 125

>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 Length = 176

 Score = 59.7 bits (145), Expect = 2e-10
 Identities = 30/163 (18%), Positives = 60/163 (36%), Gaps = 38/163 (23%)

Query: 537 CLQLKNLSLSRLGSFDKLLW-VQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTAL 595
            L L+   +  + +    L     +D S NE+R ++G   L+ L  L ++NN +      
Sbjct: 23  ELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEG 82

Query: 596 EPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEA 655
              + L  L  L ++ N +    +     L S                            
Sbjct: 83  LD-QALPDLTELILTNNSL--VELGDLDPLASLK-------------------------- 113

Query: 656 YFILKGLNLTQFDIVGNAIVNEK-FKSFLIKVLPGLKWLDGEQ 697
                  +LT   I+ N + N+K ++ ++I  +P ++ LD ++
Sbjct: 114 -------SLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQK 149

>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 = 61.8 bits (151), Expect = 2e-10
 Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
             L+  S++ + + ++L  +  L ++  ++ SI+G+E L  L  LNL+ N +   T + P
Sbjct: 27  AVLQKASVTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQI---TDISP 83

Query: 598 IRQLKSLRALNISYNEI 614
           +  L  L  L I  N+I
Sbjct: 84  LSNLVKLTNLYIGTNKI 100

>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 = 60.2 bits (147), Expect = 8e-10
 Identities = 18/92 (19%), Positives = 41/92 (44%), Gaps = 8/92 (8%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
           +L +L +       L     L  +  L++  N++  I  ++ L  L  LN+ +N +   +
Sbjct: 222 RLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQI---S 278

Query: 594 ALEPIRQLKSLRALNISYNEIGAHSIDTTKYL 625
            +  +  L  L +L ++ N++G   ++    L
Sbjct: 279 DISVLNNLSQLNSLFLNNNQLGNEDMEVIGGL 310

>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 = 59.9 bits (146), Expect = 9e-10
 Identities = 17/77 (22%), Positives = 32/77 (41%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           L +    +  +     L  +  L L++N++  I  L +L  L       N +   T + P
Sbjct: 160 LTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQI---TDITP 216

Query: 598 IRQLKSLRALNISYNEI 614
           +  +  L +L I  N+I
Sbjct: 217 VANMTRLNSLKIGNNKI 233

>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 = 59.9 bits (146), Expect = 1e-09
 Identities = 14/81 (17%), Positives = 32/81 (39%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L   +        +     +  +  L + +N++  +  L  L  L+ L +  N     +
Sbjct: 200 SLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTN---QIS 256

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            +  ++ L  L+ LN+  N+I
Sbjct: 257 DINAVKDLTKLKMLNVGSNQI 277

>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 = 7e-09
 Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 6/83 (7%)

Query: 537 CLQLKNLSLS-----RLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
             QL  L +       + +   L  ++ML++  N++  I  L  L  L+ L L+NN LG+
Sbjct: 242 LSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGN 301

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
              +E I  L +L  L +S N I
Sbjct: 302 ED-MEVIGGLTNLTTLFLSQNHI 323

>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 = 7e-09
 Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L +LSL+      +     L  +       N++  I  +  +  L+ L + NN +   T
Sbjct: 178 DLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKI---T 234

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            L P+  L  L  L I  N+I
Sbjct: 235 DLSPLANLSQLTWLEIGTNQI 255

>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 = 54.1 bits (131), Expect = 7e-08
 Identities = 13/77 (16%), Positives = 32/77 (41%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           L      ++++     L       L    +  +   E L+ ++ L ++   +    +++ 
Sbjct: 5   LATLPAPINQIFPDADLAEGIRAVLQKASVTDVVTQEELESITKLVVAGEKV---ASIQG 61

Query: 598 IRQLKSLRALNISYNEI 614
           I  L +L  LN++ N+I
Sbjct: 62  IEYLTNLEYLNLNGNQI 78

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

 Score = 51.0 bits (123), Expect = 6e-07
 Identities = 19/83 (22%), Positives = 38/83 (45%), Gaps = 10/83 (12%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGS 591
           +LK L++       +   + L  +  L L++N+L +   E +  L  L+ L LS N +  
Sbjct: 266 KLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHI-- 323

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
            T + P+  L  + + + +   I
Sbjct: 324 -TDIRPLASLSKMDSADFANQVI 345

>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 = 46.4 bits (111), Expect = 2e-05
 Identities = 9/57 (15%), Positives = 18/57 (31%), Gaps = 3/57 (5%)

Query: 558 QMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
             L      +  I     L       L      S T +    +L+S+  L ++  ++
Sbjct: 3   ATLATLPAPINQIFPDADLAEGIRAVLQKA---SVTDVVTQEELESITKLVVAGEKV 56

>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 = 60.8 bits (148), Expect = 3e-10
 Identities = 39/162 (24%), Positives = 61/162 (37%), Gaps = 24/162 (14%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           L L    +  L S   L  ++ L L HN +  I GL  L  L  L L NN +   T +  
Sbjct: 95  LFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKI---TDITV 151

Query: 598 IRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVG-SEWNHGQTVIDDDIKSYWEAY 656
           + +L  L  L++  N+I    I         PL+           +  I  D+++     
Sbjct: 152 LSRLTKLDTLSLEDNQI--SDI--------VPLAGLTKLQNLYLSKNHI-SDLRA----- 195

Query: 657 FILKGL-NLTQFDIVGNAIVNEKFKSF-LIKVLPGLKWLDGE 696
             L GL NL   ++     +N+       + V   +K  DG 
Sbjct: 196 --LAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGS 235

>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 = 58.5 bits (142), Expect = 2e-09
 Identities = 18/77 (23%), Positives = 45/77 (58%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
             LK  S++   + ++L  +  +  ++++++S++G++ L  ++ L L+ N L   T ++P
Sbjct: 29  DNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL---TDIKP 85

Query: 598 IRQLKSLRALNISYNEI 614
           +  LK+L  L +  N++
Sbjct: 86  LANLKNLGWLFLDENKV 102

>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 = 56.2 bits (136), Expect = 1e-08
 Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           +   N  +  +     L  V  L L+ N+L  I+ L  L+ L  L L  N +     L  
Sbjct: 51  IIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKV---KDLSS 107

Query: 598 IRQLKSLRALNISYNEI 614
           ++ LK L++L++ +N I
Sbjct: 108 LKDLKKLKSLSLEHNGI 124

>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 = 55.8 bits (135), Expect = 1e-08
 Identities = 17/83 (20%), Positives = 36/83 (43%), Gaps = 8/83 (9%)

Query: 537 CLQLKNLSLS-----RLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
              +  L L+      +     L  +  L L  N+++ +  L+ L+ L  L+L +N +  
Sbjct: 67  LPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGI-- 124

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
            + +  +  L  L +L +  N+I
Sbjct: 125 -SDINGLVHLPQLESLYLGNNKI 146

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 47.7 bits (114), Expect = 5e-06
 Identities = 9/75 (12%), Positives = 29/75 (38%), Gaps = 3/75 (4%)

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
                + ++ S D        +L    +        L  +  +  +N+ +    +++ I+
Sbjct: 9   TVPTPIKQIFSDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDI---KSVQGIQ 65

Query: 600 QLKSLRALNISYNEI 614
            L ++  L ++ N++
Sbjct: 66  YLPNVTKLFLNGNKL 80

>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 = 46.2 bits (110), Expect = 2e-05
 Identities = 16/83 (19%), Positives = 29/83 (34%), Gaps = 7/83 (8%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNN--ILGS 591
           +L  LSL       +     L  +Q L LS N +  +  L  L+ L  L L +   +   
Sbjct: 157 KLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLNKP 216

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
                 +    +++  + S    
Sbjct: 217 INHQSNLVVPNTVKNTDGSLVTP 239

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 59.7 bits (145), Expect = 6e-10
 Identities = 20/77 (25%), Positives = 41/77 (53%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
             L   S++ L S  +L  VQ  +  ++ ++S+ G++    L  L+LS+N +   + L P
Sbjct: 24  QNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQI---SDLSP 80

Query: 598 IRQLKSLRALNISYNEI 614
           ++ L  L  L+++ N +
Sbjct: 81  LKDLTKLEELSVNRNRL 97

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 57.7 bits (140), Expect = 3e-09
 Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 8/82 (9%)

Query: 538 LQLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSF 592
             L  L L         S   L  +++L + +N+L+SI  L  L  L  L+L  N +   
Sbjct: 106 ACLSRLFLDNNELRDTDSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLHGNEI--- 162

Query: 593 TALEPIRQLKSLRALNISYNEI 614
           T    + +LK +  ++++  + 
Sbjct: 163 TNTGGLTRLKKVNWIDLTGQKC 184

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 55.0 bits (133), Expect = 2e-08
 Identities = 38/170 (22%), Positives = 62/170 (36%), Gaps = 30/170 (17%)

Query: 537 CLQLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
              LK L LS      L     L  ++ L ++ N L+++ G+ +  L   L L NN L  
Sbjct: 62  FTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLKNLNGIPSACLSR-LFLDNNEL-- 118

Query: 592 FTALEPIRQLKSLRALNISYNEIGA-HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIK 650
               + +  LK+L  L+I  N++ +   +     L    L        N         I 
Sbjct: 119 -RDTDSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLHG------NE--------IT 163

Query: 651 SYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSF-LIKVLPGLKWLDGEQL 698
           +       L  L  +   D+ G   VNE  K    + +   +K  DG  +
Sbjct: 164 NTGG----LTRLKKVNWIDLTGQKCVNEPVKYQPELYITNTVKDPDGRWI 209

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 53.5 bits (129), Expect = 7e-08
 Identities = 11/75 (14%), Positives = 32/75 (42%), Gaps = 3/75 (4%)

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
            +   ++++     L      +L    +  +   + L  +   N  N+ +    +L  ++
Sbjct: 4   QRPTPINQVFPDPGLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNI---QSLAGMQ 60

Query: 600 QLKSLRALNISYNEI 614
              +L+ L++S+N+I
Sbjct: 61  FFTNLKELHLSHNQI 75

>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 = 58.2 bits (141), Expect = 2e-09
 Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           +     +++   +   L  +  L      + +IEG++ L  L  L L +N +   T L P
Sbjct: 24  IAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQI---TDLAP 80

Query: 598 IRQLKSLRALNISYNEI 614
           ++ L  +  L +S N +
Sbjct: 81  LKNLTKITELELSGNPL 97

>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 = 56.6 bits (137), Expect = 8e-09
 Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
           ++  L LS      + +   L  ++ LDL+  ++  +  L  L  L  L L  N     T
Sbjct: 86  KITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLN---QIT 142

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            + P+  L +L+ L+I   ++
Sbjct: 143 NISPLAGLTNLQYLSIGNAQV 163

>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 = 56.2 bits (136), Expect = 1e-08
 Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L+ L L       +     L  +Q L + + ++  +  L  L  L+ L   +N +   +
Sbjct: 130 NLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKI---S 186

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            + P+  L +L  +++  N+I
Sbjct: 187 DISPLASLPNLIEVHLKNNQI 207

>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 = 55.8 bits (135), Expect = 1e-08
 Identities = 21/83 (25%), Positives = 37/83 (44%), Gaps = 8/83 (9%)

Query: 537 CLQLKNLSLS-----RLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
              L  L L       L     L  +  L+LS N L+++  +  LQ +  L+L++     
Sbjct: 62  LNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTST---Q 118

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
            T + P+  L +L+ L +  N+I
Sbjct: 119 ITDVTPLAGLSNLQVLYLDLNQI 141

>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 = 55.5 bits (134), Expect = 2e-08
 Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L+ LS+       L     L  +  L    N++  I  L +L  L  ++L NN +   +
Sbjct: 152 NLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQI---S 208

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            + P+    +L  + ++   I
Sbjct: 209 DVSPLANTSNLFIVTLTNQTI 229

>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 = 55.5 bits (134), Expect = 2e-08
 Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            +K L L+      +     L  +Q+L L  N++ +I  L  L  L  L++ N  +   +
Sbjct: 108 SIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQV---S 164

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            L P+  L  L  L    N+I
Sbjct: 165 DLTPLANLSKLTTLKADDNKI 185

>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 = 2e-08
 Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           L      ++ +     L  +  L+L  N++  +  L+ L  ++ L LS N L     +  
Sbjct: 46  LSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPL---KNVSA 102

Query: 598 IRQLKSLRALNISYNEI 614
           I  L+S++ L+++  +I
Sbjct: 103 IAGLQSIKTLDLTSTQI 119

>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 = 47.4 bits (113), Expect = 8e-06
 Identities = 10/75 (13%), Positives = 28/75 (37%), Gaps = 3/75 (4%)

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
            +  +++ +     L     +    + +        L  ++ L+     +   T +E ++
Sbjct: 4   TQPTAINVIFPDPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGV---TTIEGVQ 60

Query: 600 QLKSLRALNISYNEI 614
            L +L  L +  N+I
Sbjct: 61  YLNNLIGLELKDNQI 75

>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 = 43.9 bits (104), Expect = 1e-04
 Identities = 13/82 (15%), Positives = 28/82 (34%), Gaps = 9/82 (10%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
           +L  L         +     L  +  + L +N++  +  L     L  + L+N  +    
Sbjct: 174 KLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQTI---- 229

Query: 594 ALEPIRQLKSLRALNISYNEIG 615
             +P+    +L   N+     G
Sbjct: 230 TNQPVFYNNNLVVPNVVKGPSG 251

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

 Score = 58.4 bits (142), Expect = 4e-09
 Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
             L   +++   S   L  V  L      ++SI+G+E L  L+ +N SNN L   T + P
Sbjct: 29  TVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQL---TDITP 85

Query: 598 IRQLKSLRALNISYNEI 614
           ++ L  L  + ++ N+I
Sbjct: 86  LKNLTKLVDILMNNNQI 102

>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 = 58.4 bits (142), Expect = 4e-09
 Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           LQ   L +  +   + L  +  ++ S+N+L  I  L+ L  L  + ++NN +     + P
Sbjct: 51  LQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQI---ADITP 107

Query: 598 IRQLKSLRALNISYNEI 614
           +  L +L  L +  N+I
Sbjct: 108 LANLTNLTGLTLFNNQI 124

>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 = 58.1 bits (141), Expect = 6e-09
 Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           L   N  +S +     L  +  L L+ N+L+ I  L +L  L+ L+L+NN     + L P
Sbjct: 204 LIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANN---QISNLAP 260

Query: 598 IRQLKSLRALNISYNEI 614
           +  L  L  L +  N+I
Sbjct: 261 LSGLTKLTELKLGANQI 277

>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 = 57.7 bits (140), Expect = 7e-09
 Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L  LSL+      +G+   L  +  LDL++N++ ++  L  L  L+ L L  N +   +
Sbjct: 222 NLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQI---S 278

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            + P+  L +L  L ++ N++
Sbjct: 279 NISPLAGLTALTNLELNENQL 299

>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 = 57.3 bits (139), Expect = 8e-09
 Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 9/81 (11%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L  L+L       +     L  +  L+LS N +  I  L  L  L  L+  N +     
Sbjct: 113 NLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTD--- 169

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            L+P+  L +L  L+IS N++
Sbjct: 170 -LKPLANLTTLERLDISSNKV 189

>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 = 56.9 bits (138), Expect = 1e-08
 Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           +   N  L+ +     L  +  + +++N++  I  L  L  L+ L L NN +   T ++P
Sbjct: 73  INFSNNQLTDITPLKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQI---TDIDP 129

Query: 598 IRQLKSLRALNISYNEI 614
           ++ L +L  L +S N I
Sbjct: 130 LKNLTNLNRLELSSNTI 146

>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 = 56.9 bits (138), Expect = 1e-08
 Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L+ L +S      +    KL  ++ L  ++N++  I  L  L  L  L+L+ N L    
Sbjct: 178 TLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQL---K 234

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            +  +  L +L  L+++ N+I
Sbjct: 235 DIGTLASLTNLTDLDLANNQI 255

>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 = 56.5 bits (137), Expect = 1e-08
 Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L  L+L       +     L  +Q L   +N++  +  L  L  ++ L+  +N +   +
Sbjct: 310 NLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDVSSLANLTNINWLSAGHNQI---S 366

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            L P+  L  +  L ++    
Sbjct: 367 DLTPLANLTRITQLGLNDQAW 387

>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 = 56.5 bits (137), Expect = 1e-08
 Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L +L L+      L     L  +  L L  N++ +I  L  L  L+ L L+ N      
Sbjct: 244 NLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNEN---QLE 300

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            + PI  LK+L  L + +N I
Sbjct: 301 DISPISNLKNLTYLTLYFNNI 321

>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 = 56.5 bits (137), Expect = 2e-08
 Identities = 17/77 (22%), Positives = 32/77 (41%), Gaps = 3/77 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           L+L    L  +     L  +  L L  N +  I  + +L  L  L   NN +   + +  
Sbjct: 292 LELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKV---SDVSS 348

Query: 598 IRQLKSLRALNISYNEI 614
           +  L ++  L+  +N+I
Sbjct: 349 LANLTNINWLSAGHNQI 365

>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 = 56.1 bits (136), Expect = 2e-08
 Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 7/80 (8%)

Query: 539 QLKNLSLSR----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTA 594
            L+ LS       L     L  ++ LD+S N++  I  L  L  L  L  +NN     + 
Sbjct: 157 SLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN---QISD 213

Query: 595 LEPIRQLKSLRALNISYNEI 614
           + P+  L +L  L+++ N++
Sbjct: 214 ITPLGILTNLDELSLNGNQL 233

>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 = 55.7 bits (135), Expect = 3e-08
 Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 8/81 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
           +L  L L       +     L  +  L+L+ N+L  I  +  L+ L+ L L  N   + +
Sbjct: 266 KLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN---NIS 322

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            + P+  L  L+ L    N++
Sbjct: 323 DISPVSSLTKLQRLFFYNNKV 343

>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 = 52.3 bits (126), Expect = 4e-07
 Identities = 17/87 (19%), Positives = 38/87 (43%), Gaps = 8/87 (9%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
           +L ++ ++      +     L  +  L L +N++  I+ L+ L  L+ L LS+N +   +
Sbjct: 91  KLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTI---S 147

Query: 594 ALEPIRQLKSLRALNISYNEIGAHSID 620
            +  +  L SL+ L+          + 
Sbjct: 148 DISALSGLTSLQQLSFGNQVTDLKPLA 174

>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 = 50.3 bits (121), Expect = 1e-06
 Identities = 19/81 (23%), Positives = 37/81 (45%), Gaps = 9/81 (11%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            L  L LS      + +   L  +Q L    N++  ++ L  L  L  L++S+N     +
Sbjct: 135 NLNRLELSSNTISDISALSGLTSLQQLSFG-NQVTDLKPLANLTTLERLDISSN---KVS 190

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            +  + +L +L +L  + N+I
Sbjct: 191 DISVLAKLTNLESLIATNNQI 211

>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 = 50.0 bits (120), Expect = 2e-06
 Identities = 9/75 (12%), Positives = 28/75 (37%), Gaps = 3/75 (4%)

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR 599
            ++  ++++ +   L       L    +        L  ++ L      +    +++ + 
Sbjct: 9   TQDTPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGI---KSIDGVE 65

Query: 600 QLKSLRALNISYNEI 614
            L +L  +N S N++
Sbjct: 66  YLNNLTQINFSNNQL 80

>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 = 43.8 bits (104), Expect = 2e-04
 Identities = 15/81 (18%), Positives = 26/81 (32%), Gaps = 6/81 (7%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
            +  LS        L     L  +  L L+     +   +     +S  N   N+ G+  
Sbjct: 354 NINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAP-VNYKANVSIPNTVKNVTGALI 412

Query: 594 ALEPIRQLKSLRALNISYNEI 614
           A   I    S    +I++N  
Sbjct: 413 APATISDGGSYTEPDITWNLP 433

>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 = 54.2 bits (131), Expect = 1e-08
 Identities = 28/163 (17%), Positives = 60/163 (36%), Gaps = 30/163 (18%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           + L N++++ L   +    ++ L +++    +   +  L  L  L +    + S   +  
Sbjct: 49  ITLANINVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTS-DKIPN 107

Query: 598 IRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH-----SVGSEWNHGQTVIDDDIKSY 652
           +  L SL  L+IS++      +        + ++      S+   +N   T    DI   
Sbjct: 108 LSGLTSLTLLDISHSAHDDSIL--------TKINTLPKVNSIDLSYNGAIT----DIMP- 154

Query: 653 WEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
                 LK L  L   +I  + + + +     I+  P L  L 
Sbjct: 155 ------LKTLPELKSLNIQFDGVHDYRG----IEDFPKLNQLY 187

>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 = 54.2 bits (131), Expect = 2e-08
 Identities = 27/160 (16%), Positives = 50/160 (31%), Gaps = 45/160 (28%)

Query: 539 QLKNLSLSRLG----SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTA 594
              N  L +      +  ++  +  + L++  +  + G+E    +  L ++N      T 
Sbjct: 24  AYLNGLLGQSSTANITEAQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHA---TN 80

Query: 595 LEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWE 654
             PI  L +L  L I   ++ +  I          LS                       
Sbjct: 81  YNPISGLSNLERLRIMGKDVTSDKI--------PNLSG---------------------- 110

Query: 655 AYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
               L   +LT  DI  +A  +       I  LP +  +D
Sbjct: 111 ----LT--SLTLLDISHSAHDDSILTK--INTLPKVNSID 142

>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 = 21/85 (24%), Positives = 30/85 (35%), Gaps = 11/85 (12%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHN-ELRSIEGLEALQLLSCLNLSNNILG 590
            L  L +S        L   + L  V  +DLS+N  +  I  L+ L  L  LN+  + + 
Sbjct: 113 SLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGV- 171

Query: 591 SFTALEPIRQLKSLRALNISYNEIG 615
                  I     L  L      IG
Sbjct: 172 --HDYRGIEDFPKLNQLYAFSQTIG 194

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 55.0 bits (133), Expect = 3e-08
 Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 7/81 (8%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
            ++ + SL +           V+ LDLS N L  I    L     L  LNLS+N+L    
Sbjct: 15  EKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVL---Y 71

Query: 594 ALEPIRQLKSLRALNISYNEI 614
               +  L +LR L+++ N +
Sbjct: 72  ETLDLESLSTLRTLDLNNNYV 92

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 53.1 bits (128), Expect = 1e-07
 Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 13/83 (15%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
            +K L LS                 +++L+LS N L     LE+L  L  L+L+NN +  
Sbjct: 35  NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQE 94

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
                 +    S+  L+ + N I
Sbjct: 95  ------LLVGPSIETLHAANNNI 111

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 14/85 (16%), Positives = 31/85 (36%), Gaps = 12/85 (14%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLE--ALQLLSCLNLSNNIL 589
            ++ L  +                  + + L++N++  +  L+      +  L+L  N +
Sbjct: 100 SIETLHAANNNISRVSCSRGQGK---KNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEI 156

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
            +    E      +L  LN+ YN I
Sbjct: 157 DTVNFAELAASSDTLEHLNLQYNFI 181

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 12/72 (16%), Positives = 32/72 (44%), Gaps = 4/72 (5%)

Query: 544 SLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP-IRQLK 602
           +++          ++ L+L +N +  ++G      L  L+LS+N L     + P  +   
Sbjct: 158 TVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKL---AFMGPEFQSAA 214

Query: 603 SLRALNISYNEI 614
            +  +++  N++
Sbjct: 215 GVTWISLRNNKL 226

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 49.2 bits (118), Expect = 2e-06
 Identities = 14/81 (17%), Positives = 38/81 (46%), Gaps = 12/81 (14%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
           +L+ L+LS          + L  ++ LDL++N ++ +    +++    L+ +NN +    
Sbjct: 59  KLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIET---LHAANNNISRV- 114

Query: 594 ALEPIRQLKSLRALNISYNEI 614
                 + +  + + ++ N+I
Sbjct: 115 ---SCSRGQGKKNIYLANNKI 132

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 47.3 bits (113), Expect = 9e-06
 Identities = 15/78 (19%), Positives = 34/78 (43%), Gaps = 3/78 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGSFTALE 596
           L L+   +  +        ++ LDLS N+L  +    ++   ++ ++L NN L      +
Sbjct: 174 LNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIE--K 231

Query: 597 PIRQLKSLRALNISYNEI 614
            +R  ++L   ++  N  
Sbjct: 232 ALRFSQNLEHFDLRGNGF 249

>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 = 7e-05
 Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 3/59 (5%)

Query: 558 QMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           ++  ++ + L+       ++   +  L+LS N L   +A   +     L  LN+S N +
Sbjct: 13  KIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISA-ADLAPFTKLELLNLSSNVL 70

>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 = 55.1 bits (133), Expect = 4e-08
 Identities = 36/168 (21%), Positives = 59/168 (35%), Gaps = 30/168 (17%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            L  L +S           F  L  ++ L++  N+L  I      GL +L+    L L  
Sbjct: 105 NLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQ---LTLEK 161

Query: 587 NILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVID 646
             L S    E +  L  L  L + +  I  ++I    +     L     S W +  T+  
Sbjct: 162 CNLTSIPT-EALSHLHGLIVLRLRHLNI--NAIRDYSFKRLYRLKVLEISHWPYLDTMTP 218

Query: 647 DDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
           +           L GLNLT   I    +         ++ L  L++L+
Sbjct: 219 N----------CLYGLNLTSLSITHCNL--TAVPYLAVRHLVYLRFLN 254

>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 = 47.8 bits (114), Expect = 9e-06
 Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 10/87 (11%)

Query: 537 CLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNN 587
            L L +LS++          +   L++++ L+LS+N + +IEG  L  L  L  + L   
Sbjct: 223 GLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGG 282

Query: 588 ILGSFTALEPIRQLKSLRALNISYNEI 614
            L         R L  LR LN+S N++
Sbjct: 283 QLAVVEP-YAFRGLNYLRVLNVSGNQL 308

>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 = 47.8 bits (114), Expect = 9e-06
 Identities = 21/87 (24%), Positives = 39/87 (44%), Gaps = 14/87 (16%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L+ L L+         G+F+ L  ++ L L  N L+ I       L  L+ L++S N +
Sbjct: 57  HLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKI 116

Query: 590 GSFTALEPI--RQLKSLRALNISYNEI 614
                L     + L +L++L +  N++
Sbjct: 117 ---VILLDYMFQDLYNLKSLEVGDNDL 140

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

 Score = 46.2 bits (110), Expect = 3e-05
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 9/83 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L    +S +      +LL +Q + L   +L  +E      L  L  LN+S N L   T
Sbjct: 253 LNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQL---T 309

Query: 594 ALEP--IRQLKSLRALNISYNEI 614
            LE      + +L  L +  N +
Sbjct: 310 TLEESVFHSVGNLETLILDSNPL 332

>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 = 44.7 bits (106), Expect = 8e-05
 Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 9/83 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L    +  L    F     ++ L+L+ N + ++E      L  L  L L +N L    
Sbjct: 37  LDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRL---K 93

Query: 594 ALEP--IRQLKSLRALNISYNEI 614
            +       L +L  L+IS N+I
Sbjct: 94  LIPLGVFTGLSNLTKLDISENKI 116

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

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 7/63 (11%)

Query: 556 WVQMLDLSHNELRSIE--GLEALQLLSCLNLSNNILGSFTALEP--IRQLKSLRALNISY 611
             ++LDL  N ++++      +   L  L L+ NI+   +A+EP     L +LR L +  
Sbjct: 33  ETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIV---SAVEPGAFNNLFNLRTLGLRS 89

Query: 612 NEI 614
           N +
Sbjct: 90  NRL 92

>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 = 53.5 bits (129), Expect = 7e-08
 Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 10/86 (11%)

Query: 539 QLKNLSLSR---------LGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNNI 588
           QL  LSLS            S      ++ LDLS N + ++      L+ L  L+  ++ 
Sbjct: 53  QLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSN 112

Query: 589 LGSFTALEPIRQLKSLRALNISYNEI 614
           L   +       L++L  L+IS+   
Sbjct: 113 LKQMSEFSVFLSLRNLIYLDISHTHT 138

>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 = 41.9 bits (99), Expect = 4e-04
 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 9/83 (10%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L  L LS+         +F+ L  +Q+L++SHN   S++    + L  L  L+ S N +
Sbjct: 176 NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHI 235

Query: 590 GSFTALEPIRQLKSLRALNISYN 612
            +    E      SL  LN++ N
Sbjct: 236 MTSKKQELQHFPSSLAFLNLTQN 258

>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 = 54.7 bits (132), Expect = 8e-08
 Identities = 37/165 (22%), Positives = 65/165 (39%), Gaps = 19/165 (11%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L NL L+         GSF  L  ++ L     +L S+E   +  L  L  LN+++N +
Sbjct: 81  HLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFI 140

Query: 590 GSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDI 649
            S         L +L  +++SYN I   +++  ++L  +P  +       +    I D  
Sbjct: 141 HSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQ- 199

Query: 650 KSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
                     +G+ L +  + GN   +   K+ L   L GL    
Sbjct: 200 --------AFQGIKLHELTLRGNFNSSNIMKTCLQN-LAGLHVHR 235

>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 = 14/84 (16%), Positives = 30/84 (35%), Gaps = 11/84 (13%)

Query: 538 LQLKNLSLSRL-------GSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILG 590
           + +    L+           F  L  V  + L+   ++ +E +        L++    L 
Sbjct: 261 VTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLK 320

Query: 591 SFTALEPIRQLKSLRALNISYNEI 614
            F    P   L  L++L ++ N+ 
Sbjct: 321 QF----PTLDLPFLKSLTLTMNKG 340

>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 = 50.4 bits (121), Expect = 2e-06
 Identities = 22/86 (25%), Positives = 32/86 (37%), Gaps = 10/86 (11%)

Query: 539 QLKNLSLSR-------LGSFD--KLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNI 588
            L  L LSR         S+       ++ LDLS N    +      L+ L  L+  ++ 
Sbjct: 351 SLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHST 410

Query: 589 LGSFTALEPIRQLKSLRALNISYNEI 614
           L   T       L+ L  L+ISY   
Sbjct: 411 LKRVTEFSAFLSLEKLLYLDISYTNT 436

>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 = 44.6 bits (106), Expect = 1e-04
 Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 10/84 (11%)

Query: 540 LKNLSLS-------RLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILG 590
            KN+ LS       +  SF     +Q LDLS  E+ +IE      L  LS L L+ N + 
Sbjct: 34  TKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQ 93

Query: 591 SFTALEPIRQLKSLRALNISYNEI 614
           SF+       L SL  L     ++
Sbjct: 94  SFSP-GSFSGLTSLENLVAVETKL 116

>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 = 43.5 bits (103), Expect = 2e-04
 Identities = 25/87 (28%), Positives = 36/87 (41%), Gaps = 14/87 (16%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNIL 589
            L  L LS+        G FD L  +Q+L++SHN L  +       L  LS L+ S N  
Sbjct: 474 NLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFN-- 531

Query: 590 GSFTALEP--IRQLKSLRALNISYNEI 614
                 +       KSL   N++ N +
Sbjct: 532 -RIETSKGILQHFPKSLAFFNLTNNSV 557

>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 = 42.3 bits (100), Expect = 5e-04
 Identities = 15/63 (23%), Positives = 23/63 (36%), Gaps = 7/63 (11%)

Query: 556 WVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTALEP--IRQLKSLRALNISY 611
             + +DLS N L+ +          L  L+LS         +E      L  L  L ++ 
Sbjct: 33  STKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC---EIETIEDKAWHGLHHLSNLILTG 89

Query: 612 NEI 614
           N I
Sbjct: 90  NPI 92

>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 = 54.3 bits (131), Expect = 8e-08
 Identities = 38/166 (22%), Positives = 63/166 (37%), Gaps = 21/166 (12%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L  L L+        LG+F  L  +Q L      L S+E   +  L+ L  LN+++N++
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 136

Query: 590 GSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGS-EWNHGQTVIDDD 648
            SF   E    L +L  L++S N+I +      + L   PL +       N    +    
Sbjct: 137 QSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPG- 195

Query: 649 IKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
                      K + L +  +  N       K+  I+ L GL+   
Sbjct: 196 ---------AFKEIRLHKLTLRNNFDSLNVMKTC-IQGLAGLEVHR 231

>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 = 51.6 bits (124), Expect = 6e-07
 Identities = 28/118 (23%), Positives = 45/118 (38%), Gaps = 11/118 (9%)

Query: 508 LQQVTSNWESLLSRCFHYSNSPSNRGSPMCL-QLKNLSLSR---------LGSFDKLLWV 557
             Q  +     L R    SN   N  S + L  L+ L LSR           S      +
Sbjct: 316 FGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSL 375

Query: 558 QMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           + LDLS N + ++      L+ L  L+  ++ L   +       L++L  L+IS+   
Sbjct: 376 KYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT 433

>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 = 50.5 bits (121), Expect = 1e-06
 Identities = 17/76 (22%), Positives = 33/76 (43%), Gaps = 8/76 (10%)

Query: 544 SLSRLGSFDKLLWVQMLDLSHNELRSI-----EGLEALQLLSCLNLSNNILGSFTALEPI 598
            +S    F  L  +  LD+SH   R        GL +L++L    ++ N        +  
Sbjct: 410 QMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVL---KMAGNSFQENFLPDIF 466

Query: 599 RQLKSLRALNISYNEI 614
            +L++L  L++S  ++
Sbjct: 467 TELRNLTFLDLSQCQL 482

>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 = 3e-06
 Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 10/85 (11%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNIL 589
           +L+ L LSR        G++  L  +  L L+ N ++S+       L  L  L      L
Sbjct: 53  ELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNL 112

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
            S     PI  LK+L+ LN+++N I
Sbjct: 113 ASLEN-FPIGHLKTLKELNVAHNLI 136

>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 = 44.7 bits (106), Expect = 8e-05
 Identities = 25/81 (30%), Positives = 36/81 (44%), Gaps = 5/81 (6%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L    L  L   SF     +Q+LDLS  E+++IE    ++L  LS L L+ N + S  
Sbjct: 33  LDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLA 92

Query: 594 ALEPIRQLKSLRALNISYNEI 614
                  L SL+ L      +
Sbjct: 93  L-GAFSGLSSLQKLVAVETNL 112

>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 = 44.3 bits (105), Expect = 1e-04
 Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 11/84 (13%)

Query: 539 QLKNLSLSR--------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNI 588
            L+ L ++            F +L  +  LDLS  +L  +      +L  L  LN+++N 
Sbjct: 446 SLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQ 505

Query: 589 LGSFTALEPIRQLKSLRALNISYN 612
           L S        +L SL+ + +  N
Sbjct: 506 LKSV-PDGIFDRLTSLQKIWLHTN 528

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

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 11/86 (12%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI---EGLEALQLLSCLNLSNNI 588
            L  L +S         G F+ L  +++L ++ N  +     +    L+ L+ L+LS   
Sbjct: 422 NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 481

Query: 589 LGSFTALEPIRQLKSLRALNISYNEI 614
           L   +       L SL+ LN++ N++
Sbjct: 482 LEQLSP-TAFNSLSSLQVLNMASNQL 506

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

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 19/95 (20%), Positives = 35/95 (36%), Gaps = 13/95 (13%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNNIL- 589
           +L  L L          GS   L  ++ L L +N+L  +  GL  L+LL  + L  N + 
Sbjct: 218 KLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNIT 277

Query: 590 ----GSFTALEPIRQLKSLRALNISYNEIGAHSID 620
                 F  +    +      +++  N +    + 
Sbjct: 278 KVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQ 312

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

 Score = 46.9 bits (112), Expect = 1e-05
 Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 6/81 (7%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L +  +  +      +   +  L L HN++R IE   L  L  L  L+L NN L    
Sbjct: 198 LHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVP 257

Query: 594 ALEPIRQLKSLRALNISYNEI 614
           A   +  LK L+ + +  N I
Sbjct: 258 AG--LPDLKLLQVVYLHTNNI 276

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

 Score = 45.0 bits (107), Expect = 5e-05
 Identities = 24/81 (29%), Positives = 32/81 (39%), Gaps = 8/81 (9%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L+N  +S L    F  L  +  L L +N++  I       L+ L  L +S N L    
Sbjct: 59  LDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEI- 117

Query: 594 ALEPIRQLKSLRALNISYNEI 614
              P     SL  L I  N I
Sbjct: 118 ---PPNLPSSLVELRIHDNRI 135

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

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 22/88 (25%), Positives = 38/88 (43%), Gaps = 17/88 (19%)

Query: 538 LQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNI 588
           L+L  L +S            + L     L L HN++++IE   L     L  L L +N 
Sbjct: 172 LKLNYLRISEAKLTGIPKDLPETL---NELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ 228

Query: 589 LGSFTALEP--IRQLKSLRALNISYNEI 614
           +     +E   +  L +LR L++  N++
Sbjct: 229 I---RMIENGSLSFLPTLRELHLDNNKL 253

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

 Score = 41.9 bits (99), Expect = 5e-04
 Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 7/63 (11%)

Query: 556 WVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTALEP--IRQLKSLRALNISY 611
              +LDL +N++  +  +  + LQ L  L L NN +   + +       L+ L+ L IS 
Sbjct: 55  DTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKI---SKIHEKAFSPLRKLQKLYISK 111

Query: 612 NEI 614
           N +
Sbjct: 112 NHL 114

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

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 16/91 (17%), Positives = 29/91 (31%), Gaps = 13/91 (14%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
            L  L L           +F  L  +Q L +S N L  I        L  L + +N    
Sbjct: 79  HLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPP-NLPSSLVELRIHDN---R 134

Query: 592 FTALEP--IRQLKSLRALNISYNEIGAHSID 620
              +       L+++  + +  N +     +
Sbjct: 135 IRKVPKGVFSGLRNMNCIEMGGNPLENSGFE 165

>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 = 53.9 bits (130), Expect = 1e-07
 Identities = 23/110 (20%), Positives = 43/110 (39%), Gaps = 9/110 (8%)

Query: 513 SNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRL-------GSFDKLLWVQMLDLSHN 565
            + + L        N+ S    P  L+  +LS + L        S      ++ LDLS N
Sbjct: 325 KSLKRLTFTSNKGGNAFSEVDLPS-LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN 383

Query: 566 ELRSI-EGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
            + ++      L+ L  L+  ++ L   +       L++L  L+IS+   
Sbjct: 384 GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT 433

>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 = 7e-07
 Identities = 37/166 (22%), Positives = 62/166 (37%), Gaps = 21/166 (12%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L  L L+        LG+F  L  +Q L      L S+E   +  L+ L  LN+++N++
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 136

Query: 590 GSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGS-EWNHGQTVIDDD 648
            SF   E    L +L  L++S N+I +      + L   PL +       N    +    
Sbjct: 137 QSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPG- 195

Query: 649 IKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
                      K + L +  +  N       K+ +   L GL+   
Sbjct: 196 ---------AFKEIRLHKLTLRNNFDSLNVMKTCIQG-LAGLEVHR 231

>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 = 42.7 bits (101), Expect = 3e-04
 Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 10/84 (11%)

Query: 540 LKNLSLS-------RLGSFDKLLWVQMLDLSHNELRSIE--GLEALQLLSCLNLSNNILG 590
            KNL LS          SF     +Q+LDLS  E+++IE    ++L  LS L L+ N + 
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI- 88

Query: 591 SFTALEPIRQLKSLRALNISYNEI 614
              AL     L SL+ L      +
Sbjct: 89  QSLALGAFSGLSSLQKLVAVETNL 112

>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 = 41.9 bits (99), Expect = 6e-04
 Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 9/85 (10%)

Query: 537 CLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNN 587
              L  L LS+         +F+ L  +Q+L++SHN   S++    + L  L  L+ S N
Sbjct: 469 LRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLN 528

Query: 588 ILGSFTALEPIRQLKSLRALNISYN 612
            + +    E      SL  LN++ N
Sbjct: 529 HIMTSKKQELQHFPSSLAFLNLTQN 553

>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 = 53.7 bits (129), Expect = 1e-07
 Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 7/81 (8%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
            ++ + SL +           V+ LDLS N L  I    L     L  LNLS+N+L    
Sbjct: 15  EKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVL---Y 71

Query: 594 ALEPIRQLKSLRALNISYNEI 614
               +  L +LR L+++ N +
Sbjct: 72  ETLDLESLSTLRTLDLNNNYV 92

>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 = 51.0 bits (122), Expect = 9e-07
 Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 13/83 (15%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
            +K L LS                 +++L+LS N L     LE+L  L  L+L+NN +  
Sbjct: 35  NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQE 94

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
                 +    S+  L+ + N I
Sbjct: 95  ------LLVGPSIETLHAANNNI 111

>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 = 49.1 bits (117), Expect = 3e-06
 Identities = 14/81 (17%), Positives = 38/81 (46%), Gaps = 12/81 (14%)

Query: 539 QLKNLSLSR-----LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
           +L+ L+LS          + L  ++ LDL++N ++ +    +++    L+ +NN +    
Sbjct: 59  KLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIE---TLHAANNNISRV- 114

Query: 594 ALEPIRQLKSLRALNISYNEI 614
                 + +  + + ++ N+I
Sbjct: 115 ---SCSRGQGKKNIYLANNKI 132

>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 = 49.1 bits (117), Expect = 3e-06
 Identities = 14/89 (15%), Positives = 32/89 (35%), Gaps = 12/89 (13%)

Query: 535 PMCLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLE--ALQLLSCLNLS 585
            +   ++ L  +                  + + L++N++  +  L+      +  L+L 
Sbjct: 96  LVGPSIETLHAANNNISRVSCSRGQGK---KNIYLANNKITMLRDLDEGCRSRVQYLDLK 152

Query: 586 NNILGSFTALEPIRQLKSLRALNISYNEI 614
            N + +    E      +L  LN+ YN I
Sbjct: 153 LNEIDTVNFAELAASSDTLEHLNLQYNFI 181

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 47.5 bits (113), Expect = 1e-05
 Identities = 12/72 (16%), Positives = 32/72 (44%), Gaps = 4/72 (5%)

Query: 544 SLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP-IRQLK 602
           +++          ++ L+L +N +  ++G      L  L+LS+N L     + P  +   
Sbjct: 158 TVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKL---AFMGPEFQSAA 214

Query: 603 SLRALNISYNEI 614
            +  +++  N++
Sbjct: 215 GVTWISLRNNKL 226

>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 = 45.6 bits (108), Expect = 5e-05
 Identities = 15/78 (19%), Positives = 34/78 (43%), Gaps = 3/78 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGSFTALE 596
           L L+   +  +        ++ LDLS N+L  +    ++   ++ ++L NN L      +
Sbjct: 174 LNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIE--K 231

Query: 597 PIRQLKSLRALNISYNEI 614
            +R  ++L   ++  N  
Sbjct: 232 ALRFSQNLEHFDLRGNGF 249

>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 = 44.5 bits (105), Expect = 9e-05
 Identities = 12/59 (20%), Positives = 27/59 (45%), Gaps = 3/59 (5%)

Query: 558 QMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           ++  ++ + L+       ++   +  L+LS N L   +A + +     L  LN+S N +
Sbjct: 13  KIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAAD-LAPFTKLELLNLSSNVL 70

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

 Score = 54.1 bits (130), Expect = 1e-07
 Identities = 36/189 (19%), Positives = 58/189 (30%), Gaps = 36/189 (19%)

Query: 526 SNSPSNRGSPMCLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI-------- 570
            N   +      +    ++LS           F     +  + LS+N + SI        
Sbjct: 661 RNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPK 720

Query: 571 -EGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSS- 628
               +   LL+ ++L  N L S +       L  L  +++SYN     S  T     S  
Sbjct: 721 DGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCF--SSFPTQPLNSSQL 778

Query: 629 ---PLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIK 685
               + H   +E N         I +           +L Q  I  N       +    K
Sbjct: 779 KAFGIRHQRDAEGNRILRQWPTGITT-------CP--SLIQLQIGSN-----DIRKVDEK 824

Query: 686 VLPGLKWLD 694
           + P L  LD
Sbjct: 825 LTPQLYILD 833

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

 Score = 52.2 bits (125), Expect = 4e-07
 Identities = 16/80 (20%), Positives = 35/80 (43%), Gaps = 2/80 (2%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTAL 595
           L   +  +  L +F   + +  L L +N++  I  +       +  L  S+N L     +
Sbjct: 578 LDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNI 637

Query: 596 EPIRQLKSLRALNISYNEIG 615
              + +  + +++ SYN+IG
Sbjct: 638 FNAKSVYVMGSVDFSYNKIG 657

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

 Score = 48.7 bits (116), Expect = 6e-06
 Identities = 52/322 (16%), Positives = 102/322 (31%), Gaps = 46/322 (14%)

Query: 397 FHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFREL--LSLINCKIGK 454
             +    + +  PI    ++S+K D ++ +   R   I+K I    +L  +   N     
Sbjct: 404 LQDAINRNPEMKPIKKDSRISLK-DTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTY 462

Query: 455 LTLARLLMAHDAMMCPPANKISHSE------EVLELY-NDLMRLDPTHVQYYKDQHSLVL 507
             +A      ++           S         +ELY    M   P  +        L  
Sbjct: 463 DNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLP---ELQS 519

Query: 508 LQQVTSN-WESLLSRCFHYSNSPSNRGSPMCLQLKNLS---LSRL---GSFDKLLWVQML 560
           L  +  N   S       ++    +  +   +Q+  +    L       S  K++ + +L
Sbjct: 520 LN-IACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLL 578

Query: 561 DLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP--IRQLKSLRALNISYNEIGAHS 618
           D  HN++R +E       L+ L L  N       +          +  L  S+N++    
Sbjct: 579 DCVHNKVRHLEAFGTNVKLTDLKLDYN---QIEEIPEDFCAFTDQVEGLGFSHNKL--KY 633

Query: 619 IDTTKYLCSSP------LSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGN 672
           I       S         S+      N     I  + ++   +    KG+N +   +  N
Sbjct: 634 IPNIFNAKSVYVMGSVDFSY------NK----IGSEGRNISCSMDDYKGINASTVTLSYN 683

Query: 673 AIVNEKFKSFLIKVLPGLKWLD 694
            I  +KF + L      +  + 
Sbjct: 684 EI--QKFPTELFATGSPISTII 703

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

 Score = 41.8 bits (98), Expect = 8e-04
 Identities = 14/108 (12%), Positives = 42/108 (38%), Gaps = 9/108 (8%)

Query: 513 SNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSF-DKLLWVQMLDLSHNELRSIE 571
           ++ E++  R F       +       +   + +     F D    + + DL  + +    
Sbjct: 356 THSETVSGRLFGDEELTPDMS---EERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNP 412

Query: 572 GLEALQLLSCLNLSNNILGS----FTALEP-IRQLKSLRALNISYNEI 614
            ++ ++  S ++L +  +G+     T +   I++L  L+ +  + +  
Sbjct: 413 EMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPF 460

>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 = 52.7 bits (127), Expect = 2e-07
 Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 8/91 (8%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNNIL----- 589
           L L   S+S +  GS      ++ L L++N+L  +  GL   + +  + L NN +     
Sbjct: 221 LGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGS 280

Query: 590 GSFTALEPIRQLKSLRALNISYNEIGAHSID 620
             F       +  S   +++  N +    I 
Sbjct: 281 NDFCPPGYNTKKASYSGVSLFSNPVQYWEIQ 311

>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 = 46.1 bits (110), Expect = 2e-05
 Identities = 24/81 (29%), Positives = 36/81 (44%), Gaps = 8/81 (9%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L+N  ++ +  G F  L  +  L L +N++  I       L  L  L LS N L    
Sbjct: 57  LDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKEL- 115

Query: 594 ALEPIRQLKSLRALNISYNEI 614
              P +  K+L+ L +  NEI
Sbjct: 116 ---PEKMPKTLQELRVHENEI 133

>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 = 45.8 bits (109), Expect = 3e-05
 Identities = 18/82 (21%), Positives = 35/82 (42%), Gaps = 8/82 (9%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L    ++++   S   L  +  L LS N + +++   L     L  L+L+NN L    
Sbjct: 197 LHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKL---V 253

Query: 594 ALEP-IRQLKSLRALNISYNEI 614
            +   +   K ++ + +  N I
Sbjct: 254 KVPGGLADHKYIQVVYLHNNNI 275

>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 = 42.7 bits (101), Expect = 3e-04
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 15/87 (17%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
           +L+ L LS+             L   Q L +  NE+  +       L  +  + L  N L
Sbjct: 101 KLERLYLSKNQLKELPEKMPKTL---QELRVHENEITKVRKSVFNGLNQMIVVELGTNPL 157

Query: 590 GSFTALEP--IRQLKSLRALNISYNEI 614
            S   +E    + +K L  + I+   I
Sbjct: 158 KSS-GIENGAFQGMKKLSYIRIADTNI 183

>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 = 42.3 bits (100), Expect = 3e-04
 Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 3/76 (3%)

Query: 539 QLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPI 598
            LK+  +   G+F  +  +  + ++   + +I        L+ L+L  N +    A   +
Sbjct: 156 PLKSSGIEN-GAFQGMKKLSYIRIADTNITTIPQ-GLPPSLTELHLDGNKITKVDA-ASL 212

Query: 599 RQLKSLRALNISYNEI 614
           + L +L  L +S+N I
Sbjct: 213 KGLNNLAKLGLSFNSI 228

>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 = 41.5 bits (98), Expect = 6e-04
 Identities = 15/86 (17%), Positives = 34/86 (39%), Gaps = 12/86 (13%)

Query: 538 LQLKNLSLSRL-GSFDKLLWVQMLDLSHNELRSIEG--------LEALQLLSCLNLSNNI 588
           L L N  L ++ G      ++Q++ L +N + +I                 S ++L +N 
Sbjct: 245 LHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNP 304

Query: 589 LGSFTALEP--IRQLKSLRALNISYN 612
           +  +  ++P   R +    A+ +   
Sbjct: 305 V-QYWEIQPSTFRCVYVRAAVQLGNY 329

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 52.7 bits (127), Expect = 2e-07
 Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 6/78 (7%)

Query: 539 QLKNLSLS--RLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE 596
            L + ++S   L +    + V+ LD SHN +  + G      L+ L L +N L     L 
Sbjct: 187 SLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTAWL- 244

Query: 597 PIRQLKSLRALNISYNEI 614
                  L  +++SYNE+
Sbjct: 245 --LNYPGLVEVDLSYNEL 260

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 20/87 (22%), Positives = 32/87 (36%), Gaps = 11/87 (12%)

Query: 535 PMCLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNN 587
            + + ++ L  S             +L    +L L HN L     L     L  ++LS N
Sbjct: 202 AIPIAVEELDASHNSINVVRGPVNVEL---TILKLQHNNLTDTAWLLNYPGLVEVDLSYN 258

Query: 588 ILGSFTALEPIRQLKSLRALNISYNEI 614
            L       P  +++ L  L IS N +
Sbjct: 259 ELEKIMY-HPFVKMQRLERLYISNNRL 284

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 48.5 bits (116), Expect = 4e-06
 Identities = 25/85 (29%), Positives = 34/85 (40%), Gaps = 13/85 (15%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L  L L R        G F     +  L +S+N L  IE    +A   L  L LS+N L
Sbjct: 118 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL 177

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
                   +  + SL   N+SYN +
Sbjct: 178 THV----DLSLIPSLFHANVSYNLL 198

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 47.7 bits (114), Expect = 7e-06
 Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 11/83 (13%)

Query: 539 QLKNLSLS--RL----GSFDKLLWVQMLDLSHNELRSIE-GLEALQLLSCLNLSNNILGS 591
           +L+ L +S  RL         +  +++LDLSHN L  +E        L  L L +N + +
Sbjct: 273 RLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVT 332

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
                 +    +L+ L +S+N+ 
Sbjct: 333 L----KLSTHHTLKNLTLSHNDW 351

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 47.0 bits (112), Expect = 1e-05
 Identities = 13/81 (16%), Positives = 32/81 (39%), Gaps = 5/81 (6%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           +  KN ++ +L     D    V++L+L+  ++  I+         +  L +  N +    
Sbjct: 50  VTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLP 109

Query: 594 ALEPIRQLKSLRALNISYNEI 614
                + +  L  L +  N++
Sbjct: 110 P-HVFQNVPLLTVLVLERNDL 129

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 44.3 bits (105), Expect = 8e-05
 Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 14/87 (16%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            ++ L +            F  +  + +L L  N+L S+          L+ L++SNN L
Sbjct: 94  TIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNL 153

Query: 590 GSFTALEP--IRQLKSLRALNISYNEI 614
                +E    +   SL+ L +S N +
Sbjct: 154 ---ERIEDDTFQATTSLQNLQLSSNRL 177

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 12/100 (12%), Positives = 39/100 (39%), Gaps = 12/100 (12%)

Query: 517 SLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI--EGLE 574
           +L   C  Y      +   +    ++++L+           +++   ++ +R +    L+
Sbjct: 16  NLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQ---------KIVTFKNSTMRKLPAALLD 66

Query: 575 ALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           + + +  LNL++  +             +++ L + +N I
Sbjct: 67  SFRQVELLNLNDLQIEEIDT-YAFAYAHTIQKLYMGFNAI 105

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 43.1 bits (102), Expect = 2e-04
 Identities = 17/83 (20%), Positives = 31/83 (37%), Gaps = 17/83 (20%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
            L+NL LS        L     L      ++S+N L ++    A++    L+ S+N +  
Sbjct: 166 SLQNLQLSSNRLTHVDLSLIPSL---FHANVSYNLLSTLAIPIAVEE---LDASHNSINV 219

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
                       L  L + +N +
Sbjct: 220 V----RGPVNVELTILKLQHNNL 238

>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 = 52.7 bits (127), Expect = 3e-07
 Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 3/78 (3%)

Query: 539 QLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTALE 596
            ++            L  +Q L+LS+NE  S+  E  +    L  L+L+   L    A  
Sbjct: 361 DIETSDCCN-LQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQS 419

Query: 597 PIRQLKSLRALNISYNEI 614
           P + L  L+ LN+S++ +
Sbjct: 420 PFQNLHLLKVLNLSHSLL 437

>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 = 48.9 bits (117), Expect = 5e-06
 Identities = 17/85 (20%), Positives = 30/85 (35%), Gaps = 10/85 (11%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
           +L  L L+          +      ++ L      + SI+   L   + L  L L +N +
Sbjct: 82  RLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHI 141

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
            S   L      + L+ L+   N I
Sbjct: 142 SSI-KLPKGFPTEKLKVLDFQNNAI 165

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

 Score = 46.2 bits (110), Expect = 3e-05
 Identities = 25/168 (14%), Positives = 51/168 (30%), Gaps = 25/168 (14%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            L++L L         L        +++LD  +N +  +       L+    LS LNL+ 
Sbjct: 130 TLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLS-LNLNG 188

Query: 587 NILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVID 646
           N +               ++LN    +         K      L      +    + +  
Sbjct: 189 NDIAGIEPG--AFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFED-MDDEDISP 245

Query: 647 DDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
              +        L  +++   ++  +   N    +F      GL+ LD
Sbjct: 246 AVFEG-------LCEMSVESINLQKHYFFNISSNTF--HCFSGLQELD 284

>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 = 45.0 bits (107), Expect = 7e-05
 Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 5/81 (6%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE--GLEALQLLSCLNLSNNILGSFT 593
           L+     L  +   +F +L+ +  LDL+  ++  I     ++   L  L L+ N L    
Sbjct: 38  LEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMA 97

Query: 594 ALEPIRQLKSLRALNISYNEI 614
               +   K+L+ L      I
Sbjct: 98  E-TALSGPKALKHLFFIQTGI 117

>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 = 43.5 bits (103), Expect = 2e-04
 Identities = 15/81 (18%), Positives = 29/81 (35%), Gaps = 8/81 (9%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTAL 595
              +NL L+ +         + L+ S N L +I       L  L+ L+L+         +
Sbjct: 17  YNCENLGLNEI-PGTLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC---QIYWI 72

Query: 596 EP--IRQLKSLRALNISYNEI 614
                +    L  L ++ N +
Sbjct: 73  HEDTFQSQHRLDTLVLTANPL 93

>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 = 43.1 bits (102), Expect = 3e-04
 Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 15/85 (17%)

Query: 539 QLKNLSLS--RL-----GSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNIL 589
           +L+ L LS   L      +F  L  +  +DLSHN L S   E L  L+ +  LNL++N  
Sbjct: 477 RLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGIY-LNLASN-- 533

Query: 590 GSFTALEP--IRQLKSLRALNISYN 612
              + + P  +  L   R +N+  N
Sbjct: 534 -HISIILPSLLPILSQQRTINLRQN 557

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

 Score = 51.7 bits (124), Expect = 5e-07
 Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 13/86 (15%)

Query: 539 QLKNLSLSRL--------GSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILG 590
            L+ L L  L        G+F+ L  ++ L+L+   LR I  L  L  L  L+LS N   
Sbjct: 161 SLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGN--- 217

Query: 591 SFTALEP--IRQLKSLRALNISYNEI 614
             +A+ P   + L  L+ L +  ++I
Sbjct: 218 HLSAIRPGSFQGLMHLQKLWMIQSQI 243

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

 Score = 47.8 bits (114), Expect = 8e-06
 Identities = 19/79 (24%), Positives = 35/79 (44%), Gaps = 3/79 (3%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTAL 595
           L L   +L  + +   L+ +  LDLS N L +I     + L  L  L +  + +      
Sbjct: 190 LNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIER- 248

Query: 596 EPIRQLKSLRALNISYNEI 614
                L+SL  +N+++N +
Sbjct: 249 NAFDNLQSLVEINLAHNNL 267

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

 Score = 44.7 bits (106), Expect = 8e-05
 Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 9/83 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L    +  +   SF  L  +++L LS N +R+IE      L  L+ L L +N L   T
Sbjct: 69  LNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRL---T 125

Query: 594 ALEP--IRQLKSLRALNISYNEI 614
            +       L  L+ L +  N I
Sbjct: 126 TIPNGAFVYLSKLKELWLRNNPI 148

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

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 26/112 (23%), Positives = 43/112 (38%), Gaps = 39/112 (34%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            L+ L LSR       +G+F+ L  +  L+L  N L +I       L  L+    L L N
Sbjct: 89  HLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKE---LWLRN 145

Query: 587 NIL-----GSFTALEPIRQL-------------------KSLRALNISYNEI 614
           N +      +F  +  +R+L                    +LR LN++   +
Sbjct: 146 NPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNL 197

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 51.8 bits (124), Expect = 6e-07
 Identities = 26/162 (16%), Positives = 56/162 (34%), Gaps = 14/162 (8%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
           +L+ L +S        +  F     ++ LDLSHN+L  I        L  L+LS N   +
Sbjct: 46  KLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKIS-CHPTVNLKHLDLSFNAFDA 104

Query: 592 FTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKS 651
               +    +  L+ L +S   +             +     +     +G+    + ++ 
Sbjct: 105 LPICKEFGNMSQLKFLGLSTTHL--EKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQD 162

Query: 652 YWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWL 693
           +      +      +F    + I++   K+     L  +K +
Sbjct: 163 FNTESLHIVFPTNKEF----HFILDVSVKTVANLELSNIKCV 200

>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 = 46.4 bits (110), Expect = 2e-05
 Identities = 19/81 (23%), Positives = 37/81 (45%), Gaps = 8/81 (9%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L +    +S L       L  +++L +SHN ++ ++    +  Q L  L+LS+N L    
Sbjct: 26  LNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKI- 84

Query: 594 ALEPIRQLKSLRALNISYNEI 614
                    +L+ L++S+N  
Sbjct: 85  ---SCHPTVNLKHLDLSFNAF 102

>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 = 45.2 bits (107), Expect = 6e-05
 Identities = 18/87 (20%), Positives = 34/87 (39%), Gaps = 11/87 (12%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGL----EALQLLSCLNLSNN 587
              +L  S          +   L  ++ L L  N+L+ +  +      ++ L  L++S N
Sbjct: 325 PFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQN 384

Query: 588 ILGSFTALEPIRQLKSLRALNISYNEI 614
            +            KSL +LN+S N +
Sbjct: 385 SVSYDEKKGDCSWTKSLLSLNMSSNIL 411

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 42.5 bits (100), Expect = 4e-04
 Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 7/80 (8%)

Query: 539 QLKNLSLSR----LGSFDKLLW-VQMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGSF 592
            L +L++S        F  L   +++LDL  N+++SI + +  L+ L  LN+++N L S 
Sbjct: 400 SLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLKSV 459

Query: 593 TALEPIRQLKSLRALNISYN 612
                  +L SL+ + +  N
Sbjct: 460 PD-GIFDRLTSLQKIWLHTN 478

>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 = 41.4 bits (97), Expect = 8e-04
 Identities = 25/91 (27%), Positives = 37/91 (40%), Gaps = 8/91 (8%)

Query: 538 LQLKNLSLSRL-----GSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILG 590
           + +KN ++S           K+     LD S+N L     E    L  L  L L  N L 
Sbjct: 302 MNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLK 361

Query: 591 SFTAL-EPIRQLKSLRALNISYNEIGAHSID 620
             + + E   Q+KSL+ L+IS N +      
Sbjct: 362 ELSKIAEMTTQMKSLQQLDISQNSVSYDEKK 392

>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 = 51.7 bits (124), Expect = 7e-07
 Identities = 28/168 (16%), Positives = 66/168 (39%), Gaps = 14/168 (8%)

Query: 537 CLQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSF 592
            L L    ++++   +F  L  +Q+L+LS+N L  +       L  ++ ++L  N +   
Sbjct: 294 VLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAII 353

Query: 593 TALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH----SVGSEWNHGQTVI--D 646
              +  + L+ L+ L++  N +   +I     +    LS     ++         +   +
Sbjct: 354 QD-QTFKFLEKLQTLDLRDNAL--TTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSE 410

Query: 647 DDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
           + +++    YF+L+  +L    +  N   +           P L+ L 
Sbjct: 411 NRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQT-PSENPSLEQLF 457

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

 Score = 50.6 bits (121), Expect = 2e-06
 Identities = 39/233 (16%), Positives = 83/233 (35%), Gaps = 25/233 (10%)

Query: 480 EVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMC-L 538
           E+L++  +   +D T         S      +  +         +  +   N  + +   
Sbjct: 207 EILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARS 266

Query: 539 QLKNLSLSRL-------GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            +++L LS           F+ L  +++L+L++N++  I       L  L  LNLS N+L
Sbjct: 267 SVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLL 326

Query: 590 GSFTALEPIRQLKSLRALNISYNEIGAHSIDTTK--------YLCSSPLSHSVGSEWNHG 641
           G   +      L  +  +++  N I      T K         L  + L+          
Sbjct: 327 GELYS-SNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPD 385

Query: 642 QTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
             +  + + +  +       ++L+      N + N     FL++ +P L+ L 
Sbjct: 386 IFLSGNKLVTLPKINLTANLIHLS-----ENRLENLDILYFLLR-VPHLQILI 432

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

 Score = 50.6 bits (121), Expect = 2e-06
 Identities = 30/157 (19%), Positives = 53/157 (33%), Gaps = 17/157 (10%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI----EGLEALQLLSCLNLSNN 587
            L+ L L           +F  L  +  L L    L            L+ L+ L+LS N
Sbjct: 74  NLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKN 133

Query: 588 ILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDD 647
            + S        +L SL++++ S N+I        + L    L     S ++     +  
Sbjct: 134 QIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTL-----SFFSLAANSLYS 188

Query: 648 DIKSYWEAYF-ILKGLNLTQFDIVGNAIVNEKFKSFL 683
            +   W       + + L   D+ GN    +   +F 
Sbjct: 189 RVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFS 225

>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 = 28/97 (28%), Positives = 44/97 (45%), Gaps = 5/97 (5%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTAL 595
           LQL   +      F+ L  +Q+L L+HN L S+       L  L  L+L++N     T L
Sbjct: 463 LQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSN---RLTVL 519

Query: 596 EPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH 632
                  +L  L+IS N++ A + D    L    ++H
Sbjct: 520 SHNDLPANLEILDISRNQLLAPNPDVFVSLSVLDITH 556

>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 = 31/156 (19%), Positives = 59/156 (37%), Gaps = 20/156 (12%)

Query: 539 QLKNLSLSR--------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNI 588
           QL+ L L            +F  L  +++LDL  +++  +     + L  L  L L    
Sbjct: 49  QLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCG 108

Query: 589 LGSFTALE-PIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDD 647
           L      +   R LK+L  L++S N+I   S+             S+    N    V + 
Sbjct: 109 LSDAVLKDGYFRNLKALTRLDLSKNQI--RSLYLHPSFGKLNSLKSIDFSSNQIFLVCEH 166

Query: 648 DIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFL 683
           +++        L+G  L+ F +  N++ +     + 
Sbjct: 167 ELEP-------LQGKTLSFFSLAANSLYSRVSVDWG 195

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

 Score = 47.1 bits (112), Expect = 2e-05
 Identities = 31/163 (19%), Positives = 61/163 (37%), Gaps = 22/163 (13%)

Query: 539 QLKNLSLS--RLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE 596
           +L+ L L    L +   +  +  + LS N+L ++  +  L     ++LS N L +   L 
Sbjct: 363 KLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKI-NLTANL-IHLSENRLENLDILY 420

Query: 597 PIRQLKSLRALNISYNEIGAHSIDTTKYLCSS----PLSHSVGSEWNHGQTVIDDDIKSY 652
            + ++  L+ L ++ N   + S D T     S     L        N  Q   + ++   
Sbjct: 421 FLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGE------NMLQLAWETELCWD 474

Query: 653 WEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
                + +GL +L    +  N +        +   L  L+ L 
Sbjct: 475 -----VFEGLSHLQVLYLNHNYL--NSLPPGVFSHLTALRGLS 510

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

 Score = 45.2 bits (107), Expect = 7e-05
 Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 4/77 (5%)

Query: 540 LKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEP 597
            +  +L+++     L   + L LS N +R++       L+ L  L L +         E 
Sbjct: 11  YRFCNLTQV--PQVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEA 68

Query: 598 IRQLKSLRALNISYNEI 614
            R L +LR L++  ++I
Sbjct: 69  FRNLPNLRILDLGSSKI 85

>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 Length = 267

 Score = 50.4 bits (120), Expect = 7e-07
 Identities = 37/151 (24%), Positives = 59/151 (39%), Gaps = 29/151 (19%)

Query: 558 QMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG-- 615
           Q LDL    LRS   L A  +   LN  + +  +   +E    +  L +LN+S N +   
Sbjct: 130 QALDLK--GLRSDPDLVAQNIDVVLNRRSCMAATLRIIE--ENIPELLSLNLSNNRLYRL 185

Query: 616 ---AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGN 672
              +  +     L    LS       N         +KS  E    +KGL L +  + GN
Sbjct: 186 DDMSSIVQKAPNLKILNLSG------NE--------LKSERE-LDKIKGLKLEELWLDGN 230

Query: 673 AIVN-----EKFKSFLIKVLPGLKWLDGEQL 698
           ++ +       + S + +  P L  LDG +L
Sbjct: 231 SLCDTFRDQSTYISAIRERFPKLLRLDGHEL 261

>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 = 51.1 bits (122), Expect = 9e-07
 Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 6/78 (7%)

Query: 539 QLKNLSLS--RLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE 596
            L + ++S   L +    + V+ LD SHN +  + G      L+ L L +N L     L 
Sbjct: 193 SLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTAWL- 250

Query: 597 PIRQLKSLRALNISYNEI 614
                  L  +++SYNE+
Sbjct: 251 --LNYPGLVEVDLSYNEL 266

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 49.5 bits (118), Expect = 3e-06
 Identities = 20/87 (22%), Positives = 32/87 (36%), Gaps = 11/87 (12%)

Query: 535 PMCLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNN 587
            + + ++ L  S             +L    +L L HN L     L     L  ++LS N
Sbjct: 208 AIPIAVEELDASHNSINVVRGPVNVEL---TILKLQHNNLTDTAWLLNYPGLVEVDLSYN 264

Query: 588 ILGSFTALEPIRQLKSLRALNISYNEI 614
            L       P  +++ L  L IS N +
Sbjct: 265 ELEKIMY-HPFVKMQRLERLYISNNRL 290

>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 = 48.0 bits (114), Expect = 9e-06
 Identities = 25/85 (29%), Positives = 34/85 (40%), Gaps = 13/85 (15%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L  L L R        G F     +  L +S+N L  IE    +A   L  L LS+N L
Sbjct: 124 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL 183

Query: 590 GSFTALEPIRQLKSLRALNISYNEI 614
                   +  + SL   N+SYN +
Sbjct: 184 THV----DLSLIPSLFHANVSYNLL 204

>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 = 7e-05
 Identities = 15/83 (18%), Positives = 34/83 (40%), Gaps = 9/83 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           +  KN ++ +L     D    V++L+L+  ++  I+         +  L +  N +    
Sbjct: 56  VTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAI---R 112

Query: 594 ALEP--IRQLKSLRALNISYNEI 614
            L P   + +  L  L +  N++
Sbjct: 113 YLPPHVFQNVPLLTVLVLERNDL 135

>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 = 44.5 bits (105), Expect = 1e-04
 Identities = 19/81 (23%), Positives = 33/81 (40%), Gaps = 5/81 (6%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L +L +  +   +F     +Q L +  N +R +     + + LL+ L L  N L S  
Sbjct: 80  LNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLP 139

Query: 594 ALEPIRQLKSLRALNISYNEI 614
                     L  L++S N +
Sbjct: 140 R-GIFHNTPKLTTLSMSNNNL 159

>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 = 43.4 bits (102), Expect = 3e-04
 Identities = 12/115 (10%), Positives = 41/115 (35%), Gaps = 12/115 (10%)

Query: 502 QHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD 561
            +      +      +L   C  Y      +   +    ++++L+           +++ 
Sbjct: 7   YNVKPRQPEYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQ---------KIVT 57

Query: 562 LSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
             ++ +R +    L++ + +  LNL++  +             +++ L + +N I
Sbjct: 58  FKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDT-YAFAYAHTIQKLYMGFNAI 111

>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 = 41.5 bits (97), Expect = 8e-04
 Identities = 17/83 (20%), Positives = 31/83 (37%), Gaps = 17/83 (20%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
            L+NL LS        L     L      ++S+N L ++    A++    L+ S+N +  
Sbjct: 172 SLQNLQLSSNRLTHVDLSLIPSL---FHANVSYNLLSTLAIPIAVEE---LDASHNSINV 225

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
                       L  L + +N +
Sbjct: 226 V----RGPVNVELTILKLQHNNL 244

>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 = 50.5 bits (121), Expect = 1e-06
 Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 9/86 (10%)

Query: 537 CLQLKNLSLSRL--------GSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNI 588
              L  L L  L        G+F+ L  ++ L+L    ++ +  L  L  L  L +S N 
Sbjct: 170 VPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNH 229

Query: 589 LGSFTALEPIRQLKSLRALNISYNEI 614
                       L SL+ L +  +++
Sbjct: 230 FPEIRP-GSFHGLSSLKKLWVMNSQV 254

>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 = 48.6 bits (116), Expect = 5e-06
 Identities = 18/82 (21%), Positives = 36/82 (43%), Gaps = 9/82 (10%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILGSF 592
           L L   ++  + +   L+ ++ L++S N    I      GL +L+ L    + N+ +   
Sbjct: 201 LNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLW---VMNSQVSLI 257

Query: 593 TALEPIRQLKSLRALNISYNEI 614
                   L SL  LN+++N +
Sbjct: 258 ER-NAFDGLASLVELNLAHNNL 278

>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 = 44.7 bits (106), Expect = 8e-05
 Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 14/85 (16%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL 589
            L+ L +S         GSF  L  ++ L + ++++  IE    + L  L  LNL++N L
Sbjct: 219 GLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNL 278

Query: 590 GSFTALEP--IRQLKSLRALNISYN 612
              ++L       L+ L  L++ +N
Sbjct: 279 ---SSLPHDLFTPLRYLVELHLHHN 300

>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 = 43.2 bits (102), Expect = 2e-04
 Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 9/83 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L   ++  +   +F  L  +++L L  N +R IE      L  L+ L L +N L   T
Sbjct: 80  LNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWL---T 136

Query: 594 ALEP--IRQLKSLRALNISYNEI 614
            +       L  LR L +  N I
Sbjct: 137 VIPSGAFEYLSKLRELWLRNNPI 159

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

 Score = 42.0 bits (99), Expect = 5e-04
 Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 21/91 (23%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            L+ L L R       +G+F+ L  +  L+L  N L  I       L  L+    L L N
Sbjct: 100 HLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRE---LWLRN 156

Query: 587 NILGSFTALEP--IRQLKSLRALNIS-YNEI 614
           N      ++      ++ SL  L++    ++
Sbjct: 157 N---PIESIPSYAFNRVPSLMRLDLGELKKL 184

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

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 14/79 (17%), Positives = 32/79 (40%), Gaps = 6/79 (7%)

Query: 538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTAL 595
                  +      S ++L  +  LD  ++ +  + G+E L  L+ L  ++N + +    
Sbjct: 23  EVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTL--- 79

Query: 596 EPIRQLKSLRALNISYNEI 614
             + Q  +L  L    N++
Sbjct: 80  -DLSQNTNLTYLACDSNKL 97

>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 = 20/106 (18%), Positives = 37/106 (34%), Gaps = 9/106 (8%)

Query: 513 SNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLS--RLGSFD--KLLWVQMLDLSHNELR 568
           S+   L     H +   +        QL  L  S  ++   D  +   +  L+   N + 
Sbjct: 145 SHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNIT 204

Query: 569 SIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
            ++ L     L+ L+ S+N L        +  L  L   + S N +
Sbjct: 205 KLD-LNQNIQLTFLDCSSNKLTEI----DVTPLTQLTYFDCSVNPL 245

>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 = 49.3 bits (118), Expect = 3e-06
 Identities = 34/165 (20%), Positives = 64/165 (38%), Gaps = 24/165 (14%)

Query: 540 LKNLSLS-------RLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILG 590
           +K+L LS         G       +Q+L L  + + +IEG    +L  L  L+LS+N L 
Sbjct: 28  MKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLS 87

Query: 591 SFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIK 650
           S ++      L SL+ LN+  N     ++  T    +     ++        + I     
Sbjct: 88  SLSS-SWFGPLSSLKYLNLMGNPY--QTLGVTSLFPNLTNLQTLRIGNVETFSEIRRI-- 142

Query: 651 SYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD 694
                     GL +L + +I   ++    ++S  +K +  +  L 
Sbjct: 143 -------DFAGLTSLNELEIKALSL--RNYQSQSLKSIRDIHHLT 178

>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 = 48.6 bits (116), Expect = 5e-06
 Identities = 19/123 (15%), Positives = 44/123 (35%), Gaps = 11/123 (8%)

Query: 503 HSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRL-------GSFDKLL 555
             L  ++        L       S+  S  G    + ++ L + +          +  L 
Sbjct: 251 LELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLE 310

Query: 556 WVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEP--IRQLKSLRALNISY 611
            V+ + + ++++  +     + L+ L  L+LS N++               SL+ L +S 
Sbjct: 311 KVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQ 370

Query: 612 NEI 614
           N +
Sbjct: 371 NHL 373

>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 = 6e-06
 Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 2/82 (2%)

Query: 532 RGSPMCLQLKNLSLSRLGSFDKLL-WVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILG 590
              P  L++ ++S + L SF   L  +Q L +S N+L+++       +L  + +S N L 
Sbjct: 427 TCIPQTLEVLDVSNNNLDSFSLFLPRLQELYISRNKLKTLPDASLFPVLLVMKISRNQLK 486

Query: 591 SFTALEPIRQLKSLRALNISYN 612
           S        +L SL+ + +  N
Sbjct: 487 SVPD-GIFDRLTSLQKIWLHTN 507

>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 = 46.6 bits (111), Expect = 2e-05
 Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 6/80 (7%)

Query: 539 QLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG----LEALQLLSCLNLSNNILGSFTA 594
            +    L           +Q L LS N LRS++     L  L+ L+ L++S N       
Sbjct: 345 LMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMP- 403

Query: 595 LEPIRQLKSLRALNISYNEI 614
            +  +  + +R LN+S   I
Sbjct: 404 -DSCQWPEKMRFLNLSSTGI 422

>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 = 46.3 bits (110), Expect = 3e-05
 Identities = 22/83 (26%), Positives = 30/83 (36%), Gaps = 9/83 (10%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNIL 589
            L+ L L           +F  L  ++ LDLS N L S+       L  L  LNL  N  
Sbjct: 51  NLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPY 110

Query: 590 GSFTALEPIRQLKSLRALNISYN 612
            +         L +L+ L I   
Sbjct: 111 QTLGVTSLFPNLTNLQTLRIGNV 133

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

 Score = 43.2 bits (102), Expect = 3e-04
 Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 11/81 (13%)

Query: 539 QLKNLSLS--RLGSFDKLLW--VQMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGSFT 593
           +++ L+LS   +      +   +++LD+S+N L S    L  LQ L    +S N      
Sbjct: 411 KMRFLNLSSTGIRVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQEL---YISRN---KLK 464

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            L        L  + IS N++
Sbjct: 465 TLPDASLFPVLLVMKISRNQL 485

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

 Score = 48.8 bits (117), Expect = 3e-06
 Identities = 20/125 (16%), Positives = 43/125 (34%), Gaps = 11/125 (8%)

Query: 498 YYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWV 557
           Y++   +L     V S W+   +   +  +S   + +    Q++  +   L +   LL  
Sbjct: 18  YFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLED 77

Query: 558 ------QMLDLSHNELRSI-EGLEALQLLSCLNLSNNILGSFTAL-EPIRQLKSLRALNI 609
                   L+L    L    +    L  L  + +          L + ++Q   L  L +
Sbjct: 78  ATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA---GLMELPDTMQQFAGLETLTL 134

Query: 610 SYNEI 614
           + N +
Sbjct: 135 ARNPL 139

>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 = 43.4 bits (103), Expect = 2e-04
 Identities = 18/94 (19%), Positives = 38/94 (40%), Gaps = 21/94 (22%)

Query: 539 QLKNLSLSR---------LGSFDKLLWVQMLDLSHNELRSI-EGLEALQLLSCLNLSNN- 587
            L+++++           +  F  L   + L L+ N LR++   + +L  L  L++    
Sbjct: 105 HLQHMTIDAAGLMELPDTMQQFAGL---ETLTLARNPLRALPASIASLNRLRELSIRACP 161

Query: 588 -------ILGSFTALEPIRQLKSLRALNISYNEI 614
                   L S  A    + L +L++L + +  I
Sbjct: 162 ELTELPEPLASTDASGEHQGLVNLQSLRLEWTGI 195

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 47.9 bits (114), Expect = 6e-06
 Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 21/89 (23%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNIL- 589
           L L +  L+ +   +F  +  ++ LDLS N L +++      L+AL++   L L NN + 
Sbjct: 69  LLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEV---LLLYNNHIV 125

Query: 590 ----GSFTALEPIRQLKSLRALNISYNEI 614
                +F        +  L+ L +S N+I
Sbjct: 126 VVDRNAF------EDMAQLQKLYLSQNQI 148

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 46.8 bits (111), Expect = 1e-05
 Identities = 25/82 (30%), Positives = 37/82 (45%), Gaps = 6/82 (7%)

Query: 538 LQLKNLSLSRL---GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSF 592
           L L + +LSRL    +  +L  +  L LSHN L  I       +  L  L+LS+N L + 
Sbjct: 44  LDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTL 103

Query: 593 TALEPIRQLKSLRALNISYNEI 614
                   L++L  L +  N I
Sbjct: 104 DE-FLFSDLQALEVLLLYNNHI 124

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 45.2 bits (107), Expect = 4e-05
 Identities = 17/80 (21%), Positives = 32/80 (40%), Gaps = 8/80 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILG 590
           L L N  +  +   +F+ +  +Q L LS N++             L  L  L+LS+N L 
Sbjct: 117 LLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLK 176

Query: 591 SFTALEPIRQLKSLRALNIS 610
                  +++L +     + 
Sbjct: 177 KLPL-TDLQKLPAWVKNGLY 195

>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 = 47.9 bits (114), Expect = 7e-06
 Identities = 21/83 (25%), Positives = 33/83 (39%), Gaps = 8/83 (9%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
           +L+ L LS           F     ++ LD+SHN L++I     +  L  L+LS N    
Sbjct: 77  ELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNIS-CCPMASLRHLDLSFNDFDV 135

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
               +    L  L  L +S  + 
Sbjct: 136 LPVCKEFGNLTKLTFLGLSAAKF 158

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 44.5 bits (105), Expect = 9e-05
 Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 8/79 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           L L   S+S L       L  +++L LSHN +RS++       Q L  L++S+N L +  
Sbjct: 57  LSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNI- 115

Query: 594 ALEPIRQLKSLRALNISYN 612
                  + SLR L++S+N
Sbjct: 116 ---SCCPMASLRHLDLSFN 131

>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 = 25/82 (30%), Positives = 41/82 (50%), Gaps = 5/82 (6%)

Query: 535 PMCLQLKNLSLSRL--GSFDKLLW-VQMLDLSHNELRSI-EGLEALQLLSCLNLSNNILG 590
              + + NLS + L    F  L   V++LDL +N + SI + +  LQ L  LN+++N L 
Sbjct: 427 AESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLK 486

Query: 591 SFTALEPIRQLKSLRALNISYN 612
           S        +L SL+ + +  N
Sbjct: 487 SVPD-GVFDRLTSLQYIWLHDN 507

>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 = 41.8 bits (98), Expect = 6e-04
 Identities = 18/89 (20%), Positives = 32/89 (35%), Gaps = 11/89 (12%)

Query: 537 CLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG----LEALQLLSCLNLS 585
                 L+ ++             L  +Q L L  N L++        + +  L  L++S
Sbjct: 352 PSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVS 411

Query: 586 NNILGSFTALEPIRQLKSLRALNISYNEI 614
            N L S          +S+  LN+S N +
Sbjct: 412 LNSLNSHAYDRTCAWAESILVLNLSSNML 440

>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 = 48.1 bits (115), Expect = 8e-06
 Identities = 20/94 (21%), Positives = 35/94 (37%), Gaps = 19/94 (20%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSF----- 592
           L + N +L  L     LL  + L +S+N+L  +  L+    L  +++ NN L        
Sbjct: 116 LLVDNNNLKALSDLPPLL--EYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPP 173

Query: 593 ------------TALEPIRQLKSLRALNISYNEI 614
                         L  ++ L  L A+    N +
Sbjct: 174 SLEFIAAGNNQLEELPELQNLPFLTAIYADNNSL 207

>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 = 47.7 bits (114), Expect = 1e-05
 Identities = 28/165 (16%), Positives = 50/165 (30%), Gaps = 24/165 (14%)

Query: 470 PPANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSP 529
           P     +  +E L   ++L  +            S        S WE             
Sbjct: 5   PRNVSNTFLQEPLRHSSNLTEMPVEAEN----VKSKTEYYNAWSEWERNAPPGNGEQREM 60

Query: 530 SNRGSPMCL--QLKNLSLSR--LGSFDKLLW-VQMLDLSHNELRSI-EGLEALQLLSCLN 583
           +      CL  Q   L L+   L S  +L   ++ L  S N L  + E  ++L+ L   N
Sbjct: 61  AVSRLRDCLDRQAHELELNNLGLSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDN 120

Query: 584 LSNNILGSF--------------TALEPIRQLKSLRALNISYNEI 614
            +   L                   L  ++    L+ +++  N +
Sbjct: 121 NNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSL 165

>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 = 43.4 bits (103), Expect = 2e-04
 Identities = 18/81 (22%), Positives = 31/81 (38%), Gaps = 8/81 (9%)

Query: 537 CLQLKNLSLS--RLGSFDKLLW-VQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
              L  +      L     L   ++ +   +N L  +  L+ L  L+ +   NN+L +  
Sbjct: 194 LPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLP 253

Query: 594 ALEPIRQLKSLRALNISYNEI 614
            L       SL ALN+  N +
Sbjct: 254 DL-----PPSLEALNVRDNYL 269

>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 = 42.3 bits (100), Expect = 5e-04
 Identities = 15/81 (18%), Positives = 29/81 (35%), Gaps = 8/81 (9%)

Query: 537 CLQLKNLSLS--RLGSFDKLLW-VQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFT 593
              LK + +    L     L   ++ +   +N+L  +  L+ L  L+ +   NN L    
Sbjct: 152 SSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKL- 210

Query: 594 ALEPIRQLKSLRALNISYNEI 614
                    SL ++    N +
Sbjct: 211 ----PDLPLSLESIVAGNNIL 227

>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 = 48.1 bits (115), Expect = 8e-06
 Identities = 21/96 (21%), Positives = 42/96 (43%), Gaps = 11/96 (11%)

Query: 521 RCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI--EGLEALQL 578
           +    SNS ++  +       +L+ S L          +L+L+ N++  I  +    L  
Sbjct: 356 KYLSLSNSFTSLRTLTNETFVSLAHSPL---------HILNLTKNKISKIESDAFSWLGH 406

Query: 579 LSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           L  L+L  N +G     +  R L+++  + +SYN+ 
Sbjct: 407 LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKY 442

>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 = 46.5 bits (111), Expect = 2e-05
 Identities = 18/85 (21%), Positives = 33/85 (38%), Gaps = 9/85 (10%)

Query: 537 CLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNN 587
              L  L+L         +  F  L  ++++DL  N L ++          L  LNL  N
Sbjct: 535 LSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKN 594

Query: 588 ILGSFTALEPIRQLKSLRALNISYN 612
           ++ S          ++L  L++ +N
Sbjct: 595 LITSVEKKVFGPAFRNLTELDMRFN 619

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

 Score = 45.4 bits (108), Expect = 5e-05
 Identities = 28/106 (26%), Positives = 44/106 (41%), Gaps = 16/106 (15%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            LK L+L           +F     +  L L  N ++ I+       + L  L   +LS+
Sbjct: 74  MLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITL---DLSH 130

Query: 587 NILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH 632
           N L S T L    QL++L+ L +S N+I A   +      +S L  
Sbjct: 131 NGL-SSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKK 175

>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 = 44.6 bits (106), Expect = 9e-05
 Identities = 18/95 (18%), Positives = 37/95 (38%), Gaps = 5/95 (5%)

Query: 542 NLSLSRLGSFDKLLWVQMLDLSHNELRSIEG----LEALQLLSCLNLSNNILGSFTALEP 597
                   SF  +  +Q L L    L++++      + L+ L+ L+LSNN + +    + 
Sbjct: 441 KYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANIND-DM 499

Query: 598 IRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH 632
           +  L+ L  L++ +N +               L  
Sbjct: 500 LEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKG 534

>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 = 43.8 bits (104), Expect = 2e-04
 Identities = 18/81 (22%), Positives = 29/81 (35%), Gaps = 7/81 (8%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTAL 595
           L         +     L  + +L+L  N    I  E  + L  L  ++L  N   +   L
Sbjct: 519 LWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLN---NLNTL 575

Query: 596 EP--IRQLKSLRALNISYNEI 614
                    SL++LN+  N I
Sbjct: 576 PASVFNNQVSLKSLNLQKNLI 596

>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 = 41.9 bits (99), Expect = 7e-04
 Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 9/83 (10%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE--GLEALQLLSCLNLSNNILGSFT 593
           L L +  L RL   +F +   +  LD+  N +  +E    + L +L  LNL +N     +
Sbjct: 30  LNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN---ELS 86

Query: 594 ALEP--IRQLKSLRALNISYNEI 614
            L         +L  L++  N I
Sbjct: 87  QLSDKTFAFCTNLTELHLMSNSI 109

>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 = 46.6 bits (111), Expect = 1e-05
 Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 4/79 (5%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTAL 595
           L L    L      +      +  L+L   EL  ++    L +L  L+LS+N L S   L
Sbjct: 36  LHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLL 95

Query: 596 EPIRQLKSLRALNISYNEI 614
              + L +L  L++S+N +
Sbjct: 96  --GQTLPALTVLDVSFNRL 112

>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 = 47.1 bits (112), Expect = 1e-05
 Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 9/79 (11%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFT 593
               N +L  L    F       +LD+S   + S+   GLE L+ L   +  N       
Sbjct: 183 NLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNL-----K 237

Query: 594 ALEPIRQLKSLRALNISYN 612
            L  + +L +L   +++Y 
Sbjct: 238 KLPTLEKLVALMEASLTYP 256

>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 = 47.0 bits (112), Expect = 2e-05
 Identities = 17/84 (20%), Positives = 37/84 (44%), Gaps = 8/84 (9%)

Query: 539 QLKNLSLSR------LGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILG 590
           +L  L          L +F   + +  L+L++N++  I        + +  L+ ++N L 
Sbjct: 331 KLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK 390

Query: 591 SFTALEPIRQLKSLRALNISYNEI 614
               +   + +  + A++ SYNEI
Sbjct: 391 YIPNIFDAKSVSVMSAIDFSYNEI 414

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 45.8 bits (109), Expect = 4e-05
 Identities = 18/94 (19%), Positives = 34/94 (36%), Gaps = 16/94 (17%)

Query: 537 CLQLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI---------EGLEALQLLS 580
            + + +++LS           F     +  ++L  N L  I         E  +   LL+
Sbjct: 432 GINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLT 491

Query: 581 CLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
            ++L  N L   +       L  L  +++SYN  
Sbjct: 492 SIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSF 525

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 45.0 bits (107), Expect = 8e-05
 Identities = 16/120 (13%), Positives = 38/120 (31%), Gaps = 19/120 (15%)

Query: 512 TSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSR---LGSFDKLLW----VQMLDLSH 564
            +           Y        +     L ++ +     L      L     +Q+++++ 
Sbjct: 225 EAWENENSEYAQQYKTEDLKWDN--LKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVAC 282

Query: 565 NELRSIE----------GLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           N   S E               + +  + +  N L +F     ++++K L  L   YN++
Sbjct: 283 NRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQL 342

>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 = 45.8 bits (109), Expect = 2e-05
 Identities = 20/83 (24%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT 593
           + L    +S +   SF     + +L L  N L  I+      L LL  L+LS+N      
Sbjct: 37  IFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN--AQLR 94

Query: 594 ALEP--IRQLKSLRALNISYNEI 614
           +++P     L  L  L++    +
Sbjct: 95  SVDPATFHGLGRLHTLHLDRCGL 117

>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 = 43.8 bits (104), Expect = 1e-04
 Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 11/80 (13%)

Query: 542 NLSLSRL--GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILGSFTA 594
           N  L  +   +F  L  +  L L    L+ +      GL ALQ    L L +N L +   
Sbjct: 90  NAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQY---LYLQDNALQALPD 146

Query: 595 LEPIRQLKSLRALNISYNEI 614
            +  R L +L  L +  N I
Sbjct: 147 -DTFRDLGNLTHLFLHGNRI 165

>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 = 43.1 bits (102), Expect = 2e-04
 Identities = 20/88 (22%), Positives = 29/88 (32%), Gaps = 16/88 (18%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            L+ L L           +F  L  +  L L  N + S+      GL +L     L L  
Sbjct: 130 ALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDR---LLLHQ 186

Query: 587 NILGSFTALEPIRQLKSLRALNISYNEI 614
           N +         R L  L  L +  N +
Sbjct: 187 NRVAHVHP-HAFRDLGRLMTLYLFANNL 213

>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 = 43.1 bits (102), Expect = 2e-04
 Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 14/87 (16%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNIL 589
           +L  L L R        G F  L  +Q L L  N L+++  +    L  L+ L L  N +
Sbjct: 106 RLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRI 165

Query: 590 GSFTALEP--IRQLKSLRALNISYNEI 614
              +++     R L SL  L +  N +
Sbjct: 166 ---SSVPERAFRGLHSLDRLLLHQNRV 189

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 46.0 bits (110), Expect = 2e-05
 Identities = 26/105 (24%), Positives = 40/105 (38%), Gaps = 24/105 (22%)

Query: 537 CLQLKNLSLSR------LGSFDKLLWVQMLDLSHNELR-SI-EGLEALQLLSCLNLSNNI 588
               + + L++      LG       +  LDL +N +  ++ +GL  L+ L  LN+S N 
Sbjct: 220 DKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNN 279

Query: 589 L-GSFTALEP-IRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLS 631
           L G      P    L+       + N          K LC SPL 
Sbjct: 280 LCGEI----PQGGNLQRFDVSAYANN----------KCLCGSPLP 310

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

 Score = 44.5 bits (105), Expect = 6e-05
 Identities = 20/84 (23%), Positives = 30/84 (35%), Gaps = 12/84 (14%)

Query: 539 QLKNLSLSR--------LGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILG 590
           QL+ L LS           S D    +  L+LS   L+ +        LS L+LS N   
Sbjct: 229 QLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPK-GLPAKLSVLDLSYN--- 284

Query: 591 SFTALEPIRQLKSLRALNISYNEI 614
                    +L  +  L++  N  
Sbjct: 285 RLDRNPSPDELPQVGNLSLKGNPF 308

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

 Score = 42.6 bits (100), Expect = 2e-04
 Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 5/62 (8%)

Query: 558 QMLDLSHNELRSIEG-----LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN 612
           Q+L L +  + +  G       A   L  L+LS+N L              L +LN+S+ 
Sbjct: 204 QVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFT 263

Query: 613 EI 614
            +
Sbjct: 264 GL 265

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

 Score = 42.2 bits (99), Expect = 3e-04
 Identities = 16/88 (18%), Positives = 35/88 (39%), Gaps = 11/88 (12%)

Query: 538 LQLKNLSLSRLGSFDKLLW------VQMLDLSHNELRSI--EGLEALQLLSCLNLSNNIL 589
           L L+N+S +   ++   L       +++L ++     +   E +     LS L+LS+N  
Sbjct: 126 LNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPE 185

Query: 590 GSFTALEPI---RQLKSLRALNISYNEI 614
                L       +  +L+ L +    +
Sbjct: 186 LGERGLISALCPLKFPTLQVLALRNAGM 213

>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 = 44.7 bits (106), Expect = 7e-05
 Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 15/86 (17%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILG 590
           L L N  ++ +      + + +Q L L+ N + +IE      L +L+    L+LS N L 
Sbjct: 57  LDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEH---LDLSYNYL- 112

Query: 591 SFTALEP--IRQLKSLRALNISYNEI 614
             + L     + L SL  LN+  N  
Sbjct: 113 --SNLSSSWFKPLSSLTFLNLLGNPY 136

>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 = 43.2 bits (102), Expect = 2e-04
 Identities = 15/81 (18%), Positives = 35/81 (43%), Gaps = 9/81 (11%)

Query: 540 LKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTAL 595
               + +++    F  L +++ L++  ++L+S E   L+++Q +S L L          L
Sbjct: 157 GNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMK---QHILL 213

Query: 596 EPI--RQLKSLRALNISYNEI 614
             I      S+  L +   ++
Sbjct: 214 LEIFVDVTSSVECLELRDTDL 234

>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 = 41.6 bits (98), Expect = 5e-04
 Identities = 21/87 (24%), Positives = 34/87 (39%), Gaps = 15/87 (17%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI-----EGLEALQLLSCLNLSN 586
            L+ L L+          SF  L  ++ LDLS+N L ++     + L +L     LNL  
Sbjct: 77  NLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTF---LNLLG 133

Query: 587 NILGSFTALEPIRQLKSLRALNISYNE 613
           N   +         L  L+ L +   +
Sbjct: 134 NPYKTLGETSLFSHLTKLQILRVGNMD 160

>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 = 44.4 bits (105), Expect = 9e-05
 Identities = 31/133 (23%), Positives = 45/133 (33%), Gaps = 14/133 (10%)

Query: 491 LDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRL-- 548
           +  T +Q     +S  +                      S   +     L    +  L  
Sbjct: 236 IAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKT---CDLSKSKIFALLK 292

Query: 549 GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILGSFTALEPIRQLKS 603
             F     ++ L L+ NE+  I+     GL  L     LNLS N LGS  +      L  
Sbjct: 293 SVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLK---LNLSQNFLGSIDS-RMFENLDK 348

Query: 604 LRALNISYNEIGA 616
           L  L++SYN I A
Sbjct: 349 LEVLDLSYNHIRA 361

>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 = 43.6 bits (103), Expect = 2e-04
 Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 16/88 (18%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            L+ L+L++         +F  L  +  L+LS N L SI+      L+ L++   L+LS 
Sbjct: 300 DLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEV---LDLSY 356

Query: 587 NILGSFTALEPIRQLKSLRALNISYNEI 614
           N + +    +    L +L+ L +  N++
Sbjct: 357 NHIRALGD-QSFLGLPNLKELALDTNQL 383

>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 = 43.2 bits (102), Expect = 2e-04
 Identities = 20/87 (22%), Positives = 31/87 (35%), Gaps = 11/87 (12%)

Query: 539 QLKNLSLS--------RLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNI 588
            L+ L +         R  +F  L  + +L L +N+   +E      L  L  L L+   
Sbjct: 55  DLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCN 114

Query: 589 LGSFTALEPI-RQLKSLRALNISYNEI 614
           L          + L SL  L +  N I
Sbjct: 115 LDGAVLSGNFFKPLTSLEMLVLRDNNI 141

>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 = 43.2 bits (102), Expect = 2e-04
 Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 6/83 (7%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSI---EGL-EALQLLSCLNLSNNILGS 591
           L+L      +L  G+F+ L  +++L L+   L          + L  L  L L +N +  
Sbjct: 84  LKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKK 143

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
                    ++    L++++N++
Sbjct: 144 IQPASFFLNMRRFHVLDLTFNKV 166

>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 = 41.7 bits (98), Expect = 6e-04
 Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 2/61 (3%)

Query: 556 WVQMLDLSHNELRSIE--GLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE 613
            V  +DLS N +  +       LQ L  L +     G        R L SL  L + YN+
Sbjct: 31  HVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ 90

Query: 614 I 614
            
Sbjct: 91  F 91

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 29/235 (12%), Positives = 50/235 (21%), Gaps = 38/235 (16%)

Query: 12  EDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVE-----LSTKLLETNPELYTAWNYRK 66
             A        +L   Q   +      + + EAV      L+   L   PE   A     
Sbjct: 21  TVAGELRGPPLQLDTGQLLKIAKRGG-VTAVEAVHAWRNALTGAPLNLTPEQVVAIASHD 79

Query: 67  LAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNEL 126
              +  L             +   L V+  A     +   A              ++   
Sbjct: 80  GG-KQALET-----------VQRLLPVLCQAHGLTPQQVVAIASHDGGKQA----LETVQ 123

Query: 127 RLLDKFQKA---DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSL 183
           RLL    +A         A         ++   +       +           A  +   
Sbjct: 124 RLLPVLCQAHGLTPEQVVAIASHDGGKQALETVQALLPVLCQA-HGLTPEQVVAIASNGG 182

Query: 184 LLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVD 238
               L           +++LP       QA    P        +         V 
Sbjct: 183 GKQALET--------VQRLLPV-LC---QAHGLTPQQVVAIASNGGGKQALETVQ 225

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 25/233 (10%), Positives = 51/233 (21%), Gaps = 43/233 (18%)

Query: 9   LKPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLA 68
           L PE   A A+     + L++            +  + +  +     P+   A       
Sbjct: 67  LTPEQVVAIASHDGGKQALET-----------VQRLLPVLCQAHGLTPQQVVAIASHDGG 115

Query: 69  VQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRL 128
            +  L             +   L V+  A     +   A              ++    L
Sbjct: 116 -KQALET-----------VQRLLPVLCQAHGLTPEQVVAIASHDGGKQA----LETVQAL 159

Query: 129 LDKFQKA---DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL 185
           L    +A         A         ++   +       +           A  +     
Sbjct: 160 LPVLCQAHGLTPEQVVAIASNGGGKQALETVQRLLPVLCQA-HGLTPQQVVAIASNGGGK 218

Query: 186 SNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVD 238
              L+         +++LP       QA    P        +         V 
Sbjct: 219 QA-LET-------VQRLLPV-LC---QAHGLTPQQVVAIASNGGGKQALETVQ 259

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 42.0 bits (99), Expect = 6e-04
 Identities = 26/234 (11%), Positives = 52/234 (22%), Gaps = 36/234 (15%)

Query: 12  EDAAASAAKAEKLRVLQSQFLHNHHNHIYS----KEAVELSTKLLETNPELYTAWNYRKL 67
           +       +A  L   Q   + +H     +    +  + +  +     PE   A      
Sbjct: 123 QRLLPVLCQAHGLTPEQVVAIASHDGGKQALETVQALLPVLCQAHGLTPEQVVAIASNGG 182

Query: 68  AVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELR 127
             +  L             +   L V+  A     +   A              ++   R
Sbjct: 183 G-KQALET-----------VQRLLPVLCQAHGLTPQQVVAIASNGGGKQA----LETVQR 226

Query: 128 LLDKFQKA---DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL 184
           LL    +A     +   A         ++   +       +           A  + S  
Sbjct: 227 LLPVLCQAHGLTPQQVVAIASNGGGKQALETVQRLLPVLCQA-HGLTPQQVVAIASNSGG 285

Query: 185 LSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVD 238
              L           +++LP       QA    P        +         V 
Sbjct: 286 KQALET--------VQRLLPV-LC---QAHGLTPQQVVAIASNGGGKQALETVQ 327

>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 = 44.1 bits (104), Expect = 1e-04
 Identities = 26/98 (26%), Positives = 42/98 (42%), Gaps = 9/98 (9%)

Query: 539 QLKNLSLS--RLGSFDKLL-WVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTAL 595
            LK L +S  RL S   L   ++ L +S N L S+        L  L++  N L   T L
Sbjct: 222 GLKELIVSGNRLTSLPVLPSELKELMVSGNRLTSLP--MLPSGLLSLSVYRNQL---TRL 276

Query: 596 -EPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH 632
            E +  L S   +N+  N +   ++   + + S+P   
Sbjct: 277 PESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYS 314

>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 = 42.6 bits (100), Expect = 4e-04
 Identities = 16/83 (19%), Positives = 26/83 (31%), Gaps = 8/83 (9%)

Query: 536 MCLQLKNLSLS--RLGSFDKLL--WVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGS 591
           +      L++    L +    L   +  L +  N L S+        L  L +S N L S
Sbjct: 38  LNNGNAVLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLP--ALPPELRTLEVSGNQLTS 95

Query: 592 FTALEPIRQLKSLRALNISYNEI 614
              L     L  L   +     +
Sbjct: 96  LPVL--PPGLLELSIFSNPLTHL 116

>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 = 42.7 bits (101), Expect = 1e-04
 Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 16/87 (18%)

Query: 538 LQLKNLSLSRL---GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNIL 589
           L+L N   + L   G F KL  ++ ++ S+N++  IE     G   +     + L++N L
Sbjct: 37  LRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNE---ILLTSNRL 93

Query: 590 GSFTALEP--IRQLKSLRALNISYNEI 614
                ++    + L+SL+ L +  N I
Sbjct: 94  ---ENVQHKMFKGLESLKTLMLRSNRI 117

>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 = 42.7 bits (101), Expect = 2e-04
 Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 15/86 (17%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILG 590
           ++L+  ++  +  G+F     ++ +DLS+N++  +      GL +L     L L  N + 
Sbjct: 37  IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNS---LVLYGNKI- 92

Query: 591 SFTALEP--IRQLKSLRALNISYNEI 614
             T L       L SL+ L ++ N+I
Sbjct: 93  --TELPKSLFEGLFSLQLLLLNANKI 116

>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 = 40.8 bits (96), Expect = 6e-04
 Identities = 24/115 (20%), Positives = 49/115 (42%), Gaps = 27/115 (23%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSI-----EGLEALQLLSCLNLSN 586
            L +L L            F+ L  +Q+L L+ N++  +     + L  L LLS   L +
Sbjct: 81  SLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLS---LYD 137

Query: 587 NILGSFT--ALEPIRQLKSLR--------ALNISY--NEIGAHSIDTTKYLCSSP 629
           N L +       P+R ++++           ++ +  + +  + I+T+   C+SP
Sbjct: 138 NKLQTIAKGTFSPLRAIQTMHLAQNPFICDCHLKWLADYLHTNPIETSGARCTSP 192

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 43.0 bits (101), Expect = 3e-04
 Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 10/81 (12%)

Query: 539 QLKNLSLS--RLGSFDKLLW-VQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTAL 595
            L+ L     RL +  +L   ++ LD+ +N+L  +   E   LL  +N  NN L     L
Sbjct: 101 SLEYLDACDNRLSTLPELPASLKHLDVDNNQLTMLP--ELPALLEYINADNNQLTMLPEL 158

Query: 596 EPIRQLKSLRALNISYNEIGA 616
                  SL  L++  N++  
Sbjct: 159 -----PTSLEVLSVRNNQLTF 174

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 42.3 bits (99), Expect = 5e-04
 Identities = 22/113 (19%), Positives = 42/113 (37%), Gaps = 15/113 (13%)

Query: 508 LQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG------SFDKLLWVQMLD 561
                  WE       + + + S     +  Q   L L+RL       +    +   +L+
Sbjct: 29  YFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSLPDNLPPQI--TVLE 86

Query: 562 LSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           ++ N L S+   E    L  L+  +N L +   L       SL+ L++  N++
Sbjct: 87  ITQNALISL--PELPASLEYLDACDNRLSTLPEL-----PASLKHLDVDNNQL 132

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 41.9 bits (98), Expect = 7e-04
 Identities = 20/126 (15%), Positives = 42/126 (33%), Gaps = 12/126 (9%)

Query: 539 QLKNLSLS--RLGSFDKLL-WVQMLDLSHNELRS----IEGLEALQ-LLSCLNLSNNILG 590
            L+ LS+   +L    +L   ++ LD+S N L S           +          N + 
Sbjct: 161 SLEVLSVRNNQLTFLPELPESLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRI- 219

Query: 591 SFTAL-EPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDI 649
             T + E I  L     + +  N + +   ++     + P  H     ++      +   
Sbjct: 220 --THIPENILSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQNTLH 277

Query: 650 KSYWEA 655
           +   +A
Sbjct: 278 RPLADA 283

>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 = 42.3 bits (100), Expect = 3e-04
 Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 15/88 (17%)

Query: 539 QLKNLSLSR-------LGSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSN 586
            L  L L+        LG+F  L  +Q L      L S+E      L+ L+    LN+++
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKE---LNVAH 133

Query: 587 NILGSFTALEPIRQLKSLRALNISYNEI 614
           N++ SF   E    L +L  L++S N+I
Sbjct: 134 NLIQSFKLPEYFSNLTNLEHLDLSSNKI 161

>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 = 41.5 bits (98), Expect = 5e-04
 Identities = 24/86 (27%), Positives = 34/86 (39%), Gaps = 15/86 (17%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILG 590
           L L    L  L   SF     +Q+LDLS  E+++IE      L  L     L L+ N + 
Sbjct: 33  LDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLST---LILTGNPI- 88

Query: 591 SFTALEP--IRQLKSLRALNISYNEI 614
              +L       L SL+ L      +
Sbjct: 89  --QSLALGAFSGLSSLQKLVAVETNL 112

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 31/157 (19%), Positives = 55/157 (35%), Gaps = 23/157 (14%)

Query: 560 LDLSHNELRSIEGLEAL-------QLLSCLNLSNNILGSFTAL---EPIRQLKSLRALNI 609
           L L H  L   EGLE L       + L  LN++ N  G   AL      R+  SL  L++
Sbjct: 188 LSLLHTGLGD-EGLELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHL 246

Query: 610 SYNEI---GAHSIDTTKYLCSSPLSHSVGSEWN-----HGQTVIDDDIKS--YWEAYFIL 659
            +NE+   G   +              V          +   ++ +  ++   W+   + 
Sbjct: 247 YFNELSSEGRQVLRDLGGAAEGGARVVVSLTEGTAVSEYWSVILSEVQRNLNSWDRARVQ 306

Query: 660 KGLNLTQFDIVGNAIVNEKFKSF--LIKVLPGLKWLD 694
           + L L   D+  +            L++V   ++ L 
Sbjct: 307 RHLELLLRDLEDSRGATLNPWRKAQLLRVEGEVRALL 343

>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 = 20/76 (26%), Positives = 33/76 (43%), Gaps = 5/76 (6%)

Query: 542 NLSLSRL--GSFDKLLWVQMLDLSHN-ELRSIEG--LEALQLLSCLNLSNNILGSFTALE 596
           +++L +L   SF  L  V  +++ +   L  I+   L+ L LL  L + N  L  F  L 
Sbjct: 65  DVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLT 124

Query: 597 PIRQLKSLRALNISYN 612
            +        L I+ N
Sbjct: 125 KVYSTDIFFILEITDN 140

>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 = 42.6 bits (101), Expect = 4e-04
 Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 10/108 (9%)

Query: 517 SLLSRCFHYSNSPSNRGSPMCLQLKNLSLS------RLGSFDKLLWVQMLDLSHNELR-- 568
            L S+  +   S  +        L++L LS       +  F     +  LDLS N L   
Sbjct: 56  DLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGP 115

Query: 569 --SIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
             ++  L +   L  LN+S+N L     +    +L SL  L++S N I
Sbjct: 116 VTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSI 163

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 41.5 bits (98), Expect = 5e-04
 Identities = 23/86 (26%), Positives = 44/86 (51%), Gaps = 15/86 (17%)

Query: 538 LQLKNLSLSRL--GSFDKLLWVQMLDLSHNELRSIE-----GLEALQLLSCLNLSNNILG 590
           L L++  LS L   +F +L  +++L L+ N+L+++       L+ L+    L +++N L 
Sbjct: 42  LDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLET---LWVTDNKL- 97

Query: 591 SFTALEP--IRQLKSLRALNISYNEI 614
              AL      QL +L  L +  N++
Sbjct: 98  --QALPIGVFDQLVNLAELRLDRNQL 121

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 42.0 bits (99), Expect = 5e-04
 Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 14/72 (19%)

Query: 557 VQMLDLSHNELRSIEGLEALQL-------LSCLNLSNNILGSFTA------LEPIRQLKS 603
           V  L+L  N L     LE L+L       L  + L  +I+ + +             ++ 
Sbjct: 227 VVSLNLCLNCLHG-PSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQK 285

Query: 604 LRALNISYNEIG 615
           +  ++ +  EI 
Sbjct: 286 IILVDKNGKEIH 297

>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 Length = 386

 Score = 42.0 bits (99), Expect = 6e-04
 Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 15/74 (20%)

Query: 557 VQMLDLSHNEL-----RSI-EGLEALQLLSCLNLSNNILGSFTALEP---------IRQL 601
           V+ + LS N +     R + E + + + L     S+   G      P         + + 
Sbjct: 34  VKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKC 93

Query: 602 KSLRALNISYNEIG 615
             L  + +S N  G
Sbjct: 94  PKLHTVRLSDNAFG 107

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	699
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	100.0
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	100.0
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	100.0
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	100.0
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	100.0
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.97
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	99.96
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.94
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.92
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.62
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.61
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.51
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.48
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.48
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.47
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.46
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.45
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.45
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.45
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.45
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.44
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.44
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.44
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.43
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.43
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.43
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.43
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.42
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.42
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.42
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.4
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.4
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.4
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.39
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.39
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.39
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.39
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.38
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.38
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.38
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.37
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.37
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.37
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.37
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.37
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.37
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.37
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.36
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.35
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.35
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.35
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.35
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.34
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.33
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.33
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.33
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.33
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.33
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.33
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.32
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.32
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.32
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.32
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.31
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.31
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.31
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.31
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.31
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.31
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.31
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.3
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.3
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.3
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.3
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.29
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.29
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.29
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.29
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.29
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.29
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.29
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.28
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.28
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.28
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.27
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.27
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.27
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.27
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.27
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.27
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.26
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.26
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.26
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.26
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.26
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.26
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.26
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.26
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.25
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.25
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.25
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.24
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.24
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.24
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.24
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.24
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.24
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.23
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.23
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.23
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.23
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.23
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.23
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.22
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.22
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.22
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.22
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.22
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.22
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.22
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.21
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.21
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.21
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.21
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.21
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.2
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.2
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.2
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.2
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.2
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.2
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.2
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.19
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.19
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.18
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.18
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.18
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.17
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.17
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.17
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.17
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.16
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.16
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.16
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.16
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.15
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.15
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.15
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.15
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.15
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.14
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.13
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.13
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.13
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.13
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.12
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.11
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.1
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.1
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.09
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.08
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.08
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.08
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.07
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.07
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.07
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.07
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.05
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.05
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.05
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.05
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.03
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	99.02
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.02
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.02
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.01
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.0
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.0
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.0
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.0
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.99
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.99
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.98
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.97
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.97
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.97
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.97
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.95
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.94
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.92
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.92
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.91
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.9
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.9
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.89
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.89
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.89
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.89
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.88
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.88
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.88
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.87
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.87
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.87
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.86
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.86
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.84
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.83
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.81
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.81
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.8
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.8
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.8
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.8
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.79
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.78
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	98.78
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.75
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.75
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	98.74
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.74
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.72
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.71
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.71
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.71
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.71
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.71
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.7
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.7
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.7
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.69
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.69
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.69
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.68
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.68
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.67
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.64
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.64
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.63
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.62
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.61
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.61
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.61
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.61
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.6
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.6
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.6
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.59
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.59
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.59
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.58
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.58
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.57
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.56
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.56
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.55
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.53
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.53
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.53
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.53
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.53
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.52
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.51
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.47
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.45
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.43
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.42
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.41
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.39
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.38
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.36
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.36
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.34
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.34
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.33
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.33
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.32
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.28
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.28
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.25
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.22
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.17
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.16
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.16
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.13
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.12
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.04
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.02
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.94
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.91
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	97.89
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.86
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.84
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.83
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.82
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.82
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.81
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.8
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.79
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	97.79
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.73
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.72
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.72
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	97.65
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.65
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.57
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.56
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.52
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.43
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.41
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.39
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.35
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	97.29
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.28
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.19
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.18
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.17
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.15
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.09
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.07
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.02
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.99
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.98
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	96.87
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	96.82
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	96.67
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	96.66
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	96.6
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	96.22
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	96.09
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	95.98
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.97
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.95
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.88
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.72
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.69
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.68
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.63
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	95.53
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	95.33
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	95.32
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	95.14
1klx_A	138	Cysteine rich protein B; structural genomics, heli	94.95
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	94.47
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	93.97
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	93.74
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	93.62
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	93.19
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	93.15
1klx_A	138	Cysteine rich protein B; structural genomics, heli	93.0
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	92.75
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	92.4
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	92.25
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	91.94
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	91.73
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	90.46
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	90.24
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	89.57
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	88.92
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	88.6
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	88.55
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	88.35
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	86.96
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	86.25
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.8
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.64

>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=100.00  E-value=1.8e-74  Score=662.85  Aligned_cols=554  Identities=30%  Similarity=0.478  Sum_probs=441.9

Q ss_pred             CCCCcCCCCC-hHHHHH---HHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccC
Q 005381            1 MHGRPRKPLK-PEDAAA---SAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEN   76 (699)
Q Consensus         1 mhg~~~~~~~-~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~   76 (699)
                      ||||+|+.++ +++++|   +.+|++.|++++++|++++..+++++|||++|+++|.+||++||||++||+++..+++  
T Consensus         1 mhg~~~~~~~~~~~~~~~~~~~~k~~~y~~~~~~~~~~~~~~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~--   78 (567)
T 1dce_A            1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLET--   78 (567)
T ss_dssp             CCSCBCSSCSTTSSCCSCCCCHHHHHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHT--
T ss_pred             CCCCCcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhccc--
Confidence            9999998444 444333   4788999999999999999999999999999999999999999999999999999975  


Q ss_pred             CCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCC
Q 005381           77 DSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH-SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus        77 ~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~-~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~  155 (699)
                      +.+++.....+++||++++++|+.+||+|+||+||+|++.++. ..+++|+++|++++++||+|||||+||+|++..++.
T Consensus        79 ~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~  158 (567)
T 1dce_A           79 EKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAV  158 (567)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCC
T ss_pred             ccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCC
Confidence            2334666778999999999999999999999999999999873 267999999999999999999999999999999995


Q ss_pred             ChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc--cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          156 SEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF--VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       156 ~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~--~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      ..++|++|++++|+.||+|+||||||+.++..+++....+.  ....+.+++|++++++||+++|+|+|+|+|+||++..
T Consensus       159 ~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~  238 (567)
T 1dce_A          159 APAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (567)
T ss_dssp             CHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             ChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhc
Confidence            55899999999999999999999999999999865422221  1234679999999999999999999999999999998


Q ss_pred             cCCCCCCcccccCCCCCCcceecCCccccCCCCCCCccccCCCCccceEEeecccccccc-ccceEEecccCCCccceee
Q 005381          234 TVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVN-SSTITVDSELNTNKDLVWK  312 (699)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~w~  312 (699)
                      ..+.+   .+.               |+           +......+++++|++||.... .+|+.+.+... ...+.|+
T Consensus       239 ~~~~~---~~~---------------~~-----------~~~~~~~~~~~~f~~~i~~~~~~~~~~~~~~~~-~~~~~W~  288 (567)
T 1dce_A          239 AEPHD---VLC---------------CV-----------HVSREEACLSVCFSRPLTVGSRMGTLLLMVDEA-PLSVEWR  288 (567)
T ss_dssp             CCCCS---CEE---------------EE-----------EEETTTTEEEEEEEEEECTTBTTBCEEEEESSS-EECCCCB
T ss_pred             CCCcc---cee---------------ee-----------eeccCCceEEEEeccceeccccccceEEeecCc-ccceeec
Confidence            75422   111               11           112346678999999998642 33467666543 6799999


Q ss_pred             eCCCCCCccceeEEEeccCCCCCCCCCCccceEEecCcccccccCCCCccCCCccceEEEEEeecccccccccccceeec
Q 005381          313 PLSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISW  392 (699)
Q Consensus       313 ~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  392 (699)
                      |+. .++++++||+++++.+...++ ..+|+|+|.+++.++.     ..                   |... .+..+.|
T Consensus       289 ~~~-~~~~~~~vw~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-----~~-------------------~~~~-~~~~~~~  341 (567)
T 1dce_A          289 TPD-GRNRPSHVWLCDLPAASLNDQ-LPQHTFRVIWTGSDSQ-----KE-------------------CVLL-KDRPECW  341 (567)
T ss_dssp             CTT-SSCCSEEEEEEECCGGGTSTT-SSEEEEEEEETTTTEE-----EE-------------------EEEE-TTCSEEE
T ss_pred             cCC-cccccceeEEeecCccccccc-cccceEEEeeccCCCC-----cc-------------------cccc-CCCchhh
Confidence            987 678899999999998664333 4567788877766532     11                   1111 2345556


Q ss_pred             cCCCccccccccCCCCCccccccccccccCccchhhhhHHHHHHHHHHHHhhhh-ccccccccccHHHHHhhcccCCCCC
Q 005381          393 RDESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLS-LINCKIGKLTLARLLMAHDAMMCPP  471 (699)
Q Consensus       393 ~~~~~~~~~~~~~~~~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~-~p~nk~~~Ltl~~ll~~~~~l~~~~  471 (699)
                      .+...        ...+|.   .|.+        +...++.||.+|..|.+|.+ .++++|.+.++..++..++.     
T Consensus       342 ~~d~~--------~~~~L~---~L~L--------s~n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~-----  397 (567)
T 1dce_A          342 CRDSA--------TDEQLF---RCEL--------SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDP-----  397 (567)
T ss_dssp             EECCS--------TTTTSS---SCCC--------CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCT-----
T ss_pred             hcccc--------cCccce---eccC--------ChhhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhccc-----
Confidence            32111        112333   4444        55688999999999999999 78999998888888877554     


Q ss_pred             CCcCCCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCC
Q 005381          472 ANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSF  551 (699)
Q Consensus       472 ~~~~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l  551 (699)
                         .+..++.++.+++|+.||+.+.+.+.+++.+++..+....+.   .     ..++       .|+|++|.|+.+|.+
T Consensus       398 ---~~~~~~~l~~l~~L~~L~~l~~n~~~~L~~l~l~~n~i~~l~---~-----~~L~-------~L~Ls~n~l~~lp~~  459 (567)
T 1dce_A          398 ---LLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKME---Y-----ADVR-------VLHLAHKDLTVLCHL  459 (567)
T ss_dssp             ---GGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHH---H-----TTCS-------EEECTTSCCSSCCCG
T ss_pred             ---ccCCHHHHHHHHhcccCcchhhcccchhhhhhhhcccccccC---c-----cCce-------EEEecCCCCCCCcCc
Confidence               478889999999999999655666778888777666332121   1     1122       399999999999999


Q ss_pred             CCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCC
Q 005381          552 DKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPL  630 (699)
Q Consensus       552 ~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~l  630 (699)
                      ..+++|+.|+|++|.|+.+|. +..|++|+.|+|++|.|+++  | .++.+++|+.|+|++|+|+.++.           
T Consensus       460 ~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~l--p-~l~~l~~L~~L~Ls~N~l~~~~~-----------  525 (567)
T 1dce_A          460 EQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV--D-GVANLPRLQELLLCNNRLQQSAA-----------  525 (567)
T ss_dssp             GGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCC--G-GGTTCSSCCEEECCSSCCCSSST-----------
T ss_pred             cccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCC--c-ccCCCCCCcEEECCCCCCCCCCC-----------
Confidence            999999999999999999998 99999999999999999987  3 78999999999999999998720           


Q ss_pred             cccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCcccccc
Q 005381          631 SHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       631 l~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD  694 (699)
                                               |..+..+ +|+.|+|++|+| ..+.....+...+|+|+.||
T Consensus       526 -------------------------p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          526 -------------------------IQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             -------------------------TGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             -------------------------cHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence                                     2345667 899999999999 44445556677799999986

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=100.00  E-value=7.7e-54  Score=456.92  Aligned_cols=316  Identities=36%  Similarity=0.604  Sum_probs=261.7

Q ss_pred             CCCCcCCCCChHHHH-H---HHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccC
Q 005381            1 MHGRPRKPLKPEDAA-A---SAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEN   76 (699)
Q Consensus         1 mhg~~~~~~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~   76 (699)
                      ||||+|+++|+|+++ +   +++|++.|+.+++++++++++|++|++||++|+++|.+||++|||||+||.++..++.  
T Consensus         2 mhg~~r~~~~~~~~~~~~~~~~~ki~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~--   79 (331)
T 3dss_A            2 MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLET--   79 (331)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHH--
T ss_pred             CCCCcCCCCcHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcc--
Confidence            999999855554333 3   4567888899999999999999999999999999999999999999999999999865  


Q ss_pred             CCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCC
Q 005381           77 DSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS-SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus        77 ~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~-~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~  155 (699)
                      ..+|+.....+++||.+++.+|..|||+|++|+||+|++.++.. .+++|+++|++++++||+|||||+||+|++..++.
T Consensus        80 ~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~  159 (331)
T 3dss_A           80 EKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAV  159 (331)
T ss_dssp             HSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             cccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCc
Confidence            12345566679999999999999999999999999999998753 58999999999999999999999999999999998


Q ss_pred             ChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc--CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          156 SEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE--GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       156 ~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~--~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      +.++|++|++++|+.||+|+||||||++++..+......  ......+++++|++++++||+++|+|+|+|+|+|||+..
T Consensus       160 ~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~  239 (331)
T 3dss_A          160 APAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGA  239 (331)
T ss_dssp             CHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            768999999999999999999999999999998543211  112234679999999999999999999999999999965


Q ss_pred             cCCCCCCcccccCCCCCCcceecCCccccCCCCCCCccccCCCCccceEEeeccccccccccceEEecccCCCccceeee
Q 005381          234 TVRVDSPQLVSSWPTPGSDLILLGDRCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVNSSTITVDSELNTNKDLVWKP  313 (699)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~  313 (699)
                      ...                                                                             
T Consensus       240 ~~~-----------------------------------------------------------------------------  242 (331)
T 3dss_A          240 GSG-----------------------------------------------------------------------------  242 (331)
T ss_dssp             SSC-----------------------------------------------------------------------------
T ss_pred             ccC-----------------------------------------------------------------------------
Confidence            200                                                                             


Q ss_pred             CCCCCCccceeEEEeccCCCCCCCCCCccceEEecCcccccccCCCCccCCCccceEEEEEeecccccccccccceeecc
Q 005381          314 LSSCNSKAAQVWVTQLNLPDGNTHSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWR  393 (699)
Q Consensus       314 ~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  393 (699)
                             .        .  .                    +                                       
T Consensus       243 -------~--------~--~--------------------~---------------------------------------  246 (331)
T 3dss_A          243 -------R--------C--E--------------------L---------------------------------------  246 (331)
T ss_dssp             -------G--------G--G--------------------C---------------------------------------
T ss_pred             -------c--------c--c--------------------c---------------------------------------
Confidence                   0        0  0                    0                                       


Q ss_pred             CCCccccccccCCCCCccccccccccccCccchhhhhHHHHHHHHHHHHhhhh-ccccccccccHHHHHhhcccCCCCCC
Q 005381          394 DESFHNYNAHSQDSSPISSLYQLSIKNDNELTDFEWRAATIAKEIDHFRELLS-LINCKIGKLTLARLLMAHDAMMCPPA  472 (699)
Q Consensus       394 ~~~~~~~~~~~~~~~~l~~~~~lsi~~~~~~~~~~~~~~~L~~el~~~~~L~~-~p~nk~~~Ltl~~ll~~~~~l~~~~~  472 (699)
                        +                               .-....|.+||..++++++ +|+|+|++++++.++..++.      
T Consensus       247 --~-------------------------------~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~------  287 (331)
T 3dss_A          247 --S-------------------------------VEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDP------  287 (331)
T ss_dssp             --C-------------------------------HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCT------
T ss_pred             --c-------------------------------hHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcc------
Confidence              0                               0045789999999999999 99999999999988888655      


Q ss_pred             CcCCCcHHHHHhcccccccCCCCCccccchhhhHHhhhhc
Q 005381          473 NKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVT  512 (699)
Q Consensus       473 ~~~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~  512 (699)
                        .+...++...+.+|+.|||.|.++|.|+.+.+.+++..
T Consensus       288 --~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~~~~~~~  325 (331)
T 3dss_A          288 --LLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSV  325 (331)
T ss_dssp             --TTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHH
T ss_pred             --cccHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHH
Confidence              46778899999999999999999999999999988844

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=100.00  E-value=4.3e-45  Score=391.15  Aligned_cols=230  Identities=24%  Similarity=0.364  Sum_probs=208.5

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHH
Q 005381           10 KPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDE   89 (699)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~e   89 (699)
                      +++.+..++++.++|+++++++++.+.+++++++||++|+++|.+||++||+||+||+++..++.           .+++
T Consensus        39 ~~~~~~~~i~y~~~y~~~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~-----------~l~e  107 (349)
T 3q7a_A           39 DGPNPVVPIMYSEEYKDAMDYFRAIAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNK-----------SLED  107 (349)
T ss_dssp             CCSSCSSCBCCCHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC-----------CHHH
T ss_pred             CCCCCeeeeeeCHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhh-----------hHHH
Confidence            44567789999999999999999999999999999999999999999999999999999999852           4899


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh-------HHHH
Q 005381           90 ELRVVESALRQNFKSYGAWHHRKWILSKGHS-SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE-------EDEL  161 (699)
Q Consensus        90 EL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~-~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~-------e~EL  161 (699)
                      ||++++.+|..|||+|++|+||+|++.++.+ .+++|+++|++++++||||||||+||+|++.+++.+.       ++|+
T Consensus       108 EL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eEL  187 (349)
T 3q7a_A          108 ELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSEL  187 (349)
T ss_dssp             HHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHH
Confidence            9999999999999999999999999998734 7899999999999999999999999999999999885       4899


Q ss_pred             HHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCCCCc
Q 005381          162 KYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQ  241 (699)
Q Consensus       162 ~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~~~~  241 (699)
                      ++++++|+.||+|+|||+||++++.++++.     ....+++++|++++++||+++|+|+|+|+|+|||+.+..+...|+
T Consensus       188 e~~~k~I~~dp~N~SAW~~R~~lL~~l~~~-----~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~  262 (349)
T 3q7a_A          188 DWCNEMLRVDGRNNSAWGWRWYLRVSRPGA-----ETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPI  262 (349)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHTTSTTC-----CCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGG
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhcccc-----ccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccc
Confidence            999999999999999999999999988541     123467899999999999999999999999999999988888899


Q ss_pred             ccccCCCCCCccee
Q 005381          242 LVSSWPTPGSDLIL  255 (699)
Q Consensus       242 ~~~~~~~~~~~~~~  255 (699)
                      +.++||++++.|.+
T Consensus       263 ~~~~~~~~~~~~~~  276 (349)
T 3q7a_A          263 LPAILPYTASKLNP  276 (349)
T ss_dssp             HHHHGGGTC-----
T ss_pred             cccccccccccccc
Confidence            99999999988644

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=100.00  E-value=4.7e-43  Score=371.24  Aligned_cols=211  Identities=23%  Similarity=0.407  Sum_probs=193.3

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHH
Q 005381           10 KPEDAAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDE   89 (699)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~e   89 (699)
                      +++.+..+++|.++|++++++|++.++.+++|++||++|+++|.+||++|||||+||.+|.+++.          ..+++
T Consensus        18 ~~~~~~~~i~y~~~y~~~~~~~~a~~~~~e~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~----------~~~~e   87 (306)
T 3dra_A           18 TEEPQICQILYDEDYKQIMGLLLALMKAEEYSERALHITELGINELASHYTIWIYRFNILKNLPN----------RNLYD   87 (306)
T ss_dssp             CSSCCTTCCCCCHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTT----------SCHHH
T ss_pred             CCCCCceeeeeCHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHccc----------ccHHH
Confidence            45567789999999999999999999999999999999999999999999999999999999861          24999


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHH----HhCC--CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh-HHHHH
Q 005381           90 ELRVVESALRQNFKSYGAWHHRKWIL----SKGH--SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE-EDELK  162 (699)
Q Consensus        90 EL~~~~~~L~~nPKsy~aW~hR~w~L----~~~~--~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~-e~EL~  162 (699)
                      ||++++.+|..|||+|++|+||+|++    ..+.  ..+++|+++|++++++||||||||+||+|++.+++.+. ++|++
T Consensus        88 eL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~  167 (306)
T 3dra_A           88 ELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELS  167 (306)
T ss_dssp             HHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             HHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHH
Confidence            99999999999999999999999999    5552  57899999999999999999999999999999999883 38999


Q ss_pred             HHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          163 YTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       163 ~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                      +++++|+.||+||||||||++++..+++.      ...+++++|++++++||+++|+|+|+|+|++|++....+
T Consensus       168 ~~~~~i~~d~~N~sAW~~R~~ll~~l~~~------~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          168 FVDKVIDTDLKNNSAWSHRFFLLFSKKHL------ATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHSSGGG------CCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhcccc------chhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCC
Confidence            99999999999999999999999988542      124568999999999999999999999999999988653

>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=100.00  E-value=1.6e-37  Score=356.31  Aligned_cols=423  Identities=18%  Similarity=0.269  Sum_probs=261.6

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      -+++|++++++|..+|++|.||+||++++..++.          ..+++|+++++++|+.+|+||+||+||+|++.++..
T Consensus        89 ~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~----------~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~  158 (567)
T 1dce_A           89 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPE----------PNWARELELCARFLEADERNFHCWDYRRFVAAQAAV  158 (567)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSS----------CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccc----------ccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCC
Confidence            3899999999999999999999999999999863          238999999999999999999999999999999854


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC-------------hHHHHHHHHHHHHhccCchHHHHHHHHHHHH
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS-------------EEDELKYTEDMICNNFSNYSAWHNRSLLLSN  187 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~-------------~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~  187 (699)
                      .+++|+++++++++.||+|+.||+||++++..+...             .++|+++++++|+.+|.|.|||+|+++++..
T Consensus       159 ~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~  238 (567)
T 1dce_A          159 APAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (567)
T ss_dssp             CHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             ChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhc
Confidence            899999999999999999999999999999987322             1789999999999999999999999999987


Q ss_pred             hhhhhcc-Cc-cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCCCCcccccCCCCCCcceecCCccccCCC
Q 005381          188 LLKRKVE-GF-VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSPQLVSSWPTPGSDLILLGDRCLDGCA  265 (699)
Q Consensus       188 l~~~~~~-~~-~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (699)
                      .++.... .+ .....  ..++.+|++|+..+|.....-+|-.         ..+ ....|.+..               
T Consensus       239 ~~~~~~~~~~~~~~~~--~~~~~~f~~~i~~~~~~~~~~~~~~---------~~~-~~~~W~~~~---------------  291 (567)
T 1dce_A          239 AEPHDVLCCVHVSREE--ACLSVCFSRPLTVGSRMGTLLLMVD---------EAP-LSVEWRTPD---------------  291 (567)
T ss_dssp             CCCCSCEEEEEEETTT--TEEEEEEEEEECTTBTTBCEEEEES---------SSE-ECCCCBCTT---------------
T ss_pred             CCCccceeeeeeccCC--ceEEEEeccceeccccccceEEeec---------Ccc-cceeeccCC---------------
Confidence            7541100 00 00000  0022334555555554431111100         001 123342111               


Q ss_pred             CCCCccccCCCCccceEEeeccccccccc-c---ceEEecccCC--CccceeeeCCCCCCccceeEEEeccCCCCCCCCC
Q 005381          266 SSPFTRFHLDSRTFPLVLYFNQAVEGVNS-S---TITVDSELNT--NKDLVWKPLSSCNSKAAQVWVTQLNLPDGNTHSS  339 (699)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~---~~~~~~~~~~--~~~~~w~~~~~~~~~~~~~w~~~~~~~~~~~~~~  339 (699)
                              .+...-++|+ ++.+...+.. .   +|.+......  ..-+.|.       +....|..++.... ...  
T Consensus       292 --------~~~~~~~vw~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~d~~~~~-~L~--  352 (567)
T 1dce_A          292 --------GRNRPSHVWL-CDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLK-------DRPECWCRDSATDE-QLF--  352 (567)
T ss_dssp             --------SSCCSEEEEE-EECCGGGTSTTSSEEEEEEEETTTTEEEEEEEET-------TCSEEEEECCSTTT-TSS--
T ss_pred             --------cccccceeEE-eecCccccccccccceEEEeeccCCCCccccccC-------CCchhhhcccccCc-cce--
Confidence                    0111112332 3333222110 0   1111111100  0000111       12234443332200 000  


Q ss_pred             CccceEEecCcccccccCCCCccCCCccceEEEEEeecccccccccccceeeccCCCccccccccCCCCCcccccccccc
Q 005381          340 KVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVETQPVEALGKEIISWRDESFHNYNAHSQDSSPISSLYQLSIK  419 (699)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~lsi~  419 (699)
                                                     .+.+....           .       .   ....+++.+..|..|.+ 
T Consensus       353 -------------------------------~L~Ls~n~-----------L-------~---~Lp~~i~~l~~L~~L~l-  379 (567)
T 1dce_A          353 -------------------------------RCELSVEK-----------S-------T---VLQSELESCKELQELEP-  379 (567)
T ss_dssp             -------------------------------SCCCCHHH-----------H-------H---HHHHHHHHHHHHHHHCT-
T ss_pred             -------------------------------eccCChhh-----------H-------H---hhHHHHHHHHHHHHhcc-
Confidence                                           00000000           0       0   00112233444444433 


Q ss_pred             ccCccchhhhhHH-------------HHHHHHHHHHhhhh---ccccccccccHHHHHhhcccCCCCCCCcCCCcHHHHH
Q 005381          420 NDNELTDFEWRAA-------------TIAKEIDHFRELLS---LINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLE  483 (699)
Q Consensus       420 ~~~~~~~~~~~~~-------------~L~~el~~~~~L~~---~p~nk~~~Ltl~~ll~~~~~l~~~~~~~~~~~~~~l~  483 (699)
                            +++|.+.             .+|..+..+.+|..   ...+.+..+..  +....+.           +.. + 
T Consensus       380 ------~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~~L~~--l~l~~n~-----------i~~-l-  438 (567)
T 1dce_A          380 ------ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRS--KFLLENS-----------VLK-M-  438 (567)
T ss_dssp             ------TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHH--HHHHHHH-----------HHH-H-
T ss_pred             ------ccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccchhhh--hhhhccc-----------ccc-c-
Confidence                  3555333             34445555555543   11122211111  1111001           000 1 


Q ss_pred             hcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCCCcccCEEEc
Q 005381          484 LYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDKLLWVQMLDL  562 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~L~~L~~LdL  562 (699)
                      ....|+.||+++|.+.                 .++. +..+.+++.       |+|++|.|+.+| .+..+++|+.|+|
T Consensus       439 ~~~~L~~L~Ls~n~l~-----------------~lp~-~~~l~~L~~-------L~Ls~N~l~~lp~~~~~l~~L~~L~L  493 (567)
T 1dce_A          439 EYADVRVLHLAHKDLT-----------------VLCH-LEQLLLVTH-------LDLSHNRLRALPPALAALRCLEVLQA  493 (567)
T ss_dssp             HHTTCSEEECTTSCCS-----------------SCCC-GGGGTTCCE-------EECCSSCCCCCCGGGGGCTTCCEEEC
T ss_pred             CccCceEEEecCCCCC-----------------CCcC-ccccccCcE-------eecCcccccccchhhhcCCCCCEEEC
Confidence            1125888999998721                 1121 333444444       999999999997 8999999999999


Q ss_pred             cCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          563 SHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       563 S~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      ++|.|+.+|.+..+++|+.|+|++|+|+++..|..++.+++|+.|+|++|+|+.+|
T Consensus       494 s~N~l~~lp~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~  549 (567)
T 1dce_A          494 SDNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEE  549 (567)
T ss_dssp             CSSCCCCCGGGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSS
T ss_pred             CCCCCCCCcccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCc
Confidence            99999999889999999999999999998743688999999999999999999886

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.97  E-value=6.7e-30  Score=270.40  Aligned_cols=187  Identities=22%  Similarity=0.356  Sum_probs=157.5

Q ss_pred             CcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 005381           40 YSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH  119 (699)
Q Consensus        40 ~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~  119 (699)
                      .-+++|++++++|.+||++|++|+|||+++.++......     ...+++||.+++++|..+||||+||+||+|++.++ 
T Consensus        84 ~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~-----~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l-  157 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNN-----DFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTF-  157 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTT-----CCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-
T ss_pred             cHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccc-----cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh-
Confidence            448999999999999999999999999999554321000     12479999999999999999999999999999988 


Q ss_pred             CChH--HHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC-----hHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          120 SSID--NELRLLDKFQKADSRNFHAWNYRRFVAASMNRS-----EEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       120 ~~~~--~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~-----~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                      +.++  +|+++|+++++.||+|||||+||+|++..++..     .++|+++++++|+.+|+|+|||+||++++..+++..
T Consensus       158 ~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~  237 (306)
T 3dra_A          158 DLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSI  237 (306)
T ss_dssp             TCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCG
T ss_pred             cccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCCh
Confidence            4777  999999999999999999999999999999861     378999999999999999999999999999876521


Q ss_pred             cc------Ccc--------------------chhchHHHHHHHHHHHHH-hCCCCchhHHHHHHHHc
Q 005381          193 VE------GFV--------------------SKEKVLPDEYEFVHQAIF-TDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       193 ~~------~~~--------------------~~~~~~~eeL~~~~~ai~-~dP~d~SaW~Y~~~Ll~  232 (699)
                      ..      .+.                    ...+.+++++++++.++. .||-+...|.|+.-.|.
T Consensus       238 ~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpir~~yW~~~~~~l~  304 (306)
T 3dra_A          238 TQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPIRSNFWDYQISKLT  304 (306)
T ss_dssp             GGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChHHHHHHHHHHhhcc
Confidence            10      000                    012345789999999997 79999999999887654

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=99.96  E-value=1.5e-28  Score=261.79  Aligned_cols=176  Identities=20%  Similarity=0.367  Sum_probs=154.9

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      +++|.+++.+|..||++|++|+||++++..++.          ..+++||.+++++|..+|+||+||+||+|++......
T Consensus        91 ~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~----------~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~  160 (331)
T 3dss_A           91 KAELGFLESCLRVNPKSYGTWHHRCWLLSRLPE----------PNWARELELCARFLEADERNFHCWDYRRFVAAQAAVA  160 (331)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSS----------CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCc----------ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcC
Confidence            689999999999999999999999999998863          2489999999999999999999999999999988533


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcC--------------CChHHHHHHHHHHHHhccCchHHHHHHHHHHHH
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMN--------------RSEEDELKYTEDMICNNFSNYSAWHNRSLLLSN  187 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~--------------~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~  187 (699)
                      +++|+++++++++.||+|++||+||++++..+.              .+ ++|+++++++|..+|.|.|||+|+++++..
T Consensus       161 ~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~-~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~  239 (331)
T 3dss_A          161 PAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVL-LKELELVQNAFFTDPNDQSAWFYHRWLLGA  239 (331)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC------CCCHHHH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccccccccccchHHH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            799999999999999999999999999999983              23 689999999999999999999999999887


Q ss_pred             hhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          188 LLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       188 l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      .......+ ..+.+++++|++++++++..+|++  .|.+...++
T Consensus       240 ~~~~~~~~-~~~~~~l~~el~~~~elle~~pd~--~w~l~~~~~  280 (331)
T 3dss_A          240 GSGRCELS-VEKSTVLQSELESCKELQELEPEN--KWCLLTIIL  280 (331)
T ss_dssp             SSCGGGCC-HHHHHHHHHHHHHHHHHHHHCTTC--HHHHHHHHH
T ss_pred             ccCccccc-hHHHHHHHHHHHHHHHHHhhCccc--chHHHHHHH
Confidence            63211111 345578999999999999999987  899887755

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.94  E-value=1.1e-26  Score=248.59  Aligned_cols=167  Identities=19%  Similarity=0.359  Sum_probs=150.2

Q ss_pred             HHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           52 LETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDK  131 (699)
Q Consensus        52 L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k  131 (699)
                      |...|++..+|.+++.++.....            -+++|++++.+|..||++|++|++|+++|..+...+++||+++++
T Consensus        47 i~y~~~y~~~~~~~r~~~~~~e~------------se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~  114 (349)
T 3q7a_A           47 IMYSEEYKDAMDYFRAIAAKEEK------------SERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNE  114 (349)
T ss_dssp             BCCCHHHHHHHHHHHHHHHTTCC------------SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             eeeCHHHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            45678889999999999988754            468999999999999999999999999999885469999999999


Q ss_pred             HHHhCCCChhhhhHHHHHHHhc-C-CChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHH
Q 005381          132 FQKADSRNFHAWNYRRFVAASM-N-RSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEF  209 (699)
Q Consensus       132 ~L~~dprN~haW~yR~~vl~~l-~-~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~  209 (699)
                      +|..+|+||++|+||+|++..+ + .+ ++|+++++++++.||+||+||+||++++..++....    ...+++.+|+++
T Consensus       115 ~L~~nPKny~aW~hR~wlL~~l~~~~~-~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~----~~~~~~~eELe~  189 (349)
T 3q7a_A          115 FAVQNLKSYQVWHHRLLLLDRISPQDP-VSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGR----ISEAQWGSELDW  189 (349)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHHCCSCC-HHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTC----CCHHHHHHHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHHhcCCCh-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccc----cchhhHHHHHHH
Confidence            9999999999999999999998 7 55 799999999999999999999999999999976321    123567899999


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          210 VHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       210 ~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      ++++|..||.|.|||+|++|++....
T Consensus       190 ~~k~I~~dp~N~SAW~~R~~lL~~l~  215 (349)
T 3q7a_A          190 CNEMLRVDGRNNSAWGWRWYLRVSRP  215 (349)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHTTST
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHhcc
Confidence            99999999999999999999998754

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.92  E-value=3.5e-24  Score=234.03  Aligned_cols=193  Identities=25%  Similarity=0.488  Sum_probs=169.8

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC
Q 005381           23 KLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF  102 (699)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP  102 (699)
                      .+......+...+...+..++|+++++++|.++|+++++|++|+.++..+++           .+++++.+++++|..+|
T Consensus        95 ~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~-----------d~~eAl~~~~~al~l~P  163 (382)
T 2h6f_A           95 KFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQK-----------DLHEEMNYITAIIEEQP  163 (382)
T ss_dssp             HHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC-----------CHHHHHHHHHHHHHHCT
T ss_pred             hhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHccc-----------CHHHHHHHHHHHHHHCC
Confidence            3444444444444444555999999999999999999999999999998852           38999999999999999


Q ss_pred             CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHH
Q 005381          103 KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRS  182 (699)
Q Consensus       103 Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~  182 (699)
                      +++.+|+||++++... +.+++|+++|++++++||+|++||.+|++++..+|.+ ++++++++++|+.+|+|.+||++|+
T Consensus       164 ~~~~a~~~~g~~~~~~-g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~-~eAl~~~~~al~l~P~~~~a~~~lg  241 (382)
T 2h6f_A          164 KNYQVWHHRRVLVEWL-RDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLW-DNELQYVDQLLKEDVRNNSVWNQRY  241 (382)
T ss_dssp             TCHHHHHHHHHHHHHH-TCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-TTHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCCh-HHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            9999999999999988 6999999999999999999999999999999999999 6899999999999999999999999


Q ss_pred             HHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          183 LLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       183 ~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      .++..+...      ..+.++++|++++++||.++|++.++|+|+++++...
T Consensus       242 ~~l~~l~~~------~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~  287 (382)
T 2h6f_A          242 FVISNTTGY------NDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDR  287 (382)
T ss_dssp             HHHHHTTCS------CSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTT
T ss_pred             HHHHHhcCc------chHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHcc
Confidence            999885331      1234467889999999999999999999999999763

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.80  E-value=8.7e-19  Score=191.26  Aligned_cols=176  Identities=25%  Similarity=0.391  Sum_probs=154.6

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....|.-.++|+..++++|.++|+++.+|++|+.++..+++            +++|+.+++++|..+|+++.+|++|+|
T Consensus       141 l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~------------~~eAl~~~~kal~ldP~~~~a~~~lg~  208 (382)
T 2h6f_A          141 LKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRD------------PSQELEFIADILNQDAKNYHAWQHRQW  208 (382)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------CTTHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccC------------HHHHHHHHHHHHHhCccCHHHHHHHHH
Confidence            34456523899999999999999999999999999999876            789999999999999999999999999


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc-CCChHH----HHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASM-NRSEED----ELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l-~~~~e~----EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      ++... +.+++|+++++++++++|+|..||++|++++..+ +...+.    |+++++++|+.+|.|.++|++++.++...
T Consensus       209 ~~~~~-g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~  287 (382)
T 2h6f_A          209 VIQEF-KLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDR  287 (382)
T ss_dssp             HHHHH-TCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTT
T ss_pred             HHHHc-CChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHcc
Confidence            99988 5899999999999999999999999999999995 443332    37999999999999999999999998875


Q ss_pred             hhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          189 LKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       189 ~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      +.          ..++++++.+.++ ..+|++..++..+.+++..
T Consensus       288 g~----------~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~  321 (382)
T 2h6f_A          288 GL----------SKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYED  321 (382)
T ss_dssp             CG----------GGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHH
T ss_pred             Cc----------cchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHH
Confidence            32          1257888998887 9999999999888887755

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.62  E-value=2.4e-14  Score=142.73  Aligned_cols=184  Identities=11%  Similarity=0.031  Sum_probs=162.5

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHH
Q 005381           30 QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWH  109 (699)
Q Consensus        30 ~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~  109 (699)
                      ........|.+ ++|+..+.++|..+|++..+|..++.++...++            +++++..+++++..+|++..+|.
T Consensus        11 lg~~~~~~g~~-~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~al~~~P~~~~a~~   77 (217)
T 2pl2_A           11 LGVQLYALGRY-DAALTLFERALKENPQDPEALYWLARTQLKLGL------------VNPALENGKTLVARTPRYLGGYM   77 (217)
T ss_dssp             HHHHHHHTTCH-HHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCcHHHHH
Confidence            33445567777 899999999999999999999999999998875            89999999999999999999999


Q ss_pred             HHHHHHHhCC----------CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHH
Q 005381          110 HRKWILSKGH----------SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWH  179 (699)
Q Consensus       110 hR~w~L~~~~----------~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~  179 (699)
                      .++.++....          +.+++++..++++++++|.+..+|..++.++...|.+ ++.+++++++++.+ .+..+|.
T Consensus        78 ~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~-~~~~~~~  155 (217)
T 2pl2_A           78 VLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGER-DKAEASLKQALALE-DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHC-CCHHHHH
T ss_pred             HHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhcc-cchHHHH
Confidence            9999998650          3789999999999999999999999999999999998 68999999999999 9999999


Q ss_pred             HHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCCCC
Q 005381          180 NRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVDSP  240 (699)
Q Consensus       180 ~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~~~  240 (699)
                      .++.++..+++            ++++++.+.+++..+|++..+|+.+..++....+.+.+
T Consensus       156 ~la~~~~~~g~------------~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A  204 (217)
T 2pl2_A          156 ALAELYLSMGR------------LDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEA  204 (217)
T ss_dssp             HHHHHHHHHTC------------HHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC-------
T ss_pred             HHHHHHHHcCC------------HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHH
Confidence            99999988865            79999999999999999999999999998776655544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.61  E-value=2.9e-14  Score=136.82  Aligned_cols=164  Identities=10%  Similarity=0.012  Sum_probs=152.2

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      ....+..|++ ++|++.+.++|+++|++..+|..++.++...+.            +++++..+..++..+|++..+|..
T Consensus        12 G~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~------------~~~a~~~~~~~~~~~~~~~~~~~~   78 (184)
T 3vtx_A           12 GDKKRTKGDF-DGAIRAYKKVLKADPNNVETLLKLGKTYMDIGL------------PNDAIESLKKFVVLDTTSAEAYYI   78 (184)
T ss_dssp             HHHHHHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCCCCHHHHHH
T ss_pred             HHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHhcCchhHHHHHH
Confidence            3445567888 899999999999999999999999999998865            899999999999999999999999


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      .+.+.... ..++.+++.+.++++++|.+..+|..++.+...+|.+ ++++++++++++.+|.+..+|++++.++..+++
T Consensus        79 ~~~~~~~~-~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~-~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~  156 (184)
T 3vtx_A           79 LGSANFMI-DEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEH-DKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGL  156 (184)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHc-CCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCc-hhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCC
Confidence            99999877 5899999999999999999999999999999999998 789999999999999999999999999988755


Q ss_pred             hhccCccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          191 RKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       191 ~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                                  ++++++++++|+..+|++.
T Consensus       157 ------------~~~A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          157 ------------RDEAVKYFKKALEKEEKKA  175 (184)
T ss_dssp             ------------HHHHHHHHHHHHHTTHHHH
T ss_pred             ------------HHHHHHHHHHHHhCCccCH
Confidence                        8999999999999999863

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.51  E-value=1.6e-12  Score=129.14  Aligned_cols=190  Identities=9%  Similarity=-0.019  Sum_probs=163.0

Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH
Q 005381           28 QSQFLHNHHNHIYSKEAVELSTKLLETNP-ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG  106 (699)
Q Consensus        28 ~~~~~~~~~~~~~~~eaL~~~~~~L~~nP-~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~  106 (699)
                      ..........|.+ ++|+..+.+++.++| .+..+|..++.+...+++            +++++..+++++..+|++..
T Consensus        11 ~~~g~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~al~~~p~~~~   77 (228)
T 4i17_A           11 KNEGNDALNAKNY-AVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKK------------YKEAADYFDIAIKKNYNLAN   77 (228)
T ss_dssp             HHHHHHHHHTTCH-HHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHTTCSHHH
T ss_pred             HHHHHHHHHccCH-HHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhc------------HHHHHHHHHHHHHhCcchHH
Confidence            3444455667888 899999999999999 999999999999998865            99999999999999999999


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh-------hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC--chHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF-------HAWNYRRFVAASMNRSEEDELKYTEDMICNNFS--NYSA  177 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~-------haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s--N~SA  177 (699)
                      +|..++.++... +.++++++.++++++++|.|.       .+|..++.+....+.+ +++++++.++++.+|.  +..+
T Consensus        78 ~~~~l~~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~  155 (228)
T 4i17_A           78 AYIGKSAAYRDM-KNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNI-EKAEENYKHATDVTSKKWKTDA  155 (228)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHTTSSCHHHHHHH
T ss_pred             HHHHHHHHHHHc-ccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccH-HHHHHHHHHHHhcCCCcccHHH
Confidence            999999999988 699999999999999999999       6799999999999998 7899999999999999  8899


Q ss_pred             HHHHHHHHHHhhhhh--c-------------cCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          178 WHNRSLLLSNLLKRK--V-------------EGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       178 W~~R~~ll~~l~~~~--~-------------~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                      |..++.+....+...  .             .......+.++++++++.+|+..+|++..+...+..+..
T Consensus       156 ~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          156 LYSLGVLFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            999999988776530  0             000112344689999999999999999999887766553

>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=99.48  E-value=1.1e-13  Score=143.98  Aligned_cols=141  Identities=20%  Similarity=0.231  Sum_probs=74.0

Q ss_pred             EEccCCC-CCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLS-LSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~-l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |++++|. ++.++  .+..+++|++|++++|.++.+++  +..+++|+.|++++|.++.++ +..+..+++|+.|+|++|
T Consensus        85 L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~n  163 (285)
T 1ozn_A           85 LDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP-DDTFRDLGNLTHLFLHGN  163 (285)
T ss_dssp             EECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSS
T ss_pred             EeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccC-HhHhccCCCccEEECCCC
Confidence            6666665 55542  55666666666666666655543  666666666666666666552 234556666666666666


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccc
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLK  691 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~  691 (699)
                      .|+.++..   .+..++.+..+++++|.+....          |..|..+ +|+.|+|++|.|.  ......+..+++|+
T Consensus       164 ~l~~~~~~---~~~~l~~L~~L~l~~n~l~~~~----------~~~~~~l~~L~~L~l~~n~l~--~~~~~~~~~l~~L~  228 (285)
T 1ozn_A          164 RISSVPER---AFRGLHSLDRLLLHQNRVAHVH----------PHAFRDLGRLMTLYLFANNLS--ALPTEALAPLRALQ  228 (285)
T ss_dssp             CCCEECTT---TTTTCTTCCEEECCSSCCCEEC----------TTTTTTCTTCCEEECCSSCCS--CCCHHHHTTCTTCC
T ss_pred             cccccCHH---HhcCccccCEEECCCCcccccC----------HhHccCcccccEeeCCCCcCC--cCCHHHcccCcccC
Confidence            66655421   1222233333445555443321          3345555 5666666666552  11122334455555


Q ss_pred             ccc
Q 005381          692 WLD  694 (699)
Q Consensus       692 ~LD  694 (699)
                      .||
T Consensus       229 ~L~  231 (285)
T 1ozn_A          229 YLR  231 (285)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            443

>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=99.48  E-value=6e-14  Score=147.02  Aligned_cols=173  Identities=21%  Similarity=0.222  Sum_probs=130.1

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      ++.+++|++||+++|.+.                 .+.. +..+.+++.       |++++|.++.++.+..+++|+.|+
T Consensus        64 ~~~l~~L~~L~L~~n~l~-----------------~~~~-l~~l~~L~~-------L~l~~n~l~~~~~l~~l~~L~~L~  118 (291)
T 1h6t_A           64 IQYLPNVTKLFLNGNKLT-----------------DIKP-LANLKNLGW-------LFLDENKVKDLSSLKDLKKLKSLS  118 (291)
T ss_dssp             GGGCTTCCEEECCSSCCC-----------------CCGG-GTTCTTCCE-------EECCSSCCCCGGGGTTCTTCCEEE
T ss_pred             HhcCCCCCEEEccCCccC-----------------CCcc-cccCCCCCE-------EECCCCcCCCChhhccCCCCCEEE
Confidence            677888999999888721                 1111 223333333       999999999998999999999999


Q ss_pred             ccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCcc
Q 005381          562 LSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHG  641 (699)
Q Consensus       562 LS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l  641 (699)
                      |++|.++.++.+..+++|+.|++++|.|+++   ..+..+++|+.|+|++|+|+.++.     +..++-+..+++++|.+
T Consensus       119 L~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~---~~l~~l~~L~~L~L~~N~l~~~~~-----l~~l~~L~~L~L~~N~i  190 (291)
T 1h6t_A          119 LEHNGISDINGLVHLPQLESLYLGNNKITDI---TVLSRLTKLDTLSLEDNQISDIVP-----LAGLTKLQNLYLSKNHI  190 (291)
T ss_dssp             CTTSCCCCCGGGGGCTTCCEEECCSSCCCCC---GGGGGCTTCSEEECCSSCCCCCGG-----GTTCTTCCEEECCSSCC
T ss_pred             CCCCcCCCChhhcCCCCCCEEEccCCcCCcc---hhhccCCCCCEEEccCCccccchh-----hcCCCccCEEECCCCcC
Confidence            9999999987799999999999999999887   668889999999999999998752     45555555567788877


Q ss_pred             ceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccccccCccCC
Q 005381          642 QTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLDGEQLH  699 (699)
Q Consensus       642 ~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD~~~i~  699 (699)
                      ..+            ..+..+ +|+.|+|++|++ ..+......+..++.++.+||.+++
T Consensus       191 ~~l------------~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~~~~l~~l~~~~i~  238 (291)
T 1h6t_A          191 SDL------------RALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVT  238 (291)
T ss_dssp             CBC------------GGGTTCTTCSEEEEEEEEEECCCEECCSEEEEECCCBCTTSCBCC
T ss_pred             CCC------------hhhccCCCCCEEECcCCcccCCccccccccEEcceEECCCCCCcC
Confidence            432            247888 999999999998 3222211122335677888887663

>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=99.47  E-value=5.3e-14  Score=145.60  Aligned_cols=171  Identities=22%  Similarity=0.233  Sum_probs=107.1

Q ss_pred             HHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhh-hhccCCCCCCCCCCCCeEEccCCCCCccc--CCCCCcc
Q 005381          480 EVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLS-RCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKLLW  556 (699)
Q Consensus       480 ~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~-~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L~~  556 (699)
                      ..+..+.+|++||+++|...                 .+.. .+..+.+++.       |++++|.++.++  .+..+++
T Consensus        46 ~~~~~l~~L~~L~l~~n~l~-----------------~~~~~~~~~l~~L~~-------L~L~~n~l~~~~~~~~~~l~~  101 (276)
T 2z62_A           46 YSFFSFPELQVLDLSRCEIQ-----------------TIEDGAYQSLSHLST-------LILTGNPIQSLALGAFSGLSS  101 (276)
T ss_dssp             TTTTTCTTCSEEECTTCCCC-----------------EECTTTTTTCTTCCE-------EECTTCCCCEECTTTTTTCTT
T ss_pred             hHhccccCCcEEECCCCcCC-----------------ccCHHHccCCcCCCE-------EECCCCccCccChhhhcCCcc
Confidence            34567788888888887621                 1111 1222233333       888888888665  6778888


Q ss_pred             cCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcc-c
Q 005381          557 VQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH-S  633 (699)
Q Consensus       557 L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~-l  633 (699)
                      |+.|++++|.++.++.  +..+++|+.|++++|.++.+..|..+..+++|+.|+|++|+|+.++...+..+..+..+. .
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~  181 (276)
T 2z62_A          102 LQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS  181 (276)
T ss_dssp             CCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEE
T ss_pred             ccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhcccccee
Confidence            8888888888877766  778888888888888887754466778888888888888888877644444444443332 2


Q ss_pred             ccCCCCccceeec-----------C-Ccchhhhhh-ccCCCC-CccEEEecCCCC
Q 005381          634 VGSEWNHGQTVID-----------D-DIKSYWEAY-FILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       634 l~l~~N~l~~~~~-----------~-~~~~~~~~p-~~l~~L-~L~~LdLs~N~l  674 (699)
                      +++++|.+..+..           + .++.+..+| ..|..+ +|+.|+|++|++
T Consensus       182 L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~  236 (276)
T 2z62_A          182 LDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPW  236 (276)
T ss_dssp             EECCSSCCCEECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCB
T ss_pred             eecCCCcccccCccccCCCcccEEECCCCceeecCHhHhcccccccEEEccCCcc
Confidence            3555555443221           1 112222222 235666 777777777777

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.46  E-value=7.1e-13  Score=155.73  Aligned_cols=161  Identities=16%  Similarity=0.059  Sum_probs=143.9

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      ....+..|.+ ++|++++.++|+++|++..+|+..+.++..+++            +++++..++++|+.+|++..+|+.
T Consensus        16 G~~~~~~G~~-~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~------------~~eA~~~~~~Al~l~P~~~~a~~n   82 (723)
T 4gyw_A           16 ANIKREQGNI-EEAVRLYRKALEVFPEFAAAHSNLASVLQQQGK------------LQEALMHYKEAIRISPTFADAYSN   82 (723)
T ss_dssp             HHHHHHTTCH-HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHH
Confidence            3444567777 899999999999999999999999999999876            999999999999999999999999


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      ++.++... +++++++++++++++++|.+..+|..++.++...|.+ ++++++++++++.+|.+..+|.+++.++..+++
T Consensus        83 Lg~~l~~~-g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~-~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           83 MGNTLKEM-QDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNI-PEAIASYRTALKLKPDFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCChHHHhhhhhHHHhccc
Confidence            99999988 6999999999999999999999999999999999998 789999999999999999999999999988855


Q ss_pred             hhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          191 RKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       191 ~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                                  ++++++.+.+++.+.|
T Consensus       161 ------------~~~A~~~~~kal~l~~  176 (723)
T 4gyw_A          161 ------------WTDYDERMKKLVSIVA  176 (723)
T ss_dssp             ------------CTTHHHHHHHHHHHHH
T ss_pred             ------------HHHHHHHHHHHHHhCh
Confidence                        3455555555554443

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.45  E-value=2.3e-13  Score=140.80  Aligned_cols=123  Identities=26%  Similarity=0.280  Sum_probs=92.4

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |++++|.++.++  .+..+++|++|+|++|.++.+++  |..+++|+.|++++|.|++++ +..+..+++|+.|++++|+
T Consensus        90 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~l~~n~  168 (272)
T 3rfs_A           90 LILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLP-KGVFDKLTNLTELDLSYNQ  168 (272)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCccCccC-HHHhccCccCCEEECCCCC
Confidence            888888888776  47888888899998888887776  788888888899888888763 3456788888889998888


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.++...   +..++-+..+++++|.+..+.          +..+..+ +|+.|+|++|++
T Consensus       169 l~~~~~~~---~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~~  217 (272)
T 3rfs_A          169 LQSLPEGV---FDKLTQLKDLRLYQNQLKSVP----------DGVFDRLTSLQYIWLHDNPW  217 (272)
T ss_dssp             CCCCCTTT---TTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSSCB
T ss_pred             cCccCHHH---hcCCccCCEEECCCCcCCccC----------HHHHhCCcCCCEEEccCCCc
Confidence            88875322   333344444566777664322          3457778 899999999988

>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=99.45  E-value=1.7e-13  Score=138.40  Aligned_cols=147  Identities=19%  Similarity=0.222  Sum_probs=112.4

Q ss_pred             eEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      .|+|++|.++.+.  .|..+++|+.|+|++|.|+.++.  |..+++|+.|+|++|+|+.++ +..+..+++|+.|+|++|
T Consensus        44 ~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~-~~~~~~l~~L~~L~Ls~N  122 (229)
T 3e6j_A           44 ILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLP-SAVFDRLVHLKELFMCCN  122 (229)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSS
T ss_pred             EEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccC-hhHhCcchhhCeEeccCC
Confidence            3999999999774  68889999999999999988886  789999999999999998873 355788999999999999


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC-----CccchHHHhhc
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV-----NEKFKSFLIKV  686 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~-----~~~~~~~~~~~  686 (699)
                      +|+.+|.    .+..++-+..+++++|.+..+.          +..|..+ +|+.|+|++|++.     ...+..++...
T Consensus       123 ~l~~lp~----~~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~~~c~c~~~~~l~~~~~~~  188 (229)
T 3e6j_A          123 KLTELPR----GIERLTHLTHLALDQNQLKSIP----------HGAFDRLSSLTHAYLFGNPWDCECRDIMYLRNWVADH  188 (229)
T ss_dssp             CCCSCCT----TGGGCTTCSEEECCSSCCCCCC----------TTTTTTCTTCCEEECTTSCBCTTBGGGHHHHHHHHHC
T ss_pred             cccccCc----ccccCCCCCEEECCCCcCCccC----------HHHHhCCCCCCEEEeeCCCccCCcchhHHHHHHHHhC
Confidence            9998863    2233444455577777775432          2467888 9999999999992     12244556666


Q ss_pred             CCccccccCccC
Q 005381          687 LPGLKWLDGEQL  698 (699)
Q Consensus       687 l~~L~~LD~~~i  698 (699)
                      .+.+..+||.+|
T Consensus       189 ~~~~~~~~g~~v  200 (229)
T 3e6j_A          189 TSIAMRWDGKAV  200 (229)
T ss_dssp             GGGEEEESSSEE
T ss_pred             ccccccccCccc
Confidence            677778888654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.45  E-value=5.6e-13  Score=155.99  Aligned_cols=171  Identities=8%  Similarity=-0.136  Sum_probs=158.3

Q ss_pred             hcCCCCcHHHHHHHHHHH--------HhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH
Q 005381           35 HHNHIYSKEAVELSTKLL--------ETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG  106 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L--------~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~  106 (699)
                      ...+++ ++|++.+++++        ..+|++..+|..++.++...++            +++++..++++++.+|++..
T Consensus       402 ~~~~~~-~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~------------~~~A~~~~~~al~~~p~~~~  468 (681)
T 2pzi_A          402 TVLSQP-VQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGD------------VAKATRKLDDLAERVGWRWR  468 (681)
T ss_dssp             TTTCCH-HHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHCCCHH
T ss_pred             ccccCH-HHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCC------------HHHHHHHHHHHhccCcchHH
Confidence            556666 89999999999        9999999999999999998875            99999999999999999999


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +|++++.++... +.++++++.++++++++|.+..+|..++.++..+|.+. + +++++++++.+|.+..+|++++.++.
T Consensus       469 a~~~lg~~~~~~-g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~-~-~~~~~~al~~~P~~~~a~~~lg~~~~  545 (681)
T 2pzi_A          469 LVWYRAVAELLT-GDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTD-E-HKFYQTVWSTNDGVISAAFGLARARS  545 (681)
T ss_dssp             HHHHHHHHHHHH-TCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCC-T-TCHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChH-H-HHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            999999999987 69999999999999999999999999999999999994 5 99999999999999999999999998


Q ss_pred             HhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          187 NLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       187 ~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      .+++            ++++++.+++|+.++|++..+|+.+..++-.
T Consensus       546 ~~g~------------~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          546 AEGD------------RVGAVRTLDEVPPTSRHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HTTC------------HHHHHHHHHTSCTTSTTHHHHHHHHHHHTC-
T ss_pred             HcCC------------HHHHHHHHHhhcccCcccHHHHHHHHHHHHc
Confidence            8855            8999999999999999999999988888744

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.45  E-value=2.4e-13  Score=140.43  Aligned_cols=123  Identities=23%  Similarity=0.259  Sum_probs=80.9

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |++++|.++.++  .+..+++|+.|+|++|.++.+++  |..+++|+.|+|++|.|+.++ +..+..+++|+.|+|++|.
T Consensus        90 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-~~~~~~l~~L~~L~L~~n~  168 (270)
T 2o6q_A           90 LWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLP-KGVFDKLTSLKELRLYNNQ  168 (270)
T ss_dssp             EECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccC-HhHccCCcccceeEecCCc
Confidence            777777777665  56677777777777777766665  677777777777777777662 2446677777777777777


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.++...   +..++.+..+++++|.+..+.          +..|..+ +|+.|+|++|++
T Consensus       169 l~~~~~~~---~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          169 LKRVPEGA---FDKLTELKTLKLDNNQLKRVP----------EGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             CSCCCTTT---TTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSSCB
T ss_pred             CcEeChhH---hccCCCcCEEECCCCcCCcCC----------HHHhccccCCCEEEecCCCe
Confidence            77765322   233333444456666554322          2356677 888888888887

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.44  E-value=2.9e-12  Score=143.39  Aligned_cols=175  Identities=19%  Similarity=0.087  Sum_probs=159.3

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....++++++|++++.++|.++|++..+|+..+.++...++            +++++..+++++..+|+ ..+|...+.
T Consensus       112 ~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~-~~~~~~lg~  178 (474)
T 4abn_A          112 LNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGD------------VTSAHTCFSGALTHCKN-KVSLQNLSM  178 (474)
T ss_dssp             HTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHTTCCC-HHHHHHHHH
T ss_pred             HHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCCC-HHHHHHHHH
Confidence            44567777899999999999999999999999999998865            99999999999999999 799999999


Q ss_pred             HHHhCC--------CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc--------CCChHHHHHHHHHHHHhcc---Cc
Q 005381          114 ILSKGH--------SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASM--------NRSEEDELKYTEDMICNNF---SN  174 (699)
Q Consensus       114 ~L~~~~--------~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l--------~~~~e~EL~~~~~~I~~n~---sN  174 (699)
                      ++....        +.++++++.++++++++|.+..+|...+.++...        +.+ +++++++.++++.+|   .+
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~-~~A~~~~~~al~~~p~~~~~  257 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKIS-QQALSAYAQAEKVDRKASSN  257 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHH-HHHHHHHHHHHHHCGGGGGC
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchH-HHHHHHHHHHHHhCCCcccC
Confidence            998640        3789999999999999999999999999999888        777 789999999999999   99


Q ss_pred             hHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          175 YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       175 ~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      ..+|.+++.++..+++            ++++++.+.+|+..+|++..+|..+..++...
T Consensus       258 ~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~l  305 (474)
T 4abn_A          258 PDLHLNRATLHKYEES------------YGEALEGFSQAAALDPAWPEPQQREQQLLEFL  305 (474)
T ss_dssp             HHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            9999999999988755            89999999999999999999999988877543

>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=99.44  E-value=5.7e-14  Score=149.77  Aligned_cols=147  Identities=20%  Similarity=0.180  Sum_probs=69.8

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCC-CCCcC-Ccc---------ccccceeecccCCCCCCCCCcccccccccc
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNEL-RSIEG-LEA---------LQLLSCLNLSNNILGSFTALEPIRQLKSLR  605 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L-~~l~~-l~~---------L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~  605 (699)
                      |+|++|.++.++ .+..+++|++|+|++|.+ +.+|. +..         +++|+.|+|++|.|+.+  |..+..+++|+
T Consensus       132 L~Ls~n~l~~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~l--p~~l~~l~~L~  209 (328)
T 4fcg_A          132 LTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSL--PASIANLQNLK  209 (328)
T ss_dssp             EEEESCCCCCCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCC--CGGGGGCTTCC
T ss_pred             EECCCCccccCcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcc--hHhhcCCCCCC
Confidence            555555555444 455555555555555332 44443 322         55555555555555533  34455555555


Q ss_pred             ccccccccCCCCCcccccccCCCCCcccccCCCCccce--------------eecCCcchhhhhhccCCCC-CccEEEec
Q 005381          606 ALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQT--------------VIDDDIKSYWEAYFILKGL-NLTQFDIV  670 (699)
Q Consensus       606 ~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~--------------~~~~~~~~~~~~p~~l~~L-~L~~LdLs  670 (699)
                      .|+|++|.++.+|.    .+..++-+..+++++|.+..              +.+.++.....+|..+..+ +|+.|+|+
T Consensus       210 ~L~L~~N~l~~l~~----~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~  285 (328)
T 4fcg_A          210 SLKIRNSPLSALGP----AIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLR  285 (328)
T ss_dssp             EEEEESSCCCCCCG----GGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECT
T ss_pred             EEEccCCCCCcCch----hhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCC
Confidence            55555555555432    11222222222333322211              1111222233445667777 78888888


Q ss_pred             CCCC--CCccchHHHhhcCCcccccc
Q 005381          671 GNAI--VNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       671 ~N~l--~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +|++  ..|.    .+..+++|+.++
T Consensus       286 ~n~~~~~iP~----~l~~L~~L~~l~  307 (328)
T 4fcg_A          286 GCVNLSRLPS----LIAQLPANCIIL  307 (328)
T ss_dssp             TCTTCCCCCG----GGGGSCTTCEEE
T ss_pred             CCCchhhccH----HHhhccCceEEe
Confidence            8776  2221    234566666554

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.44  E-value=2.6e-13  Score=156.50  Aligned_cols=173  Identities=21%  Similarity=0.218  Sum_probs=129.8

Q ss_pred             HHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEE
Q 005381          481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQML  560 (699)
Q Consensus       481 ~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~L  560 (699)
                      .+..+++|+.||+++|.+..                 ++. +..+.+|+.       |+|++|.++.++.+..+++|+.|
T Consensus        60 ~l~~l~~L~~L~Ls~N~l~~-----------------~~~-l~~l~~L~~-------L~Ls~N~l~~l~~l~~l~~L~~L  114 (605)
T 1m9s_A           60 GIQYLPNVTKLFLNGNKLTD-----------------IKP-LTNLKNLGW-------LFLDENKIKDLSSLKDLKKLKSL  114 (605)
T ss_dssp             TGGGCTTCCEEECTTSCCCC-----------------CGG-GGGCTTCCE-------EECCSSCCCCCTTSTTCTTCCEE
T ss_pred             HHccCCCCCEEEeeCCCCCC-----------------Chh-hccCCCCCE-------EECcCCCCCCChhhccCCCCCEE
Confidence            36788889999998887211                 111 233344444       99999999999999999999999


Q ss_pred             EccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCc
Q 005381          561 DLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH  640 (699)
Q Consensus       561 dLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~  640 (699)
                      +|++|.|..++.+..|++|+.|+|++|.|+.+   ..+..|++|+.|+|++|.|+.++.     +..++.+..+++++|.
T Consensus       115 ~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~  186 (605)
T 1m9s_A          115 SLEHNGISDINGLVHLPQLESLYLGNNKITDI---TVLSRLTKLDTLSLEDNQISDIVP-----LAGLTKLQNLYLSKNH  186 (605)
T ss_dssp             ECTTSCCCCCGGGGGCTTCSEEECCSSCCCCC---GGGGSCTTCSEEECCSSCCCCCGG-----GTTCTTCCEEECCSSC
T ss_pred             EecCCCCCCCccccCCCccCEEECCCCccCCc---hhhcccCCCCEEECcCCcCCCchh-----hccCCCCCEEECcCCC
Confidence            99999999988899999999999999999886   668899999999999999988742     4555555666888887


Q ss_pred             cceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccccccCccC
Q 005381          641 GQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLDGEQL  698 (699)
Q Consensus       641 l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD~~~i  698 (699)
                      +..+            ..+..+ +|+.|+|++|++ ..+......+..++.|+.+||.++
T Consensus       187 i~~l------------~~l~~l~~L~~L~L~~N~l~~~p~~~~~~l~~~~~l~~l~g~~~  234 (605)
T 1m9s_A          187 ISDL------------RALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLV  234 (605)
T ss_dssp             CCBC------------GGGTTCTTCSEEECCSEEEECCCCCCCSSCEEECCCBCSSSCBC
T ss_pred             CCCC------------hHHccCCCCCEEEccCCcCcCCcccccccEEecccccccCCCCc
Confidence            7432            357888 999999999999 222211111223456667777654

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.43  E-value=1.2e-13  Score=142.56  Aligned_cols=171  Identities=20%  Similarity=0.236  Sum_probs=129.4

Q ss_pred             HHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEE
Q 005381          481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQML  560 (699)
Q Consensus       481 ~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~L  560 (699)
                      .+..+.+|+.|++++|.+.                 .+. .+..+.+++.       |+|++|.++.++.+..+++|+.|
T Consensus        36 ~~~~l~~L~~L~l~~n~i~-----------------~l~-~l~~l~~L~~-------L~L~~N~i~~~~~l~~l~~L~~L   90 (263)
T 1xeu_A           36 SQKELSGVQNFNGDNSNIQ-----------------SLA-GMQFFTNLKE-------LHLSHNQISDLSPLKDLTKLEEL   90 (263)
T ss_dssp             CHHHHTTCSEEECTTSCCC-----------------CCT-TGGGCTTCCE-------EECCSSCCCCCGGGTTCSSCCEE
T ss_pred             chhhcCcCcEEECcCCCcc-----------------cch-HHhhCCCCCE-------EECCCCccCCChhhccCCCCCEE
Confidence            3678899999999998721                 111 2233344444       99999999988889999999999


Q ss_pred             EccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCc
Q 005381          561 DLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH  640 (699)
Q Consensus       561 dLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~  640 (699)
                      +|++|.++.++++.. ++|+.|+|++|+|+++   +.+..+++|+.|+|++|+|+.++     .+..++-+..+++++|.
T Consensus        91 ~L~~N~l~~l~~~~~-~~L~~L~L~~N~l~~~---~~l~~l~~L~~L~Ls~N~i~~~~-----~l~~l~~L~~L~L~~N~  161 (263)
T 1xeu_A           91 SVNRNRLKNLNGIPS-ACLSRLFLDNNELRDT---DSLIHLKNLEILSIRNNKLKSIV-----MLGFLSKLEVLDLHGNE  161 (263)
T ss_dssp             ECCSSCCSCCTTCCC-SSCCEEECCSSCCSBS---GGGTTCTTCCEEECTTSCCCBCG-----GGGGCTTCCEEECTTSC
T ss_pred             ECCCCccCCcCcccc-CcccEEEccCCccCCC---hhhcCcccccEEECCCCcCCCCh-----HHccCCCCCEEECCCCc
Confidence            999999999988555 9999999999999986   56889999999999999999885     23444445556778887


Q ss_pred             cceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCc-cchHHHhhcCCccccccCccC
Q 005381          641 GQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNE-KFKSFLIKVLPGLKWLDGEQL  698 (699)
Q Consensus       641 l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~-~~~~~~~~~l~~L~~LD~~~i  698 (699)
                      +...            ..+..+ +|+.|+|++|++ ..+ .+.. .+...+.++.+||..+
T Consensus       162 i~~~------------~~l~~l~~L~~L~l~~N~~~~~~~~~~~-~l~~~~~l~~l~~~~i  209 (263)
T 1xeu_A          162 ITNT------------GGLTRLKKVNWIDLTGQKCVNEPVKYQP-ELYITNTVKDPDGRWI  209 (263)
T ss_dssp             CCBC------------TTSTTCCCCCEEEEEEEEEECCCEECCS-EEEEECCCBCTTSCBC
T ss_pred             Ccch------------HHhccCCCCCEEeCCCCcccCCcccccc-ceEECCeeecCCCCCc
Confidence            7543            367888 999999999999 222 2211 1223467888888765

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.43  E-value=2.2e-12  Score=151.54  Aligned_cols=159  Identities=13%  Similarity=0.067  Sum_probs=147.8

Q ss_pred             hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           54 TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQ  133 (699)
Q Consensus        54 ~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L  133 (699)
                      .+|++..+|+..+.++...++            +++++..++++|+.+|++..+|+.++.++.+. ++++++++.+++++
T Consensus         4 s~P~~a~al~nLG~~~~~~G~------------~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~-g~~~eA~~~~~~Al   70 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGN------------IEEAVRLYRKALEVFPEFAAAHSNLASVLQQQ-GKLQEALMHYKEAI   70 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence            579999999999999999876            99999999999999999999999999999988 69999999999999


Q ss_pred             HhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHH
Q 005381          134 KADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQA  213 (699)
Q Consensus       134 ~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~a  213 (699)
                      +++|.+..+|..++.++..++.+ ++++++++++|+.+|.+..||++++.++..+++            ++++++++++|
T Consensus        71 ~l~P~~~~a~~nLg~~l~~~g~~-~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~------------~~eAi~~~~~A  137 (723)
T 4gyw_A           71 RISPTFADAYSNMGNTLKEMQDV-QGALQCYTRAIQINPAFADAHSNLASIHKDSGN------------IPEAIASYRTA  137 (723)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHH
Confidence            99999999999999999999998 789999999999999999999999999988755            89999999999


Q ss_pred             HHhCCCCchhHHHHHHHHcCcCCCC
Q 005381          214 IFTDPDDQSGWFYHLWLLDQTVRVD  238 (699)
Q Consensus       214 i~~dP~d~SaW~Y~~~Ll~~~~~~~  238 (699)
                      +.++|++..+|+.+..++....+.+
T Consensus       138 l~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A          138 LKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHhCCCChHHHhhhhhHHHhcccHH
Confidence            9999999999999998887655443

>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=99.43  E-value=3.7e-13  Score=137.49  Aligned_cols=123  Identities=24%  Similarity=0.271  Sum_probs=94.5

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++.++  .+..+++|+.|+|++|.|+.++.  |..+++|+.|+|++|.|+.++ +..+..+++|+.|+|++|+
T Consensus        64 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~Ls~N~  142 (251)
T 3m19_A           64 LNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLP-SGVFDRLTKLKELRLNTNQ  142 (251)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEcCCCcCCCcC-hhHhccCCcccEEECcCCc
Confidence            888888888776  57888899999999999988776  788889999999999888773 3456788889999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.+|..   .+..++-+..+++++|.+..+.          +..|..+ +|+.|+|++|++
T Consensus       143 l~~~~~~---~~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~~  191 (251)
T 3m19_A          143 LQSIPAG---AFDKLTNLQTLSLSTNQLQSVP----------HGAFDRLGKLQTITLFGNQF  191 (251)
T ss_dssp             CCCCCTT---TTTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSCCB
T ss_pred             CCccCHH---HcCcCcCCCEEECCCCcCCccC----------HHHHhCCCCCCEEEeeCCce
Confidence            8888632   2334444455577777775432          2467788 899999999998

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.43  E-value=4.6e-13  Score=138.55  Aligned_cols=172  Identities=17%  Similarity=0.171  Sum_probs=125.2

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      +..++.|+.|++++|... ++                 ..+..+.+++.       |++++|.++.++.+..+++|++|+
T Consensus        37 ~~~l~~L~~L~l~~~~i~-~~-----------------~~l~~l~~L~~-------L~l~~n~l~~~~~l~~l~~L~~L~   91 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIK-SV-----------------QGIQYLPNVRY-------LALGGNKLHDISALKELTNLTYLI   91 (272)
T ss_dssp             HHHHTTCCEEECTTSCCC-CC-----------------TTGGGCTTCCE-------EECTTSCCCCCGGGTTCTTCCEEE
T ss_pred             cccccceeeeeeCCCCcc-cc-----------------cccccCCCCcE-------EECCCCCCCCchhhcCCCCCCEEE
Confidence            557888899999887711 11                 11222344443       999999999888889999999999


Q ss_pred             ccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCC
Q 005381          562 LSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWN  639 (699)
Q Consensus       562 LS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N  639 (699)
                      |++|.++.+++  |..+++|+.|++++|.+++++ +..+..+++|+.|+|++|.|+.++..   .+..++.+..+++++|
T Consensus        92 L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~L~~n~l~~~~~~---~~~~l~~L~~L~l~~n  167 (272)
T 3rfs_A           92 LTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLP-DGVFDKLTNLTYLNLAHNQLQSLPKG---VFDKLTNLTELDLSYN  167 (272)
T ss_dssp             CTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCC-TTTTTTCTTCCEEECCSSCCCCCCTT---TTTTCTTCCEEECCSS
T ss_pred             CCCCccCccChhHhcCCcCCCEEECCCCcCCccC-HHHhccCCCCCEEECCCCccCccCHH---HhccCccCCEEECCCC
Confidence            99999988877  889999999999999998873 35578899999999999999988632   2334444555577777


Q ss_pred             ccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          640 HGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       640 ~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      .+..+.          +..|..+ +|+.|+|++|.+.  ......+..+++|+.||
T Consensus       168 ~l~~~~----------~~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~L~  211 (272)
T 3rfs_A          168 QLQSLP----------EGVFDKLTQLKDLRLYQNQLK--SVPDGVFDRLTSLQYIW  211 (272)
T ss_dssp             CCCCCC----------TTTTTTCTTCCEEECCSSCCS--CCCTTTTTTCTTCCEEE
T ss_pred             CcCccC----------HHHhcCCccCCEEECCCCcCC--ccCHHHHhCCcCCCEEE
Confidence            765332          3457788 9999999999992  11122345677777765

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.42  E-value=1.3e-13  Score=145.70  Aligned_cols=117  Identities=26%  Similarity=0.293  Sum_probs=62.2

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.++.+..+++|+.|++++|.++.++++..+++|+.|++++|.++++   ..+..+++|+.|++++|.|+.+
T Consensus       112 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~~~  188 (308)
T 1h6u_A          112 LDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDL---TPLANLSKLTTLKADDNKISDI  188 (308)
T ss_dssp             EECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCC---GGGTTCTTCCEEECCSSCCCCC
T ss_pred             EECCCCCCCCchhhcCCCCCCEEECCCCccCcCccccCCCCccEEEccCCcCCCC---hhhcCCCCCCEEECCCCccCcC
Confidence            5555555555555555555555555555555555555555555555555555554   2255555555555555555554


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +.     +..++.+..+++++|.+...           + .+..+ +|+.|+|++|++
T Consensus       189 ~~-----l~~l~~L~~L~L~~N~l~~~-----------~-~l~~l~~L~~L~l~~N~i  229 (308)
T 1h6u_A          189 SP-----LASLPNLIEVHLKNNQISDV-----------S-PLANTSNLFIVTLTNQTI  229 (308)
T ss_dssp             GG-----GGGCTTCCEEECTTSCCCBC-----------G-GGTTCTTCCEEEEEEEEE
T ss_pred             hh-----hcCCCCCCEEEccCCccCcc-----------c-cccCCCCCCEEEccCCee
Confidence            31     22222233334444444221           1 25566 677777777776

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.42  E-value=2.5e-12  Score=127.18  Aligned_cols=176  Identities=10%  Similarity=-0.013  Sum_probs=141.2

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHH----------------HHHHHHhhhccCCCCchhhhhhHHH
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNY----------------RKLAVQHKLTENDSDPDSLKSILDE   89 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~----------------R~~~l~~l~~~~~~~~~~~~~~~~e   89 (699)
                      .+..........|.+ ++|+..+.+++..+|++..+|.+                ++.++...++            +++
T Consensus         6 ~~~~~g~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~------------~~~   72 (208)
T 3urz_A            6 EMLQKVSAAIEAGQN-GQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRN------------YDK   72 (208)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTC------------HHH
T ss_pred             HHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCC------------HHH
Confidence            345555666778888 79999999999999999999999                9999888865            999


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh-HHHHHHHHHHH
Q 005381           90 ELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE-EDELKYTEDMI  168 (699)
Q Consensus        90 EL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~-e~EL~~~~~~I  168 (699)
                      ++..++++++.+|++..+|..++.++... +.+++++++++++++++|.|..+|..++.+....+... +.....+.+.+
T Consensus        73 A~~~~~~al~~~p~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~  151 (208)
T 3urz_A           73 AYLFYKELLQKAPNNVDCLEACAEMQVCR-GQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS  151 (208)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999987 69999999999999999999999999999876554332 22344555555


Q ss_pred             HhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          169 CNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       169 ~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      ..+| ...+|++++.....+++            ++++++++++|+..+|+.+ +..++.-
T Consensus       152 ~~~~-~~~a~~~~g~~~~~~~~------------~~~A~~~~~~al~l~P~~~-~~~~l~~  198 (208)
T 3urz_A          152 SPTK-MQYARYRDGLSKLFTTR------------YEKARNSLQKVILRFPSTE-AQKTLDK  198 (208)
T ss_dssp             CCCH-HHHHHHHHHHHHHHHHT------------HHHHHHHHHHHTTTSCCHH-HHHHHHH
T ss_pred             CCCc-hhHHHHHHHHHHHHccC------------HHHHHHHHHHHHHhCCCHH-HHHHHHH
Confidence            4333 33578888877666543            8999999999999999754 4444443

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.42  E-value=4.1e-13  Score=141.70  Aligned_cols=164  Identities=20%  Similarity=0.251  Sum_probs=125.4

Q ss_pred             HHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEE
Q 005381          481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQML  560 (699)
Q Consensus       481 ~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~L  560 (699)
                      .+..+++|++||+++|.+.                 .+.. +..+.+++.       |++++|.++.++.+..+++|+.|
T Consensus        58 ~~~~l~~L~~L~L~~n~i~-----------------~~~~-~~~l~~L~~-------L~L~~n~l~~~~~~~~l~~L~~L  112 (308)
T 1h6u_A           58 GVQYLNNLIGLELKDNQIT-----------------DLAP-LKNLTKITE-------LELSGNPLKNVSAIAGLQSIKTL  112 (308)
T ss_dssp             TGGGCTTCCEEECCSSCCC-----------------CCGG-GTTCCSCCE-------EECCSCCCSCCGGGTTCTTCCEE
T ss_pred             hhhccCCCCEEEccCCcCC-----------------CChh-HccCCCCCE-------EEccCCcCCCchhhcCCCCCCEE
Confidence            3667888999999888721                 1111 223333333       99999999999899999999999


Q ss_pred             EccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCc
Q 005381          561 DLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH  640 (699)
Q Consensus       561 dLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~  640 (699)
                      +|++|.++.++++..+++|+.|++++|.++++   ..+..+++|+.|+|++|.|+.++.     +..++-+..+++++|.
T Consensus       113 ~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~---~~l~~l~~L~~L~l~~n~l~~~~~-----l~~l~~L~~L~l~~n~  184 (308)
T 1h6u_A          113 DLTSTQITDVTPLAGLSNLQVLYLDLNQITNI---SPLAGLTNLQYLSIGNAQVSDLTP-----LANLSKLTTLKADDNK  184 (308)
T ss_dssp             ECTTSCCCCCGGGTTCTTCCEEECCSSCCCCC---GGGGGCTTCCEEECCSSCCCCCGG-----GTTCTTCCEEECCSSC
T ss_pred             ECCCCCCCCchhhcCCCCCCEEECCCCccCcC---ccccCCCCccEEEccCCcCCCChh-----hcCCCCCCEEECCCCc
Confidence            99999999988899999999999999999887   348889999999999999998752     4455555556777777


Q ss_pred             cceeecCCcchhhhhhccCCCC-CccEEEecCCCCC-CccchHHHhhcCCcccccc
Q 005381          641 GQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV-NEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       641 l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~-~~~~~~~~~~~l~~L~~LD  694 (699)
                      +..+.            .+..+ +|+.|+|++|.|. .+.     +..+++|+.||
T Consensus       185 l~~~~------------~l~~l~~L~~L~L~~N~l~~~~~-----l~~l~~L~~L~  223 (308)
T 1h6u_A          185 ISDIS------------PLASLPNLIEVHLKNNQISDVSP-----LANTSNLFIVT  223 (308)
T ss_dssp             CCCCG------------GGGGCTTCCEEECTTSCCCBCGG-----GTTCTTCCEEE
T ss_pred             cCcCh------------hhcCCCCCCEEEccCCccCcccc-----ccCCCCCCEEE
Confidence            74321            26778 9999999999993 221     46678887765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.41  E-value=1.2e-11  Score=118.37  Aligned_cols=156  Identities=12%  Similarity=0.023  Sum_probs=143.0

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      ++..++|+..+.+....++            +++++..++++|+.+|++..+|..++.++.+. +.++++++.+.+++..
T Consensus         2 ge~~~iy~~lG~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-~~~~~a~~~~~~~~~~   68 (184)
T 3vtx_A            2 GETTTIYMDIGDKKRTKGD------------FDGAIRAYKKVLKADPNNVETLLKLGKTYMDI-GLPNDAIESLKKFVVL   68 (184)
T ss_dssp             --CHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhc
Confidence            4678999999999988865            99999999999999999999999999999987 6999999999999999


Q ss_pred             CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHH
Q 005381          136 DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       136 dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~  215 (699)
                      +|.+..+|...+.+....+.+ +..++++.++++.+|.+..+|..++.++..++.            ++++++.+++++.
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~-~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~~l~  135 (184)
T 3vtx_A           69 DTTSAEAYYILGSANFMIDEK-QAAIDALQRAIALNTVYADAYYKLGLVYDSMGE------------HDKAIEAYEKTIS  135 (184)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCccchHHHHHHHHHHHHhCC------------chhHHHHHHHHHH
Confidence            999999999999999999888 688999999999999999999999999888754            8999999999999


Q ss_pred             hCCCCchhHHHHHHHHcCcCCC
Q 005381          216 TDPDDQSGWFYHLWLLDQTVRV  237 (699)
Q Consensus       216 ~dP~d~SaW~Y~~~Ll~~~~~~  237 (699)
                      .+|++..+|+.+..++....+.
T Consensus       136 ~~p~~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A          136 IKPGFIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCH
T ss_pred             hcchhhhHHHHHHHHHHHCCCH
Confidence            9999999999999988765543

>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=99.40  E-value=4.1e-13  Score=140.57  Aligned_cols=159  Identities=21%  Similarity=0.103  Sum_probs=120.9

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCCC
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDKL  554 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~L  554 (699)
                      +.....+..+.+|+.|++++|.+..                 +... ..+.+++       .|++++|.++.++ .+..+
T Consensus        45 ~~~~~~~~~l~~L~~L~L~~n~l~~-----------------~~~~-~~l~~L~-------~L~Ls~N~l~~l~~~~~~l   99 (290)
T 1p9a_G           45 TFSLATLMPYTRLTQLNLDRAELTK-----------------LQVD-GTLPVLG-------TLDLSHNQLQSLPLLGQTL   99 (290)
T ss_dssp             EEEGGGGTTCTTCCEEECTTSCCCE-----------------EECC-SCCTTCC-------EEECCSSCCSSCCCCTTTC
T ss_pred             ccCHHHhhcCCCCCEEECCCCccCc-----------------ccCC-CCCCcCC-------EEECCCCcCCcCchhhccC
Confidence            3445567788899999999887211                 1110 1223333       3999999999888 68889


Q ss_pred             cccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcc
Q 005381          555 LWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH  632 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~  632 (699)
                      ++|+.|+|++|+|+.+++  |..+++|+.|+|++|+|+.++ +..|..+++|+.|+|++|+|+.+|...+   ..++.+.
T Consensus       100 ~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~L~~N~l~~l~~~~~---~~l~~L~  175 (290)
T 1p9a_G          100 PALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP-PGLLTPTPKLEKLSLANNNLTELPAGLL---NGLENLD  175 (290)
T ss_dssp             TTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCC-TTTTTTCTTCCEEECTTSCCSCCCTTTT---TTCTTCC
T ss_pred             CCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccC-hhhcccccCCCEEECCCCcCCccCHHHh---cCcCCCC
Confidence            999999999999998875  999999999999999999873 3567889999999999999999874333   3344444


Q ss_pred             cccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          633 SVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       633 ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .+++++|.++.           +|..+..+ +|+.|+|++|++
T Consensus       176 ~L~L~~N~l~~-----------ip~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          176 TLLLQENSLYT-----------IPKGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             EEECCSSCCCC-----------CCTTTTTTCCCSEEECCSCCB
T ss_pred             EEECCCCcCCc-----------cChhhcccccCCeEEeCCCCc
Confidence            55777777753           34566667 999999999999

>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=99.40  E-value=8.9e-13  Score=134.65  Aligned_cols=141  Identities=22%  Similarity=0.259  Sum_probs=96.6

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++.++  .+..+++|++|+|++|.|+.+++  |..+++|+.|+|++|.|+.++ +..+..+++|+.|+|++|.
T Consensus        40 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~L~~N~  118 (251)
T 3m19_A           40 LDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLP-LGVFDHLTQLDKLYLGGNQ  118 (251)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccC-hhHhcccCCCCEEEcCCCc
Confidence            888888888765  57788888888888888877666  788888888888888888763 3567778888888888888


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccc
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~  692 (699)
                      |+.+|...   +..++.+..+++++|.+..+.          +..|..+ +|+.|+|++|.|.  .+....+..+++|+.
T Consensus       119 l~~~~~~~---~~~l~~L~~L~Ls~N~l~~~~----------~~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~  183 (251)
T 3m19_A          119 LKSLPSGV---FDRLTKLKELRLNTNQLQSIP----------AGAFDKLTNLQTLSLSTNQLQ--SVPHGAFDRLGKLQT  183 (251)
T ss_dssp             CCCCCTTT---TTTCTTCCEEECCSSCCCCCC----------TTTTTTCTTCCEEECCSSCCS--CCCTTTTTTCTTCCE
T ss_pred             CCCcChhH---hccCCcccEEECcCCcCCccC----------HHHcCcCcCCCEEECCCCcCC--ccCHHHHhCCCCCCE
Confidence            88775322   233334444566677664322          2357777 8888888888882  111122345666665


Q ss_pred             cc
Q 005381          693 LD  694 (699)
Q Consensus       693 LD  694 (699)
                      ||
T Consensus       184 L~  185 (251)
T 3m19_A          184 IT  185 (251)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.40  E-value=7.2e-13  Score=136.85  Aligned_cols=141  Identities=22%  Similarity=0.216  Sum_probs=105.7

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |++++|.++.++  .|..+++|++|+|++|.++.++.  |..+++|+.|++++|.++.++ +..+..+++|+.|+|++|.
T Consensus        66 L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~Ls~n~  144 (270)
T 2o6q_A           66 LYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLP-PRVFDSLTKLTYLSLGYNE  144 (270)
T ss_dssp             EECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeC-HHHhCcCcCCCEEECCCCc
Confidence            999999999877  46889999999999999988876  788999999999999998873 4567889999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccc
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~  692 (699)
                      |+.+|...   +..++-+..+++++|.+..+.          +..|..+ +|+.|+|++|.|.  .+....+..+++|+.
T Consensus       145 l~~~~~~~---~~~l~~L~~L~L~~n~l~~~~----------~~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~  209 (270)
T 2o6q_A          145 LQSLPKGV---FDKLTSLKELRLYNNQLKRVP----------EGAFDKLTELKTLKLDNNQLK--RVPEGAFDSLEKLKM  209 (270)
T ss_dssp             CCCCCTTT---TTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSSCCS--CCCTTTTTTCTTCCE
T ss_pred             CCccCHhH---ccCCcccceeEecCCcCcEeC----------hhHhccCCCcCEEECCCCcCC--cCCHHHhccccCCCE
Confidence            99886432   333444445567777664432          2357788 9999999999982  111223355677776


Q ss_pred             cc
Q 005381          693 LD  694 (699)
Q Consensus       693 LD  694 (699)
                      ||
T Consensus       210 L~  211 (270)
T 2o6q_A          210 LQ  211 (270)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

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

Probab=99.39  E-value=3.8e-13  Score=148.93  Aligned_cols=123  Identities=22%  Similarity=0.221  Sum_probs=61.2

Q ss_pred             EEccC-CCCCccc--CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKN-LSLSRLG--SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~-n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      |+|++ +.+..++  .|..+++|+.|+|++|.++.+|.+..+++|+.|+|++|.|+.+ .+..|..+++|+.|+|++|+|
T Consensus       165 L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~L~~n~l  243 (440)
T 3zyj_A          165 LDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAI-RPGSFQGLMHLQKLWMIQSQI  243 (440)
T ss_dssp             EECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCCCTTCSSCCEEECTTSCCCEE-CTTTTTTCTTCCEEECTTCCC
T ss_pred             eCCCCCCCcceeCcchhhcccccCeecCCCCcCccccccCCCcccCEEECCCCccCcc-ChhhhccCccCCEEECCCCce
Confidence            45544 3333333  3555555555555555555555555555555555555555554 234455555555555555555


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +.++..   .+..++-+..+++++|.++.+.          +..|..+ +|+.|+|++|++
T Consensus       244 ~~~~~~---~~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~L~~Np~  291 (440)
T 3zyj_A          244 QVIERN---AFDNLQSLVEINLAHNNLTLLP----------HDLFTPLHHLERIHLHHNPW  291 (440)
T ss_dssp             CEECTT---SSTTCTTCCEEECTTSCCCCCC----------TTTTSSCTTCCEEECCSSCE
T ss_pred             eEEChh---hhcCCCCCCEEECCCCCCCccC----------hhHhccccCCCEEEcCCCCc
Confidence            554321   2222233333344555443322          2345555 666666666666

>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=99.39  E-value=2.8e-13  Score=141.92  Aligned_cols=123  Identities=29%  Similarity=0.333  Sum_probs=103.1

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      |+|++|.++.++....+++|+.|+|++|.|+.+|. +..+++|+.|+|++|+|++++ +..|..+++|+.|+|++|+|+.
T Consensus        60 L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~-~~~~~~l~~L~~L~L~~N~l~~  138 (290)
T 1p9a_G           60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLP-LGALRGLGELQELYLKGNELKT  138 (290)
T ss_dssp             EECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCC-SSTTTTCTTCCEEECTTSCCCC
T ss_pred             EECCCCccCcccCCCCCCcCCEEECCCCcCCcCchhhccCCCCCEEECCCCcCcccC-HHHHcCCCCCCEEECCCCCCCc
Confidence            99999999988877899999999999999999998 999999999999999999873 4678999999999999999999


Q ss_pred             CCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          617 HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       617 lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +|.+.   +..++-+..+++++|.++.+.          +..|..+ +|+.|+|++|.|
T Consensus       139 ~~~~~---~~~l~~L~~L~L~~N~l~~l~----------~~~~~~l~~L~~L~L~~N~l  184 (290)
T 1p9a_G          139 LPPGL---LTPTPKLEKLSLANNNLTELP----------AGLLNGLENLDTLLLQENSL  184 (290)
T ss_dssp             CCTTT---TTTCTTCCEEECTTSCCSCCC----------TTTTTTCTTCCEEECCSSCC
T ss_pred             cChhh---cccccCCCEEECCCCcCCccC----------HHHhcCcCCCCEEECCCCcC
Confidence            87433   334444455677888775432          2457788 999999999999

>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=99.39  E-value=3.2e-13  Score=150.09  Aligned_cols=77  Identities=26%  Similarity=0.327  Sum_probs=36.1

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccC-CCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSH-NELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~-N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |+|++|.++.++  .+..+++|+.|+|++ |.++.++.  |..+++|+.|+|++|.|+.+   +.+..+++|+.|+|++|
T Consensus       152 L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~---~~~~~l~~L~~L~Ls~N  228 (452)
T 3zyi_A          152 LWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDM---PNLTPLVGLEELEMSGN  228 (452)
T ss_dssp             EECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSC---CCCTTCTTCCEEECTTS
T ss_pred             EECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccc---ccccccccccEEECcCC
Confidence            555555555443  344445555555544 33344433  44444555555555544443   22444444455555555


Q ss_pred             cCCCC
Q 005381          613 EIGAH  617 (699)
Q Consensus       613 ~I~~l  617 (699)
                      .|+.+
T Consensus       229 ~l~~~  233 (452)
T 3zyi_A          229 HFPEI  233 (452)
T ss_dssp             CCSEE
T ss_pred             cCccc
Confidence            44444

>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=99.39  E-value=4.4e-13  Score=148.91  Aligned_cols=187  Identities=17%  Similarity=0.119  Sum_probs=129.7

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHh-hhhccCCCCCCCCCCCCeEEccCCCCCccc--CCC
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLL-SRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFD  552 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~-~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~  552 (699)
                      +..++.+..+.+|++||+++|.+.                 .+. ..+..+.+++.       |+|++|.++.++  .+.
T Consensus        89 ~~~~~~~~~l~~L~~L~Ls~n~i~-----------------~~~~~~~~~l~~L~~-------L~L~~n~l~~~~~~~~~  144 (452)
T 3zyi_A           89 MIQADTFRHLHHLEVLQLGRNSIR-----------------QIEVGAFNGLASLNT-------LELFDNWLTVIPSGAFE  144 (452)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCC-----------------EECTTTTTTCTTCCE-------EECCSSCCSBCCTTTSS
T ss_pred             eECHHHcCCCCCCCEEECCCCccC-----------------CcChhhccCcccCCE-------EECCCCcCCccChhhhc
Confidence            334556778999999999999821                 111 12223334333       999999999887  589


Q ss_pred             CCcccCEEEccCCCCCCCcC--Cccccccceeeccc-CCCCCCCCCccccccccccccccccccCCCCCcccccccCCCC
Q 005381          553 KLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSN-NILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSP  629 (699)
Q Consensus       553 ~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~-N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~  629 (699)
                      .+++|++|+|++|.|+.++.  |..+++|+.|++++ |.+..+ .+..+..+++|+.|+|++|.|+.+|  .   +..++
T Consensus       145 ~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i-~~~~~~~l~~L~~L~L~~n~l~~~~--~---~~~l~  218 (452)
T 3zyi_A          145 YLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYI-SEGAFEGLFNLKYLNLGMCNIKDMP--N---LTPLV  218 (452)
T ss_dssp             SCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEE-CTTTTTTCTTCCEEECTTSCCSSCC--C---CTTCT
T ss_pred             ccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCcccc-ChhhccCCCCCCEEECCCCcccccc--c---ccccc
Confidence            99999999999999999887  99999999999998 566665 3356889999999999999999886  2   33444


Q ss_pred             CcccccCCCCccceeecC-------------Ccchhh-hhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          630 LSHSVGSEWNHGQTVIDD-------------DIKSYW-EAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       630 ll~ll~l~~N~l~~~~~~-------------~~~~~~-~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      .+..+++++|.+..+...             .++.+. ..+..|.++ +|+.|+|++|.|.  .+....+..+++|+.||
T Consensus       219 ~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~L~  296 (452)
T 3zyi_A          219 GLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLS--SLPHDLFTPLRYLVELH  296 (452)
T ss_dssp             TCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCS--CCCTTSSTTCTTCCEEE
T ss_pred             cccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCC--ccChHHhccccCCCEEE
Confidence            445557777776544221             111111 124567777 8888888888882  11112234566676654

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

Probab=99.38  E-value=5e-13  Score=147.92  Aligned_cols=139  Identities=21%  Similarity=0.220  Sum_probs=87.5

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccC-CCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSH-NELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~-N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |+|++|.++.++  .|..+++|+.|+|++ |.++.++.  |.++++|+.|+|++|.|+.+   +.+..+++|+.|+|++|
T Consensus       141 L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~---~~~~~l~~L~~L~Ls~N  217 (440)
T 3zyj_A          141 LWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREI---PNLTPLIKLDELDLSGN  217 (440)
T ss_dssp             EECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSC---CCCTTCSSCCEEECTTS
T ss_pred             eeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccc---cccCCCcccCEEECCCC
Confidence            666666666555  466666777777766 34455554  66677777777777777665   24566677777777777


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccc
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLK  691 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~  691 (699)
                      .|+.++.   ..+..++.+..+.+.+|.+..+.          +..|.++ +|+.|+|++|.|.  .+....+..+++|+
T Consensus       218 ~l~~~~~---~~~~~l~~L~~L~L~~n~l~~~~----------~~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~  282 (440)
T 3zyj_A          218 HLSAIRP---GSFQGLMHLQKLWMIQSQIQVIE----------RNAFDNLQSLVEINLAHNNLT--LLPHDLFTPLHHLE  282 (440)
T ss_dssp             CCCEECT---TTTTTCTTCCEEECTTCCCCEEC----------TTSSTTCTTCCEEECTTSCCC--CCCTTTTSSCTTCC
T ss_pred             ccCccCh---hhhccCccCCEEECCCCceeEEC----------hhhhcCCCCCCEEECCCCCCC--ccChhHhccccCCC
Confidence            7766642   22333333444456666654432          4578888 9999999999992  11122345677777


Q ss_pred             ccc
Q 005381          692 WLD  694 (699)
Q Consensus       692 ~LD  694 (699)
                      .||
T Consensus       283 ~L~  285 (440)
T 3zyj_A          283 RIH  285 (440)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            665

>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=99.38  E-value=3e-13  Score=144.13  Aligned_cols=122  Identities=11%  Similarity=-0.024  Sum_probs=89.1

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |++++|.++.++ .+..+++|+.|+|++|.++.+|. +..+++|+.|+|++|.+.+. .|..+..+++|+.|+|++|.+.
T Consensus       188 L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~~-~p~~~~~l~~L~~L~L~~n~~~  266 (328)
T 4fcg_A          188 LRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRN-YPPIFGGRAPLKRLILKDCSNL  266 (328)
T ss_dssp             EEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCCB-CCCCTTCCCCCCEEECTTCTTC
T ss_pred             EECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCcchhh-hHHHhcCCCCCCEEECCCCCch
Confidence            888888888776 67788888888888888887777 88888888888888877664 4566778888888888887654


Q ss_pred             C-CCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          616 A-HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       616 ~-lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      . +|    ..+..++.+..+++++|.+          ...+|..+.++ +|+.+++..|.+
T Consensus       267 ~~~p----~~~~~l~~L~~L~L~~n~~----------~~~iP~~l~~L~~L~~l~l~~~~~  313 (328)
T 4fcg_A          267 LTLP----LDIHRLTQLEKLDLRGCVN----------LSRLPSLIAQLPANCIILVPPHLQ  313 (328)
T ss_dssp             CBCC----TTGGGCTTCCEEECTTCTT----------CCCCCGGGGGSCTTCEEECCGGGS
T ss_pred             hhcc----hhhhcCCCCCEEeCCCCCc----------hhhccHHHhhccCceEEeCCHHHH
Confidence            3 33    2233333344445555444          33567899999 999999998877

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.38  E-value=2.8e-12  Score=116.83  Aligned_cols=123  Identities=18%  Similarity=0.112  Sum_probs=111.7

Q ss_pred             HHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHH
Q 005381           49 TKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRL  128 (699)
Q Consensus        49 ~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~  128 (699)
                      .++..+||+...+|+.+|..+...+.            |++++..++++|+.+|++..+|..++.++.++ +.++++++.
T Consensus         3 ar~a~inP~~a~~~~~~G~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~-~~~~~A~~~   69 (126)
T 4gco_A            3 ARLAYINPELAQEEKNKGNEYFKKGD------------YPTAMRHYNEAVKRDPENAILYSNRAACLTKL-MEFQRALDD   69 (126)
T ss_dssp             ----CCCHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHH
T ss_pred             hHHHHHCHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhh-ccHHHHHHH
Confidence            35567999999999999999988865            99999999999999999999999999999988 699999999


Q ss_pred             HHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          129 LDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       129 ~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      +++++++||.+..+|..++.+...+|.+ ++++++++++++.+|+|..|+...+.++
T Consensus        70 ~~~al~~~p~~~~a~~~lg~~~~~~~~~-~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           70 CDTCIRLDSKFIKGYIRKAACLVAMREW-SKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            9999999999999999999999999998 7899999999999999999987766543

>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=99.37  E-value=1.4e-12  Score=136.63  Aligned_cols=164  Identities=20%  Similarity=0.245  Sum_probs=127.3

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      +..+.+|+.|++++|...                 .+ ..+..+.+++.       |++++|.++.++.+..+++|+.|+
T Consensus        42 ~~~l~~L~~L~l~~~~i~-----------------~~-~~~~~l~~L~~-------L~L~~n~l~~~~~l~~l~~L~~L~   96 (291)
T 1h6t_A           42 QNELNSIDQIIANNSDIK-----------------SV-QGIQYLPNVTK-------LFLNGNKLTDIKPLANLKNLGWLF   96 (291)
T ss_dssp             HHHHHTCCEEECTTSCCC-----------------CC-TTGGGCTTCCE-------EECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             hhhcCcccEEEccCCCcc-----------------cC-hhHhcCCCCCE-------EEccCCccCCCcccccCCCCCEEE
Confidence            457889999999988721                 11 11233344444       999999999888899999999999


Q ss_pred             ccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCcc
Q 005381          562 LSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHG  641 (699)
Q Consensus       562 LS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l  641 (699)
                      |++|.++.++.+..+++|+.|++++|.|+.+   ..+..+++|+.|++++|.|+.++     .+..++-+..+++++|.+
T Consensus        97 l~~n~l~~~~~l~~l~~L~~L~L~~n~i~~~---~~l~~l~~L~~L~l~~n~l~~~~-----~l~~l~~L~~L~L~~N~l  168 (291)
T 1h6t_A           97 LDENKVKDLSSLKDLKKLKSLSLEHNGISDI---NGLVHLPQLESLYLGNNKITDIT-----VLSRLTKLDTLSLEDNQI  168 (291)
T ss_dssp             CCSSCCCCGGGGTTCTTCCEEECTTSCCCCC---GGGGGCTTCCEEECCSSCCCCCG-----GGGGCTTCSEEECCSSCC
T ss_pred             CCCCcCCCChhhccCCCCCEEECCCCcCCCC---hhhcCCCCCCEEEccCCcCCcch-----hhccCCCCCEEEccCCcc
Confidence            9999999988899999999999999999986   56888999999999999999873     233444455557777776


Q ss_pred             ceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          642 QTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       642 ~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      ..+           +. +..+ +|+.|+|++|.|..  +..  +..+++|+.||
T Consensus       169 ~~~-----------~~-l~~l~~L~~L~L~~N~i~~--l~~--l~~l~~L~~L~  206 (291)
T 1h6t_A          169 SDI-----------VP-LAGLTKLQNLYLSKNHISD--LRA--LAGLKNLDVLE  206 (291)
T ss_dssp             CCC-----------GG-GTTCTTCCEEECCSSCCCB--CGG--GTTCTTCSEEE
T ss_pred             ccc-----------hh-hcCCCccCEEECCCCcCCC--Chh--hccCCCCCEEE
Confidence            432           22 7888 99999999999931  211  46688888776

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.37  E-value=1e-12  Score=142.90  Aligned_cols=117  Identities=19%  Similarity=0.217  Sum_probs=72.2

Q ss_pred             CcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHh-hhhccCCCCCCCCCCCCeEEccCCCCCccc--CCCC
Q 005381          477 HSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLL-SRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDK  553 (699)
Q Consensus       477 ~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~-~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~  553 (699)
                      .....+..+++|++||+++|....                 ++ ..+..+.+++.       |+|++|.++.++  .+..
T Consensus        60 l~~~~~~~l~~L~~L~L~~n~i~~-----------------~~~~~~~~l~~L~~-------L~L~~n~l~~~~~~~~~~  115 (390)
T 3o6n_A           60 LPAALLDSFRQVELLNLNDLQIEE-----------------IDTYAFAYAHTIQK-------LYMGFNAIRYLPPHVFQN  115 (390)
T ss_dssp             ECTHHHHHCCCCSEEECTTSCCCE-----------------ECTTTTTTCTTCCE-------EECCSSCCCCCCTTTTTT
T ss_pred             CChhHhcccccCcEEECCCCcccc-----------------cChhhccCCCCcCE-------EECCCCCCCcCCHHHhcC
Confidence            344567777888888888776211                 11 11122223322       677777776654  4666


Q ss_pred             CcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          554 LLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       554 L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      +++|++|+|++|.++.+|.  |..+++|+.|++++|.++.+. +..+..+++|+.|++++|.++.++
T Consensus       116 l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~l~~n~l~~~~  181 (390)
T 3o6n_A          116 VPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIE-DDTFQATTSLQNLQLSSNRLTHVD  181 (390)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCC-TTTTSSCTTCCEEECCSSCCSBCC
T ss_pred             CCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccC-hhhccCCCCCCEEECCCCcCCccc
Confidence            7777777777777766665  566777777777777776652 345666677777777777776654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.37  E-value=4.4e-11  Score=128.37  Aligned_cols=166  Identities=13%  Similarity=0.044  Sum_probs=111.7

Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCCh
Q 005381           43 EAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSI  122 (699)
Q Consensus        43 eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~  122 (699)
                      +|++.+.+++..+|++..+|...+.++...++            +++++..+++++..+|.+..+|...+.++... +.+
T Consensus       119 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~-g~~  185 (388)
T 1w3b_A          119 GAVQAYVSALQYNPDLYCVRSDLGNLLKALGR------------LEEAKACYLKAIETQPNFAVAWSNLGCVFNAQ-GEI  185 (388)
T ss_dssp             HHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT-TCH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCH
Confidence            44444444444444444444444444444432            66677777777777777777777777666655 466


Q ss_pred             HHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhch
Q 005381          123 DNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKV  202 (699)
Q Consensus       123 ~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~  202 (699)
                      +++++.++++++++|.+..+|...+.+....+.+ ++.++.+.++++.+|.+..+|..++.++...++            
T Consensus       186 ~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~------------  252 (388)
T 1w3b_A          186 WLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIF-DRAVAAYLRALSLSPNHAVVHGNLACVYYEQGL------------  252 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCT-THHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------
T ss_pred             HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCC------------
Confidence            7777777777777777777777777777777666 456666677777777777777777666655533            


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          203 LPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       203 ~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      ++++++.+.+++..+|++..+|+.+..++...
T Consensus       253 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  284 (388)
T 1w3b_A          253 IDLAIDTYRRAIELQPHFPDAYCNLANALKEK  284 (388)
T ss_dssp             HHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHc
Confidence            78888999999999999888888877777553

>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=99.37  E-value=7.1e-13  Score=152.67  Aligned_cols=119  Identities=18%  Similarity=0.222  Sum_probs=81.0

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHh-hhhccCCCCCCCCCCCCeEEccCCCCCccc--CCC
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLL-SRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFD  552 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~-~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~  552 (699)
                      ...+..+..++.|++||+++|.+..                 ++ ..+..+..++.       |+|++|.++.++  .|+
T Consensus        65 ~lp~~~~~~l~~L~~L~L~~n~l~~-----------------~~~~~~~~l~~L~~-------L~L~~n~l~~~~~~~~~  120 (597)
T 3oja_B           65 KLPAALLDSFRQVELLNLNDLQIEE-----------------IDTYAFAYAHTIQK-------LYMGFNAIRYLPPHVFQ  120 (597)
T ss_dssp             EECTHHHHHCCCCSEEECTTSCCCE-----------------ECTTTTTTCTTCCE-------EECCSSCCCCCCTTTTT
T ss_pred             CcCHHHHccCCCCcEEECCCCCCCC-----------------CChHHhcCCCCCCE-------EECCCCcCCCCCHHHHc
Confidence            4455677888888888888887211                 11 11222233333       777777777665  567


Q ss_pred             CCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCc
Q 005381          553 KLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSI  619 (699)
Q Consensus       553 ~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~  619 (699)
                      .+++|++|+|++|.|+.+|+  |..+++|+.|+|++|.|+++ .+..++.+++|+.|+|++|.|+.+++
T Consensus       121 ~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~L~~N~l~~~~~  188 (597)
T 3oja_B          121 NVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERI-EDDTFQATTSLQNLQLSSNRLTHVDL  188 (597)
T ss_dssp             TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBC-CTTTTTTCTTCCEEECTTSCCSBCCG
T ss_pred             CCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCC-ChhhhhcCCcCcEEECcCCCCCCcCh
Confidence            77888888888888877776  67777888888888877775 33557777778888888887777653

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.37  E-value=1.5e-11  Score=127.53  Aligned_cols=182  Identities=12%  Similarity=-0.055  Sum_probs=163.6

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHH
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAW  108 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW  108 (699)
                      .........|.+ ++|++++.+++..+|.+..+|.....++...++            +++++..+++++..+|++..+|
T Consensus        27 ~~a~~~~~~g~~-~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~   93 (330)
T 3hym_B           27 SLAERHYYNCDF-KMCYKLTSVVMEKDPFHASCLPVHIGTLVELNK------------ANELFYLSHKLVDLYPSNPVSW   93 (330)
T ss_dssp             HHHHHHHHTTCH-HHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHHHcCCH-HHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhh------------HHHHHHHHHHHHHhCcCCHHHH
Confidence            444445566887 899999999999999999999999998887765            8999999999999999999999


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      ...+.++......+++++++++++++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|.+++.++...
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEH-DQAMAAYFTAAQLMKGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHTTTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCH-HHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            999999988733899999999999999999999999999999999998 7899999999999999999999999888776


Q ss_pred             hhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          189 LKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       189 ~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                      +.            ++++++.+.+++..+|++..+|+.+..++....+
T Consensus       173 ~~------------~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~  208 (330)
T 3hym_B          173 NN------------SKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGE  208 (330)
T ss_dssp             TC------------HHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTC
T ss_pred             hh------------HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccc
Confidence            44            7999999999999999999999999888866443

>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=99.37  E-value=1.7e-12  Score=134.94  Aligned_cols=171  Identities=22%  Similarity=0.156  Sum_probs=126.5

Q ss_pred             cccccccCCCCCccccchhhhHHhhhhccchHHHh-hhhccCCCCCCCCCCCCeEEccCCCCCccc--CCCCCcccCEEE
Q 005381          485 YNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLL-SRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKLLWVQMLD  561 (699)
Q Consensus       485 l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~-~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L~~L~~Ld  561 (699)
                      ..+|+.|++++|.+.                 .++ ..+..+.+++.       |++++|.++.+.  .+..+++|++|+
T Consensus        31 ~~~l~~L~l~~n~i~-----------------~~~~~~~~~~~~L~~-------L~l~~n~l~~~~~~~~~~l~~L~~L~   86 (285)
T 1ozn_A           31 PAASQRIFLHGNRIS-----------------HVPAASFRACRNLTI-------LWLHSNVLARIDAAAFTGLALLEQLD   86 (285)
T ss_dssp             CTTCSEEECTTSCCC-----------------EECTTTTTTCTTCCE-------EECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             CCCceEEEeeCCcCC-----------------ccCHHHcccCCCCCE-------EECCCCccceeCHhhcCCccCCCEEe
Confidence            468899999988721                 111 11222333333       999999999774  799999999999


Q ss_pred             ccCCC-CCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCC
Q 005381          562 LSHNE-LRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEW  638 (699)
Q Consensus       562 LS~N~-L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~  638 (699)
                      |++|. ++.+++  +..+++|+.|++++|.++.+ .+..+..+++|+.|++++|.|+.++..   .+..++.+..+++++
T Consensus        87 l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~n~l~~~~~~---~~~~l~~L~~L~l~~  162 (285)
T 1ozn_A           87 LSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQEL-GPGLFRGLAALQYLYLQDNALQALPDD---TFRDLGNLTHLFLHG  162 (285)
T ss_dssp             CCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCC-CTTTTTTCTTCCEEECCSSCCCCCCTT---TTTTCTTCCEEECCS
T ss_pred             CCCCCCccccCHHHhcCCcCCCEEECCCCcCCEE-CHhHhhCCcCCCEEECCCCcccccCHh---HhccCCCccEEECCC
Confidence            99997 888854  99999999999999999987 346788999999999999999988632   234444455567778


Q ss_pred             CccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccccccC
Q 005381          639 NHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       639 N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD~  695 (699)
                      |.+..+.          +..|..+ +|+.|+|++|.+.  ......+..+++|+.||-
T Consensus       163 n~l~~~~----------~~~~~~l~~L~~L~l~~n~l~--~~~~~~~~~l~~L~~L~l  208 (285)
T 1ozn_A          163 NRISSVP----------ERAFRGLHSLDRLLLHQNRVA--HVHPHAFRDLGRLMTLYL  208 (285)
T ss_dssp             SCCCEEC----------TTTTTTCTTCCEEECCSSCCC--EECTTTTTTCTTCCEEEC
T ss_pred             CcccccC----------HHHhcCccccCEEECCCCccc--ccCHhHccCcccccEeeC
Confidence            8775432          2358888 9999999999993  111123456788887763

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.37  E-value=5.8e-11  Score=117.69  Aligned_cols=170  Identities=16%  Similarity=0.068  Sum_probs=149.6

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|.+ ++|++.+.+++..+|++..+|...+.++...+.            +++++..+++++..+|++..+|...+.+
T Consensus        68 ~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~a~~  134 (243)
T 2q7f_A           68 SSVNEL-ERALAFYDKALELDSSAATAYYGAGNVYVVKEM------------YKEAKDMFEKALRAGMENGDLFYMLGTV  134 (243)
T ss_dssp             HHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHTCCSHHHHHHHHHH
T ss_pred             HHcCCH-HHHHHHHHHHHHcCCcchHHHHHHHHHHHHhcc------------HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            445666 799999999999999999999999988887754            8999999999999999999999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      +... +.+++++++++++++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|..++.+....+.    
T Consensus       135 ~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~----  208 (243)
T 2q7f_A          135 LVKL-EQPKLALPYLQRAVELNENDTEARFQFGMCLANEGML-DEALSQFAAVTEQDPGHADAFYNAGVTYAYKEN----  208 (243)
T ss_dssp             HHHT-SCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC----
T ss_pred             HHHh-ccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCcccHHHHHHHHHHHHHccC----
Confidence            8877 6899999999999999999999999999999999988 678899999999999999999999988877644    


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                              ++++++.+.+++..+|++..+|..+..+.
T Consensus       209 --------~~~A~~~~~~~~~~~p~~~~~~~~~~~l~  237 (243)
T 2q7f_A          209 --------REKALEMLDKAIDIQPDHMLALHAKKLLG  237 (243)
T ss_dssp             --------TTHHHHHHHHHHHHCTTCHHHHHHHTC--
T ss_pred             --------HHHHHHHHHHHHccCcchHHHHHHHHHHH
Confidence                    68999999999999999999998765554

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.36  E-value=3.4e-11  Score=129.26  Aligned_cols=183  Identities=9%  Similarity=-0.009  Sum_probs=92.9

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|++ ++|+..+++++.++|++..+|...+.++...+.            +++++..+++++..+|++..+|...+.+
T Consensus       180 ~~~g~~-~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~l~~~  246 (388)
T 1w3b_A          180 NAQGEI-WLAIHHFEKAVTLDPNFLDAYINLGNVLKEARI------------FDRAVAAYLRALSLSPNHAVVHGNLACV  246 (388)
T ss_dssp             HTTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC------------TTHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHcCCH-HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCcCCHHHHHHHHHH
Confidence            344444 567777777777777777777666666665543            4444445555555555555555444444


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhc-
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKV-  193 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~-  193 (699)
                      +... +.++++++.++++++.+|.+..+|...+.++...|.+ ++.+++++++++.+|.+..+|...+.++...+.... 
T Consensus       247 ~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  324 (388)
T 1w3b_A          247 YYEQ-GLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSV-AEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEA  324 (388)
T ss_dssp             HHHT-TCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHH
Confidence            4443 3444455555555555554444444444444444444 344444444444444444444444444433322000 


Q ss_pred             -----------cCc----------cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          194 -----------EGF----------VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       194 -----------~~~----------~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                                 ...          ....+.++++++.+.+++..+|++..+|+.+..++.
T Consensus       325 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~  384 (388)
T 1w3b_A          325 VRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLK  384 (388)
T ss_dssp             HHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHH
Confidence                       000          000012466666666666666666666666665553

>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=99.35  E-value=4e-13  Score=140.98  Aligned_cols=124  Identities=22%  Similarity=0.217  Sum_probs=91.3

Q ss_pred             EEccCCCCCccc---CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG---SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~---~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |++++|.++.++   .+..+++|++|++++|.++.+++  +..+++|+.|++++|.+++...|..+..+++|+.|+|++|
T Consensus       106 L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n  185 (306)
T 2z66_A          106 LDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC  185 (306)
T ss_dssp             EECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS
T ss_pred             EECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCC
Confidence            888888887664   57788888888888888855443  8888888888998888875223566788888999999999


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .|+.++.   ..+..++-+..+++++|.+..+.          +..+..+ +|+.|+|++|.|
T Consensus       186 ~l~~~~~---~~~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~L~~N~l  235 (306)
T 2z66_A          186 QLEQLSP---TAFNSLSSLQVLNMSHNNFFSLD----------TFPYKCLNSLQVLDYSLNHI  235 (306)
T ss_dssp             CCCEECT---TTTTTCTTCCEEECTTSCCSBCC----------SGGGTTCTTCCEEECTTSCC
T ss_pred             CcCCcCH---HHhcCCCCCCEEECCCCccCccC----------hhhccCcccCCEeECCCCCC
Confidence            8887742   23344444455577777764432          2357778 999999999999

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.35  E-value=3.1e-11  Score=128.32  Aligned_cols=177  Identities=8%  Similarity=0.009  Sum_probs=130.5

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|.+ ++|+.++.+++..+|++..+|+..+.++...++            +++++..+++++..+|++..+|...+.+
T Consensus        76 ~~~g~~-~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           76 LKEGDL-PVTILFMEAAILQDPGDAEAWQFLGITQAENEN------------EQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             HHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHCCCH-HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            344555 567777777777777777777777777666644            6667777777777777777777666666


Q ss_pred             HHhCC-------------------------------------------CChHHHHHHHHHHHHhCCC--ChhhhhHHHHH
Q 005381          115 LSKGH-------------------------------------------SSIDNELRLLDKFQKADSR--NFHAWNYRRFV  149 (699)
Q Consensus       115 L~~~~-------------------------------------------~~~~~EL~~~~k~L~~dpr--N~haW~yR~~v  149 (699)
                      +....                                           +.+++++++++++++++|.  +..+|...+.+
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            65441                                           2344556666666666666  77788888888


Q ss_pred             HHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          150 AASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       150 l~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      ....|.+ +++++++.++++.+|.+..+|...+.++...+.            ++++++.+.+++..+|++..+|+.+..
T Consensus       223 ~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~l~~  289 (365)
T 4eqf_A          223 FHLSGEF-NRAIDAFNAALTVRPEDYSLWNRLGATLANGDR------------SEEAVEAYTRALEIQPGFIRSRYNLGI  289 (365)
T ss_dssp             HHHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhcCCCchHHHHHHHH
Confidence            8888887 678888889999999988889888888877644            799999999999999999999999888


Q ss_pred             HHcCcCCC
Q 005381          230 LLDQTVRV  237 (699)
Q Consensus       230 Ll~~~~~~  237 (699)
                      ++....+.
T Consensus       290 ~~~~~g~~  297 (365)
T 4eqf_A          290 SCINLGAY  297 (365)
T ss_dssp             HHHHHTCC
T ss_pred             HHHHCCCH
Confidence            87665443

>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=99.35  E-value=2.4e-14  Score=141.01  Aligned_cols=162  Identities=23%  Similarity=0.294  Sum_probs=113.7

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      +.....++.++++.+.+......          ++.++..+..+.+++.       |++++|.++.++.+..+++|+.|+
T Consensus        14 ~~~~~~l~~l~l~~~~l~~~~~~----------l~~l~~~~~~l~~L~~-------L~ls~n~l~~l~~~~~l~~L~~L~   76 (198)
T 1ds9_A           14 FEERKSVVATEAEKVELHGMIPP----------IEKMDATLSTLKACKH-------LALSTNNIEKISSLSGMENLRILS   76 (198)
T ss_dssp             HHHTTCCCCTTCSEEECCBCCTT----------CCCCHHHHHHTTTCSE-------EECSEEEESCCCCHHHHTTCCEEE
T ss_pred             HHhcccccCcchheeEeccccCc----------HhhhhHHHhcCCCCCE-------EECCCCCCccccccccCCCCCEEE
Confidence            34456677777777664433222          1112223333444444       788888887777777788888888


Q ss_pred             ccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCc
Q 005381          562 LSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH  640 (699)
Q Consensus       562 LS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~  640 (699)
                      +++|.++.+|. +..+++|+.|++++|+|+++   +.+..+++|+.|+|++|+|+.++.                     
T Consensus        77 l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l---~~~~~l~~L~~L~l~~N~i~~~~~---------------------  132 (198)
T 1ds9_A           77 LGRNLIKKIENLDAVADTLEELWISYNQIASL---SGIEKLVNLRVLYMSNNKITNWGE---------------------  132 (198)
T ss_dssp             EEEEEECSCSSHHHHHHHCSEEEEEEEECCCH---HHHHHHHHSSEEEESEEECCCHHH---------------------
T ss_pred             CCCCCcccccchhhcCCcCCEEECcCCcCCcC---CccccCCCCCEEECCCCcCCchhH---------------------
Confidence            88888888877 66778888888888888775   357778888888888888876531                     


Q ss_pred             cceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CC-------ccchHHHhhcCCccccccCccCC
Q 005381          641 GQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VN-------EKFKSFLIKVLPGLKWLDGEQLH  699 (699)
Q Consensus       641 l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~-------~~~~~~~~~~l~~L~~LD~~~i~  699 (699)
                                     +..+..+ +|+.|++++|++ ..       ..+...++..+++|+.||+.+|+
T Consensus       133 ---------------~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld~~~i~  185 (198)
T 1ds9_A          133 ---------------IDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLDGMPVD  185 (198)
T ss_dssp             ---------------HHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEECCGGGT
T ss_pred             ---------------HHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEECCcccC
Confidence                           1246677 899999999999 21       34555667889999999999874

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.35  E-value=2.3e-11  Score=121.05  Aligned_cols=154  Identities=14%  Similarity=-0.036  Sum_probs=140.7

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      |.+..+|+.++.++...++            +++++..+++++..+|++..+|..++.++.+. +.+++++..+++++++
T Consensus         2 p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~-g~~~~A~~~~~~al~~   68 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGR------------YDAALTLFERALKENPQDPEALYWLARTQLKL-GLVNPALENGKTLVAR   68 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTC------------HHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHh
Confidence            7888999999999988865            99999999999999999999999999999987 6999999999999999


Q ss_pred             CCCChhhhhHHHHHHHhc-----------CCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHH
Q 005381          136 DSRNFHAWNYRRFVAASM-----------NRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLP  204 (699)
Q Consensus       136 dprN~haW~yR~~vl~~l-----------~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~  204 (699)
                      +|.+..+|...+.++...           |.+ ++.++.+.++++.+|.+..+|..++.++..+++            ++
T Consensus        69 ~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~-~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~------------~~  135 (217)
T 2pl2_A           69 TPRYLGGYMVLSEAYVALYRQAEDRERGKGYL-EQALSVLKDAERVNPRYAPLHLQRGLVYALLGE------------RD  135 (217)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HH
T ss_pred             CCCcHHHHHHHHHHHHHhhhhhhhhcccccCH-HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCC------------hH
Confidence            999999999999999999           887 689999999999999999999999999988755            79


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          205 DEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       205 eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                      ++++.+.+|+.++ ++..+|+.+..++....+
T Consensus       136 ~A~~~~~~al~~~-~~~~~~~~la~~~~~~g~  166 (217)
T 2pl2_A          136 KAEASLKQALALE-DTPEIRSALAELYLSMGR  166 (217)
T ss_dssp             HHHHHHHHHHHHC-CCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhcc-cchHHHHHHHHHHHHcCC
Confidence            9999999999999 999999988887765544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.34  E-value=3.2e-11  Score=119.63  Aligned_cols=180  Identities=14%  Similarity=0.071  Sum_probs=155.8

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHH
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHR  111 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR  111 (699)
                      ......|.+ ++|+.++.+++..+|++..+|...+.++...+.            +++++..+++++..+|++..+|...
T Consensus        31 ~~~~~~~~~-~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~l   97 (243)
T 2q7f_A           31 GRGSEFGDY-EKAAEAFTKAIEENKEDAIPYINFANLLSSVNE------------LERALAFYDKALELDSSAATAYYGA   97 (243)
T ss_dssp             ------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHhhCH-HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCcchHHHHHH
Confidence            334556777 799999999999999999999999999988765            8999999999999999999999999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhh
Q 005381          112 KWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKR  191 (699)
Q Consensus       112 ~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~  191 (699)
                      +.++... +.+++++++++++++.+|.+..+|...+.+....+.+ ++.+++++++++.+|.+..+|...+.++...+. 
T Consensus        98 a~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  174 (243)
T 2q7f_A           98 GNVYVVK-EMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQP-KLALPYLQRAVELNENDTEARFQFGMCLANEGM-  174 (243)
T ss_dssp             HHHHHHT-TCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC-
T ss_pred             HHHHHHh-ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccH-HHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCC-
Confidence            9999887 6999999999999999999999999999999999988 789999999999999999999999998887754 


Q ss_pred             hccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCC
Q 005381          192 KVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVD  238 (699)
Q Consensus       192 ~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~  238 (699)
                                 ++++++.+.+++..+|++..+|+.+..++....+.+
T Consensus       175 -----------~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  210 (243)
T 2q7f_A          175 -----------LDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENRE  210 (243)
T ss_dssp             -----------CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTT
T ss_pred             -----------HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHH
Confidence                       689999999999999999999999888886654443

>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=99.33  E-value=2.4e-12  Score=129.17  Aligned_cols=123  Identities=19%  Similarity=0.218  Sum_probs=96.4

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.|+.++  .|..+++|+.|+|++|.|+.+++  |.++++|+.|+|++|.|+.++ +..|..+++|+.|+|++|+
T Consensus        37 L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~-~~~f~~l~~L~~L~L~~N~  115 (220)
T 2v9t_B           37 IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELP-KSLFEGLFSLQLLLLNANK  115 (220)
T ss_dssp             EECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCccC-HhHccCCCCCCEEECCCCC
Confidence            888999988776  68888899999999999977744  888999999999999998873 3557888899999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.++..   .+..++.+..+++++|.++.+.          +..|..+ +|+.|+|++|++
T Consensus       116 l~~~~~~---~~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B          116 INCLRVD---AFQDLHNLNLLSLYDNKLQTIA----------KGTFSPLRAIQTMHLAQNPF  164 (220)
T ss_dssp             CCCCCTT---TTTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSSCE
T ss_pred             CCEeCHH---HcCCCCCCCEEECCCCcCCEEC----------HHHHhCCCCCCEEEeCCCCc
Confidence            9888533   3344444555677777775543          2467788 999999999999

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.33  E-value=8.8e-12  Score=113.49  Aligned_cols=122  Identities=11%  Similarity=0.018  Sum_probs=111.3

Q ss_pred             HHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381           96 SALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus        96 ~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      ++..+||+...+|..||..+.+. +.+++++++++++++++|.+..+|..++.+...+|.+ ++.+++++++|+.+|.+.
T Consensus         4 r~a~inP~~a~~~~~~G~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~-~~A~~~~~~al~~~p~~~   81 (126)
T 4gco_A            4 RLAYINPELAQEEKNKGNEYFKK-GDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEF-QRALDDCDTCIRLDSKFI   81 (126)
T ss_dssp             ---CCCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccH-HHHHHHHHHHHHhhhhhh
Confidence            45568999999999999999887 6999999999999999999999999999999999998 789999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          176 SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       176 SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      .+|.+++.++..++.            ++++++.+.+++.++|+|..++.-++-+|
T Consensus        82 ~a~~~lg~~~~~~~~------------~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           82 KGYIRKAACLVAMRE------------WSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCC------------HHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            999999999988855            89999999999999999999998766554

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.33  E-value=7.3e-14  Score=147.79  Aligned_cols=174  Identities=16%  Similarity=0.086  Sum_probs=125.9

Q ss_pred             CcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCC-ccc-CCCCC
Q 005381          477 HSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLS-RLG-SFDKL  554 (699)
Q Consensus       477 ~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~-~l~-~l~~L  554 (699)
                      ..++.+..+++|++||+++|.+...                ++..+..+.+++.       |++++|.++ .++ .+..+
T Consensus       116 ~~p~~~~~l~~L~~L~Ls~N~l~~~----------------~p~~~~~l~~L~~-------L~L~~N~l~~~~p~~l~~l  172 (313)
T 1ogq_A          116 AIPDFLSQIKTLVTLDFSYNALSGT----------------LPPSISSLPNLVG-------ITFDGNRISGAIPDSYGSF  172 (313)
T ss_dssp             ECCGGGGGCTTCCEEECCSSEEESC----------------CCGGGGGCTTCCE-------EECCSSCCEEECCGGGGCC
T ss_pred             cCCHHHhCCCCCCEEeCCCCccCCc----------------CChHHhcCCCCCe-------EECcCCcccCcCCHHHhhh
Confidence            4455677889999999999883321                1222333444444       999999998 565 78888


Q ss_pred             c-ccCEEEccCCCCC-CCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCc
Q 005381          555 L-WVQMLDLSHNELR-SIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLS  631 (699)
Q Consensus       555 ~-~L~~LdLS~N~L~-~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll  631 (699)
                      + .|+.|+|++|.++ .+|. +..+. |+.|++++|.+++. .+..+..+++|+.|+|++|.++..+.    .+..++-+
T Consensus       173 ~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~L~~N~l~~~~~----~~~~l~~L  246 (313)
T 1ogq_A          173 SKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGD-ASVLFGSDKNTQKIHLAKNSLAFDLG----KVGLSKNL  246 (313)
T ss_dssp             CTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEEC-CGGGCCTTSCCSEEECCSSEECCBGG----GCCCCTTC
T ss_pred             hhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCc-CCHHHhcCCCCCEEECCCCceeeecC----cccccCCC
Confidence            7 9999999999995 6666 88887 99999999999875 45778899999999999999986532    23444445


Q ss_pred             ccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC--CCccchHHHhhcCCcccccc
Q 005381          632 HSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI--VNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       632 ~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l--~~~~~~~~~~~~l~~L~~LD  694 (699)
                      ..+++++|.+..          ..|..+..+ +|+.|+|++|++  .+|..     ..+++|+.|+
T Consensus       247 ~~L~Ls~N~l~~----------~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~-----~~l~~L~~l~  297 (313)
T 1ogq_A          247 NGLDLRNNRIYG----------TLPQGLTQLKFLHSLNVSFNNLCGEIPQG-----GNLQRFDVSA  297 (313)
T ss_dssp             CEEECCSSCCEE----------CCCGGGGGCTTCCEEECCSSEEEEECCCS-----TTGGGSCGGG
T ss_pred             CEEECcCCcccC----------cCChHHhcCcCCCEEECcCCcccccCCCC-----ccccccChHH
Confidence            556777777743          235678888 999999999999  33332     3456665543

>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=99.33  E-value=3.5e-12  Score=146.98  Aligned_cols=165  Identities=20%  Similarity=0.236  Sum_probs=128.9

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      +..+..|+.|++++|.+                 ..++ .+..+.+|+.       |+|++|.++.++.+..|++|+.|+
T Consensus        39 ~~~L~~L~~L~l~~n~i-----------------~~l~-~l~~l~~L~~-------L~Ls~N~l~~~~~l~~l~~L~~L~   93 (605)
T 1m9s_A           39 QNELNSIDQIIANNSDI-----------------KSVQ-GIQYLPNVTK-------LFLNGNKLTDIKPLTNLKNLGWLF   93 (605)
T ss_dssp             HHHHTTCCCCBCTTCCC-----------------CCCT-TGGGCTTCCE-------EECTTSCCCCCGGGGGCTTCCEEE
T ss_pred             hhcCCCCCEEECcCCCC-----------------CCCh-HHccCCCCCE-------EEeeCCCCCCChhhccCCCCCEEE
Confidence            56788999999998872                 1111 1233444444       999999999988899999999999


Q ss_pred             ccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCcc
Q 005381          562 LSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHG  641 (699)
Q Consensus       562 LS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l  641 (699)
                      |++|.|+.++.+..+++|+.|+|++|.|+.+   +.+..|++|+.|+|++|.|+.++     .+..++.+..+++++|.+
T Consensus        94 Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l---~~l~~l~~L~~L~Ls~N~l~~l~-----~l~~l~~L~~L~Ls~N~l  165 (605)
T 1m9s_A           94 LDENKIKDLSSLKDLKKLKSLSLEHNGISDI---NGLVHLPQLESLYLGNNKITDIT-----VLSRLTKLDTLSLEDNQI  165 (605)
T ss_dssp             CCSSCCCCCTTSTTCTTCCEEECTTSCCCCC---GGGGGCTTCSEEECCSSCCCCCG-----GGGSCTTCSEEECCSSCC
T ss_pred             CcCCCCCCChhhccCCCCCEEEecCCCCCCC---ccccCCCccCEEECCCCccCCch-----hhcccCCCCEEECcCCcC
Confidence            9999999998899999999999999999886   56889999999999999999873     344455555567788877


Q ss_pred             ceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccccccC
Q 005381          642 QTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       642 ~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD~  695 (699)
                      ..+           +. +..+ +|+.|+|++|.|..  +.  .+..+++|+.||-
T Consensus       166 ~~~-----------~~-l~~l~~L~~L~Ls~N~i~~--l~--~l~~l~~L~~L~L  204 (605)
T 1m9s_A          166 SDI-----------VP-LAGLTKLQNLYLSKNHISD--LR--ALAGLKNLDVLEL  204 (605)
T ss_dssp             CCC-----------GG-GTTCTTCCEEECCSSCCCB--CG--GGTTCTTCSEEEC
T ss_pred             CCc-----------hh-hccCCCCCEEECcCCCCCC--Ch--HHccCCCCCEEEc
Confidence            432           22 7888 99999999999932  11  2466888887763

>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=99.33  E-value=1.1e-12  Score=126.52  Aligned_cols=125  Identities=22%  Similarity=0.323  Sum_probs=98.6

Q ss_pred             eEEccCCCCCcccCCCCCc-ccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          537 CLQLKNLSLSRLGSFDKLL-WVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       537 ~L~Ls~n~l~~l~~l~~L~-~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      .|++++|.++.++.+..+. +|+.|+|++|.|+.++.+..+++|+.|+|++|.|++++ +..+..+++|+.|+|++|.|+
T Consensus        23 ~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~~~-~~~~~~l~~L~~L~L~~N~i~  101 (176)
T 1a9n_A           23 ELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIG-EGLDQALPDLTELILTNNSLV  101 (176)
T ss_dssp             EEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEEC-SCHHHHCTTCCEEECCSCCCC
T ss_pred             EEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcccccccCCCCCEEECCCCcccccC-cchhhcCCCCCEEECCCCcCC
Confidence            3999999999888777776 99999999999988866999999999999999999872 233588999999999999998


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccccc
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWL  693 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~L  693 (699)
                      .+|.  .                                  ..+..+ +|+.|+|++|++ ..+.++..++..+|+|+.|
T Consensus       102 ~~~~--~----------------------------------~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~L  145 (176)
T 1a9n_A          102 ELGD--L----------------------------------DPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVL  145 (176)
T ss_dssp             CGGG--G----------------------------------GGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEE
T ss_pred             cchh--h----------------------------------HhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCcccee
Confidence            8751  0                                  134455 788888888888 4445545566778888888


Q ss_pred             cCccC
Q 005381          694 DGEQL  698 (699)
Q Consensus       694 D~~~i  698 (699)
                      |....
T Consensus       146 d~~~n  150 (176)
T 1a9n_A          146 DFQKV  150 (176)
T ss_dssp             TTEEC
T ss_pred             CCCcC
Confidence            87543

>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=99.33  E-value=7.4e-13  Score=141.27  Aligned_cols=134  Identities=20%  Similarity=0.278  Sum_probs=101.5

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      +++++|.++.++.+..+++|+.|++++|.++.++.+..+++|+.|++++|.++.+   +.+..+++|+.|++++|.|+.+
T Consensus       204 L~l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~l~~n~l~~~  280 (347)
T 4fmz_A          204 FTAYVNQITDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDI---NAVKDLTKLKMLNVGSNQISDI  280 (347)
T ss_dssp             EECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCC---GGGTTCTTCCEEECCSSCCCCC
T ss_pred             eecccCCCCCCchhhcCCcCCEEEccCCccCCCcchhcCCCCCEEECCCCccCCC---hhHhcCCCcCEEEccCCccCCC
Confidence            8888888887777888888999999999888887788888899999999988876   5577888899999999988887


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC-CccchHHHhhcCCcccccc
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV-NEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~-~~~~~~~~~~~l~~L~~LD  694 (699)
                      +  .   +..++-+..+++++|.+..          ..|..+..+ +|+.|+|++|++. .+.     +..+++|+.||
T Consensus       281 ~--~---~~~l~~L~~L~L~~n~l~~----------~~~~~l~~l~~L~~L~L~~n~l~~~~~-----~~~l~~L~~L~  339 (347)
T 4fmz_A          281 S--V---LNNLSQLNSLFLNNNQLGN----------EDMEVIGGLTNLTTLFLSQNHITDIRP-----LASLSKMDSAD  339 (347)
T ss_dssp             G--G---GGGCTTCSEEECCSSCCCG----------GGHHHHHTCTTCSEEECCSSSCCCCGG-----GGGCTTCSEES
T ss_pred             h--h---hcCCCCCCEEECcCCcCCC----------cChhHhhccccCCEEEccCCccccccC-----hhhhhccceee
Confidence            4  2   2333334445666666532          234567788 9999999999993 221     46688888776

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.32  E-value=9.5e-11  Score=117.37  Aligned_cols=183  Identities=11%  Similarity=0.010  Sum_probs=161.4

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC
Q 005381           25 RVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS  104 (699)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs  104 (699)
                      ..+..........|++ ++|++.+.+++..+|++..+|...+.++...++            +++++..+++++..+|.+
T Consensus        38 ~~~~~~a~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~------------~~~A~~~~~~a~~~~~~~  104 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNT-EQAKVPLRKALEIDPSSADAHAALAVVFQTEME------------PKLADEEYRKALASDSRN  104 (252)
T ss_dssp             HHHHHHHHHHHHTTCT-GGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCh-HHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCcCc
Confidence            3444444555667777 799999999999999999999999999988765            899999999999999999


Q ss_pred             hHHHHHHHHHHHhCCCChHHHHHHHHHHHH--hCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHH
Q 005381          105 YGAWHHRKWILSKGHSSIDNELRLLDKFQK--ADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRS  182 (699)
Q Consensus       105 y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~--~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~  182 (699)
                      ..+|...+.++... +.+++++++++++++  .+|.+..+|...+.+....+.+ +++++++.++++.+|.+..+|...+
T Consensus       105 ~~~~~~la~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~la  182 (252)
T 2ho1_A          105 ARVLNNYGGFLYEQ-KRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKP-AQAKEYFEKSLRLNRNQPSVALEMA  182 (252)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-hHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhcCcccHHHHHHHH
Confidence            99999999999877 699999999999999  8999999999999999999988 7899999999999999999999999


Q ss_pred             HHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          183 LLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       183 ~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      .++...+.            ++++++.+.+++..+|++..+|..+..++...
T Consensus       183 ~~~~~~g~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  222 (252)
T 2ho1_A          183 DLLYKERE------------YVPARQYYDLFAQGGGQNARSLLLGIRLAKVF  222 (252)
T ss_dssp             HHHHHTTC------------HHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHcCC------------HHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHc
Confidence            88877644            79999999999999999999988877776543

>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=99.32  E-value=6.9e-13  Score=140.81  Aligned_cols=192  Identities=11%  Similarity=0.046  Sum_probs=115.3

Q ss_pred             CCcCCCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCC
Q 005381          472 ANKISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSF  551 (699)
Q Consensus       472 ~~~~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l  551 (699)
                      ....+.....+..+++|++||+++|.....              ......+..+.+++.       |++++|.++.++..
T Consensus       131 n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~--------------~~~~~~~~~l~~L~~-------L~l~~n~l~~l~~~  189 (330)
T 1xku_A          131 NEITKVRKSVFNGLNQMIVVELGTNPLKSS--------------GIENGAFQGMKKLSY-------IRIADTNITTIPQG  189 (330)
T ss_dssp             SCCCBBCHHHHTTCTTCCEEECCSSCCCGG--------------GBCTTGGGGCTTCCE-------EECCSSCCCSCCSS
T ss_pred             CcccccCHhHhcCCccccEEECCCCcCCcc--------------CcChhhccCCCCcCE-------EECCCCccccCCcc
Confidence            333455667788889999999988873110              001111222333333       77888887776621


Q ss_pred             CCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCC
Q 005381          552 DKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSP  629 (699)
Q Consensus       552 ~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~  629 (699)
                      . .++|+.|++++|.++.+++  +..+++|+.|+|++|.|+++. +..+..+++|+.|+|++|+|+.+|.    .+..++
T Consensus       190 ~-~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-~~~~~~l~~L~~L~L~~N~l~~lp~----~l~~l~  263 (330)
T 1xku_A          190 L-PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVD-NGSLANTPHLRELHLNNNKLVKVPG----GLADHK  263 (330)
T ss_dssp             C-CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEEC-TTTGGGSTTCCEEECCSSCCSSCCT----TTTTCS
T ss_pred             c-cccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeC-hhhccCCCCCCEEECCCCcCccCCh----hhccCC
Confidence            1 2678888888888876644  777888888888888877752 3457777788888888888877652    234444


Q ss_pred             CcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          630 LSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       630 ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      .+..+++++|.++.+..+...    .+...... .|+.|++++|++......+..+..++.++.||
T Consensus       264 ~L~~L~l~~N~i~~~~~~~f~----~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~  325 (330)
T 1xku_A          264 YIQVVYLHNNNISAIGSNDFC----PPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQ  325 (330)
T ss_dssp             SCCEEECCSSCCCCCCTTSSS----CSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEE
T ss_pred             CcCEEECCCCcCCccChhhcC----CcccccccccccceEeecCcccccccCccccccccceeEEE
Confidence            455567777777554432000    00111223 78888888888832222222334466666654

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

Probab=99.32  E-value=1e-12  Score=157.16  Aligned_cols=126  Identities=16%  Similarity=0.157  Sum_probs=74.1

Q ss_pred             CCCcHHHHHhcccccccCCCCCc-ccc-chhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccC--
Q 005381          475 ISHSEEVLELYNDLMRLDPTHVQ-YYK-DQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGS--  550 (699)
Q Consensus       475 ~~~~~~~l~~l~~L~~LDls~n~-~~~-~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~--  550 (699)
                      .+..+..+..+++|+.||+++|. +.. .++..+.  .       +...+..+.+++.       |+|++|.++.+|.  
T Consensus       504 ~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~--~-------L~~~~~~l~~L~~-------L~Ls~N~L~~ip~~~  567 (876)
T 4ecn_A          504 MTQLPDFLYDLPELQSLNIACNRGISAAQLKADWT--R-------LADDEDTGPKIQI-------FYMGYNNLEEFPASA  567 (876)
T ss_dssp             CCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHH--H-------HHHCTTTTTTCCE-------EECCSSCCCBCCCHH
T ss_pred             CccChHHHhCCCCCCEEECcCCCCcccccchHHHH--h-------hhhcccccCCccE-------EEeeCCcCCccCChh
Confidence            45666778888999999999886 332 2322110  0       0001111222222       6666666666654  


Q ss_pred             -CCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCcccccccc-ccccccccccCCCCC
Q 005381          551 -FDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKS-LRALNISYNEIGAHS  618 (699)
Q Consensus       551 -l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~-L~~L~Ls~N~I~~lp  618 (699)
                       +..+++|+.|+|++|.++.+|.|..+++|+.|+|++|.|+.+  |..+..+++ |+.|+|++|.|+.+|
T Consensus       568 ~l~~L~~L~~L~Ls~N~l~~lp~~~~L~~L~~L~Ls~N~l~~l--p~~l~~l~~~L~~L~Ls~N~L~~lp  635 (876)
T 4ecn_A          568 SLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEI--PEDFCAFTDQVEGLGFSHNKLKYIP  635 (876)
T ss_dssp             HHTTCTTCCEEECTTSCCCBCCCCCTTSEESEEECCSSCCSCC--CTTSCEECTTCCEEECCSSCCCSCC
T ss_pred             hhhcCCCCCEEECCCCCcccchhhcCCCcceEEECcCCccccc--hHHHhhccccCCEEECcCCCCCcCc
Confidence             666666666666666666666666666666666666666644  445666666 666666666666554

>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=99.32  E-value=2e-12  Score=138.68  Aligned_cols=142  Identities=19%  Similarity=0.222  Sum_probs=84.7

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc-
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN-  612 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N-  612 (699)
                      |++++|.++.++  .+..+++|++|+|++|.++.++.  |..+++|+.|++++|+++.++....+..+++|+.|++++| 
T Consensus        81 L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~  160 (353)
T 2z80_A           81 LVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMD  160 (353)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESS
T ss_pred             EECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCc
Confidence            777777777654  57777777777777777777665  6777777777777777776632235667777777777777 


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccc
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLK  691 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~  691 (699)
                      .++.++.   ..+..++.+..+++++|.+...          .|..+..+ +|+.|++++|.+.  .+.......+++|+
T Consensus       161 ~~~~~~~---~~~~~l~~L~~L~l~~n~l~~~----------~~~~l~~l~~L~~L~l~~n~l~--~~~~~~~~~~~~L~  225 (353)
T 2z80_A          161 TFTKIQR---KDFAGLTFLEELEIDASDLQSY----------EPKSLKSIQNVSHLILHMKQHI--LLLEIFVDVTSSVE  225 (353)
T ss_dssp             SCCEECT---TTTTTCCEEEEEEEEETTCCEE----------CTTTTTTCSEEEEEEEECSCST--THHHHHHHHTTTEE
T ss_pred             cccccCH---HHccCCCCCCEEECCCCCcCcc----------CHHHHhccccCCeecCCCCccc--cchhhhhhhccccc
Confidence            4665532   2223333333345555554332          13456666 6666666666662  22223334455555


Q ss_pred             ccc
Q 005381          692 WLD  694 (699)
Q Consensus       692 ~LD  694 (699)
                      .||
T Consensus       226 ~L~  228 (353)
T 2z80_A          226 CLE  228 (353)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            543

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.31  E-value=9.4e-11  Score=121.45  Aligned_cols=165  Identities=11%  Similarity=-0.008  Sum_probs=108.2

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++|+..+.+++..+|++..+|...+.+....+            .+++++..+++++..+|++..+|...+.++... +.
T Consensus       142 ~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~------------~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~-~~  208 (330)
T 3hym_B          142 DQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTN------------NSKLAERFFSQALSIAPEDPFVMHEVGVVAFQN-GE  208 (330)
T ss_dssp             HHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTT------------CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHHHHHHHh------------hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc-cc
Confidence            34444444444444444444444444444332            266666777777777777777777776666655 46


Q ss_pred             hHHHHHHHHHHHHhC---------CCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          122 IDNELRLLDKFQKAD---------SRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       122 ~~~EL~~~~k~L~~d---------prN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                      +++++.+++++++..         |.+..+|...+.+....|.+ +++++++.++++.+|.+..+|...+.++..++.  
T Consensus       209 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~--  285 (330)
T 3hym_B          209 WKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY-AEALDYHRQALVLIPQNASTYSAIGYIHSLMGN--  285 (330)
T ss_dssp             HHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTC--
T ss_pred             HHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH-HHHHHHHHHHHhhCccchHHHHHHHHHHHHhcc--
Confidence            677777777777665         55556677777777666666 567777777777777777777777777666543  


Q ss_pred             ccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          193 VEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       193 ~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                                ++++++.+.+++..+|++..+|..+...+.
T Consensus       286 ----------~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  315 (330)
T 3hym_B          286 ----------FENAVDYFHTALGLRRDDTFSVTMLGHCIE  315 (330)
T ss_dssp             ----------HHHHHHHHHTTTTTCSCCHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHHHccCCCchHHHHHHHHHHH
Confidence                      678888888888888888888887777664

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.31  E-value=1.1e-11  Score=116.17  Aligned_cols=138  Identities=5%  Similarity=-0.099  Sum_probs=126.0

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      .+++ ++|+..+.+++..+|++..+|...+.+....++            +++++..++++++.+|++..+|..++.++.
T Consensus        10 ~~~~-e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~------------~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   76 (150)
T 4ga2_A           10 KADV-ERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKE------------YDLAKKYICTYINVQERDPKAHRFLGLLYE   76 (150)
T ss_dssp             HHHH-HHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             cChH-HHHHHHHHHhcccCcccHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            3444 799999999999999999999999999988865            999999999999999999999999999999


Q ss_pred             hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          117 KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       117 ~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      +. +.+++++..++++++++|.+..+|...+.++...+.+.+....|++++++.+|.|..+|.-|+.++...
T Consensus        77 ~~-~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~  147 (150)
T 4ga2_A           77 LE-ENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCE  147 (150)
T ss_dssp             HT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTC
T ss_pred             Hc-CchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh
Confidence            88 699999999999999999999999999999999999855555567999999999999999999887654

>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=99.31  E-value=3.7e-13  Score=144.37  Aligned_cols=151  Identities=15%  Similarity=0.166  Sum_probs=75.0

Q ss_pred             EEccCCCCCcccC---CCCCcccCEEEccCC-CCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          538 LQLKNLSLSRLGS---FDKLLWVQMLDLSHN-ELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l~~---l~~L~~L~~LdLS~N-~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      |++++|.++.++.   +..+++|+.|++++| .++.+++  |..+++|+.|++++|.++++ .+..+..+++|+.|++++
T Consensus       129 L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~l~~l~~L~~L~l~~  207 (353)
T 2z80_A          129 LNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSY-EPKSLKSIQNVSHLILHM  207 (353)
T ss_dssp             EECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE-CTTTTTTCSEEEEEEEEC
T ss_pred             EECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCcc-CHHHHhccccCCeecCCC
Confidence            6666666655542   555666666666665 3454433  55566666666666665554 234455555555555555


Q ss_pred             ccCCCCCcccccccCCCCCcccccCCCCccceee-----------------c---C-CcchhhhhhccCCCC-CccEEEe
Q 005381          612 NEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVI-----------------D---D-DIKSYWEAYFILKGL-NLTQFDI  669 (699)
Q Consensus       612 N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~-----------------~---~-~~~~~~~~p~~l~~L-~L~~LdL  669 (699)
                      |.++.+|.....   .++.+..+++++|.+....                 +   . .++....+|..+..+ +|+.|+|
T Consensus       208 n~l~~~~~~~~~---~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~L  284 (353)
T 2z80_A          208 KQHILLLEIFVD---VTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEF  284 (353)
T ss_dssp             SCSTTHHHHHHH---HTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEEC
T ss_pred             Cccccchhhhhh---hcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEEC
Confidence            555544311110   1111122233333332110                 0   0 222333456667777 7888888


Q ss_pred             cCCCCCCccchHHHhhcCCcccccc
Q 005381          670 VGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       670 s~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      ++|.|.  .+...++..+++|+.||
T Consensus       285 s~N~l~--~i~~~~~~~l~~L~~L~  307 (353)
T 2z80_A          285 SRNQLK--SVPDGIFDRLTSLQKIW  307 (353)
T ss_dssp             CSSCCC--CCCTTTTTTCTTCCEEE
T ss_pred             CCCCCC--ccCHHHHhcCCCCCEEE
Confidence            888772  11122234566666554

>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=99.31  E-value=7.2e-13  Score=139.03  Aligned_cols=125  Identities=19%  Similarity=0.199  Sum_probs=101.2

Q ss_pred             CeEEccCCCCCccc--CCCCCcccCEEEccCCCCCC--CcC-CccccccceeecccCCCCCCCCCccccccccccccccc
Q 005381          536 MCLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRS--IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNIS  610 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~--l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls  610 (699)
                      +.|++++|.++.+.  .+..+++|+.|+|++|.++.  +|. +..+++|+.|++++|.|+++ .+..+..+++|+.|+|+
T Consensus       129 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~L~  207 (306)
T 2z66_A          129 IYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQL-SPTAFNSLSSLQVLNMS  207 (306)
T ss_dssp             CEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEE-CTTTTTTCTTCCEEECT
T ss_pred             CEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCc-CHHHhcCCCCCCEEECC
Confidence            34999999998654  68899999999999999965  666 99999999999999999886 35778899999999999


Q ss_pred             cccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC--CccEEEecCCCC
Q 005381          611 YNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL--NLTQFDIVGNAI  674 (699)
Q Consensus       611 ~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L--~L~~LdLs~N~l  674 (699)
                      +|.|+.++...   +..++-+..+++++|.+....          |..+..+  +|+.|+|++|++
T Consensus       208 ~N~l~~~~~~~---~~~l~~L~~L~L~~N~l~~~~----------~~~~~~~~~~L~~L~L~~N~~  260 (306)
T 2z66_A          208 HNNFFSLDTFP---YKCLNSLQVLDYSLNHIMTSK----------KQELQHFPSSLAFLNLTQNDF  260 (306)
T ss_dssp             TSCCSBCCSGG---GTTCTTCCEEECTTSCCCBCS----------SSSCCCCCTTCCEEECTTCCE
T ss_pred             CCccCccChhh---ccCcccCCEeECCCCCCcccC----------HHHHHhhhccCCEEEccCCCe
Confidence            99999986322   344445555678888775432          3456665  799999999999

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.31  E-value=2.5e-10  Score=111.33  Aligned_cols=177  Identities=12%  Similarity=0.043  Sum_probs=151.3

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      .......|.+ ++|++.+.+++..+|++..+|...+.++...+.            +++++..+++++..+|++..+|..
T Consensus        15 ~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~   81 (225)
T 2vq2_A           15 AMEYMRGQDY-RQATASIEDALKSDPKNELAWLVRAEIYQYLKV------------NDKAQESFRQALSIKPDSAEINNN   81 (225)
T ss_dssp             HHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHhhH-HHHHHHHHHHHHhCccchHHHHHHHHHHHHcCC------------hHHHHHHHHHHHHhCCCChHHHHH
Confidence            3344456776 799999999999999999999999998887765            899999999999999999999999


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHH--hCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQK--ADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~--~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      .+.++....+.+++++++++++++  .+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|...+.++...
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~  160 (225)
T 2vq2_A           82 YGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQF-GLAEAYLKRSLAAQPQFPPAFKELARTKMLA  160 (225)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCchHHHHHHHHHHHc
Confidence            999888651489999999999999  7777789999999999999988 6789999999999999999999999888776


Q ss_pred             hhhhccCccchhchHHHHHHHHHHHHHhCC-CCchhHHHHHHHHcC
Q 005381          189 LKRKVEGFVSKEKVLPDEYEFVHQAIFTDP-DDQSGWFYHLWLLDQ  233 (699)
Q Consensus       189 ~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP-~d~SaW~Y~~~Ll~~  233 (699)
                      +.            ++++++.+.+++..+| .+..+|.....+...
T Consensus       161 ~~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (225)
T 2vq2_A          161 GQ------------LGDADYYFKKYQSRVEVLQADDLLLGWKIAKA  194 (225)
T ss_dssp             TC------------HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHH
T ss_pred             CC------------HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHh
Confidence            44            7899999999999999 888888665555443

>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=99.31  E-value=9.9e-13  Score=140.27  Aligned_cols=135  Identities=19%  Similarity=0.210  Sum_probs=91.3

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.++.+..+++|+.|++++|.++.++.+..+++|+.|++++|.++.+   ..+..+++|+.|++++|.++.+
T Consensus       182 L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~l~~n~l~~~  258 (347)
T 4fmz_A          182 LSLNYNQIEDISPLASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDL---SPLANLSQLTWLEIGTNQISDI  258 (347)
T ss_dssp             EECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCC---GGGTTCTTCCEEECCSSCCCCC
T ss_pred             EEccCCcccccccccCCCccceeecccCCCCCCchhhcCCcCCEEEccCCccCCC---cchhcCCCCCEEECCCCccCCC
Confidence            7777777776666677777777777777776666677777777777777777765   2267777777777777777775


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +     .+..++-+..+++++|.+..+            ..+..+ +|+.|+|++|.+.  ......+..+++|+.||
T Consensus       259 ~-----~~~~l~~L~~L~l~~n~l~~~------------~~~~~l~~L~~L~L~~n~l~--~~~~~~l~~l~~L~~L~  317 (347)
T 4fmz_A          259 N-----AVKDLTKLKMLNVGSNQISDI------------SVLNNLSQLNSLFLNNNQLG--NEDMEVIGGLTNLTTLF  317 (347)
T ss_dssp             G-----GGTTCTTCCEEECCSSCCCCC------------GGGGGCTTCSEEECCSSCCC--GGGHHHHHTCTTCSEEE
T ss_pred             h-----hHhcCCCcCEEEccCCccCCC------------hhhcCCCCCCEEECcCCcCC--CcChhHhhccccCCEEE
Confidence            3     233333344446666655332            246677 8999999999984  22334556788888776

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.31  E-value=9.8e-11  Score=116.77  Aligned_cols=181  Identities=14%  Similarity=0.098  Sum_probs=158.5

Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---
Q 005381           28 QSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---  104 (699)
Q Consensus        28 ~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---  104 (699)
                      ..........|.+ ++|+.++.+++..+ ++..+|..++.++...+.            +++++..+++++..+|++   
T Consensus         9 ~~~g~~~~~~~~~-~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~   74 (258)
T 3uq3_A            9 KAEGNKFYKARQF-DEAIEHYNKAWELH-KDITYLNNRAAAEYEKGE------------YETAISTLNDAVEQGREMRAD   74 (258)
T ss_dssp             HHHHHHHHHTTCH-HHHHHHHHHHHHHS-CCTHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHhccH-HHHHHHHHHHHHhh-ccHHHHHHHHHHHHHccc------------HHHHHHHHHHHHHhCcccccc
Confidence            3334444567777 89999999999999 999999999999998865            899999999999999987   


Q ss_pred             ----hHHHHHHHHHHHhCCCChHHHHHHHHHHHH--------------------------hCCCChhhhhHHHHHHHhcC
Q 005381          105 ----YGAWHHRKWILSKGHSSIDNELRLLDKFQK--------------------------ADSRNFHAWNYRRFVAASMN  154 (699)
Q Consensus       105 ----y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~--------------------------~dprN~haW~yR~~vl~~l~  154 (699)
                          ..+|...+.++... +.++++++.++++++                          .+|.+..+|...+.+....+
T Consensus        75 ~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           75 YKVISKSFARIGNAYHKL-GDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHHHHc-ccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhc
Confidence                78999999999877 588999999999888                          77788899999999999999


Q ss_pred             CChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          155 RSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       155 ~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      .+ ++.+++++++++.+|.+..+|..++.++...+.            ++++++.+.+++..+|++..+|+.+..++...
T Consensus       154 ~~-~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  220 (258)
T 3uq3_A          154 DW-PNAVKAYTEMIKRAPEDARGYSNRAAALAKLMS------------FPEAIADCNKAIEKDPNFVRAYIRKATAQIAV  220 (258)
T ss_dssp             CH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             CH-HHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCC------------HHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHH
Confidence            88 689999999999999999999999998887754            79999999999999999999999988887664


Q ss_pred             CC
Q 005381          235 VR  236 (699)
Q Consensus       235 ~~  236 (699)
                      .+
T Consensus       221 g~  222 (258)
T 3uq3_A          221 KE  222 (258)
T ss_dssp             TC
T ss_pred             hh
Confidence            43

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.30  E-value=1.2e-12  Score=138.42  Aligned_cols=138  Identities=21%  Similarity=0.153  Sum_probs=77.7

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--C-ccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--L-EALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l-~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |++++|.++.++  .+..+++|+.|+|++|.++.++.  + ..+++|+.|+|++|.|+.+   .....+++|+.|+|++|
T Consensus       125 L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~---~~~~~l~~L~~L~Ls~N  201 (317)
T 3o53_A          125 IYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDV---KGQVVFAKLKTLDLSSN  201 (317)
T ss_dssp             EECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE---ECCCCCTTCCEEECCSS
T ss_pred             EECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccc---ccccccccCCEEECCCC
Confidence            556666666543  45556666666666666655433  3 3556666666666666554   22334566666666666


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccc
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLK  691 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~  691 (699)
                      +|+.+|..    +..++-+..+++++|.+.           .+|..+..+ +|+.|+|++|++... .....+..++.|+
T Consensus       202 ~l~~l~~~----~~~l~~L~~L~L~~N~l~-----------~l~~~~~~l~~L~~L~l~~N~~~~~-~~~~~~~~~~~L~  265 (317)
T 3o53_A          202 KLAFMGPE----FQSAAGVTWISLRNNKLV-----------LIEKALRFSQNLEHFDLRGNGFHCG-TLRDFFSKNQRVQ  265 (317)
T ss_dssp             CCCEECGG----GGGGTTCSEEECTTSCCC-----------EECTTCCCCTTCCEEECTTCCCBHH-HHHHHHHTCHHHH
T ss_pred             cCCcchhh----hcccCcccEEECcCCccc-----------chhhHhhcCCCCCEEEccCCCccCc-CHHHHHhccccce
Confidence            66665421    222223333455555553           235567777 888888888888311 2233445566666


Q ss_pred             ccc
Q 005381          692 WLD  694 (699)
Q Consensus       692 ~LD  694 (699)
                      .|+
T Consensus       266 ~l~  268 (317)
T 3o53_A          266 TVA  268 (317)
T ss_dssp             HHH
T ss_pred             EEE
Confidence            554

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.30  E-value=4.5e-13  Score=141.68  Aligned_cols=177  Identities=17%  Similarity=0.093  Sum_probs=128.5

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCC-ccc-CCCC
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLS-RLG-SFDK  553 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~-~l~-~l~~  553 (699)
                      +..+..++.+++|++||+++|.+...+                +..+..+.+++.       |++++|.++ .++ .+..
T Consensus        91 ~~~p~~l~~l~~L~~L~Ls~n~l~~~~----------------p~~~~~l~~L~~-------L~Ls~N~l~~~~p~~~~~  147 (313)
T 1ogq_A           91 GPIPPAIAKLTQLHYLYITHTNVSGAI----------------PDFLSQIKTLVT-------LDFSYNALSGTLPPSISS  147 (313)
T ss_dssp             SCCCGGGGGCTTCSEEEEEEECCEEEC----------------CGGGGGCTTCCE-------EECCSSEEESCCCGGGGG
T ss_pred             ccCChhHhcCCCCCEEECcCCeeCCcC----------------CHHHhCCCCCCE-------EeCCCCccCCcCChHHhc
Confidence            344556788899999999988733222                222333444444       999999998 455 7889


Q ss_pred             CcccCEEEccCCCCC-CCcC-Ccccc-ccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCC
Q 005381          554 LLWVQMLDLSHNELR-SIEG-LEALQ-LLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPL  630 (699)
Q Consensus       554 L~~L~~LdLS~N~L~-~l~~-l~~L~-~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~l  630 (699)
                      +++|++|+|++|.++ .+|. +..++ +|+.|++++|.+++. .|..+..+. |+.|+|++|.++..+.   ..+..++.
T Consensus       148 l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~-~~~~~~~l~-L~~L~Ls~N~l~~~~~---~~~~~l~~  222 (313)
T 1ogq_A          148 LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGK-IPPTFANLN-LAFVDLSRNMLEGDAS---VLFGSDKN  222 (313)
T ss_dssp             CTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEE-CCGGGGGCC-CSEEECCSSEEEECCG---GGCCTTSC
T ss_pred             CCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeecc-CChHHhCCc-ccEEECcCCcccCcCC---HHHhcCCC
Confidence            999999999999996 7777 88888 899999999999854 357777776 9999999999987642   33444445


Q ss_pred             cccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC--CCccchHHHhhcCCccccccC
Q 005381          631 SHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI--VNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       631 l~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l--~~~~~~~~~~~~l~~L~~LD~  695 (699)
                      +..+++++|.+...           +..+..+ +|+.|+|++|.|  ..+.    .+..+++|+.||=
T Consensus       223 L~~L~L~~N~l~~~-----------~~~~~~l~~L~~L~Ls~N~l~~~~p~----~l~~l~~L~~L~L  275 (313)
T 1ogq_A          223 TQKIHLAKNSLAFD-----------LGKVGLSKNLNGLDLRNNRIYGTLPQ----GLTQLKFLHSLNV  275 (313)
T ss_dssp             CSEEECCSSEECCB-----------GGGCCCCTTCCEEECCSSCCEECCCG----GGGGCTTCCEEEC
T ss_pred             CCEEECCCCceeee-----------cCcccccCCCCEEECcCCcccCcCCh----HHhcCcCCCEEEC
Confidence            55567777766432           2347778 999999999999  3222    2456888887763

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.30  E-value=2.7e-12  Score=120.01  Aligned_cols=122  Identities=30%  Similarity=0.322  Sum_probs=100.7

Q ss_pred             EEccCCCCC--ccc-CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLS--RLG-SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~--~l~-~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      |++++|.++  .++ .+..+++|+.|++++|.++.++.+..+++|+.|++++|.|++. .|..+..+++|+.|++++|.|
T Consensus        22 L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~ls~N~i  100 (149)
T 2je0_A           22 LVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGG-LEVLAEKCPNLTHLNLSGNKI  100 (149)
T ss_dssp             EECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSCCCSC-THHHHHHCTTCCEEECTTSCC
T ss_pred             EEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCcccch-HHHHhhhCCCCCEEECCCCcC
Confidence            999999998  676 6688999999999999998885599999999999999999884 345566789999999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCcccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~  692 (699)
                      +.++.                                    +..+..+ +|+.|++++|++ ..+.+....+..+++|+.
T Consensus       101 ~~~~~------------------------------------~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~  144 (149)
T 2je0_A          101 KDLST------------------------------------IEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTY  144 (149)
T ss_dssp             CSHHH------------------------------------HGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCE
T ss_pred             CChHH------------------------------------HHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCccc
Confidence            87631                                    2356667 899999999999 444555567788999999


Q ss_pred             ccCc
Q 005381          693 LDGE  696 (699)
Q Consensus       693 LD~~  696 (699)
                      ||..
T Consensus       145 L~l~  148 (149)
T 2je0_A          145 LDGY  148 (149)
T ss_dssp             ETTB
T ss_pred             ccCC
Confidence            9864

>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=99.30  E-value=3.3e-12  Score=142.55  Aligned_cols=80  Identities=25%  Similarity=0.298  Sum_probs=41.0

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++.+.  .+..+++|+.|+|++|.++.+++  |..+++|+.|+|++|.++.++ +..+..+++|+.|+|++|.
T Consensus       109 L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~l~~l~~L~~L~l~~n~  187 (477)
T 2id5_A          109 LDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIP-TEALSHLHGLIVLRLRHLN  187 (477)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCC-HHHHTTCTTCCEEEEESCC
T ss_pred             EECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccC-hhHhcccCCCcEEeCCCCc
Confidence            555555555432  44555555555555555544433  555555555555555555441 1334555555555555555


Q ss_pred             CCCCC
Q 005381          614 IGAHS  618 (699)
Q Consensus       614 I~~lp  618 (699)
                      +..++
T Consensus       188 i~~~~  192 (477)
T 2id5_A          188 INAIR  192 (477)
T ss_dssp             CCEEC
T ss_pred             CcEeC
Confidence            55443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.29  E-value=2.2e-12  Score=133.05  Aligned_cols=132  Identities=23%  Similarity=0.303  Sum_probs=108.3

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.++.+..+++|+.|+|++|.|+.++++..+++|+.|+|++|+|++++   .+.. ++|+.|+|++|.|+.+
T Consensus        46 L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~L~~N~l~~l~---~~~~-~~L~~L~L~~N~l~~~  121 (263)
T 1xeu_A           46 FNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLKNLN---GIPS-ACLSRLFLDNNELRDT  121 (263)
T ss_dssp             EECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCSCCT---TCCC-SSCCEEECCSSCCSBS
T ss_pred             EECcCCCcccchHHhhCCCCCEEECCCCccCCChhhccCCCCCEEECCCCccCCcC---cccc-CcccEEEccCCccCCC
Confidence            99999999999999999999999999999999988999999999999999999873   2334 8999999999999987


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +     .+..++-+..+++++|.+..+            ..+..+ +|+.|+|++|.|...    ..+..+++|+.||
T Consensus       122 ~-----~l~~l~~L~~L~Ls~N~i~~~------------~~l~~l~~L~~L~L~~N~i~~~----~~l~~l~~L~~L~  178 (263)
T 1xeu_A          122 D-----SLIHLKNLEILSIRNNKLKSI------------VMLGFLSKLEVLDLHGNEITNT----GGLTRLKKVNWID  178 (263)
T ss_dssp             G-----GGTTCTTCCEEECTTSCCCBC------------GGGGGCTTCCEEECTTSCCCBC----TTSTTCCCCCEEE
T ss_pred             h-----hhcCcccccEEECCCCcCCCC------------hHHccCCCCCEEECCCCcCcch----HHhccCCCCCEEe
Confidence            4     245555556668888877542            257778 999999999999322    2245678888775

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

Probab=99.29  E-value=9.4e-13  Score=140.02  Aligned_cols=187  Identities=14%  Similarity=0.065  Sum_probs=114.1

Q ss_pred             CCCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCC
Q 005381          475 ISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKL  554 (699)
Q Consensus       475 ~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L  554 (699)
                      .......+..+++|+.||+++|....              ....+..   +..+   .|..  |++++|.++.++.- ..
T Consensus       136 ~~~~~~~~~~l~~L~~L~l~~n~l~~--------------~~~~~~~---~~~l---~L~~--L~l~~n~l~~l~~~-~~  192 (332)
T 2ft3_A          136 RKVPKGVFSGLRNMNCIEMGGNPLEN--------------SGFEPGA---FDGL---KLNY--LRISEAKLTGIPKD-LP  192 (332)
T ss_dssp             CCCCSGGGSSCSSCCEEECCSCCCBG--------------GGSCTTS---SCSC---CCSC--CBCCSSBCSSCCSS-SC
T ss_pred             CccCHhHhCCCccCCEEECCCCcccc--------------CCCCccc---ccCC---ccCE--EECcCCCCCccCcc-cc
Confidence            34445556777888888888776210              0000111   1111   2333  77888888877621 12


Q ss_pred             cccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcc
Q 005381          555 LWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH  632 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~  632 (699)
                      ++|+.|++++|.++.++.  +..+++|+.|+|++|.|+++. +..+..+++|+.|+|++|+|+.+|.    .+..++.+.
T Consensus       193 ~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~L~~N~l~~lp~----~l~~l~~L~  267 (332)
T 2ft3_A          193 ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIE-NGSLSFLPTLRELHLDNNKLSRVPA----GLPDLKLLQ  267 (332)
T ss_dssp             SSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCC-TTGGGGCTTCCEEECCSSCCCBCCT----TGGGCTTCC
T ss_pred             CCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCC-hhHhhCCCCCCEEECCCCcCeecCh----hhhcCccCC
Confidence            678888888888877764  888888888888888888763 3467778888888888888887763    234444455


Q ss_pred             cccCCCCccceeecCCcchhhhhhccC-CCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          633 SVGSEWNHGQTVIDDDIKSYWEAYFIL-KGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       633 ll~l~~N~l~~~~~~~~~~~~~~p~~l-~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      .+++++|.++.+..+..   ..  ..+ ... .|+.|++++|++.........+..+++|+.|+
T Consensus       268 ~L~l~~N~l~~~~~~~~---~~--~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~  326 (332)
T 2ft3_A          268 VVYLHTNNITKVGVNDF---CP--VGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQ  326 (332)
T ss_dssp             EEECCSSCCCBCCTTSS---SC--SSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEE
T ss_pred             EEECCCCCCCccChhHc---cc--cccccccccccceEeecCcccccccCcccccccchhhhhh
Confidence            56777777765433200   00  011 113 68899999998842223333445677777665

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.29  E-value=7.7e-11  Score=119.28  Aligned_cols=177  Identities=12%  Similarity=0.045  Sum_probs=155.1

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH---
Q 005381           30 QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG---  106 (699)
Q Consensus        30 ~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~---  106 (699)
                      ........|.+ ++|+..+.+++..+|++..+|..++.+....+.            +++++..+++++. .|.+..   
T Consensus         9 ~a~~~~~~~~~-~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~a~~-~~~~~~~~~   74 (272)
T 3u4t_A            9 YADFLFKNNNY-AEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAK------------YDLAQKDIETYFS-KVNATKAKS   74 (272)
T ss_dssp             HHHHHHTTTCH-HHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTC------------HHHHHHHHHHHHT-TSCTTTCCH
T ss_pred             HHHHHHHhcCH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhh------------HHHHHHHHHHHHh-ccCchhHHH
Confidence            33444567777 799999999999999999999999999888865            8999999999999 554444   


Q ss_pred             -HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHH-HH
Q 005381          107 -AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRS-LL  184 (699)
Q Consensus       107 -aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~-~l  184 (699)
                       +|..++.++... +.++++++.++++++.+|.+..+|...+.+....|.+ ++++++++++++.+|.+..+|.+++ .+
T Consensus        75 ~~~~~lg~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~l~~~~  152 (272)
T 3u4t_A           75 ADFEYYGKILMKK-GQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNF-PLAIQYMEKQIRPTTTDPKVFYELGQAY  152 (272)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCH-HHHHHHHGGGCCSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-ccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCH-HHHHHHHHHHhhcCCCcHHHHHHHHHHH
Confidence             499999999887 6999999999999999999999999999999999998 7899999999999999999999999 54


Q ss_pred             HHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          185 LSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       185 l~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      ....             .++++++.+.+++..+|++..+|+++..++....
T Consensus       153 ~~~~-------------~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~  190 (272)
T 3u4t_A          153 YYNK-------------EYVKADSSFVKVLELKPNIYIGYLWRARANAAQD  190 (272)
T ss_dssp             HHTT-------------CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHS
T ss_pred             HHHH-------------HHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcC
Confidence            4332             3799999999999999999999999888776543

>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=99.29  E-value=5.3e-12  Score=120.49  Aligned_cols=122  Identities=27%  Similarity=0.305  Sum_probs=95.1

Q ss_pred             EEccCCCCC--ccc-CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLS--RLG-SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~--~l~-~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      |++++|.++  .++ .+..+++|+.|+|++|.++.++.+..+++|+.|+|++|.|++. .+..+..+++|+.|+|++|.|
T Consensus        29 L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls~N~l  107 (168)
T 2ell_A           29 LVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGG-LDMLAEKLPNLTHLNLSGNKL  107 (168)
T ss_dssp             EECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSC-CCHHHHHCTTCCEEECBSSSC
T ss_pred             EECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchH-HHHHHhhCCCCCEEeccCCcc
Confidence            999999998  777 5689999999999999998885599999999999999999884 345566799999999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCcccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~  692 (699)
                      +.+|.                                    +..+..+ +|+.|+|++|++ ..+.+....+..+++|+.
T Consensus       108 ~~~~~------------------------------------~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~  151 (168)
T 2ell_A          108 KDIST------------------------------------LEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTY  151 (168)
T ss_dssp             CSSGG------------------------------------GGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCE
T ss_pred             Ccchh------------------------------------HHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcE
Confidence            98751                                    1234555 677777777777 434444445666777777


Q ss_pred             ccCc
Q 005381          693 LDGE  696 (699)
Q Consensus       693 LD~~  696 (699)
                      ||..
T Consensus       152 L~l~  155 (168)
T 2ell_A          152 LDGY  155 (168)
T ss_dssp             ETTE
T ss_pred             ecCC
Confidence            7653

>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=99.29  E-value=6.1e-12  Score=126.15  Aligned_cols=139  Identities=16%  Similarity=0.162  Sum_probs=109.6

Q ss_pred             EEccCCCCCcccC-CCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLSRLGS-FDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~~l~~-l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      ++++++.++.+|. +.  ++|+.|+|++|.|+.++.  |..+++|+.|+|++|+|+.+ .+..|..+++|+.|+|++|.|
T Consensus        16 v~c~~~~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~-~~~~~~~l~~L~~L~Ls~N~l   92 (220)
T 2v9t_B           16 VDCRGKGLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISEL-APDAFQGLRSLNSLVLYGNKI   92 (220)
T ss_dssp             EECTTSCCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEE-CTTTTTTCSSCCEEECCSSCC
T ss_pred             EEcCCCCcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCc-CHHHhhCCcCCCEEECCCCcC
Confidence            8999999998883 32  789999999999998886  99999999999999999987 457899999999999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWL  693 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~L  693 (699)
                      +.+|...+   ..++-+..+++++|.+..+.          |..|..+ +|+.|+|++|.|.  .+....+..+++|+.|
T Consensus        93 ~~l~~~~f---~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~L  157 (220)
T 2v9t_B           93 TELPKSLF---EGLFSLQLLLLNANKINCLR----------VDAFQDLHNLNLLSLYDNKLQ--TIAKGTFSPLRAIQTM  157 (220)
T ss_dssp             CCCCTTTT---TTCTTCCEEECCSSCCCCCC----------TTTTTTCTTCCEEECCSSCCS--CCCTTTTTTCTTCCEE
T ss_pred             CccCHhHc---cCCCCCCEEECCCCCCCEeC----------HHHcCCCCCCCEEECCCCcCC--EECHHHHhCCCCCCEE
Confidence            99974333   33444555677888875543          4578889 9999999999992  1111223557777765


Q ss_pred             c
Q 005381          694 D  694 (699)
Q Consensus       694 D  694 (699)
                      |
T Consensus       158 ~  158 (220)
T 2v9t_B          158 H  158 (220)
T ss_dssp             E
T ss_pred             E
Confidence            4

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.29  E-value=4.5e-13  Score=155.58  Aligned_cols=125  Identities=11%  Similarity=0.098  Sum_probs=67.4

Q ss_pred             CCCcHHHHHhcccccccCCCCCc-ccc-chhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccC--
Q 005381          475 ISHSEEVLELYNDLMRLDPTHVQ-YYK-DQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGS--  550 (699)
Q Consensus       475 ~~~~~~~l~~l~~L~~LDls~n~-~~~-~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~--  550 (699)
                      .+..++.++.+++|++||+++|. +.+ .++..+.  .+.        ....+.+++.       |++++|.++.++.  
T Consensus       262 ~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~--~L~--------~~~~l~~L~~-------L~L~~n~l~~ip~~~  324 (636)
T 4eco_A          262 LTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQ--ALA--------DAPVGEKIQI-------IYIGYNNLKTFPVET  324 (636)
T ss_dssp             CSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHH--HHH--------HSGGGGTCCE-------EECCSSCCSSCCCHH
T ss_pred             CccChHHHhcCCCCCEEECcCCCCCccccchHHHH--hhh--------ccccCCCCCE-------EECCCCcCCccCchh
Confidence            35556677788888888888886 332 2322110  000        0001122222       5666666655553  


Q ss_pred             -CCCCcccCEEEccCCCCC-CCcCCccccccceeecccCCCCCCCCCcccccccc-ccccccccccCCCCC
Q 005381          551 -FDKLLWVQMLDLSHNELR-SIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKS-LRALNISYNEIGAHS  618 (699)
Q Consensus       551 -l~~L~~L~~LdLS~N~L~-~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~-L~~L~Ls~N~I~~lp  618 (699)
                       +..+++|+.|++++|.++ .+|.+..+++|+.|+|++|.++.+  |..+..+++ |+.|++++|.|+.+|
T Consensus       325 ~l~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~L~L~~N~l~~l--p~~l~~l~~~L~~L~Ls~N~l~~lp  393 (636)
T 4eco_A          325 SLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEI--PANFCGFTEQVENLSFAHNKLKYIP  393 (636)
T ss_dssp             HHTTCTTCCEEECCSCCCEEECCCCEEEEEESEEECCSSEEEEC--CTTSEEECTTCCEEECCSSCCSSCC
T ss_pred             hhccCCCCCEEeCcCCcCccchhhhCCCCCCCEEECCCCccccc--cHhhhhhcccCcEEEccCCcCcccc
Confidence             555666666666666664 555555555666666666665543  344555555 666666666665554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.29  E-value=1.8e-10  Score=120.40  Aligned_cols=181  Identities=11%  Similarity=0.009  Sum_probs=152.1

Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH
Q 005381           27 LQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG  106 (699)
Q Consensus        27 ~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~  106 (699)
                      +..........|++ ++|+..+.+++..+|++..+|..++.++...+.            +++++..+++++..+|.+..
T Consensus         6 ~~~~~~~~~~~g~~-~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~   72 (359)
T 3ieg_A            6 HLELGKKLLAAGQL-ADALSQFHAAVDGDPDNYIAYYRRATVFLAMGK------------SKAALPDLTKVIALKMDFTA   72 (359)
T ss_dssp             HHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcCCH-HHHHHHHHHHHhhCcccHHHHHHHHHHHHHccC------------HHHHHHHHHHHHHhCCCcch
Confidence            33444455667777 799999999999999999999999999888865            88999999999999999999


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCC---CChhhhhHH------------HHHHHhcCCChHHHHHHHHHHHHhc
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADS---RNFHAWNYR------------RFVAASMNRSEEDELKYTEDMICNN  171 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dp---rN~haW~yR------------~~vl~~l~~~~e~EL~~~~~~I~~n  171 (699)
                      +|...+.++... +.++++++.++++++.+|   .+..+|...            +.+....+.+ ++.+++++++++.+
T Consensus        73 ~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~~  150 (359)
T 3ieg_A           73 ARLQRGHLLLKQ-GKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADY-TAAITFLDKILEVC  150 (359)
T ss_dssp             HHHHHHHHHHHH-TCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHc-CChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCH-HHHHHHHHHHHHhC
Confidence            999999988877 589999999999999999   888888776            4566667777 67889999999999


Q ss_pred             cCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          172 FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       172 ~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      |.+..+|..++.++..++.            ++++++.+.+++..+|++..+|+.+..++...
T Consensus       151 ~~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~  201 (359)
T 3ieg_A          151 VWDAELRELRAECFIKEGE------------PRKAISDLKAASKLKSDNTEAFYKISTLYYQL  201 (359)
T ss_dssp             TTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            9999999999888877754            78899999999999999999988877777553

>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=99.28  E-value=7.5e-12  Score=125.48  Aligned_cols=124  Identities=23%  Similarity=0.252  Sum_probs=103.5

Q ss_pred             eEEccCCCCCccc---CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG---SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       537 ~L~Ls~n~l~~l~---~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      .|+|++|.++.++   .|..+++|+.|+|++|.|+.+++  |..+++|+.|+|++|.|+++. +..|..+++|+.|+|++
T Consensus        36 ~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~l~~L~~L~Ls~  114 (220)
T 2v70_A           36 ELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQ-HKMFKGLESLKTLMLRS  114 (220)
T ss_dssp             EEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCC-GGGGTTCSSCCEEECTT
T ss_pred             EEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccC-HhHhcCCcCCCEEECCC
Confidence            3999999999874   48899999999999999988876  999999999999999999873 45688999999999999


Q ss_pred             ccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          612 NEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       612 N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+|+.++..   .+..++.+..+++++|.+..+.          |..|..+ +|+.|+|++|++
T Consensus       115 N~l~~~~~~---~~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~L~~N~l  165 (220)
T 2v70_A          115 NRITCVGND---SFIGLSSVRLLSLYDNQITTVA----------PGAFDTLHSLSTLNLLANPF  165 (220)
T ss_dssp             SCCCCBCTT---SSTTCTTCSEEECTTSCCCCBC----------TTTTTTCTTCCEEECCSCCE
T ss_pred             CcCCeECHh---HcCCCccCCEEECCCCcCCEEC----------HHHhcCCCCCCEEEecCcCC
Confidence            999998533   3344444555677888775532          4678889 999999999999

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.28  E-value=1.5e-11  Score=121.63  Aligned_cols=124  Identities=25%  Similarity=0.248  Sum_probs=100.8

Q ss_pred             eEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      .|++++|.++.++  .+..+++|++|+|++|.++.++.  |..+++|+.|+|++|.|+.++ +..+..+++|+.|+|++|
T Consensus        32 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-~~~~~~l~~L~~L~L~~N  110 (208)
T 2o6s_A           32 YLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLP-NGVFDKLTQLKELALNTN  110 (208)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSS
T ss_pred             EEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccC-HhHhcCccCCCEEEcCCC
Confidence            3999999999877  47899999999999999998887  789999999999999999873 355788999999999999


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .|+.++...   +..++.+..+++++|.+..+.          +..+..+ +|+.|+|++|++
T Consensus       111 ~l~~~~~~~---~~~l~~L~~L~l~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~~  160 (208)
T 2o6s_A          111 QLQSLPDGV---FDKLTQLKDLRLYQNQLKSVP----------DGVFDRLTSLQYIWLHDNPW  160 (208)
T ss_dssp             CCCCCCTTT---TTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSCCB
T ss_pred             cCcccCHhH---hccCCcCCEEECCCCccceeC----------HHHhccCCCccEEEecCCCe
Confidence            999886322   334444555577777765332          2357888 999999999998

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.28  E-value=1.5e-12  Score=140.50  Aligned_cols=126  Identities=22%  Similarity=0.219  Sum_probs=96.1

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.|+.++  .|..+++|+.|+|++|.|+.++.  |..+++|+.|+|++|+|+.+ .+..|..+++|+.|+|++|+
T Consensus        69 L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~-~~~~~~~l~~L~~L~L~~N~  147 (361)
T 2xot_A           69 LLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVV-DRNAFEDMAQLQKLYLSQNQ  147 (361)
T ss_dssp             EECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEE-CTTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEE-CHHHhCCcccCCEEECCCCc
Confidence            999999999776  68899999999999999988876  88999999999999999886 34678889999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-C--ccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-N--LTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~--L~~LdLs~N~l  674 (699)
                      |+.+|...+..+..++.+..+++++|.+..+..          ..+..+ .  |+.|+|++|++
T Consensus       148 l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~----------~~~~~l~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          148 ISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPL----------TDLQKLPAWVKNGLYLHNNPL  201 (361)
T ss_dssp             CCSCCGGGTC----CTTCCEEECCSSCCCCCCH----------HHHHHSCHHHHTTEECCSSCE
T ss_pred             CCeeCHHHhcCcccCCcCCEEECCCCCCCccCH----------HHhhhccHhhcceEEecCCCc
Confidence            999875444333445555556778887765432          233334 3  57889999998

>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=99.27  E-value=2.3e-12  Score=126.72  Aligned_cols=149  Identities=19%  Similarity=0.223  Sum_probs=99.3

Q ss_pred             HhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEc
Q 005381          483 ELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDL  562 (699)
Q Consensus       483 ~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdL  562 (699)
                      +.+..|+.|++++|.+. +                ++ .+..+.+++.       |++++|.++.++.+..+++|++|++
T Consensus        41 ~~l~~L~~L~l~~n~i~-~----------------l~-~l~~l~~L~~-------L~l~~n~~~~~~~l~~l~~L~~L~l   95 (197)
T 4ezg_A           41 AQMNSLTYITLANINVT-D----------------LT-GIEYAHNIKD-------LTINNIHATNYNPISGLSNLERLRI   95 (197)
T ss_dssp             HHHHTCCEEEEESSCCS-C----------------CT-TGGGCTTCSE-------EEEESCCCSCCGGGTTCTTCCEEEE
T ss_pred             hhcCCccEEeccCCCcc-C----------------hH-HHhcCCCCCE-------EEccCCCCCcchhhhcCCCCCEEEe
Confidence            56778888888887621 1                11 2223334333       8888888888888888889999999


Q ss_pred             cCCCCCC-CcC-CccccccceeecccCCCCCCCCCcccccccccccccccccc-CCCCCcccccccCCCCCcccccCCCC
Q 005381          563 SHNELRS-IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE-IGAHSIDTTKYLCSSPLSHSVGSEWN  639 (699)
Q Consensus       563 S~N~L~~-l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~-I~~lp~~~~~~l~~l~ll~ll~l~~N  639 (699)
                      ++|.++. .+. +..+++|+.|++++|.++.. .+..++.+++|+.|+|++|. ++.+|  .   +..++-+..+++++|
T Consensus        96 ~~n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~~-~~~~l~~l~~L~~L~L~~n~~i~~~~--~---l~~l~~L~~L~l~~n  169 (197)
T 4ezg_A           96 MGKDVTSDKIPNLSGLTSLTLLDISHSAHDDS-ILTKINTLPKVNSIDLSYNGAITDIM--P---LKTLPELKSLNIQFD  169 (197)
T ss_dssp             ECTTCBGGGSCCCTTCTTCCEEECCSSBCBGG-GHHHHTTCSSCCEEECCSCTBCCCCG--G---GGGCSSCCEEECTTB
T ss_pred             ECCccCcccChhhcCCCCCCEEEecCCccCcH-hHHHHhhCCCCCEEEccCCCCccccH--h---hcCCCCCCEEECCCC
Confidence            9998865 344 88888999999999988763 24667888889999999887 77764  1   223333333455555


Q ss_pred             ccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          640 HGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       640 ~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .+..+            ..+..+ +|+.|++++|+|
T Consensus       170 ~i~~~------------~~l~~l~~L~~L~l~~N~i  193 (197)
T 4ezg_A          170 GVHDY------------RGIEDFPKLNQLYAFSQTI  193 (197)
T ss_dssp             CCCCC------------TTGGGCSSCCEEEECBC--
T ss_pred             CCcCh------------HHhccCCCCCEEEeeCccc
Confidence            54321            144555 677777777766

>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=99.27  E-value=6.8e-12  Score=133.10  Aligned_cols=136  Identities=16%  Similarity=0.200  Sum_probs=83.8

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCC---CcC-CccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRS---IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~---l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      |++++|.++.++  .+..+++|+.|++++|.++.   .+. +..+++|+.|++++|.++.++  ..+.  ++|+.|++++
T Consensus       126 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~--~~~~--~~L~~L~l~~  201 (330)
T 1xku_A          126 LRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIP--QGLP--PSLTELHLDG  201 (330)
T ss_dssp             EECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCC--SSCC--TTCSEEECTT
T ss_pred             EECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCC--cccc--ccCCEEECCC
Confidence            667777766655  46667777777777777642   223 666777777777777776652  2222  5677777777


Q ss_pred             ccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCc
Q 005381          612 NEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPG  689 (699)
Q Consensus       612 N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~  689 (699)
                      |.|+.++.   ..+..++.+..+++++|.+....          +..+..+ +|+.|+|++|.| ..+.    .+..+++
T Consensus       202 n~l~~~~~---~~~~~l~~L~~L~Ls~n~l~~~~----------~~~~~~l~~L~~L~L~~N~l~~lp~----~l~~l~~  264 (330)
T 1xku_A          202 NKITKVDA---ASLKGLNNLAKLGLSFNSISAVD----------NGSLANTPHLRELHLNNNKLVKVPG----GLADHKY  264 (330)
T ss_dssp             SCCCEECT---GGGTTCTTCCEEECCSSCCCEEC----------TTTGGGSTTCCEEECCSSCCSSCCT----TTTTCSS
T ss_pred             CcCCccCH---HHhcCCCCCCEEECCCCcCceeC----------hhhccCCCCCCEEECCCCcCccCCh----hhccCCC
Confidence            77766532   22333444444566666664432          2356777 899999999988 3222    1345777


Q ss_pred             ccccc
Q 005381          690 LKWLD  694 (699)
Q Consensus       690 L~~LD  694 (699)
                      |+.||
T Consensus       265 L~~L~  269 (330)
T 1xku_A          265 IQVVY  269 (330)
T ss_dssp             CCEEE
T ss_pred             cCEEE
Confidence            77765

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.27  E-value=2.1e-12  Score=145.12  Aligned_cols=138  Identities=21%  Similarity=0.162  Sum_probs=67.8

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--Cc-cccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LE-ALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~-~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |+|++|.++.++  .+..+++|+.|+|++|.++.+++  +. .+++|+.|+|++|.|+++   ..+..+++|+.|+|++|
T Consensus       125 L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~---~~~~~l~~L~~L~Ls~N  201 (487)
T 3oja_A          125 IYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDV---KGQVVFAKLKTLDLSSN  201 (487)
T ss_dssp             EECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE---ECCCCCTTCCEEECCSS
T ss_pred             EECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccc---cccccCCCCCEEECCCC
Confidence            555555555432  44455555555555555543322  32 455555555555555544   22233555555555555


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccc
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLK  691 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~  691 (699)
                      .|+.+|..    +..++.+..+++++|.+..           +|..+..+ +|+.|+|++|++.... ....+..++.|+
T Consensus       202 ~l~~~~~~----~~~l~~L~~L~Ls~N~l~~-----------lp~~l~~l~~L~~L~l~~N~l~c~~-~~~~~~~l~~L~  265 (487)
T 3oja_A          202 KLAFMGPE----FQSAAGVTWISLRNNKLVL-----------IEKALRFSQNLEHFDLRGNGFHCGT-LRDFFSKNQRVQ  265 (487)
T ss_dssp             CCCEECGG----GGGGTTCSEEECTTSCCCE-----------ECTTCCCCTTCCEEECTTCCBCHHH-HHHHHTTCHHHH
T ss_pred             CCCCCCHh----HcCCCCccEEEecCCcCcc-----------cchhhccCCCCCEEEcCCCCCcCcc-hHHHHHhCCCCc
Confidence            55554321    2222222333444444432           34556666 7777777777773111 223344555555


Q ss_pred             ccc
Q 005381          692 WLD  694 (699)
Q Consensus       692 ~LD  694 (699)
                      .|+
T Consensus       266 ~l~  268 (487)
T 3oja_A          266 TVA  268 (487)
T ss_dssp             HHH
T ss_pred             EEe
Confidence            544

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.27  E-value=6.4e-12  Score=123.48  Aligned_cols=99  Identities=24%  Similarity=0.324  Sum_probs=67.6

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      |+|++|.++.++ .+..+++|+.|+|++|.|+.+++  |.++++|+.|+|++|+|+.+. +..|..+++|+.|+|++|.|
T Consensus        36 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~~N~l  114 (193)
T 2wfh_A           36 LYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIP-PRTFDGLKSLRLLSLHGNDI  114 (193)
T ss_dssp             EECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCC-TTTTTTCTTCCEEECCSSCC
T ss_pred             EECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeC-HHHhCCCCCCCEEECCCCCC
Confidence            666777766665 66666677777777777766654  666777777777777766652 34566666777777777766


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +.+|.                                     ..|..+ +|+.|+|++|++
T Consensus       115 ~~~~~-------------------------------------~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A          115 SVVPE-------------------------------------GAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             CBCCT-------------------------------------TTTTTCTTCCEEECCSSCE
T ss_pred             CeeCh-------------------------------------hhhhcCccccEEEeCCCCe
Confidence            66541                                     246667 899999999998

>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=99.27  E-value=6.6e-12  Score=144.57  Aligned_cols=33  Identities=33%  Similarity=0.475  Sum_probs=20.3

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCC
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSI  570 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l  570 (699)
                      |+|++|.++.++  .+..+++|+.|+|++|.++.+
T Consensus       152 L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  186 (597)
T 3oja_B          152 LSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHV  186 (597)
T ss_dssp             EECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBC
T ss_pred             EEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCc
Confidence            666666666554  466666666666666666544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.27  E-value=1.4e-10  Score=123.32  Aligned_cols=186  Identities=13%  Similarity=0.074  Sum_probs=158.7

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------CCch----------------------h
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------SDPD----------------------S   82 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~~~~----------------------~   82 (699)
                      ...|.+ ++|+..+.+++.++|++..+|...+.++...++..+          ..|+                      .
T Consensus       110 ~~~g~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~  188 (365)
T 4eqf_A          110 AENENE-QAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPV  188 (365)
T ss_dssp             HHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------
T ss_pred             HHCCCH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHh
Confidence            445666 799999999999999999999999998877653110          0111                      1


Q ss_pred             hhhhHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHH
Q 005381           83 LKSILDEELRVVESALRQNFK--SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDE  160 (699)
Q Consensus        83 ~~~~~~eEL~~~~~~L~~nPK--sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~E  160 (699)
                      ....+++++..+++++..+|+  +..+|...+.++... +.+++++++++++++.+|.+..+|...+.+....|.+ ++.
T Consensus       189 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-~~A  266 (365)
T 4eqf_A          189 DSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLS-GEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRS-EEA  266 (365)
T ss_dssp             CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHH
T ss_pred             hhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-HHH
Confidence            124578899999999999999  899999999999877 6999999999999999999999999999999999998 789


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCC------------CchhHHHHH
Q 005381          161 LKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD------------DQSGWFYHL  228 (699)
Q Consensus       161 L~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~------------d~SaW~Y~~  228 (699)
                      ++++.++++.+|.+..+|..++.++..+++            ++++++.+.+++..+|+            +..+|..++
T Consensus       267 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~  334 (365)
T 4eqf_A          267 VEAYTRALEIQPGFIRSRYNLGISCINLGA------------YREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALR  334 (365)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------CHHHHHHHHHHHHHHHCC------------CHHHHHHH
T ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHH
Confidence            999999999999999999999999988855            79999999999999998            477899988


Q ss_pred             HHHcCcC
Q 005381          229 WLLDQTV  235 (699)
Q Consensus       229 ~Ll~~~~  235 (699)
                      ..+....
T Consensus       335 ~~~~~~g  341 (365)
T 4eqf_A          335 IALSLMD  341 (365)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHcC
Confidence            8776544

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.26  E-value=4.8e-10  Score=118.50  Aligned_cols=176  Identities=10%  Similarity=0.018  Sum_probs=135.1

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....|.+ ++|+..+.+++..+|++..+|..++.++...+.            +++++..+++++..+|++..+|...+.
T Consensus        74 ~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~l~~  140 (368)
T 1fch_A           74 RLQEGDL-PNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQ------------ELLAISALRRCLELKPDNQTALMALAV  140 (368)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcC------------HHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            3445555 688888888888888888888888888777754            778888888888888888888888887


Q ss_pred             HHHhCCCChHHHHHHH-------------------------------------------------HHHHHhCCC--Chhh
Q 005381          114 ILSKGHSSIDNELRLL-------------------------------------------------DKFQKADSR--NFHA  142 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~-------------------------------------------------~k~L~~dpr--N~ha  142 (699)
                      ++... +.++++++.+                                                 +++++.+|.  +..+
T Consensus       141 ~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~  219 (368)
T 1fch_A          141 SFTNE-SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDV  219 (368)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHH
Confidence            77655 3555555544                                                 455555555  5566


Q ss_pred             hhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          143 WNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       143 W~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                      |...+.+....|.+ ++.++++.++++.+|.+..+|..++.++...+.            ++++++.+.+++..+|++..
T Consensus       220 ~~~l~~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~  286 (368)
T 1fch_A          220 QCGLGVLFNLSGEY-DKAVDCFTAALSVRPNDYLLWNKLGATLANGNQ------------SEEAVAAYRRALELQPGYIR  286 (368)
T ss_dssp             HHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcCCH-HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCcHH
Confidence            66677777777777 678888889999999888888888888777644            79999999999999999999


Q ss_pred             hHHHHHHHHcCcCC
Q 005381          223 GWFYHLWLLDQTVR  236 (699)
Q Consensus       223 aW~Y~~~Ll~~~~~  236 (699)
                      +|+.+..++....+
T Consensus       287 ~~~~l~~~~~~~g~  300 (368)
T 1fch_A          287 SRYNLGISCINLGA  300 (368)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHCCC
Confidence            99988888765443

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.26  E-value=4.2e-12  Score=147.39  Aligned_cols=175  Identities=18%  Similarity=0.136  Sum_probs=101.4

Q ss_pred             HHHhcccccccCCCCCccccchhhhHHhhhh------ccchHHHhhhhccCCC-CCCCCCCCCeEEccCCCCCccc-CCC
Q 005381          481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQV------TSNWESLLSRCFHYSN-SPSNRGSPMCLQLKNLSLSRLG-SFD  552 (699)
Q Consensus       481 ~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l------~~~~~~l~~~~~~l~~-l~~l~L~~~~L~Ls~n~l~~l~-~l~  552 (699)
                      .++.+++|++||+++|.+.+.++....+.++      .+.+..++..+..+.. ++.       |++++|.++.++ .+.
T Consensus       325 ~l~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~-------L~Ls~N~l~~lp~~~~  397 (636)
T 4eco_A          325 SLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVEN-------LSFAHNKLKYIPNIFD  397 (636)
T ss_dssp             HHTTCTTCCEEECCSCCCEEECCCCEEEEEESEEECCSSEEEECCTTSEEECTTCCE-------EECCSSCCSSCCSCCC
T ss_pred             hhccCCCCCEEeCcCCcCccchhhhCCCCCCCEEECCCCccccccHhhhhhcccCcE-------EEccCCcCcccchhhh
Confidence            6777777777777777654333311000000      0011122333333333 333       888888888777 444


Q ss_pred             CC--cccCEEEccCCCCCC-CcC-Cc-------cccccceeecccCCCCCCCCCccccccccccccccccccCCCCCccc
Q 005381          553 KL--LWVQMLDLSHNELRS-IEG-LE-------ALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDT  621 (699)
Q Consensus       553 ~L--~~L~~LdLS~N~L~~-l~~-l~-------~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~  621 (699)
                      .+  ++|+.|++++|.++. +|. +.       .+++|+.|+|++|.|+.++ ...+..+++|+.|+|++|+|+.+|...
T Consensus       398 ~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp-~~~~~~l~~L~~L~Ls~N~l~~i~~~~  476 (636)
T 4eco_A          398 AKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFP-KELFSTGSPLSSINLMGNMLTEIPKNS  476 (636)
T ss_dssp             TTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCC-THHHHTTCCCSEEECCSSCCSBCCSSS
T ss_pred             hcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCC-HHHHccCCCCCEEECCCCCCCCcCHHH
Confidence            43  378888888888854 444 66       7778888899998888762 233556788889999999888877433


Q ss_pred             ccccC----CCCCcccccCCCCccceeecCCcchhhhhhccCC--CC-CccEEEecCCCC
Q 005381          622 TKYLC----SSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILK--GL-NLTQFDIVGNAI  674 (699)
Q Consensus       622 ~~~l~----~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~--~L-~L~~LdLs~N~l  674 (699)
                      +....    .++.+..+++++|.+..           +|..+.  .+ +|+.|+|++|.|
T Consensus       477 ~~~~~~~~~~l~~L~~L~Ls~N~l~~-----------lp~~~~~~~l~~L~~L~Ls~N~l  525 (636)
T 4eco_A          477 LKDENENFKNTYLLTSIDLRFNKLTK-----------LSDDFRATTLPYLVGIDLSYNSF  525 (636)
T ss_dssp             SEETTEECTTGGGCCEEECCSSCCCB-----------CCGGGSTTTCTTCCEEECCSSCC
T ss_pred             hccccccccccCCccEEECcCCcCCc-----------cChhhhhccCCCcCEEECCCCCC
Confidence            32211    11123334556665542           233333  45 555555555555

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

Probab=99.26  E-value=9.2e-12  Score=132.30  Aligned_cols=136  Identities=18%  Similarity=0.205  Sum_probs=79.7

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCC---CcC-CccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRS---IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~---l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      |++++|.++.++  .+..+++|+.|++++|.++.   .+. +..+ +|+.|++++|.++.++  ..+.  ++|+.|++++
T Consensus       128 L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~--~~~~--~~L~~L~l~~  202 (332)
T 2ft3_A          128 LRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIP--KDLP--ETLNELHLDH  202 (332)
T ss_dssp             EECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCC--SSSC--SSCSCCBCCS
T ss_pred             EECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccC--cccc--CCCCEEECCC
Confidence            666666666554  35666666666666666642   222 5555 6666666666666552  2222  5666777777


Q ss_pred             ccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCc
Q 005381          612 NEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPG  689 (699)
Q Consensus       612 N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~  689 (699)
                      |.|+.++.   ..+..++.+..+++++|.+..+.          +..+..+ +|+.|+|++|.| ..+.    .+..+++
T Consensus       203 n~i~~~~~---~~l~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~L~~N~l~~lp~----~l~~l~~  265 (332)
T 2ft3_A          203 NKIQAIEL---EDLLRYSKLYRLGLGHNQIRMIE----------NGSLSFLPTLRELHLDNNKLSRVPA----GLPDLKL  265 (332)
T ss_dssp             SCCCCCCT---TSSTTCTTCSCCBCCSSCCCCCC----------TTGGGGCTTCCEEECCSSCCCBCCT----TGGGCTT
T ss_pred             CcCCccCH---HHhcCCCCCCEEECCCCcCCcCC----------hhHhhCCCCCCEEECCCCcCeecCh----hhhcCcc
Confidence            77766642   22333333444566666554322          2367778 999999999999 3222    1356788


Q ss_pred             cccccC
Q 005381          690 LKWLDG  695 (699)
Q Consensus       690 L~~LD~  695 (699)
                      |+.||-
T Consensus       266 L~~L~l  271 (332)
T 2ft3_A          266 LQVVYL  271 (332)
T ss_dssp             CCEEEC
T ss_pred             CCEEEC
Confidence            887763

>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=99.26  E-value=6.7e-12  Score=138.80  Aligned_cols=55  Identities=27%  Similarity=0.389  Sum_probs=36.6

Q ss_pred             EEccCCCCCc--cc--CCCCCcccCEEEccCCCCCCC-cC--CccccccceeecccCCCCCC
Q 005381          538 LQLKNLSLSR--LG--SFDKLLWVQMLDLSHNELRSI-EG--LEALQLLSCLNLSNNILGSF  592 (699)
Q Consensus       538 L~Ls~n~l~~--l~--~l~~L~~L~~LdLS~N~L~~l-~~--l~~L~~L~~L~Ls~N~l~~l  592 (699)
                      |+|++|.++.  +.  .+..+++|++|+|++|.++.+ |.  +..+++|+.|++++|.++++
T Consensus       108 L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~  169 (455)
T 3v47_A          108 LTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSI  169 (455)
T ss_dssp             EECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCC
T ss_pred             EeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCccccc
Confidence            7777777764  22  266777777777777777555 33  66777777777777777664

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.26  E-value=1.4e-10  Score=115.69  Aligned_cols=170  Identities=11%  Similarity=0.031  Sum_probs=148.2

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCc-------hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH-----
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPEL-------YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR-----   99 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~-------ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~-----   99 (699)
                      ......|.+ ++|++.+.+++.++|++       ..+|...+.++...+.            +++++..+++++.     
T Consensus        46 ~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~a~~~~~~~  112 (258)
T 3uq3_A           46 AAEYEKGEY-ETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGD------------LKKTIEYYQKSLTEHRTA  112 (258)
T ss_dssp             HHHHHTTCH-HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHcccH-HHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHccc------------HHHHHHHHHHHHhcCchh
Confidence            334556666 89999999999999988       7999999999888754            5555555555555     


Q ss_pred             ---------------------hCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChH
Q 005381          100 ---------------------QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEE  158 (699)
Q Consensus       100 ---------------------~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e  158 (699)
                                           .+|.+..+|..++.++... +.++++++.++++++.+|.+..+|...+.+....+.+ +
T Consensus       113 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-~  190 (258)
T 3uq3_A          113 DILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTK-SDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF-P  190 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-H
T ss_pred             HHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHh-cCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCH-H
Confidence                                 8899999999999999887 6999999999999999999999999999999999998 7


Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhC------CCCchhHHHHH
Q 005381          159 DELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTD------PDDQSGWFYHL  228 (699)
Q Consensus       159 ~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~d------P~d~SaW~Y~~  228 (699)
                      +.+++++++++.+|.+..+|..++.++..++.            ++++++.+.+++..+      |++..+|..+.
T Consensus       191 ~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~  254 (258)
T 3uq3_A          191 EAIADCNKAIEKDPNFVRAYIRKATAQIAVKE------------YASALETLDAARTKDAEVNNGSSAREIDQLYY  254 (258)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhh------------HHHHHHHHHHHHHhChhhcCCCchHHHHHHHH
Confidence            89999999999999999999999999888755            799999999999999      99988887654

>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=99.26  E-value=7e-12  Score=123.19  Aligned_cols=137  Identities=19%  Similarity=0.227  Sum_probs=109.9

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.++.+..+++|++|++++|.+..++.+..+++|+.|++++|.+++. .+..++.+++|+.|+|++|.|+..
T Consensus        49 L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~~~-~~~~l~~l~~L~~L~Ls~n~i~~~  127 (197)
T 4ezg_A           49 ITLANINVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSD-KIPNLSGLTSLTLLDISHSAHDDS  127 (197)
T ss_dssp             EEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGG-GSCCCTTCTTCCEEECCSSBCBGG
T ss_pred             EeccCCCccChHHHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcc-cChhhcCCCCCCEEEecCCccCcH
Confidence            9999999999889999999999999999998888899999999999999999873 357789999999999999999874


Q ss_pred             CcccccccCCCCCcccccCCCCc-cceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNH-GQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~-l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      .   ...+..++.+..+++++|. +..           +| .+..+ +|+.|++++|.|..  +.  .+..+++|+.||
T Consensus       128 ~---~~~l~~l~~L~~L~L~~n~~i~~-----------~~-~l~~l~~L~~L~l~~n~i~~--~~--~l~~l~~L~~L~  187 (197)
T 4ezg_A          128 I---LTKINTLPKVNSIDLSYNGAITD-----------IM-PLKTLPELKSLNIQFDGVHD--YR--GIEDFPKLNQLY  187 (197)
T ss_dssp             G---HHHHTTCSSCCEEECCSCTBCCC-----------CG-GGGGCSSCCEEECTTBCCCC--CT--TGGGCSSCCEEE
T ss_pred             h---HHHHhhCCCCCEEEccCCCCccc-----------cH-hhcCCCCCCEEECCCCCCcC--hH--HhccCCCCCEEE
Confidence            3   2334445555555777775 422           22 57788 99999999999932  11  346788888775

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.26  E-value=1.3e-10  Score=130.05  Aligned_cols=177  Identities=10%  Similarity=0.031  Sum_probs=155.3

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSIL-DEELRVVESALRQNFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~-~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~  120 (699)
                      ++++..+..++...|+...+|..++.++...++            + ++++..++++++.+|++..+|...+.++... +
T Consensus        85 ~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~------------~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~-g  151 (474)
T 4abn_A           85 EKTLQQMEEVLGSAQVEAQALMLKGKALNVTPD------------YSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKK-G  151 (474)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSS------------CCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-T
T ss_pred             HHHHHHHHHHhccCchhHHHHHHHHHHHHhccc------------cHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHc-C
Confidence            578888889999999999999999999988765            8 9999999999999999999999999999987 6


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc---------CCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhh
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASM---------NRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKR  191 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l---------~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~  191 (699)
                      .+++++++++++++++|. ..+|...+.++..+         +.+ +++++++.++++.+|.+..+|+.++.++..+.-.
T Consensus       152 ~~~~A~~~~~~al~~~p~-~~~~~~lg~~~~~~~~~~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~  229 (474)
T 4abn_A          152 DVTSAHTCFSGALTHCKN-KVSLQNLSMVLRQLQTDSGDEHSRHV-MDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFN  229 (474)
T ss_dssp             CHHHHHHHHHHHHTTCCC-HHHHHHHHHHHTTCCCSCHHHHHHHH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhCCC-HHHHHHHHHHHHHhccCChhhhhhhH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHh
Confidence            999999999999999999 79999999999988         777 6899999999999999999999999998876110


Q ss_pred             hccCccchhchHHHHHHHHHHHHHhCC---CCchhHHHHHHHHcCcCCC
Q 005381          192 KVEGFVSKEKVLPDEYEFVHQAIFTDP---DDQSGWFYHLWLLDQTVRV  237 (699)
Q Consensus       192 ~~~~~~~~~~~~~eeL~~~~~ai~~dP---~d~SaW~Y~~~Ll~~~~~~  237 (699)
                      .  +.  ..+.++++++++.+|+..+|   ++..+|+.+..++....+.
T Consensus       230 ~--~~--~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~  274 (474)
T 4abn_A          230 T--GQ--NPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESY  274 (474)
T ss_dssp             T--TC--CHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCH
T ss_pred             h--cc--ccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCH
Confidence            0  00  12348999999999999999   9999999998888665443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.26  E-value=2.7e-11  Score=113.50  Aligned_cols=135  Identities=10%  Similarity=0.011  Sum_probs=123.6

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..+++++..+..++..+|++..+|.+.+.+..+. +.+++++++++++++++|++..+|..++.+....+.+ +++++++
T Consensus        11 ~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~-~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~-~~A~~~~   88 (150)
T 4ga2_A           11 ADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEA-KEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENT-DKAVECY   88 (150)
T ss_dssp             HHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHH
T ss_pred             ChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCch-HHHHHHH
Confidence            5689999999999999999999999999999887 6999999999999999999999999999999999998 7899999


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHH-HHHHHHhCCCCchhHHHHHHHHcC
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEF-VHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~-~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      .++++.+|.+..+|...+.++...+.            ++++++. +++|+.++|++..+|..+..|+..
T Consensus        89 ~~al~~~p~~~~~~~~la~~~~~~~~------------~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~  146 (150)
T 4ga2_A           89 RRSVELNPTQKDLVLKIAELLCKNDV------------TDGRAKYWVERAAKLFPGSPAVYKLKEQLLDC  146 (150)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHCS------------SSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCC------------hHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHH
Confidence            99999999999999999999887754            4556655 589999999999999999888865

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

Probab=99.25  E-value=6e-12  Score=144.53  Aligned_cols=79  Identities=22%  Similarity=0.262  Sum_probs=35.1

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCC--cCCccccccceeecccCCCCCCCCCcccccccccc--cccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSI--EGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLR--ALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l--~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~--~L~Ls~  611 (699)
                      |++++|.++.++  .+..+++|++|+|++|.++.+  |.+..+++|+.|++++|.++.+ .+..++.+++|+  .|++++
T Consensus       110 L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~l~L~l~~  188 (606)
T 3t6q_A          110 LFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYL-SKEDMSSLQQATNLSLNLNG  188 (606)
T ss_dssp             EECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEE-CHHHHHTTTTCCSEEEECTT
T ss_pred             eeccccCcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCccccc-ChhhhhhhcccceeEEecCC
Confidence            444444444431  444444455555554444433  2233344445555555444443 123344444444  444455


Q ss_pred             ccCCCC
Q 005381          612 NEIGAH  617 (699)
Q Consensus       612 N~I~~l  617 (699)
                      |.++.+
T Consensus       189 n~l~~~  194 (606)
T 3t6q_A          189 NDIAGI  194 (606)
T ss_dssp             CCCCEE
T ss_pred             CccCcc
Confidence            544443

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.25  E-value=1.3e-10  Score=115.20  Aligned_cols=151  Identities=7%  Similarity=-0.092  Sum_probs=136.1

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF-KSYGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP-Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      +.+..+|..++.++...+.            +++++..+++++..+| ++..+|+.++.+.... +.++++++.++++++
T Consensus         4 ~~~~~~~~~~g~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~al~   70 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKN------------YAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNI-KKYKEAADYFDIAIK   70 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccC------------HHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh-hcHHHHHHHHHHHHH
Confidence            4556899999999988765            9999999999999999 9999999999999987 699999999999999


Q ss_pred             hCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch-------HHHHHHHHHHHHhhhhhccCccchhchHHHHH
Q 005381          135 ADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY-------SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEY  207 (699)
Q Consensus       135 ~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~-------SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL  207 (699)
                      .+|.+..+|..++.+....+.+ +++++++.++++.+|.|.       .+|..++.+...++.            +++++
T Consensus        71 ~~p~~~~~~~~l~~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~------------~~~A~  137 (228)
T 4i17_A           71 KNYNLANAYIGKSAAYRDMKNN-QEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGN------------IEKAE  137 (228)
T ss_dssp             TTCSHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTC------------HHHHH
T ss_pred             hCcchHHHHHHHHHHHHHcccH-HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhcc------------HHHHH
Confidence            9999999999999999999998 789999999999999999       567777777766543            89999


Q ss_pred             HHHHHHHHhCCC--CchhHHHHHHHHc
Q 005381          208 EFVHQAIFTDPD--DQSGWFYHLWLLD  232 (699)
Q Consensus       208 ~~~~~ai~~dP~--d~SaW~Y~~~Ll~  232 (699)
                      +.+.+++..+|+  +..+|+.+..+..
T Consensus       138 ~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A          138 ENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            999999999999  8899988777663

>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=99.25  E-value=5.5e-12  Score=144.71  Aligned_cols=126  Identities=28%  Similarity=0.279  Sum_probs=103.9

Q ss_pred             CeEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          536 MCLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      +.|+|++|.|+.++  .|.++++|++|||++|+|+.+++  |.+|++|++|+|++|+|++++ +..|.++++|+.|+|++
T Consensus        55 ~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~-~~~f~~L~~L~~L~Ls~  133 (635)
T 4g8a_A           55 KNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLA-LGAFSGLSSLQKLVAVE  133 (635)
T ss_dssp             CEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEEC-GGGGTTCTTCCEEECTT
T ss_pred             CEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCC-HHHhcCCCCCCEEECCC
Confidence            34999999999886  79999999999999999998876  999999999999999999873 35689999999999999


Q ss_pred             ccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          612 NEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       612 N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+|+.+|...   +..++-+..+++++|.+..+.         .|..+..+ +|+.|+|++|.|
T Consensus       134 N~l~~l~~~~---~~~L~~L~~L~Ls~N~l~~~~---------~~~~~~~l~~L~~L~L~~N~l  185 (635)
T 4g8a_A          134 TNLASLENFP---IGHLKTLKELNVAHNLIQSFK---------LPEYFSNLTNLEHLDLSSNKI  185 (635)
T ss_dssp             SCCCCSTTCC---CTTCTTCCEEECCSSCCCCCC---------CCGGGGGCTTCCEEECCSSCC
T ss_pred             CcCCCCChhh---hhcCcccCeeccccCccccCC---------CchhhccchhhhhhcccCccc
Confidence            9999986433   344444555677888775432         35677888 999999999999

>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=99.24  E-value=5.2e-12  Score=139.68  Aligned_cols=124  Identities=27%  Similarity=0.291  Sum_probs=101.3

Q ss_pred             eEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      .+++++|.++.+.  .+..+++|+.|+|++|.++.+++  |..+++|+.|+|++|.|+++ .+..+..+++|+.|+|++|
T Consensus       279 ~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls~N  357 (455)
T 3v47_A          279 TCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSI-DSRMFENLDKLEVLDLSYN  357 (455)
T ss_dssp             EEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEE-CGGGGTTCTTCCEEECCSS
T ss_pred             EEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCc-ChhHhcCcccCCEEECCCC
Confidence            3999999998654  78899999999999999987755  99999999999999999886 3467889999999999999


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +|+.++.   ..+..++-+..+++++|.++.+.          +..|..+ +|+.|+|++|++
T Consensus       358 ~l~~~~~---~~~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~l  407 (455)
T 3v47_A          358 HIRALGD---QSFLGLPNLKELALDTNQLKSVP----------DGIFDRLTSLQKIWLHTNPW  407 (455)
T ss_dssp             CCCEECT---TTTTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSSCB
T ss_pred             cccccCh---hhccccccccEEECCCCccccCC----------HhHhccCCcccEEEccCCCc
Confidence            9988742   34455555566678888775432          2457888 999999999999

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.24  E-value=2.1e-10  Score=116.08  Aligned_cols=171  Identities=8%  Similarity=-0.036  Sum_probs=124.3

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHH-H
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRK-W  113 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~-w  113 (699)
                      ...|.+ ++|+..+.+++..+|++..+|...+.+....++            +++++..+++++..+|.+..+|..++ .
T Consensus        85 ~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~l~~~  151 (272)
T 3u4t_A           85 MKKGQD-SLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGN------------FPLAIQYMEKQIRPTTTDPKVFYELGQA  151 (272)
T ss_dssp             HHTTCH-HHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTC------------HHHHHHHHGGGCCSSCCCHHHHHHHHHH
T ss_pred             HHcccH-HHHHHHHHHHHhcCcccHHHHHHHHHHHHHccC------------HHHHHHHHHHHhhcCCCcHHHHHHHHHH
Confidence            344555 678888888888888888888888877777654            77888888888888888888888887 5


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCC---ChHHHHHHHHHHHHhc---cCc-----hHHHHHHH
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR---SEEDELKYTEDMICNN---FSN-----YSAWHNRS  182 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~---~~e~EL~~~~~~I~~n---~sN-----~SAW~~R~  182 (699)
                      +....  .++++++.++++++++|.+..+|..++.+...++.   + ++.+.+++++++..   |..     ..+|.+.+
T Consensus       152 ~~~~~--~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  228 (272)
T 3u4t_A          152 YYYNK--EYVKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQ-GLAKPYYEKLIEVCAPGGAKYKDELIEANEYIA  228 (272)
T ss_dssp             HHHTT--CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSS-CTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHH
T ss_pred             HHHHH--HHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhh-HHHHHHHHHHHHHHhcccccchHHHHHHHHHHH
Confidence            44433  77788888888888888888888888877777765   4 45666777777764   432     25666666


Q ss_pred             HHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          183 LLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       183 ~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      .+....+.            ++++++++.+++.++|+|..+|--+..+...
T Consensus       229 ~~~~~~~~------------~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~  267 (272)
T 3u4t_A          229 YYYTINRD------------KVKADAAWKNILALDPTNKKAIDGLKMKLEH  267 (272)
T ss_dssp             HHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHC-----
T ss_pred             HHHHHcCC------------HHHHHHHHHHHHhcCccHHHHHHHhhhhhcc
Confidence            66655433            7999999999999999999999887777654

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.24  E-value=2.4e-10  Score=107.45  Aligned_cols=166  Identities=11%  Similarity=0.030  Sum_probs=149.5

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHH
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHR  111 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR  111 (699)
                      ......|.+ ++|+..+.+++..+|++..+|...+.+....+.            +++++..+++++..+|.+..+|...
T Consensus        16 ~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~   82 (186)
T 3as5_A           16 ISHAKAGRY-SQAVMLLEQVYDADAFDVDVALHLGIAYVKTGA------------VDRGTELLERSLADAPDNVKVATVL   82 (186)
T ss_dssp             HHHHHHTCH-HHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHhcCH-HHHHHHHHHHHHhCccChHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            334456677 799999999999999999999999999887765            8999999999999999999999999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhh
Q 005381          112 KWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKR  191 (699)
Q Consensus       112 ~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~  191 (699)
                      +.++... +.++++++.++++++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|...+.+....+. 
T Consensus        83 a~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~-  159 (186)
T 3as5_A           83 GLTYVQV-QKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRF-DEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGR-  159 (186)
T ss_dssp             HHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHh-cCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcH-HHHHHHHHHHHhcCccchHHHHHHHHHHHHcCC-
Confidence            9999876 6899999999999999999999999999999999988 789999999999999999999999988877644 


Q ss_pred             hccCccchhchHHHHHHHHHHHHHhCCCCchhH
Q 005381          192 KVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGW  224 (699)
Q Consensus       192 ~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW  224 (699)
                                 ++++++.+.+++..+|++....
T Consensus       160 -----------~~~A~~~~~~~~~~~~~~~~~~  181 (186)
T 3as5_A          160 -----------HEEALPHFKKANELDEGASVEL  181 (186)
T ss_dssp             -----------HHHHHHHHHHHHHHHHCCCGGG
T ss_pred             -----------HHHHHHHHHHHHHcCCCchhhH
Confidence                       7999999999999999887543

>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=99.24  E-value=1.8e-11  Score=122.65  Aligned_cols=141  Identities=16%  Similarity=0.164  Sum_probs=108.9

Q ss_pred             eEEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC---CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG---LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       537 ~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~---l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      .+++++|.++.+|. .-...++.|+|++|.|+.+++   |..+++|+.|+|++|.|+.+. +..|..+++|+.|+|++|.
T Consensus        15 ~l~~s~n~l~~iP~-~~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~-~~~~~~l~~L~~L~Ls~N~   92 (220)
T 2v70_A           15 TVDCSNQKLNKIPE-HIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIE-EGAFEGASGVNEILLTSNR   92 (220)
T ss_dssp             EEECCSSCCSSCCS-CCCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEEC-TTTTTTCTTCCEEECCSSC
T ss_pred             EeEeCCCCcccCcc-CCCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEEC-HHHhCCCCCCCEEECCCCc
Confidence            39999999998873 113467899999999988743   899999999999999999873 4578999999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccc
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~  692 (699)
                      |+.++...   +..++-+..+++++|.+..+.          |..|..+ +|+.|+|++|.|.  .+....+..+++|+.
T Consensus        93 l~~~~~~~---~~~l~~L~~L~Ls~N~l~~~~----------~~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~  157 (220)
T 2v70_A           93 LENVQHKM---FKGLESLKTLMLRSNRITCVG----------NDSFIGLSSVRLLSLYDNQIT--TVAPGAFDTLHSLST  157 (220)
T ss_dssp             CCCCCGGG---GTTCSSCCEEECTTSCCCCBC----------TTSSTTCTTCSEEECTTSCCC--CBCTTTTTTCTTCCE
T ss_pred             cCccCHhH---hcCCcCCCEEECCCCcCCeEC----------HhHcCCCccCCEEECCCCcCC--EECHHHhcCCCCCCE
Confidence            99986433   344455555678888875532          4578889 9999999999992  111123456778877


Q ss_pred             cc
Q 005381          693 LD  694 (699)
Q Consensus       693 LD  694 (699)
                      ||
T Consensus       158 L~  159 (220)
T 2v70_A          158 LN  159 (220)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>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=99.24  E-value=6.6e-12  Score=140.06  Aligned_cols=123  Identities=19%  Similarity=0.182  Sum_probs=76.4

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++.++  .|..+++|++|+|++|.+..+++  |..+++|+.|+|++|.++.+ .+..|..+++|+.|+|++|.
T Consensus        85 L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~n~  163 (477)
T 2id5_A           85 LGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYI-SHRAFSGLNSLEQLTLEKCN  163 (477)
T ss_dssp             EECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEE-CTTSSTTCTTCCEEEEESCC
T ss_pred             EECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCcccee-ChhhccCCCCCCEEECCCCc
Confidence            777777777665  46667777777777777755543  66777777777777777665 23556667777777777777


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      ++.++...   +..++.+..+++.+|.+..+.          +..|..+ +|+.|+|++|++
T Consensus       164 l~~~~~~~---l~~l~~L~~L~l~~n~i~~~~----------~~~~~~l~~L~~L~l~~~~~  212 (477)
T 2id5_A          164 LTSIPTEA---LSHLHGLIVLRLRHLNINAIR----------DYSFKRLYRLKVLEISHWPY  212 (477)
T ss_dssp             CSSCCHHH---HTTCTTCCEEEEESCCCCEEC----------TTCSCSCTTCCEEEEECCTT
T ss_pred             CcccChhH---hcccCCCcEEeCCCCcCcEeC----------hhhcccCcccceeeCCCCcc
Confidence            77665222   222333333445555543322          2356777 888888888776

>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=99.24  E-value=2.4e-11  Score=122.48  Aligned_cols=140  Identities=16%  Similarity=0.133  Sum_probs=107.8

Q ss_pred             eEEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          537 CLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       537 ~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      .++.+++.++.+|. .-.++|+.|+|++|.|+.+++  |..+++|+.|+|++|+|+.++ +..|..+++|+.|+|++|+|
T Consensus        23 ~v~c~~~~l~~ip~-~~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~-~~~~~~l~~L~~L~Ls~N~l  100 (229)
T 3e6j_A           23 TVDCRSKRHASVPA-GIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALP-VGVFDSLTQLTVLDLGTNQL  100 (229)
T ss_dssp             EEECTTSCCSSCCS-CCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSCC
T ss_pred             EeEccCCCcCccCC-CCCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcC-hhhcccCCCcCEEECCCCcC
Confidence            38899999998883 223899999999999988855  999999999999999998873 35678999999999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWL  693 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~L  693 (699)
                      +.++...   +..++.+..+++++|.+..           +|..+..+ +|+.|+|++|.|.  .+....+..+++|+.|
T Consensus       101 ~~l~~~~---~~~l~~L~~L~Ls~N~l~~-----------lp~~~~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~L  164 (229)
T 3e6j_A          101 TVLPSAV---FDRLVHLKELFMCCNKLTE-----------LPRGIERLTHLTHLALDQNQLK--SIPHGAFDRLSSLTHA  164 (229)
T ss_dssp             CCCCTTT---TTTCTTCCEEECCSSCCCS-----------CCTTGGGCTTCSEEECCSSCCC--CCCTTTTTTCTTCCEE
T ss_pred             CccChhH---hCcchhhCeEeccCCcccc-----------cCcccccCCCCCEEECCCCcCC--ccCHHHHhCCCCCCEE
Confidence            9986433   3344445556777777743           35567788 9999999999992  1112234567788766


Q ss_pred             c
Q 005381          694 D  694 (699)
Q Consensus       694 D  694 (699)
                      +
T Consensus       165 ~  165 (229)
T 3e6j_A          165 Y  165 (229)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.23  E-value=3.4e-12  Score=121.87  Aligned_cols=133  Identities=25%  Similarity=0.262  Sum_probs=103.8

Q ss_pred             cccccccCCCCCccc-cchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEcc
Q 005381          485 YNDLMRLDPTHVQYY-KDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLS  563 (699)
Q Consensus       485 l~~L~~LDls~n~~~-~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdLS  563 (699)
                      ..+|+.|++++|.+. ..++                ..+..+.+++.       |++++|.++.+..+..+++|+.|+|+
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~----------------~~~~~l~~L~~-------L~l~~n~l~~~~~~~~l~~L~~L~Ls   79 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIE----------------GLTAEFVNLEF-------LSLINVGLISVSNLPKLPKLKKLELS   79 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCS----------------SCCGGGGGCCE-------EEEESSCCCCCSSCCCCSSCCEEEEE
T ss_pred             cccCCEEECCCCCCChhhHH----------------HHHHhCCCCCE-------EeCcCCCCCChhhhccCCCCCEEECc
Confidence            367999999999832 1121                11122233333       99999999988889999999999999


Q ss_pred             CCCCCC-CcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCcc
Q 005381          564 HNELRS-IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHG  641 (699)
Q Consensus       564 ~N~L~~-l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l  641 (699)
                      +|.++. +|. +..+++|+.|++++|.|++++.+..+..+++|+.|++++|+|+.+|.  .                   
T Consensus        80 ~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~--~-------------------  138 (168)
T 2ell_A           80 ENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLND--Y-------------------  138 (168)
T ss_dssp             SCCCCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTT--H-------------------
T ss_pred             CCcCchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHH--H-------------------
Confidence            999977 666 77799999999999999987544778999999999999999988751  0                   


Q ss_pred             ceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          642 QTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       642 ~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                                   ....+..+ +|+.|++++|.+
T Consensus       139 -------------~~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A          139 -------------RESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             -------------HHHHHTTCSSCCEETTEETTS
T ss_pred             -------------HHHHHHhCccCcEecCCCCCh
Confidence                         01246667 899999999988

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

Probab=99.23  E-value=6.4e-12  Score=149.02  Aligned_cols=135  Identities=19%  Similarity=0.164  Sum_probs=90.4

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHH----hhhh---ccchH-HHhhhhccCCCCCCCCCCCCeEEccCCCCC-
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVL----LQQV---TSNWE-SLLSRCFHYSNSPSNRGSPMCLQLKNLSLS-  546 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~----l~~l---~~~~~-~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~-  546 (699)
                      +..+..+..+++|++||+++|.+.+.++..+.    ++.+   .+.+. .++..+..+..++       .|++++|.++ 
T Consensus       408 ~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~-------~L~L~~N~l~~  480 (768)
T 3rgz_A          408 GKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLE-------TLILDFNDLTG  480 (768)
T ss_dssp             EECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCC-------EEECCSSCCCS
T ss_pred             cccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCce-------EEEecCCcccC
Confidence            34556677888888888888875433222110    1110   00000 1122222333333       3888888888 


Q ss_pred             ccc-CCCCCcccCEEEccCCCCC-CCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC-CCC
Q 005381          547 RLG-SFDKLLWVQMLDLSHNELR-SIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG-AHS  618 (699)
Q Consensus       547 ~l~-~l~~L~~L~~LdLS~N~L~-~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~-~lp  618 (699)
                      .++ .+..+++|+.|+|++|.++ .+|. +..+++|+.|+|++|++++. .|..+..+++|+.|+|++|+++ .+|
T Consensus       481 ~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~-~p~~l~~l~~L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          481 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGN-IPAELGDCRSLIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEE-CCGGGGGCTTCCEEECCSSEEESBCC
T ss_pred             cCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCc-CCHHHcCCCCCCEEECCCCccCCcCC
Confidence            444 7888899999999999985 6676 88899999999999998764 4677888999999999999885 555

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.23  E-value=2.9e-10  Score=123.86  Aligned_cols=183  Identities=11%  Similarity=0.009  Sum_probs=151.2

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      .+..........|.+ ++|+.++.+++..+|++..+|+.++.+....+.            +++++..+++++..+|++.
T Consensus        28 ~~~~~~~~~~~~g~~-~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~p~~~   94 (450)
T 2y4t_A           28 KHLELGKKLLAAGQL-ADALSQFHAAVDGDPDNYIAYYRRATVFLAMGK------------SKAALPDLTKVIQLKMDFT   94 (450)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHhcCCCcH
Confidence            344444445567777 799999999999999999999999999988865            8999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh---hhhhHH------------HHHHHhcCCChHHHHHHHHHHHHh
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF---HAWNYR------------RFVAASMNRSEEDELKYTEDMICN  170 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~---haW~yR------------~~vl~~l~~~~e~EL~~~~~~I~~  170 (699)
                      .+|...+.++.+. +.++++++.++++++.+|.+.   .+|..-            +.+....+.+ ++.+++++++++.
T Consensus        95 ~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~  172 (450)
T 2y4t_A           95 AARLQRGHLLLKQ-GKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDY-TAAIAFLDKILEV  172 (450)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHh
Confidence            9999999999887 689999999999999999988   776544            4446666777 6788888999999


Q ss_pred             ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          171 NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       171 n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      +|.+..+|..++.++...+.            ++++++.+.+++..+|++..+|+.+..++....
T Consensus       173 ~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  225 (450)
T 2y4t_A          173 CVWDAELRELRAECFIKEGE------------PRKAISDLKAASKLKNDNTEAFYKISTLYYQLG  225 (450)
T ss_dssp             CTTCHHHHHHHHHHHHHTTC------------GGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTT
T ss_pred             CCCChHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            99999999998888877654            678888888888888988888888777775543

>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=99.23  E-value=8.9e-12  Score=128.75  Aligned_cols=180  Identities=19%  Similarity=0.178  Sum_probs=128.1

Q ss_pred             ccccccCCCCCccccchhhhHHhhhhccchHHHhh-hhccCCCCCCCCCCCCeEEccCCCCCccc--CCCCCcccCEEEc
Q 005381          486 NDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLS-RCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKLLWVQMLDL  562 (699)
Q Consensus       486 ~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~-~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L~~L~~LdL  562 (699)
                      ..|++||+++|.+.                 .+.. .+..+.+++.       |++++|.++.++  .+..+++|++|+|
T Consensus        28 ~~l~~L~ls~n~l~-----------------~~~~~~~~~l~~L~~-------L~l~~n~l~~~~~~~~~~l~~L~~L~L   83 (276)
T 2z62_A           28 FSTKNLDLSFNPLR-----------------HLGSYSFFSFPELQV-------LDLSRCEIQTIEDGAYQSLSHLSTLIL   83 (276)
T ss_dssp             TTCCEEECTTCCCC-----------------EECTTTTTTCTTCSE-------EECTTCCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCccEEECCCCccc-----------------ccCHhHhccccCCcE-------EECCCCcCCccCHHHccCCcCCCEEEC
Confidence            46899999998721                 1111 2222333333       999999999876  6899999999999


Q ss_pred             cCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCc
Q 005381          563 SHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH  640 (699)
Q Consensus       563 S~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~  640 (699)
                      ++|.++.++.  |..+++|+.|++++|.++.+. +..+..+++|+.|++++|.++.+++  ...+..++.+..+++++|.
T Consensus        84 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~n~l~~~~l--~~~~~~l~~L~~L~Ls~N~  160 (276)
T 2z62_A           84 TGNPIQSLALGAFSGLSSLQKLVAVETNLASLE-NFPIGHLKTLKELNVAHNLIQSFKL--PEYFSNLTNLEHLDLSSNK  160 (276)
T ss_dssp             TTCCCCEECTTTTTTCTTCCEEECTTSCCCCST-TCCCTTCTTCCEEECCSSCCCCCCC--CGGGGGCTTCCEEECCSSC
T ss_pred             CCCccCccChhhhcCCccccEEECCCCCccccC-chhcccCCCCCEEECcCCccceecC--chhhccCCCCCEEECCCCC
Confidence            9999988775  999999999999999999874 3468899999999999999988541  2334445555566888888


Q ss_pred             cceeec----------------C-CcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          641 GQTVID----------------D-DIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       641 l~~~~~----------------~-~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +..+..                + ..+....++...... +|+.|+|++|.|.  .+...++..+++|+.||
T Consensus       161 l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~--~~~~~~~~~l~~L~~L~  230 (276)
T 2z62_A          161 IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLK--SVPDGIFDRLTSLQKIW  230 (276)
T ss_dssp             CCEECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSCCS--CCCTTTTTTCCSCCEEE
T ss_pred             CCcCCHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECCCCcee--ecCHhHhcccccccEEE
Confidence            765432                2 222333334444445 8999999999992  11223345678887665

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

Probab=99.23  E-value=6.8e-12  Score=148.77  Aligned_cols=53  Identities=26%  Similarity=0.392  Sum_probs=33.6

Q ss_pred             EEccCCCCC-ccc-CCCCCcccCEEEccCCCCC-CCcC-CccccccceeecccCCCC
Q 005381          538 LQLKNLSLS-RLG-SFDKLLWVQMLDLSHNELR-SIEG-LEALQLLSCLNLSNNILG  590 (699)
Q Consensus       538 L~Ls~n~l~-~l~-~l~~L~~L~~LdLS~N~L~-~l~~-l~~L~~L~~L~Ls~N~l~  590 (699)
                      |++++|.++ .++ .++.+++|++|+|++|.+. .+|. +..+++|+.|++++|.++
T Consensus       495 L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  551 (768)
T 3rgz_A          495 ISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFN  551 (768)
T ss_dssp             EECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEE
T ss_pred             EEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccC
Confidence            666666666 344 5666666667777666663 4555 666666666666666554

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

Probab=99.23  E-value=1.1e-11  Score=142.41  Aligned_cols=183  Identities=20%  Similarity=0.249  Sum_probs=127.7

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHH-hhhhccCCCCCCCCCCCCeEEccCCCCCcc-c-CCC
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESL-LSRCFHYSNSPSNRGSPMCLQLKNLSLSRL-G-SFD  552 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l-~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l-~-~l~  552 (699)
                      +..+..+..+++|++||+++|.+.                 .+ +..+..+.+++.       |+|++|.++.+ + .|.
T Consensus        46 ~~~~~~~~~l~~L~~L~Ls~n~l~-----------------~i~~~~~~~l~~L~~-------L~Ls~n~l~~~~p~~~~  101 (606)
T 3vq2_A           46 ILKSYSFSNFSELQWLDLSRCEIE-----------------TIEDKAWHGLHHLSN-------LILTGNPIQSFSPGSFS  101 (606)
T ss_dssp             EECTTTTTTCTTCCEEECTTCCCC-----------------EECTTTTTTCTTCCE-------EECTTCCCCCCCTTSST
T ss_pred             EeChhhccCCccCcEEeCCCCccc-----------------ccCHHHhhchhhcCE-------eECCCCcccccChhhcC
Confidence            334446778899999999988721                 11 112223344443       99999999977 3 799


Q ss_pred             CCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCC
Q 005381          553 KLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPL  630 (699)
Q Consensus       553 ~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~l  630 (699)
                      ++++|++|+|++|.+..+++  +..+++|+.|++++|.++++..|..++.+++|+.|++++|.++.++...+..+..+..
T Consensus       102 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~  181 (606)
T 3vq2_A          102 GLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQ  181 (606)
T ss_dssp             TCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEECTTTTHHHHHCTT
T ss_pred             CcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecChhhhhhhhcccc
Confidence            99999999999999988875  9999999999999999987655788999999999999999998886444444433321


Q ss_pred             -cccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCCCCccchHHHhhcCCccccc
Q 005381          631 -SHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWL  693 (699)
Q Consensus       631 -l~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~L  693 (699)
                       +..+++++|.+..+..          ..+...+|+.|+|++|.+.... ....+..++.|+.+
T Consensus       182 ~l~~L~l~~n~l~~~~~----------~~~~~~~L~~L~L~~n~~~~~~-~~~~~~~l~~L~~l  234 (606)
T 3vq2_A          182 VNLSLDMSLNPIDFIQD----------QAFQGIKLHELTLRGNFNSSNI-MKTCLQNLAGLHVH  234 (606)
T ss_dssp             CCCEEECTTCCCCEECT----------TTTTTCEEEEEEEESCCSCHHH-HHHHHHTTTTCEEE
T ss_pred             ccceeeccCCCcceeCc----------ccccCceeeeeeccCCccchhH-HHHHhccccccccc
Confidence             2234667776654332          2233238999999999883222 23344556666543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.22  E-value=6.6e-10  Score=117.46  Aligned_cols=190  Identities=14%  Similarity=0.079  Sum_probs=161.2

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------CCch---h------------------
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------SDPD---S------------------   82 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~~~~---~------------------   82 (699)
                      ....|.+ ++|+..+.+++..+|++..+|...+.++...+...+          ..|+   .                  
T Consensus       108 ~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (368)
T 1fch_A          108 QAENEQE-LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKR  186 (368)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------C
T ss_pred             HHHCcCH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHH
Confidence            3455666 799999999999999999999999988877643100          0110   0                  


Q ss_pred             ------hhhhHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcC
Q 005381           83 ------LKSILDEELRVVESALRQNFK--SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMN  154 (699)
Q Consensus        83 ------~~~~~~eEL~~~~~~L~~nPK--sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~  154 (699)
                            ....+++++..+++++..+|.  ...+|...+.++... +.+++++++++++++++|.+..+|...+.+....|
T Consensus       187 ~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g  265 (368)
T 1fch_A          187 ILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLS-GEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGN  265 (368)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcC
Confidence                  124577888999999999999  889999999999887 69999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC-----------chh
Q 005381          155 RSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD-----------QSG  223 (699)
Q Consensus       155 ~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d-----------~Sa  223 (699)
                      .+ ++.+++++++++.+|.+..+|..++.++...+.            ++++++.+.+++..+|++           ..+
T Consensus       266 ~~-~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          266 QS-EEAVAAYRRALELQPGYIRSRYNLGISCINLGA------------HREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             CH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             CH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            98 789999999999999999999999999888755            899999999999999998           889


Q ss_pred             HHHHHHHHcCcCCCC
Q 005381          224 WFYHLWLLDQTVRVD  238 (699)
Q Consensus       224 W~Y~~~Ll~~~~~~~  238 (699)
                      |..+..++....+.+
T Consensus       333 ~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          333 WSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHhCChH
Confidence            999988887655433

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.22  E-value=1.8e-10  Score=131.29  Aligned_cols=162  Identities=9%  Similarity=-0.110  Sum_probs=134.4

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      |++ ++|++.+.+++..+|++..+|...+.++...++            +++++..++++++.+|++..+|...+.++..
T Consensus         3 g~~-~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   69 (568)
T 2vsy_A            3 ADG-PRELLQLRAAVRHRPQDFVAWLMLADAELGMGD------------TTAGEMAVQRGLALHPGHPEAVARLGRVRWT   69 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHTTSTTCHHHHHHHHHHHHH
T ss_pred             ccH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            445 799999999999999999999999999988865            9999999999999999999999999999998


Q ss_pred             CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh---hhhhcc
Q 005381          118 GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL---LKRKVE  194 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l---~~~~~~  194 (699)
                      . +.+++++++++++++++|.+..+|...+.+....+.+ ++++++++++++.+|.+..+|...+.++..+   +.    
T Consensus        70 ~-g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~----  143 (568)
T 2vsy_A           70 Q-QRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQA-EAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRA----  143 (568)
T ss_dssp             T-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTT----
T ss_pred             C-CCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhcccc----
Confidence            7 6999999999999999999999999999999999998 7899999999999999999999999988876   43    


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHH
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y  226 (699)
                              ++++++.+.+++..+|++.++|..
T Consensus       144 --------~~~A~~~~~~al~~~p~~~~~~~~  167 (568)
T 2vsy_A          144 --------LDVLSAQVRAAVAQGVGAVEPFAF  167 (568)
T ss_dssp             --------HHHHHHHHHHHHHHTCCCSCHHHH
T ss_pred             --------HHHHHHHHHHHHhcCCcccChHHH
Confidence                    799999999999999999888754

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.22  E-value=2.5e-11  Score=131.82  Aligned_cols=37  Identities=27%  Similarity=0.323  Sum_probs=18.4

Q ss_pred             ccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          578 LLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       578 ~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      +|+.|++++|.+++.   ..+..+++|+.|+|++|.|+.+
T Consensus       227 ~L~~L~l~~n~l~~~---~~l~~l~~L~~L~Ls~n~l~~~  263 (390)
T 3o6n_A          227 ELTILKLQHNNLTDT---AWLLNYPGLVEVDLSYNELEKI  263 (390)
T ss_dssp             SCCEEECCSSCCCCC---GGGGGCTTCSEEECCSSCCCEE
T ss_pred             cccEEECCCCCCccc---HHHcCCCCccEEECCCCcCCCc
Confidence            344444444444432   3345555555666666655554

>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=99.22  E-value=1.1e-11  Score=142.06  Aligned_cols=164  Identities=22%  Similarity=0.239  Sum_probs=108.1

Q ss_pred             CcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhh-hccCCCCCCCCCCCCeEEccCCCCCccc--CCCC
Q 005381          477 HSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSR-CFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDK  553 (699)
Q Consensus       477 ~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~-~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~  553 (699)
                      ..+..|..+++|++||+++|.                 +..++.. +..+.+++.       |+|++|.|+.++  .|.+
T Consensus        67 l~~~~f~~l~~L~~L~Ls~N~-----------------i~~i~~~~f~~L~~L~~-------L~Ls~N~l~~l~~~~f~~  122 (635)
T 4g8a_A           67 LGSYSFFSFPELQVLDLSRCE-----------------IQTIEDGAYQSLSHLST-------LILTGNPIQSLALGAFSG  122 (635)
T ss_dssp             ECTTTTTTCTTCCEEECTTCC-----------------CCEECTTTTTTCTTCCE-------EECTTCCCCEECGGGGTT
T ss_pred             CCHHHHhCCCCCCEEECCCCc-----------------CCCcChhHhcCCCCCCE-------EEccCCcCCCCCHHHhcC
Confidence            334567788888888888887                 2222222 223344333       888888888776  5788


Q ss_pred             CcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCc
Q 005381          554 LLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLS  631 (699)
Q Consensus       554 L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll  631 (699)
                      +++|++|+|++|.|+.+++  |.++++|+.|+|++|.|+.+..|..++.+++|+.|+|++|+|+.++...+..+......
T Consensus       123 L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~l~~~  202 (635)
T 4g8a_A          123 LSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLL  202 (635)
T ss_dssp             CTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTC
T ss_pred             CCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCccccccccccccchhhhhhh
Confidence            8888888888888888876  88888888888888888877666777888888888888888888764444444333211


Q ss_pred             -ccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCC
Q 005381          632 -HSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAI  674 (699)
Q Consensus       632 -~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l  674 (699)
                       ..++++.|.+..+..          ..+..+.+..|++++|..
T Consensus       203 ~~~~~ls~n~l~~i~~----------~~~~~~~~~~l~l~~n~~  236 (635)
T 4g8a_A          203 NLSLDLSLNPMNFIQP----------GAFKEIRLHKLTLRNNFD  236 (635)
T ss_dssp             CCEEECTTCCCCEECT----------TTTTTCEEEEEEEESCCS
T ss_pred             hhhhhcccCcccccCc----------ccccchhhhhhhhhcccc
Confidence             123445555543321          122222556666666654

>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=99.22  E-value=6e-12  Score=127.30  Aligned_cols=122  Identities=13%  Similarity=0.177  Sum_probs=64.9

Q ss_pred             EEccC-CCCCccc--CCCCCcccCEEEccCCCCCCCcCCccccccc---eeecccC-CCCCCCCCcccccccccc-cccc
Q 005381          538 LQLKN-LSLSRLG--SFDKLLWVQMLDLSHNELRSIEGLEALQLLS---CLNLSNN-ILGSFTALEPIRQLKSLR-ALNI  609 (699)
Q Consensus       538 L~Ls~-n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~---~L~Ls~N-~l~~l~~~~~l~~l~~L~-~L~L  609 (699)
                      |++++ |.++.++  .|..+++|+.|++++|.++.+|.|..+++|+   .|++++| .++.++ +..|..+++|+ .|++
T Consensus        85 L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~-~~~~~~l~~L~~~L~l  163 (239)
T 2xwt_C           85 IEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIP-VNAFQGLCNETLTLKL  163 (239)
T ss_dssp             EEEEEETTCCEECTTSEECCTTCCEEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEEC-TTTTTTTBSSEEEEEC
T ss_pred             EECCCCCCeeEcCHHHhCCCCCCCEEeCCCCCCccccccccccccccccEEECCCCcchhhcC-cccccchhcceeEEEc
Confidence            55555 5555544  4555556666666666665555555555555   6666666 555542 23355556666 6666


Q ss_pred             ccccCCCCCcccccccCCCCCcccccCCCCc-cceeecCCcchhhhhhccCCCC--CccEEEecCCCC
Q 005381          610 SYNEIGAHSIDTTKYLCSSPLSHSVGSEWNH-GQTVIDDDIKSYWEAYFILKGL--NLTQFDIVGNAI  674 (699)
Q Consensus       610 s~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~-l~~~~~~~~~~~~~~p~~l~~L--~L~~LdLs~N~l  674 (699)
                      ++|.|+.+|...+   .. .-+..+++.+|. +..+.          +..|.++  +|+.|+|++|+|
T Consensus       164 ~~n~l~~i~~~~~---~~-~~L~~L~L~~n~~l~~i~----------~~~~~~l~~~L~~L~l~~N~l  217 (239)
T 2xwt_C          164 YNNGFTSVQGYAF---NG-TKLDAVYLNKNKYLTVID----------KDAFGGVYSGPSLLDVSQTSV  217 (239)
T ss_dssp             CSCCCCEECTTTT---TT-CEEEEEECTTCTTCCEEC----------TTTTTTCSBCCSEEECTTCCC
T ss_pred             CCCCCcccCHhhc---CC-CCCCEEEcCCCCCcccCC----------HHHhhccccCCcEEECCCCcc
Confidence            6666655542111   11 122223444442 43221          2345554  788888888888

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

Probab=99.22  E-value=1.7e-11  Score=142.94  Aligned_cols=80  Identities=35%  Similarity=0.349  Sum_probs=49.5

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccc--ccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPI--RQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l--~~l~~L~~L~Ls~  611 (699)
                      |+|++|.++.++  .+..+++|++|+|++|.++.++.  +..+++|+.|++++|.++++. +..+  ..+++|+.|++++
T Consensus       102 L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~~~~~~L~~L~L~~  180 (680)
T 1ziw_A          102 LHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALK-SEELDIFANSSLKKLELSS  180 (680)
T ss_dssp             EECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBC-HHHHGGGTTCEESEEECTT
T ss_pred             EECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccC-HHHhhccccccccEEECCC
Confidence            666666666554  56666777777777776654433  666667777777777666542 1222  2346677777777


Q ss_pred             ccCCCCC
Q 005381          612 NEIGAHS  618 (699)
Q Consensus       612 N~I~~lp  618 (699)
                      |.++.++
T Consensus       181 n~l~~~~  187 (680)
T 1ziw_A          181 NQIKEFS  187 (680)
T ss_dssp             CCCCCBC
T ss_pred             CcccccC
Confidence            7766654

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.22  E-value=4.7e-11  Score=115.29  Aligned_cols=98  Identities=20%  Similarity=0.238  Sum_probs=83.7

Q ss_pred             eEEccCCCCCcccC-CCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLGS-FDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       537 ~L~Ls~n~l~~l~~-l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      .+++++|.++.+|. +  .++|+.|+|++|.|+.+++  |..+++|+.|+|++|+|++++ +..|..+++|+.|+|++|+
T Consensus        16 ~l~~~~n~l~~iP~~~--~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~-~~~~~~l~~L~~L~L~~N~   92 (174)
T 2r9u_A           16 LVNCQNIRLASVPAGI--PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIP-TGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             EEECCSSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EEEeCCCCCCccCCCc--CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccC-hhHhCCcchhhEEECCCCc
Confidence            38999999998883 4  3899999999999988865  999999999999999999973 3457889999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.+|.                                     ..|..+ +|+.|+|++|++
T Consensus        93 l~~l~~-------------------------------------~~~~~l~~L~~L~L~~N~~  117 (174)
T 2r9u_A           93 LKSIPR-------------------------------------GAFDNLKSLTHIYLYNNPW  117 (174)
T ss_dssp             CCCCCT-------------------------------------TTTTTCTTCSEEECCSSCB
T ss_pred             cceeCH-------------------------------------HHhccccCCCEEEeCCCCc
Confidence            998852                                     246667 899999999998

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.21  E-value=2e-11  Score=131.60  Aligned_cols=137  Identities=24%  Similarity=0.207  Sum_probs=105.9

Q ss_pred             eEEccCCCCCccc--CCC-CCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG--SFD-KLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~-~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      .|+|++|.|+.++  .+. .+++|+.|+|++|.|+.+++  |..+++|+.|+|++|+|+.+. +..|..+++|+.|+|++
T Consensus        43 ~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~l~~L~~L~L~~  121 (361)
T 2xot_A           43 LLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLD-EFLFSDLQALEVLLLYN  121 (361)
T ss_dssp             EEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEEC-TTTTTTCTTCCEEECCS
T ss_pred             EEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCC-HHHhCCCcCCCEEECCC
Confidence            3999999999876  566 89999999999999998886  999999999999999999873 35688999999999999


Q ss_pred             ccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccC---CCC-CccEEEecCCCCCCccchHHHhhcC
Q 005381          612 NEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFIL---KGL-NLTQFDIVGNAIVNEKFKSFLIKVL  687 (699)
Q Consensus       612 N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l---~~L-~L~~LdLs~N~l~~~~~~~~~~~~l  687 (699)
                      |+|+.++.   ..+..++.+..+++++|.+..+..          ..|   ..+ +|+.|+|++|.|.  .+....+..+
T Consensus       122 N~i~~~~~---~~~~~l~~L~~L~L~~N~l~~l~~----------~~~~~~~~l~~L~~L~L~~N~l~--~l~~~~~~~l  186 (361)
T 2xot_A          122 NHIVVVDR---NAFEDMAQLQKLYLSQNQISRFPV----------ELIKDGNKLPKLMLLDLSSNKLK--KLPLTDLQKL  186 (361)
T ss_dssp             SCCCEECT---TTTTTCTTCCEEECCSSCCCSCCG----------GGTC----CTTCCEEECCSSCCC--CCCHHHHHHS
T ss_pred             CcccEECH---HHhCCcccCCEEECCCCcCCeeCH----------HHhcCcccCCcCCEEECCCCCCC--ccCHHHhhhc
Confidence            99998853   334445555556888888765432          233   567 9999999999993  1222334445


Q ss_pred             Cc
Q 005381          688 PG  689 (699)
Q Consensus       688 ~~  689 (699)
                      +.
T Consensus       187 ~~  188 (361)
T 2xot_A          187 PA  188 (361)
T ss_dssp             CH
T ss_pred             cH
Confidence            54

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.21  E-value=9e-10  Score=111.82  Aligned_cols=183  Identities=10%  Similarity=-0.083  Sum_probs=152.5

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCc---hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPEL---YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF  102 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~---ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP  102 (699)
                      .+..........|.+ ++|+..+.+++..+|++   ..+|...+.+....++            +++++..+++++..+|
T Consensus        17 ~~~~~a~~~~~~g~~-~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~------------~~~A~~~~~~~l~~~p   83 (261)
T 3qky_A           17 EAFERAMEFYNQGKY-DRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKE------------YLLAASEYERFIQIYQ   83 (261)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhCCH-HHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCc------------HHHHHHHHHHHHHHCC
Confidence            334445555677888 89999999999999999   8999999999998865            9999999999999988


Q ss_pred             CC---hHHHHHHHHHHHh--------CCCChHHHHHHHHHHHHhCCCChhhh-----------------hHHHHHHHhcC
Q 005381          103 KS---YGAWHHRKWILSK--------GHSSIDNELRLLDKFQKADSRNFHAW-----------------NYRRFVAASMN  154 (699)
Q Consensus       103 Ks---y~aW~hR~w~L~~--------~~~~~~~EL~~~~k~L~~dprN~haW-----------------~yR~~vl~~l~  154 (699)
                      ++   ..+|+.++.++..        . +.+++++..++++++.+|.+..++                 ..++.+....|
T Consensus        84 ~~~~~~~a~~~lg~~~~~~~~~~~~~~-~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g  162 (261)
T 3qky_A           84 IDPRVPQAEYERAMCYYKLSPPYELDQ-TDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRE  162 (261)
T ss_dssp             TCTTHHHHHHHHHHHHHHHCCCTTSCC-HHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCchhHHHHHHHHHHHHHhcccccccc-hhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            55   6789999999887        5 589999999999999999998888                 77788888899


Q ss_pred             CChHHHHHHHHHHHHhccC---chHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          155 RSEEDELKYTEDMICNNFS---NYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       155 ~~~e~EL~~~~~~I~~n~s---N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      .+ ++++++++++++.+|.   ...+|.+.+.+...++....  .....+.++++++.+.+++..+|++..+..
T Consensus       163 ~~-~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~--~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  233 (261)
T 3qky_A          163 LY-EAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSV--RARQPERYRRAVELYERLLQIFPDSPLLRT  233 (261)
T ss_dssp             CH-HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSC--GGGHHHHHHHHHHHHHHHHHHCTTCTHHHH
T ss_pred             CH-HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccch--hhcccchHHHHHHHHHHHHHHCCCChHHHH
Confidence            98 7899999999999998   45699999998888754210  011235589999999999999999965443

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.21  E-value=2.5e-12  Score=144.54  Aligned_cols=137  Identities=15%  Similarity=0.146  Sum_probs=103.9

Q ss_pred             eEEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccc-cccccccccccccc
Q 005381          537 CLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIR-QLKSLRALNISYNE  613 (699)
Q Consensus       537 ~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~-~l~~L~~L~Ls~N~  613 (699)
                      .|++++|.++.++. ..+++|+.|+|++|.|+.+++  +..+++|+.|+|++|.|+++. |..+. .+++|+.|+|++|.
T Consensus       103 ~L~L~~N~l~~~~~-~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~l~~~l~~L~~L~Ls~N~  180 (487)
T 3oja_A          103 TLHAANNNISRVSC-SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVN-FAELAASSDTLEHLNLQYNF  180 (487)
T ss_dssp             EEECCSSCCCCEEE-CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEE-GGGGGGGTTTCCEEECTTSC
T ss_pred             EEECcCCcCCCCCc-cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcC-hHHHhhhCCcccEEecCCCc
Confidence            38889999887753 356899999999999988755  899999999999999999863 45554 78999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccc
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~  692 (699)
                      |+.+|.     ...++.+..+++++|.+..+           |..+..+ +|+.|+|++|.|.  .++. .+..+++|+.
T Consensus       181 l~~~~~-----~~~l~~L~~L~Ls~N~l~~~-----------~~~~~~l~~L~~L~Ls~N~l~--~lp~-~l~~l~~L~~  241 (487)
T 3oja_A          181 IYDVKG-----QVVFAKLKTLDLSSNKLAFM-----------GPEFQSAAGVTWISLRNNKLV--LIEK-ALRFSQNLEH  241 (487)
T ss_dssp             CCEEEC-----CCCCTTCCEEECCSSCCCEE-----------CGGGGGGTTCSEEECTTSCCC--EECT-TCCCCTTCCE
T ss_pred             cccccc-----cccCCCCCEEECCCCCCCCC-----------CHhHcCCCCccEEEecCCcCc--ccch-hhccCCCCCE
Confidence            998752     22344455567888877543           3457778 9999999999993  1111 1355677776


Q ss_pred             cc
Q 005381          693 LD  694 (699)
Q Consensus       693 LD  694 (699)
                      ||
T Consensus       242 L~  243 (487)
T 3oja_A          242 FD  243 (487)
T ss_dssp             EE
T ss_pred             EE
Confidence            64

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.21  E-value=3.2e-11  Score=118.40  Aligned_cols=117  Identities=23%  Similarity=0.255  Sum_probs=95.4

Q ss_pred             eEEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          537 CLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       537 ~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      .+++++|.++.+|.- -.++|+.|+|++|.|+.+|. |..+++|+.|+|++|.|+.+. +..|..+++|+.|+|++|+|+
T Consensus        14 ~l~~~~~~l~~ip~~-~~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~-~~~f~~l~~L~~L~Ls~N~l~   91 (193)
T 2wfh_A           14 VVRCSNKGLKVLPKG-IPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLS-NQSFSNMTQLLTLILSYNRLR   91 (193)
T ss_dssp             EEECTTSCCSSCCSC-CCTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSCCC
T ss_pred             EEEcCCCCCCcCCCC-CCCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeC-HhHccCCCCCCEEECCCCccC
Confidence            389999999988831 23689999999999999988 999999999999999999973 467899999999999999999


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      .++                                     +..|..+ +|+.|+|++|.|.  .+....+..+++|+.||
T Consensus        92 ~i~-------------------------------------~~~f~~l~~L~~L~L~~N~l~--~~~~~~~~~l~~L~~L~  132 (193)
T 2wfh_A           92 CIP-------------------------------------PRTFDGLKSLRLLSLHGNDIS--VVPEGAFNDLSALSHLA  132 (193)
T ss_dssp             BCC-------------------------------------TTTTTTCTTCCEEECCSSCCC--BCCTTTTTTCTTCCEEE
T ss_pred             EeC-------------------------------------HHHhCCCCCCCEEECCCCCCC--eeChhhhhcCccccEEE
Confidence            885                                     2356777 9999999999992  11222345677777665

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.21  E-value=1.2e-09  Score=106.27  Aligned_cols=169  Identities=12%  Similarity=-0.050  Sum_probs=147.7

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhh-hccCCCCchhhhhhHHHHHHHHHHHHH--hCCCChHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHK-LTENDSDPDSLKSILDEELRVVESALR--QNFKSYGAWHH  110 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l-~~~~~~~~~~~~~~~~eEL~~~~~~L~--~nPKsy~aW~h  110 (699)
                      ....|.+ ++|++.+.+++..+|++..+|...+.++... +.            +++++..+++++.  .+|....+|..
T Consensus        52 ~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~~  118 (225)
T 2vq2_A           52 YQYLKVN-DKAQESFRQALSIKPDSAEINNNYGWFLCGRLNR------------PAESMAYFDKALADPTYPTPYIANLN  118 (225)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCC------------HHHHHHHHHHHHTSTTCSCHHHHHHH
T ss_pred             HHHcCCh-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCc------------HHHHHHHHHHHHcCcCCcchHHHHHH
Confidence            3456666 8999999999999999999999999999887 65            8999999999999  77888999999


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc-CchHHHHHHHHHHHHhh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNF-SNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~-sN~SAW~~R~~ll~~l~  189 (699)
                      .+.++... +.+++++++++++++.+|.+..+|...+.+....+.+ ++.+++++++++.+| .+..+|.....+....+
T Consensus       119 l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (225)
T 2vq2_A          119 KGICSAKQ-GQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQL-GDADYYFKKYQSRVEVLQADDLLLGWKIAKALG  196 (225)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHc-CCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcC
Confidence            99999887 6999999999999999999999999999999999998 789999999999999 88888876666555443


Q ss_pred             hhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          190 KRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       190 ~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      .            .+++..++..+...+|++..++.++.+
T Consensus       197 ~------------~~~a~~~~~~~~~~~p~~~~~~~~l~~  224 (225)
T 2vq2_A          197 N------------AQAAYEYEAQLQANFPYSEELQTVLTG  224 (225)
T ss_dssp             C------------HHHHHHHHHHHHHHCTTCHHHHHHHC-
T ss_pred             c------------HHHHHHHHHHHHHhCCCCHHHHHHhcc
Confidence            2            578888888888899999999877643

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.20  E-value=1.2e-09  Score=109.32  Aligned_cols=166  Identities=8%  Similarity=-0.110  Sum_probs=151.0

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH--hCCCChHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR--QNFKSYGAWHHRK  112 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~--~nPKsy~aW~hR~  112 (699)
                      ...|.+ ++|++.+.+++..+|++..+|...+.++...+.            +++++..+++++.  .+|.+..+|...+
T Consensus        82 ~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~~~~~~~~~~~~~~~~~la  148 (252)
T 2ho1_A           82 QTEMEP-KLADEEYRKALASDSRNARVLNNYGGFLYEQKR------------YEEAYQRLLEASQDTLYPERSRVFENLG  148 (252)
T ss_dssp             HHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHTTCTTCTTHHHHHHHHH
T ss_pred             HHcCCH-HHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhH------------HHHHHHHHHHHHhCccCcccHHHHHHHH
Confidence            445666 899999999999999999999999999888765            8999999999999  8999999999999


Q ss_pred             HHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          113 WILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       113 w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                      .++... +.+++++++++++++.+|.+..+|...+.+....+.+ +++++++.++++.+|.+..+|...+.+....+.  
T Consensus       149 ~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~--  224 (252)
T 2ho1_A          149 LVSLQM-KKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREY-VPARQYYDLFAQGGGQNARSLLLGIRLAKVFED--  224 (252)
T ss_dssp             HHHHHT-TCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTC--
T ss_pred             HHHHHc-CCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccC--
Confidence            999877 6999999999999999999999999999999999988 789999999999999999999988888776644  


Q ss_pred             ccCccchhchHHHHHHHHHHHHHhCCCCchhHHHH
Q 005381          193 VEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYH  227 (699)
Q Consensus       193 ~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~  227 (699)
                                ++++++.+.+++..+|++..++.++
T Consensus       225 ----------~~~A~~~~~~~~~~~p~~~~~~~~l  249 (252)
T 2ho1_A          225 ----------RDTAASYGLQLKRLYPGSLEYQEFQ  249 (252)
T ss_dssp             ----------HHHHHHHHHHHHHHCTTSHHHHHHH
T ss_pred             ----------HHHHHHHHHHHHHHCCCCHHHHHHH
Confidence                      7899999999999999999988764

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

Probab=99.20  E-value=5.8e-12  Score=150.56  Aligned_cols=150  Identities=20%  Similarity=0.200  Sum_probs=83.0

Q ss_pred             EEccCCCCCccc-CCCCCcc-cCEEEccCCCCCCCcC-Cccccc--cceeecccCCCCCCCC--Ccccc--ccccccccc
Q 005381          538 LQLKNLSLSRLG-SFDKLLW-VQMLDLSHNELRSIEG-LEALQL--LSCLNLSNNILGSFTA--LEPIR--QLKSLRALN  608 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~-L~~LdLS~N~L~~l~~-l~~L~~--L~~L~Ls~N~l~~l~~--~~~l~--~l~~L~~L~  608 (699)
                      |+|++|.++.++ .+..+++ |+.|+|++|.|+.+|. +..+..  |+.|+|++|.|++...  +..+.  .+++|+.|+
T Consensus       600 L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~  679 (876)
T 4ecn_A          600 LKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVT  679 (876)
T ss_dssp             EECCSSCCSCCCTTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEE
T ss_pred             EECcCCccccchHHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEE
Confidence            667777766665 5666666 7777777777766666 544433  6777777777655310  01111  234677777


Q ss_pred             cccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHh-hc
Q 005381          609 ISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLI-KV  686 (699)
Q Consensus       609 Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~-~~  686 (699)
                      |++|.|+.+|...+   ..++.+..+++++|.+..+.....   ...+..+.++ +|+.|+|++|.|.  .++..+. ..
T Consensus       680 Ls~N~L~~lp~~~~---~~l~~L~~L~Ls~N~L~~ip~~~~---~~~~~~l~nl~~L~~L~Ls~N~L~--~lp~~l~~~~  751 (876)
T 4ecn_A          680 LSYNEIQKFPTELF---ATGSPISTIILSNNLMTSIPENSL---KPKDGNYKNTYLLTTIDLRFNKLT--SLSDDFRATT  751 (876)
T ss_dssp             CCSSCCCSCCHHHH---HTTCCCSEEECCSCCCSCCCTTSS---SCTTSCCTTGGGCCEEECCSSCCC--CCCGGGSTTT
T ss_pred             ccCCcCCccCHHHH---ccCCCCCEEECCCCcCCccChHHh---ccccccccccCCccEEECCCCCCc--cchHHhhhcc
Confidence            77777776653222   122233334666666653322100   0001123456 8999999999993  1212221 36


Q ss_pred             CCccccccC
Q 005381          687 LPGLKWLDG  695 (699)
Q Consensus       687 l~~L~~LD~  695 (699)
                      +++|+.||-
T Consensus       752 l~~L~~L~L  760 (876)
T 4ecn_A          752 LPYLSNMDV  760 (876)
T ss_dssp             CTTCCEEEC
T ss_pred             CCCcCEEEe
Confidence            788887763

>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=99.20  E-value=4.5e-11  Score=135.48  Aligned_cols=115  Identities=24%  Similarity=0.229  Sum_probs=64.8

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |++++|.++.++ .+..+++|+.|++++|.++.+|. +  .++|+.|++++|+|+++     ...+++|+.|+|++|+|+
T Consensus       392 L~Ls~N~l~~lp~~~~~~~~L~~L~Ls~N~l~~l~~~~--~~~L~~L~Ls~N~l~~~-----~~~l~~L~~L~Ls~N~l~  464 (549)
T 2z81_A          392 LDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCI--PQTLEVLDVSNNNLDSF-----SLFLPRLQELYISRNKLK  464 (549)
T ss_dssp             EECTTCCCCCCCSCCCCCTTCCEEECTTSCCSCCCTTS--CTTCSEEECCSSCCSCC-----CCCCTTCCEEECCSSCCS
T ss_pred             EECCCCCCccCChhhcccccccEEECCCCCcccccchh--cCCceEEECCCCChhhh-----cccCChhcEEECCCCccC
Confidence            555555555544 44455555555555555555544 2  13455555555555543     135667777777777777


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .+|.  ..   .++.+..+++++|.++.+.          |..|..+ +|+.|+|++|++
T Consensus       465 ~ip~--~~---~l~~L~~L~Ls~N~l~~~~----------~~~~~~l~~L~~L~l~~N~~  509 (549)
T 2z81_A          465 TLPD--AS---LFPVLLVMKISRNQLKSVP----------DGIFDRLTSLQKIWLHTNPW  509 (549)
T ss_dssp             SCCC--GG---GCTTCCEEECCSSCCCCCC----------TTGGGGCTTCCEEECCSSCB
T ss_pred             cCCC--cc---cCccCCEEecCCCccCCcC----------HHHHhcCcccCEEEecCCCc
Confidence            6652  11   2233344466666654322          3456677 788888888887

>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=99.20  E-value=1.7e-11  Score=138.85  Aligned_cols=102  Identities=23%  Similarity=0.207  Sum_probs=72.4

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++.++  .|..+++|++|+|++|.++.+++  |..+++|+.|++++|.++.+..+..++.+++|+.|++++|.
T Consensus        55 L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~  134 (549)
T 2z81_A           55 LILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVE  134 (549)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESS
T ss_pred             EECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCc
Confidence            888888888665  67888888888888888877765  88888888888888888766545667888888888888887


Q ss_pred             -CCCCCcccccccCCCCCcccccCCCCccc
Q 005381          614 -IGAHSIDTTKYLCSSPLSHSVGSEWNHGQ  642 (699)
Q Consensus       614 -I~~lp~~~~~~l~~l~ll~ll~l~~N~l~  642 (699)
                       ++.+|..   .+..++-+..+++.+|.+.
T Consensus       135 ~~~~~~~~---~~~~l~~L~~L~L~~n~l~  161 (549)
T 2z81_A          135 TFSEIRRI---DFAGLTSLNELEIKALSLR  161 (549)
T ss_dssp             SCCEECTT---TTTTCCEEEEEEEEETTCC
T ss_pred             cccccCHh---hhhcccccCeeeccCCccc
Confidence             5655422   2333333444455555554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.20  E-value=1e-09  Score=114.66  Aligned_cols=170  Identities=15%  Similarity=0.008  Sum_probs=152.9

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC---CChHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF---KSYGAWHH  110 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP---Ksy~aW~h  110 (699)
                      ....|.+ ++|+..+.+++..+|++..+|...+.++...+.            +++++..+++++..+|   ++..+|..
T Consensus        47 ~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~  113 (359)
T 3ieg_A           47 FLAMGKS-KAALPDLTKVIALKMDFTAARLQRGHLLLKQGK------------LDEAEDDFKKVLKSNPSEQEEKEAESQ  113 (359)
T ss_dssp             HHHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHTSCCCHHHHHHHHHH
T ss_pred             HHHccCH-HHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCC------------hHHHHHHHHHHHhcCCcccChHHHHHH
Confidence            3456666 799999999999999999999999999998865            8999999999999999   99999987


Q ss_pred             HH------------HHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHH
Q 005381          111 RK------------WILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAW  178 (699)
Q Consensus       111 R~------------w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW  178 (699)
                      .+            .++... +.+++++++++++++.+|.+..+|..++.+....+.+ ++.++++.++++.+|.+..+|
T Consensus       114 l~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~  191 (359)
T 3ieg_A          114 LVKADEMQRLRSQALDAFDG-ADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEP-RKAISDLKAASKLKSDNTEAF  191 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTCSCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCHHHH
Confidence            73            455545 6899999999999999999999999999999999998 689999999999999999999


Q ss_pred             HHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          179 HNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       179 ~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                      ...+.+....+.            ++++++.+.+++..+|++..+|.++..+
T Consensus       192 ~~la~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~~~~~  231 (359)
T 3ieg_A          192 YKISTLYYQLGD------------HELSLSEVRECLKLDQDHKRCFAHYKQV  231 (359)
T ss_dssp             HHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCC------------HHHHHHHHHHHHhhCccchHHHHHHHHH
Confidence            999999887754            7999999999999999999999876543

>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=99.20  E-value=2.3e-11  Score=135.59  Aligned_cols=77  Identities=32%  Similarity=0.465  Sum_probs=42.3

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.++.+..+++|+.|++++|.++.++++..+++|+.|++++|+++++   ..+..+++|+.|+|++|+++.+
T Consensus       248 L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~---~~~~~l~~L~~L~L~~n~l~~~  324 (466)
T 1o6v_A          248 LDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDI---SPISNLKNLTYLTLYFNNISDI  324 (466)
T ss_dssp             EECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCC---GGGGGCTTCSEEECCSSCCSCC
T ss_pred             EECCCCccccchhhhcCCCCCEEECCCCccCccccccCCCccCeEEcCCCcccCc---hhhcCCCCCCEEECcCCcCCCc
Confidence            5555555555444555555555555555555554455555555555555555544   2245555555555555555554

>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=99.20  E-value=5.6e-11  Score=116.43  Aligned_cols=121  Identities=20%  Similarity=0.189  Sum_probs=85.9

Q ss_pred             EEccCCCCCcccC-CCCCcccCEEEccCCCCCCCcC---CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLGS-FDKLLWVQMLDLSHNELRSIEG---LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~~-l~~L~~L~~LdLS~N~L~~l~~---l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      +++++|.++.+|. +.  .+|+.|+|++|.|+.++.   |..+++|+.|+|++|.|+++ .+..|..+++|+.|+|++|+
T Consensus        13 l~~s~~~l~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls~N~   89 (192)
T 1w8a_A           13 VDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGI-EPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             EECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCB-CTTTTTTCTTCCEEECCSCC
T ss_pred             EEcCCCCcCcCccCCC--CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCc-CHhHcCCcccCCEEECCCCc
Confidence            7778888777762 32  377888888888877664   67778888888888888776 34667777888888888888


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.++...   +..++-+..+++++|.+..+.          |..|..+ +|+.|+|++|++
T Consensus        90 l~~~~~~~---~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~L~~N~l  138 (192)
T 1w8a_A           90 IKEISNKM---FLGLHQLKTLNLYDNQISCVM----------PGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CCEECSSS---STTCTTCCEEECCSSCCCEEC----------TTSSTTCTTCCEEECTTCCB
T ss_pred             CCccCHHH---hcCCCCCCEEECCCCcCCeeC----------HHHhhcCCCCCEEEeCCCCc
Confidence            87775322   333344444566777665432          4578888 999999999999

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

Probab=99.19  E-value=5.8e-11  Score=132.33  Aligned_cols=137  Identities=20%  Similarity=0.249  Sum_probs=63.4

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccc-cCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN-EIGA  616 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N-~I~~  616 (699)
                      |++++|.++.++ +..+++|++|++++|.++.++ +..+++|+.|++++|.|++++    ++.+++|+.|++++| .++.
T Consensus        90 L~Ls~N~l~~~~-~~~l~~L~~L~L~~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~----l~~l~~L~~L~l~~n~~~~~  163 (457)
T 3bz5_A           90 LACDSNKLTNLD-VTPLTKLTYLNCDTNKLTKLD-VSQNPLLTYLNCARNTLTEID----VSHNTQLTELDCHLNKKITK  163 (457)
T ss_dssp             EECCSSCCSCCC-CTTCTTCCEEECCSSCCSCCC-CTTCTTCCEEECTTSCCSCCC----CTTCTTCCEEECTTCSCCCC
T ss_pred             EECcCCCCceee-cCCCCcCCEEECCCCcCCeec-CCCCCcCCEEECCCCccceec----cccCCcCCEEECCCCCcccc
Confidence            555555555443 445555555555555554443 455555555555555555431    344444555555444 2333


Q ss_pred             CCcccccccCCCCCcccccCCCCccceeecC----------CcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHh
Q 005381          617 HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDD----------DIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLI  684 (699)
Q Consensus       617 lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~----------~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~  684 (699)
                      ++      +..++-+..+++++|.+..+...          ..+.+...  .+..+ +|+.|+|++|.+ ..+      +
T Consensus       164 ~~------~~~l~~L~~L~ls~n~l~~l~l~~l~~L~~L~l~~N~l~~~--~l~~l~~L~~L~Ls~N~l~~ip------~  229 (457)
T 3bz5_A          164 LD------VTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNITKL--DLNQNIQLTFLDCSSNKLTEID------V  229 (457)
T ss_dssp             CC------CTTCTTCCEEECCSSCCCCCCCTTCTTCCEEECCSSCCSCC--CCTTCTTCSEEECCSSCCSCCC------C
T ss_pred             cc------cccCCcCCEEECCCCccceeccccCCCCCEEECcCCcCCee--ccccCCCCCEEECcCCcccccC------c
Confidence            22      11222222334444444332111          11111111  25566 777777777777 221      3


Q ss_pred             hcCCcccccc
Q 005381          685 KVLPGLKWLD  694 (699)
Q Consensus       685 ~~l~~L~~LD  694 (699)
                      ..+++|+.||
T Consensus       230 ~~l~~L~~L~  239 (457)
T 3bz5_A          230 TPLTQLTYFD  239 (457)
T ss_dssp             TTCTTCSEEE
T ss_pred             cccCCCCEEE
Confidence            4566666655

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

Probab=99.19  E-value=1.4e-11  Score=141.56  Aligned_cols=122  Identities=19%  Similarity=0.198  Sum_probs=66.8

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCC--CcC-CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRS--IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~--l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |++++|.++...  .+..+++|+.|++++|.++.  +|. +..+++|+.|++++|.++++ .+..+..+++|+.|+|++|
T Consensus       429 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~Ls~N  507 (606)
T 3vq2_A          429 LDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQI-SWGVFDTLHRLQLLNMSHN  507 (606)
T ss_dssp             EECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEE-CTTTTTTCTTCCEEECCSS
T ss_pred             EECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCcc-ChhhhcccccCCEEECCCC
Confidence            666666655432  45566666666666666643  344 66666666666666666554 2344556666666666666


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC--CccEEEecCCCC
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL--NLTQFDIVGNAI  674 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L--~L~~LdLs~N~l  674 (699)
                      +++.++   +..+..++-+..+++++|.++.+           |..+..+  +|+.|++++|++
T Consensus       508 ~l~~~~---~~~~~~l~~L~~L~l~~N~l~~~-----------p~~~~~l~~~L~~l~l~~N~~  557 (606)
T 3vq2_A          508 NLLFLD---SSHYNQLYSLSTLDCSFNRIETS-----------KGILQHFPKSLAFFNLTNNSV  557 (606)
T ss_dssp             CCSCEE---GGGTTTCTTCCEEECTTSCCCCE-----------ESCGGGSCTTCCEEECCSCCC
T ss_pred             cCCCcC---HHHccCCCcCCEEECCCCcCccc-----------CHhHhhhcccCcEEEccCCCc
Confidence            665552   22333333334445555555322           3334444  366777777766

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

Probab=99.18  E-value=1.6e-11  Score=141.04  Aligned_cols=144  Identities=22%  Similarity=0.305  Sum_probs=69.8

Q ss_pred             EEccCCCCC-ccc--CCCCCcccCEEEccCCCCCCCc---C-CccccccceeecccCCCCCCCCCccccccccccccccc
Q 005381          538 LQLKNLSLS-RLG--SFDKLLWVQMLDLSHNELRSIE---G-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNIS  610 (699)
Q Consensus       538 L~Ls~n~l~-~l~--~l~~L~~L~~LdLS~N~L~~l~---~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls  610 (699)
                      |++++|.+. .++  .+..+++|+.|++++|.++.++   . +..+++|+.|++++|.++++ .+..+..+++|+.|+++
T Consensus       330 L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~  408 (606)
T 3t6q_A          330 LSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSL-KTEAFKECPQLELLDLA  408 (606)
T ss_dssp             EECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEE-CTTTTTTCTTCSEEECT
T ss_pred             EECCCCCcccccchhhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcC-CHHHhcCCccCCeEECC
Confidence            444444443 222  2444555555555555554332   2 45555555555555555443 22344455555555555


Q ss_pred             cccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccc-hHHHhhcCC
Q 005381          611 YNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKF-KSFLIKVLP  688 (699)
Q Consensus       611 ~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~-~~~~~~~l~  688 (699)
                      +|.++..+.  ...+..++.+..+++++|.+..          ..|..+..+ +|+.|+|++|++....+ ....+..++
T Consensus       409 ~n~l~~~~~--~~~~~~l~~L~~L~l~~n~l~~----------~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~  476 (606)
T 3t6q_A          409 FTRLKVKDA--QSPFQNLHLLKVLNLSHSLLDI----------SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLG  476 (606)
T ss_dssp             TCCEECCTT--CCTTTTCTTCCEEECTTCCCBT----------TCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCT
T ss_pred             CCcCCCccc--chhhhCcccCCEEECCCCccCC----------cCHHHHhCCCCCCEEECCCCCCCccccccchhhccCC
Confidence            555544321  1112222223333444444322          234567778 88888888888831111 112245677


Q ss_pred             cccccc
Q 005381          689 GLKWLD  694 (699)
Q Consensus       689 ~L~~LD  694 (699)
                      +|+.||
T Consensus       477 ~L~~L~  482 (606)
T 3t6q_A          477 RLEILV  482 (606)
T ss_dssp             TCCEEE
T ss_pred             CccEEE
Confidence            787765

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.18  E-value=6.4e-10  Score=114.95  Aligned_cols=171  Identities=10%  Similarity=0.017  Sum_probs=91.4

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|.+ ++|+.++.+++..+|++..+|..++.+....+.            +++++..+++++..+|++..+|...+.+
T Consensus        32 ~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~la~~   98 (327)
T 3cv0_A           32 LKLANL-AEAALAFEAVCQAAPEREEAWRSLGLTQAENEK------------DGLAIIALNHARMLDPKDIAVHAALAVS   98 (327)
T ss_dssp             HHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHhccH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhcCcCCHHHHHHHHHH
Confidence            344444 566666666666666666666666655555543            5566666666666666666666666555


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCC-------------------------------------------------ChhhhhH
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSR-------------------------------------------------NFHAWNY  145 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dpr-------------------------------------------------N~haW~y  145 (699)
                      +... +.++++++.++++++.+|.                                                 +..+|..
T Consensus        99 ~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  177 (327)
T 3cv0_A           99 HTNE-HNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHAS  177 (327)
T ss_dssp             HHHT-TCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHH
Confidence            5544 3455555555555555544                                                 4444444


Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          146 RRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       146 R~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      .+.+....+.+ ++.++++.++++.+|.+..+|..++.++...+.            ++++++.+.+++..+|++..+|+
T Consensus       178 la~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~  244 (327)
T 3cv0_A          178 LGVLYNLSNNY-DSAAANLRRAVELRPDDAQLWNKLGATLANGNR------------PQEALDAYNRALDINPGYVRVMY  244 (327)
T ss_dssp             HHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHhccH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCCHHHHH
Confidence            44444444444 344455555555555555555555544444322            45555555555555555555555


Q ss_pred             HHHHHHc
Q 005381          226 YHLWLLD  232 (699)
Q Consensus       226 Y~~~Ll~  232 (699)
                      .+..++.
T Consensus       245 ~l~~~~~  251 (327)
T 3cv0_A          245 NMAVSYS  251 (327)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5444443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.18  E-value=1.8e-11  Score=128.94  Aligned_cols=175  Identities=16%  Similarity=0.088  Sum_probs=114.5

Q ss_pred             HhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc--CCCCCcccCEE
Q 005381          483 ELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKLLWVQML  560 (699)
Q Consensus       483 ~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L~~L~~L  560 (699)
                      ..+.+|++||+++|.+.......          .  ......+.+++.       |+|++|.++.++  .+..+++|++|
T Consensus       114 ~~~~~L~~L~Ls~n~i~~~~~~~----------~--~~~~~~~~~L~~-------L~Ls~n~l~~~~~~~~~~l~~L~~L  174 (310)
T 4glp_A          114 ATGLALSSLRLRNVSWATGRSWL----------A--ELQQWLKPGLKV-------LSIAQAHSPAFSCEQVRAFPALTSL  174 (310)
T ss_dssp             CCCBCCSSCEEESCCCSSTTSSH----------H--HHHTTBCSCCCE-------EEEECCSSCCCCTTSCCCCTTCCEE
T ss_pred             ccCCCCCEEEeecccccchhhhh----------H--HHHhhhccCCCE-------EEeeCCCcchhhHHHhccCCCCCEE
Confidence            67889999999999843211110          0  011122334443       999999998765  78899999999


Q ss_pred             EccCCCCCC---CcC---CccccccceeecccCCCCCCCCC-c-cccccccccccccccccCCCC-CcccccccCCCCCc
Q 005381          561 DLSHNELRS---IEG---LEALQLLSCLNLSNNILGSFTAL-E-PIRQLKSLRALNISYNEIGAH-SIDTTKYLCSSPLS  631 (699)
Q Consensus       561 dLS~N~L~~---l~~---l~~L~~L~~L~Ls~N~l~~l~~~-~-~l~~l~~L~~L~Ls~N~I~~l-p~~~~~~l~~l~ll  631 (699)
                      ||++|.+..   ++.   +..+++|+.|+|++|+|+.++.. . .++.+++|+.|+|++|+|+.+ |. ....+..++-+
T Consensus       175 ~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~-~~~~~~~~~~L  253 (310)
T 4glp_A          175 DLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNP-SAPRCMWSSAL  253 (310)
T ss_dssp             ECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCS-CCSSCCCCTTC
T ss_pred             ECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchh-hHHhccCcCcC
Confidence            999998743   332   47888999999999999765210 0 246778999999999999887 31 22222222344


Q ss_pred             ccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCCC-CccchHHHhhcCCcccccc
Q 005381          632 HSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIV-NEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       632 ~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l~-~~~~~~~~~~~l~~L~~LD  694 (699)
                      ..+++++|.++.+           |..+.. +|+.|+|++|.|. .+.     ...+++|+.||
T Consensus       254 ~~L~Ls~N~l~~l-----------p~~~~~-~L~~L~Ls~N~l~~~~~-----~~~l~~L~~L~  300 (310)
T 4glp_A          254 NSLNLSFAGLEQV-----------PKGLPA-KLRVLDLSSNRLNRAPQ-----PDELPEVDNLT  300 (310)
T ss_dssp             CCEECCSSCCCSC-----------CSCCCS-CCSCEECCSCCCCSCCC-----TTSCCCCSCEE
T ss_pred             CEEECCCCCCCch-----------hhhhcC-CCCEEECCCCcCCCCch-----hhhCCCccEEE
Confidence            4457777777532           223321 8999999999993 233     24567777654

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

Probab=99.17  E-value=2.5e-12  Score=135.74  Aligned_cols=138  Identities=17%  Similarity=0.098  Sum_probs=83.4

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCC---CcC---CccccccceeecccCCCCCCCC-C-cccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRS---IEG---LEALQLLSCLNLSNNILGSFTA-L-EPIRQLKSLRAL  607 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~---l~~---l~~L~~L~~L~Ls~N~l~~l~~-~-~~l~~l~~L~~L  607 (699)
                      |+|++|.++.++  .+..+++|++|+|++|.+..   ++.   +..+++|+.|+|++|.|+.++. + ..+..+++|+.|
T Consensus       154 L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L  233 (312)
T 1wwl_A          154 LSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGL  233 (312)
T ss_dssp             EEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEE
T ss_pred             EEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEE
Confidence            777777777655  67777777777777777532   222   3677777777777777764311 0 122355777777


Q ss_pred             ccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCC-CCccchHHHhhc
Q 005381          608 NISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAI-VNEKFKSFLIKV  686 (699)
Q Consensus       608 ~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l-~~~~~~~~~~~~  686 (699)
                      +|++|+|+..+  ....+..++-+..+++++|.++.           +|..+. -+|+.|+|++|.| ..+.     +..
T Consensus       234 ~Ls~N~l~~~~--~~~~~~~l~~L~~L~Ls~N~l~~-----------ip~~~~-~~L~~L~Ls~N~l~~~p~-----~~~  294 (312)
T 1wwl_A          234 DLSHNSLRDAA--GAPSCDWPSQLNSLNLSFTGLKQ-----------VPKGLP-AKLSVLDLSYNRLDRNPS-----PDE  294 (312)
T ss_dssp             ECTTSCCCSSC--CCSCCCCCTTCCEEECTTSCCSS-----------CCSSCC-SEEEEEECCSSCCCSCCC-----TTT
T ss_pred             ECCCCcCCccc--chhhhhhcCCCCEEECCCCccCh-----------hhhhcc-CCceEEECCCCCCCCChh-----Hhh
Confidence            77777777653  11112222333444666666642           233333 2799999999999 3332     356


Q ss_pred             CCcccccc
Q 005381          687 LPGLKWLD  694 (699)
Q Consensus       687 l~~L~~LD  694 (699)
                      +++|+.||
T Consensus       295 l~~L~~L~  302 (312)
T 1wwl_A          295 LPQVGNLS  302 (312)
T ss_dssp             SCEEEEEE
T ss_pred             CCCCCEEe
Confidence            78887665

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.17  E-value=1.2e-09  Score=114.38  Aligned_cols=179  Identities=8%  Similarity=-0.036  Sum_probs=144.3

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhcc--CCCCchhhhhhHHHHHHHHHHHHH-hCCCChHHHHHHHHHHHhC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTE--NDSDPDSLKSILDEELRVVESALR-QNFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~--~~~~~~~~~~~~~eEL~~~~~~L~-~nPKsy~aW~hR~w~L~~~  118 (699)
                      ++|+..++++|..+|.+..+|...+.++...+..  ...+.+.....+++++..+++++. .+|++..+|...+-++...
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            6899999999999999999999999887643100  001111122335899999999999 7999999999999999877


Q ss_pred             CCChHHHHHHHHHHHHhCCCChh-hhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFH-AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~h-aW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                       +.++++.+.++++++++|.+.. +|...+.+....+.+ ++..+.++++++.+|.+..+|.....+-...         
T Consensus       113 -~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~---------  181 (308)
T 2ond_A          113 -MKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-KSGRMIFKKAREDARTRHHVYVTAALMEYYC---------  181 (308)
T ss_dssp             -TCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCH-HHHHHHHHHHHTSTTCCTHHHHHHHHHHHHT---------
T ss_pred             -CCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH---------
Confidence             6999999999999999999997 999999998888887 6789999999999999988887544432211         


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                        .+.++++++.+.+|+..+|++..+|.-+.-++..
T Consensus       182 --~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  215 (308)
T 2ond_A          182 --SKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSH  215 (308)
T ss_dssp             --SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             --cCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence              1236899999999999999999999876666544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.17  E-value=1e-10  Score=110.33  Aligned_cols=114  Identities=6%  Similarity=-0.078  Sum_probs=107.4

Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHH
Q 005381           48 STKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELR  127 (699)
Q Consensus        48 ~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~  127 (699)
                      +.+++.++|++..+|+..+.++...++            +++++..+++++..+|++..+|+.++.++... ++++++++
T Consensus        25 l~~al~l~p~~~~~~~~lg~~~~~~g~------------~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~-g~~~~Ai~   91 (151)
T 3gyz_A           25 LKDINAIPDDMMDDIYSYAYDFYNKGR------------IEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIK-EQFQQAAD   91 (151)
T ss_dssp             TGGGCCSCHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH-ccHHHHHH
Confidence            577788999999999999999998876            99999999999999999999999999999988 69999999


Q ss_pred             HHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          128 LLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       128 ~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      +|+++++++|.|..+|.+.+.++..+|.+ ++++++++++++.+|...
T Consensus        92 ~~~~al~l~P~~~~~~~~lg~~~~~lg~~-~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A           92 LYAVAFALGKNDYTPVFHTGQCQLRLKAP-LKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHSSSCCHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHhhCCCCcHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCHH
Confidence            99999999999999999999999999999 789999999999998764

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.17  E-value=2.3e-09  Score=116.75  Aligned_cols=174  Identities=11%  Similarity=-0.022  Sum_probs=122.5

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....|.+ ++|+..+.+++..+|++..+|..++.++...+.            +++++..+++++..+|++..+|...+.
T Consensus       153 ~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~  219 (450)
T 2y4t_A          153 AFGSGDY-TAAIAFLDKILEVCVWDAELRELRAECFIKEGE------------PRKAISDLKAASKLKNDNTEAFYKIST  219 (450)
T ss_dssp             HHHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------GGGGHHHHHHHHHHHCSCHHHHHHHHH
T ss_pred             HHHcCCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4445666 688888888888888888888888888877754            667777777777777777777777777


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHH------------HHHHHhcCCChHHHHHHHHHHHHhccCchH----H
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYR------------RFVAASMNRSEEDELKYTEDMICNNFSNYS----A  177 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR------------~~vl~~l~~~~e~EL~~~~~~I~~n~sN~S----A  177 (699)
                      ++... +.++++++.++++++.+|.+..+|...            +.+....+.+ ++.++++.++++.+|.+..    +
T Consensus       220 ~~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-~~A~~~~~~~l~~~p~~~~~~~~~  297 (450)
T 2y4t_A          220 LYYQL-GDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRY-TDATSKYESVMKTEPSIAEYTVRS  297 (450)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCCSSHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhcCCcchHHHHHH
Confidence            77765 577777777777777777777776655            5555566666 5677777777777777633    5


Q ss_pred             HHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          178 WHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       178 W~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      |..++.++..++.            ++++++.+.+++..+|++..+|+.+..++...
T Consensus       298 ~~~l~~~~~~~g~------------~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~  342 (450)
T 2y4t_A          298 KERICHCFSKDEK------------PVEAIRVCSEVLQMEPDNVNALKDRAEAYLIE  342 (450)
T ss_dssp             HHHHHHHHHTTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCC------------HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHh
Confidence            5555555554433            67777777777777777777777766666543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.16  E-value=1.3e-09  Score=123.53  Aligned_cols=181  Identities=7%  Similarity=-0.036  Sum_probs=97.2

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------CCch------------hhhhhHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------SDPD------------SLKSILDEELRV   93 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~~~~------------~~~~~~~eEL~~   93 (699)
                      ..|.+ ++|++++.+++.++|++..+|+....++...++..+          ..|+            .....+++++..
T Consensus       385 ~~g~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  463 (597)
T 2xpi_A          385 CVNKI-SEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEY  463 (597)
T ss_dssp             HTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HhccH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            34444 566666666666666666666665555554433000          0000            000125555555


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh------CCCC-hhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           94 VESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA------DSRN-FHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        94 ~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~------dprN-~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      +++++..+|++..+|...++++.+. +.+++++++++++++.      +|.+ ..+|...+.+....|.+ +++++++++
T Consensus       464 ~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~  541 (597)
T 2xpi_A          464 LQSSYALFQYDPLLLNELGVVAFNK-SDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMY-DAAIDALNQ  541 (597)
T ss_dssp             HHHHHHHCCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCH-HHHHHHHHH
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHh-CCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCH-HHHHHHHHH
Confidence            5555555555555555555555544 3555555555555555      3443 34555555555555555 445555555


Q ss_pred             HHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          167 MICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       167 ~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      +++.+|.+..+|...+.++...++            ++++++.+.+++..+|++..+|..+..++
T Consensus       542 ~~~~~p~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~~l~~~p~~~~~~~~l~~~~  594 (597)
T 2xpi_A          542 GLLLSTNDANVHTAIALVYLHKKI------------PGLAITHLHESLAISPNEIMASDLLKRAL  594 (597)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHTT
T ss_pred             HHHhCCCChHHHHHHHHHHHHhCC------------HHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            555555555555555555554433            56777777777777777777666655443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.16  E-value=1.4e-10  Score=114.52  Aligned_cols=140  Identities=19%  Similarity=0.200  Sum_probs=107.0

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      ++.+++.++.++. ...++|+.|++++|.++.++.  |..+++|+.|++++|+|+.++ +..+..+++|+.|+|++|.|+
T Consensus        12 v~c~~~~l~~~p~-~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~Ls~n~l~   89 (208)
T 2o6s_A           12 VECYSQGRTSVPT-GIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLP-NGVFNKLTSLTYLNLSTNQLQ   89 (208)
T ss_dssp             EECCSSCCSSCCS-CCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSCCC
T ss_pred             EEecCCCccCCCC-CCCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccC-hhhcCCCCCcCEEECCCCcCC
Confidence            8889999988872 235689999999999988887  889999999999999999873 355789999999999999999


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      .++...   +..++.+..+++++|.+..+.          +..|..+ +|+.|+|++|.|.  .+....+..+++|+.||
T Consensus        90 ~~~~~~---~~~l~~L~~L~L~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~l~--~~~~~~~~~l~~L~~L~  154 (208)
T 2o6s_A           90 SLPNGV---FDKLTQLKELALNTNQLQSLP----------DGVFDKLTQLKDLRLYQNQLK--SVPDGVFDRLTSLQYIW  154 (208)
T ss_dssp             CCCTTT---TTTCTTCCEEECCSSCCCCCC----------TTTTTTCTTCCEEECCSSCCS--CCCTTTTTTCTTCCEEE
T ss_pred             ccCHhH---hcCccCCCEEEcCCCcCcccC----------HhHhccCCcCCEEECCCCccc--eeCHHHhccCCCccEEE
Confidence            886322   344444555677777775432          2357888 9999999999992  11122345677787765

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.16  E-value=5e-11  Score=112.47  Aligned_cols=117  Identities=7%  Similarity=-0.089  Sum_probs=109.8

Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHh
Q 005381           91 LRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICN  170 (699)
Q Consensus        91 L~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~  170 (699)
                      -..+.+++..+|++..+|+.++.++.+. +++++++.+++++++++|.|..+|...+.++..++.+ ++++++++++++.
T Consensus        22 ~~~l~~al~l~p~~~~~~~~lg~~~~~~-g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~-~~Ai~~~~~al~l   99 (151)
T 3gyz_A           22 GATLKDINAIPDDMMDDIYSYAYDFYNK-GRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQF-QQAADLYAVAFAL   99 (151)
T ss_dssp             SCCTGGGCCSCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHH
T ss_pred             CCCHHHHhCCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccH-HHHHHHHHHHHhh
Confidence            3467788899999999999999999987 6999999999999999999999999999999999999 7899999999999


Q ss_pred             ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          171 NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       171 n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                      +|.|..+|++++.++..+++            ++++++++++|+..+|+..
T Consensus       100 ~P~~~~~~~~lg~~~~~lg~------------~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          100 GKNDYTPVFHTGQCQLRLKA------------PLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             SSSCCHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCCCHH
T ss_pred             CCCCcHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCHH
Confidence            99999999999999998866            8999999999999999865

>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=99.16  E-value=2.8e-11  Score=122.38  Aligned_cols=138  Identities=20%  Similarity=0.158  Sum_probs=69.6

Q ss_pred             EEccCCC-CCccc--CCCCCcccCEEEccC-CCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccc---ccc
Q 005381          538 LQLKNLS-LSRLG--SFDKLLWVQMLDLSH-NELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLR---ALN  608 (699)
Q Consensus       538 L~Ls~n~-l~~l~--~l~~L~~L~~LdLS~-N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~---~L~  608 (699)
                      |++++|. ++.++  .|..+++|++|++++ |.++.++.  |..+++|+.|++++|.+++++  . +..+++|+   .|+
T Consensus        60 L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~l~~lp--~-~~~l~~L~~L~~L~  136 (239)
T 2xwt_C           60 IYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFP--D-LTKVYSTDIFFILE  136 (239)
T ss_dssp             EEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEECCCSCC--C-CTTCCBCCSEEEEE
T ss_pred             EeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCCCcccc--c-cccccccccccEEE
Confidence            5555554 55444  455555566666655 55555543  555555666666666555542  1 44444444   566


Q ss_pred             cccc-cCCCCCcccccccCCCCCcc-cccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCC-CCCccchHHHh
Q 005381          609 ISYN-EIGAHSIDTTKYLCSSPLSH-SVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNA-IVNEKFKSFLI  684 (699)
Q Consensus       609 Ls~N-~I~~lp~~~~~~l~~l~ll~-ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~-l~~~~~~~~~~  684 (699)
                      +++| .|+.+|...   +..++.+. .+++++|.+..+           |...... +|+.|+|++|+ +.  .+....+
T Consensus       137 l~~N~~l~~i~~~~---~~~l~~L~~~L~l~~n~l~~i-----------~~~~~~~~~L~~L~L~~n~~l~--~i~~~~~  200 (239)
T 2xwt_C          137 ITDNPYMTSIPVNA---FQGLCNETLTLKLYNNGFTSV-----------QGYAFNGTKLDAVYLNKNKYLT--VIDKDAF  200 (239)
T ss_dssp             EESCTTCCEECTTT---TTTTBSSEEEEECCSCCCCEE-----------CTTTTTTCEEEEEECTTCTTCC--EECTTTT
T ss_pred             CCCCcchhhcCccc---ccchhcceeEEEcCCCCCccc-----------CHhhcCCCCCCEEEcCCCCCcc--cCCHHHh
Confidence            6655 555554221   22222223 334445544322           2222233 78888888884 62  1111223


Q ss_pred             hcC-Ccccccc
Q 005381          685 KVL-PGLKWLD  694 (699)
Q Consensus       685 ~~l-~~L~~LD  694 (699)
                      ..+ ++|+.||
T Consensus       201 ~~l~~~L~~L~  211 (239)
T 2xwt_C          201 GGVYSGPSLLD  211 (239)
T ss_dssp             TTCSBCCSEEE
T ss_pred             hccccCCcEEE
Confidence            455 6777665

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.15  E-value=5.5e-12  Score=117.91  Aligned_cols=112  Identities=23%  Similarity=0.308  Sum_probs=89.9

Q ss_pred             hcccccccCCCCCccc-cchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEc
Q 005381          484 LYNDLMRLDPTHVQYY-KDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDL  562 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~-~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdL  562 (699)
                      ...+|+.|++++|... ..                ++..+..+.+++.       |++++|.++.++.+..+++|+.|+|
T Consensus        15 ~~~~l~~L~l~~n~l~~~~----------------~~~~~~~l~~L~~-------L~l~~n~l~~~~~~~~l~~L~~L~L   71 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGK----------------LEGLTDEFEELEF-------LSTINVGLTSIANLPKLNKLKKLEL   71 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTB----------------CCSCCTTCTTCCE-------EECTTSCCCCCTTCCCCTTCCEEEC
T ss_pred             CCccCeEEEccCCcCChhH----------------HHHHHhhcCCCcE-------EECcCCCCCCchhhhcCCCCCEEEC
Confidence            3478999999999822 11                1112223334333       9999999998888999999999999


Q ss_pred             cCCCCCC-CcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          563 SHNELRS-IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       563 S~N~L~~-l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      ++|.++. +|. +..+++|+.|++++|.|++++.+..+..+++|+.|++++|+++.+|
T Consensus        72 s~n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~  129 (149)
T 2je0_A           72 SDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLN  129 (149)
T ss_dssp             CSSCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGST
T ss_pred             CCCcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchH
Confidence            9999977 777 7789999999999999998643467899999999999999998875

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

Probab=99.15  E-value=6.4e-11  Score=137.98  Aligned_cols=142  Identities=23%  Similarity=0.304  Sum_probs=98.7

Q ss_pred             EEccCCCCCcc---c-CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCC-------CCccccccccc
Q 005381          538 LQLKNLSLSRL---G-SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFT-------ALEPIRQLKSL  604 (699)
Q Consensus       538 L~Ls~n~l~~l---~-~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~-------~~~~l~~l~~L  604 (699)
                      |++++|.++.+   + .+..+++|+.|+|++|.++.+++  |..+++|+.|+|++|.++.+.       .+..+..+++|
T Consensus       459 L~l~~n~l~~~~~~p~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L  538 (680)
T 1ziw_A          459 LMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHL  538 (680)
T ss_dssp             EECTTSCCBCTTCSSCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTC
T ss_pred             chhccccccccccCCcccccCCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCC
Confidence            77888777633   3 67788888899999888887776  888888899999988887642       11236778888


Q ss_pred             cccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHH
Q 005381          605 RALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFL  683 (699)
Q Consensus       605 ~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~  683 (699)
                      +.|+|++|+|+.+|...   +..++-+..+++++|.++.+.          +..|..+ +|+.|+|++|.|.  ......
T Consensus       539 ~~L~L~~N~l~~i~~~~---~~~l~~L~~L~Ls~N~l~~l~----------~~~~~~l~~L~~L~L~~N~l~--~~~~~~  603 (680)
T 1ziw_A          539 HILNLESNGFDEIPVEV---FKDLFELKIIDLGLNNLNTLP----------ASVFNNQVSLKSLNLQKNLIT--SVEKKV  603 (680)
T ss_dssp             CEEECCSSCCCCCCTTT---TTTCTTCCEEECCSSCCCCCC----------TTTTTTCTTCCEEECTTSCCC--BCCHHH
T ss_pred             CEEECCCCCCCCCCHHH---cccccCcceeECCCCCCCcCC----------HhHhCCCCCCCEEECCCCcCC--ccChhH
Confidence            99999999888886433   333444445567777775432          2457788 9999999999993  122222


Q ss_pred             hh-cCCcccccc
Q 005381          684 IK-VLPGLKWLD  694 (699)
Q Consensus       684 ~~-~l~~L~~LD  694 (699)
                      +. .+++|+.||
T Consensus       604 ~~~~~~~L~~l~  615 (680)
T 1ziw_A          604 FGPAFRNLTELD  615 (680)
T ss_dssp             HHHHHTTCSEEE
T ss_pred             hcccccccCEEE
Confidence            22 456666554

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.15  E-value=7.9e-10  Score=114.25  Aligned_cols=190  Identities=16%  Similarity=0.104  Sum_probs=159.6

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------CCc---------------------
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------SDP---------------------   80 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~~~---------------------   80 (699)
                      ......|.+ ++|+..+.+++..+|++..+|...+.++...+...+          .+|                     
T Consensus        63 ~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (327)
T 3cv0_A           63 LTQAENEKD-GLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNV  141 (327)
T ss_dssp             HHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC----------------
T ss_pred             HHHHHcCCH-HHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHH
Confidence            334455666 789999999999999999999888877765532100          000                     


Q ss_pred             ------hhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcC
Q 005381           81 ------DSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMN  154 (699)
Q Consensus        81 ------~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~  154 (699)
                            -.....+++++..+++++..+|.+..+|...+.++... +.+++++++++++++.+|.+..+|...+.+....+
T Consensus       142 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  220 (327)
T 3cv0_A          142 QSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLS-NNYDSAAANLRRAVELRPDDAQLWNKLGATLANGN  220 (327)
T ss_dssp             ----CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcC
Confidence                  11224578999999999999999999999999999887 69999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCC------------Cch
Q 005381          155 RSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD------------DQS  222 (699)
Q Consensus       155 ~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~------------d~S  222 (699)
                      .+ +++++++.++++.+|.+..+|...+.+....+.            ++++++.+.+++..+|+            +..
T Consensus       221 ~~-~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  287 (327)
T 3cv0_A          221 RP-QEALDAYNRALDINPGYVRVMYNMAVSYSNMSQ------------YDLAAKQLVRAIYMQVGGTTPTGEASREATRS  287 (327)
T ss_dssp             CH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHTTSCC-----CCTHHHH
T ss_pred             CH-HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcc------------HHHHHHHHHHHHHhCCccccccccchhhcCHH
Confidence            88 789999999999999999999999998887744            79999999999999999            788


Q ss_pred             hHHHHHHHHcCcCC
Q 005381          223 GWFYHLWLLDQTVR  236 (699)
Q Consensus       223 aW~Y~~~Ll~~~~~  236 (699)
                      +|..+..++....+
T Consensus       288 ~~~~l~~~~~~~g~  301 (327)
T 3cv0_A          288 MWDFFRMLLNVMNR  301 (327)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcCC
Confidence            99988888866544

>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=99.15  E-value=1e-10  Score=112.27  Aligned_cols=98  Identities=22%  Similarity=0.276  Sum_probs=84.6

Q ss_pred             eEEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       537 ~L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      .+++++|.++.+| .+  .++|+.|+|++|.|+.+++  |..+++|+.|+|++|+|+.++ +..|..+++|+.|+|++|+
T Consensus        13 ~l~~s~n~l~~ip~~~--~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~-~~~f~~l~~L~~L~L~~N~   89 (170)
T 3g39_A           13 TVDCSGKSLASVPTGI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLP-AGVFDKLTQLTQLSLNDNQ   89 (170)
T ss_dssp             EEECTTSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EEEeCCCCcCccCccC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccC-hhhccCCCCCCEEECCCCc
Confidence            3999999999988 33  3889999999999988865  999999999999999999873 3567899999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.+|.                                     ..|..+ +|+.|+|++|++
T Consensus        90 l~~~~~-------------------------------------~~~~~l~~L~~L~L~~N~~  114 (170)
T 3g39_A           90 LKSIPR-------------------------------------GAFDNLKSLTHIWLLNNPW  114 (170)
T ss_dssp             CCCCCT-------------------------------------TTTTTCTTCCEEECCSSCB
T ss_pred             cCEeCH-------------------------------------HHhcCCCCCCEEEeCCCCC
Confidence            998852                                     246667 899999999999

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.15  E-value=2.4e-11  Score=128.53  Aligned_cols=120  Identities=14%  Similarity=0.117  Sum_probs=59.6

Q ss_pred             cccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccc-cccccccccccccccCCCCCcccccccCCCCCc
Q 005381          555 LWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPI-RQLKSLRALNISYNEIGAHSIDTTKYLCSSPLS  631 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l-~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll  631 (699)
                      ++|+.|++++|.++.+++  +..+++|+.|+|++|.|+++. +..+ ..+++|+.|+|++|.|+.++.  .   ..++-+
T Consensus       120 ~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~~l~~L~~L~L~~N~l~~~~~--~---~~l~~L  193 (317)
T 3o53_A          120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVN-FAELAASSDTLEHLNLQYNFIYDVKG--Q---VVFAKL  193 (317)
T ss_dssp             SSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEE-GGGGGGGTTTCCEEECTTSCCCEEEC--C---CCCTTC
T ss_pred             CCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCccc-HHHHhhccCcCCEEECCCCcCccccc--c---cccccC
Confidence            344444444444444433  444555555555555554431 1222 234555555555555544421  0   112222


Q ss_pred             ccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          632 HSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       632 ~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      ..+++++|.+.           .+|..+..+ +|+.|+|++|.|.  .+.. .+..+++|+.||
T Consensus       194 ~~L~Ls~N~l~-----------~l~~~~~~l~~L~~L~L~~N~l~--~l~~-~~~~l~~L~~L~  243 (317)
T 3o53_A          194 KTLDLSSNKLA-----------FMGPEFQSAAGVTWISLRNNKLV--LIEK-ALRFSQNLEHFD  243 (317)
T ss_dssp             CEEECCSSCCC-----------EECGGGGGGTTCSEEECTTSCCC--EECT-TCCCCTTCCEEE
T ss_pred             CEEECCCCcCC-----------cchhhhcccCcccEEECcCCccc--chhh-HhhcCCCCCEEE
Confidence            22344444443           334457777 8999999999883  1111 235567777765

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

Probab=99.15  E-value=2.8e-11  Score=127.59  Aligned_cols=122  Identities=18%  Similarity=0.147  Sum_probs=94.2

Q ss_pred             CeEEccCCCCCcc----c--CCCCCcccCEEEccCCCCCCCcC-----CccccccceeecccCCCCCCCCCccccccccc
Q 005381          536 MCLQLKNLSLSRL----G--SFDKLLWVQMLDLSHNELRSIEG-----LEALQLLSCLNLSNNILGSFTALEPIRQLKSL  604 (699)
Q Consensus       536 ~~L~Ls~n~l~~l----~--~l~~L~~L~~LdLS~N~L~~l~~-----l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L  604 (699)
                      +.|++++|.+...    +  .+..+++|+.|+|++|.|+.++.     +..+++|+.|+|++|.|++......+..+++|
T Consensus       176 ~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L  255 (312)
T 1wwl_A          176 STLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQL  255 (312)
T ss_dssp             CEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTC
T ss_pred             CEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCC
Confidence            3499999997642    2  34889999999999999986553     56789999999999999986423556678999


Q ss_pred             cccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          605 RALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       605 ~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      +.|+|++|.|+.+|....      +-+..+++++|.++.+           |. +..+ +|+.|+|++|+|.
T Consensus       256 ~~L~Ls~N~l~~ip~~~~------~~L~~L~Ls~N~l~~~-----------p~-~~~l~~L~~L~L~~N~l~  309 (312)
T 1wwl_A          256 NSLNLSFTGLKQVPKGLP------AKLSVLDLSYNRLDRN-----------PS-PDELPQVGNLSLKGNPFL  309 (312)
T ss_dssp             CEEECTTSCCSSCCSSCC------SEEEEEECCSSCCCSC-----------CC-TTTSCEEEEEECTTCTTT
T ss_pred             CEEECCCCccChhhhhcc------CCceEEECCCCCCCCC-----------hh-HhhCCCCCEEeccCCCCC
Confidence            999999999998873221      3344457777777432           34 7888 9999999999994

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.14  E-value=2.3e-09  Score=119.33  Aligned_cols=180  Identities=12%  Similarity=0.042  Sum_probs=107.0

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++|+..+.+++..+|+ ..+|...+.++...+.            +++++..+++++..+|++..+|..++.++... +.
T Consensus       260 ~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~  325 (537)
T 3fp2_A          260 LDAQVLLQESINLHPT-PNSYIFLALTLADKEN------------SQEFFKFFQKAVDLNPEYPPTYYHRGQMYFIL-QD  325 (537)
T ss_dssp             HHHHHHHHHHHHHCCC-HHHHHHHHHHTCCSSC------------CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHHhcCCC-chHHHHHHHHHHHhcC------------HHHHHHHHHHHhccCCCCHHHHHHHHHHHHhc-CC
Confidence            4555555566665555 5555555555444432            45555555555555555555555555555544 35


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhc--------
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKV--------  193 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~--------  193 (699)
                      ++++++.++++++.+|.+..+|...+.+....|.+ ++.++++.++++.+|.+..+|.+++.++...+....        
T Consensus       326 ~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          326 YKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKF-TESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            55555555555555555555555555555555555 445555555555555555555555555544432100        


Q ss_pred             -------cCcc-------------chh----------chHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          194 -------EGFV-------------SKE----------KVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       194 -------~~~~-------------~~~----------~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                             ....             ...          +.++++++.+.+++..+|++..+|+.+..++....+
T Consensus       405 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~  477 (537)
T 3fp2_A          405 KRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEK  477 (537)
T ss_dssp             HHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcc
Confidence                   0000             001          558999999999999999999999999988876544

>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=99.14  E-value=4e-11  Score=136.76  Aligned_cols=74  Identities=22%  Similarity=0.335  Sum_probs=42.4

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCc--C-CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIE--G-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~--~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      |+|++|.++.++.. .+++|++|+|++|.++.++  . |.++++|+.|++++|.|+.. ....+..+ +|+.|++++|.+
T Consensus       105 L~Ls~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          105 LDVSHNRLQNISCC-PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQL-DLLPVAHL-HLSCILLDLVSY  181 (562)
T ss_dssp             EECTTSCCCEECSC-CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCTT-TTGGGTTS-CEEEEEEEESSC
T ss_pred             EECCCCcCCccCcc-ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCccccC-chhhhhhc-eeeEEEeecccc
Confidence            66666666666543 5666666666666665543  3 66666666666666666542 11222222 236666666665

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

Probab=99.13  E-value=7.2e-11  Score=134.18  Aligned_cols=162  Identities=22%  Similarity=0.236  Sum_probs=118.1

Q ss_pred             HHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHh-hhhccCCCCCCCCCCCCeEEccCCCCCccc--CCCCCc
Q 005381          479 EEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLL-SRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKLL  555 (699)
Q Consensus       479 ~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~-~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L~  555 (699)
                      +..+..+++|++||+++|...                 .+. ..+..+.+++.       |+|++|.++.++  .|.+++
T Consensus        45 ~~~~~~l~~L~~L~Ls~n~i~-----------------~i~~~~~~~l~~L~~-------L~L~~n~l~~~~~~~~~~l~  100 (570)
T 2z63_A           45 SYSFFSFPELQVLDLSRCEIQ-----------------TIEDGAYQSLSHLST-------LILTGNPIQSLALGAFSGLS  100 (570)
T ss_dssp             TTTTTTCSSCCEEECTTCCCC-----------------EECTTTTTTCTTCCE-------EECTTCCCCEECTTTTTTCT
T ss_pred             hhHhhCCCCceEEECCCCcCC-----------------ccCcccccCchhCCE-------EeCcCCcCCccCHhhhcCcc
Confidence            345677889999999988721                 111 11222334333       999999998775  789999


Q ss_pred             ccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCc-c
Q 005381          556 WVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLS-H  632 (699)
Q Consensus       556 ~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll-~  632 (699)
                      +|++|++++|.++.++.  +..+++|+.|++++|.++.+..|..++.+++|+.|++++|.++.++......+..++.. .
T Consensus       101 ~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~~~~  180 (570)
T 2z63_A          101 SLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNL  180 (570)
T ss_dssp             TCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHHTCTTCCC
T ss_pred             ccccccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCccceecHHHccchhccchhhh
Confidence            99999999999988876  89999999999999999886557888999999999999999988764444444444322 2


Q ss_pred             cccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCC
Q 005381          633 SVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAI  674 (699)
Q Consensus       633 ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l  674 (699)
                      .+++++|.+..+.          |..+..++|+.|+|++|..
T Consensus       181 ~L~l~~n~l~~~~----------~~~~~~~~L~~L~l~~n~~  212 (570)
T 2z63_A          181 SLDLSLNPMNFIQ----------PGAFKEIRLHKLTLRNNFD  212 (570)
T ss_dssp             EEECTTCCCCEEC----------TTTTTTCEEEEEEEESCCS
T ss_pred             hcccCCCCceecC----------HHHhccCcceeEecccccc
Confidence            3466677665433          2344444899999998865

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

Probab=99.13  E-value=1.2e-10  Score=129.83  Aligned_cols=112  Identities=23%  Similarity=0.207  Sum_probs=59.7

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccC----------------------CCCCCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNN----------------------ILGSFTAL  595 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N----------------------~l~~l~~~  595 (699)
                      |++++|.++.++ +..+++|++|++++|.++.++ +..+++|+.|++++|                      +|++++  
T Consensus       111 L~L~~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~-l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~--  186 (457)
T 3bz5_A          111 LNCDTNKLTKLD-VSQNPLLTYLNCARNTLTEID-VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD--  186 (457)
T ss_dssp             EECCSSCCSCCC-CTTCTTCCEEECTTSCCSCCC-CTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCC--
T ss_pred             EECCCCcCCeec-CCCCCcCCEEECCCCccceec-cccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccceec--
Confidence            555555555553 555555555555555555443 444445555555554                      444431  


Q ss_pred             ccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          596 EPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       596 ~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                        +..+++|+.|++++|.|+.++      +..++-+..+++++|.+           ..+|  +..+ +|+.|++++|.+
T Consensus       187 --l~~l~~L~~L~l~~N~l~~~~------l~~l~~L~~L~Ls~N~l-----------~~ip--~~~l~~L~~L~l~~N~l  245 (457)
T 3bz5_A          187 --VSQNKLLNRLNCDTNNITKLD------LNQNIQLTFLDCSSNKL-----------TEID--VTPLTQLTYFDCSVNPL  245 (457)
T ss_dssp             --CTTCTTCCEEECCSSCCSCCC------CTTCTTCSEEECCSSCC-----------SCCC--CTTCTTCSEEECCSSCC
T ss_pred             --cccCCCCCEEECcCCcCCeec------cccCCCCCEEECcCCcc-----------cccC--ccccCCCCEEEeeCCcC
Confidence              344444555555555544442      11222222234444444           2334  7788 999999999999

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.13  E-value=6.8e-09  Score=104.64  Aligned_cols=187  Identities=12%  Similarity=0.063  Sum_probs=140.7

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      .......|.+ ++|+..+.+++..+|++..+|...+.++...+.            +++++.++++++..+|++..+|..
T Consensus        50 ~~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~  116 (275)
T 1xnf_A           50 GVLYDSLGLR-ALARNDFSQALAIRPDMPEVFNYLGIYLTQAGN------------FDAAYEAFDSVLELDPTYNYAHLN  116 (275)
T ss_dssp             HHHHHHTTCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCTHHHHH
T ss_pred             HHHHHHcccH-HHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccC------------HHHHHHHHHHHHhcCccccHHHHH
Confidence            3444567777 799999999999999999999999999988865            999999999999999999999999


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      ++.++... +.++++++.++++++.+|.+..+........ ..+.+ ++.++++.+++..+|.+...|......+.....
T Consensus       117 la~~~~~~-g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (275)
T 1xnf_A          117 RGIALYYG-GRDKLAQDDLLAFYQDDPNDPFRSLWLYLAE-QKLDE-KQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISE  193 (275)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-HHHCH-HHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCH
T ss_pred             HHHHHHHh-ccHHHHHHHHHHHHHhCCCChHHHHHHHHHH-HhcCH-HHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCH
Confidence            99999987 6999999999999999999986665555443 33555 567777778887777776655433322211100


Q ss_pred             hh------------c------cC-------ccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          191 RK------------V------EG-------FVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       191 ~~------------~------~~-------~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      ..            .      ..       .....+.++++++.+.+++..+|++...+.+...-+++
T Consensus       194 ~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~l~~  261 (275)
T 1xnf_A          194 QTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHRYALLELSL  261 (275)
T ss_dssp             HHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHHHHHHHHHHHH
Confidence            00            0      00       00112347999999999999999998877665555554

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.13  E-value=3e-09  Score=120.46  Aligned_cols=187  Identities=9%  Similarity=0.013  Sum_probs=145.1

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|.+ ++|++++.+++..+|++..+|+..+.++...+.            +++++..+++++..+|++..+|...+.+
T Consensus       350 ~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~  416 (597)
T 2xpi_A          350 HESGEK-NKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNK------------ISEARRYFSKSSTMDPQFGPAWIGFAHS  416 (597)
T ss_dssp             HHHTCH-HHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHhCCH-HHHHHHHHHHHhhCcccHHHHHHHHHHHHHhcc------------HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            455666 799999999999999999999999998888765            7888888888888888888888888877


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      +.+. +.+++++++++++++.+|.+..+|...+.+..+.|.+ ++.+++++++++.+|.+..+|...+.++...+....+
T Consensus       417 ~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  494 (597)
T 2xpi_A          417 FAIE-GEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNI-LLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTA  494 (597)
T ss_dssp             HHHH-TCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHH
Confidence            7766 5778888888888888888888888887777777776 5677777777777777777777777776655432100


Q ss_pred             --------------Ccc---------------chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          195 --------------GFV---------------SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       195 --------------~~~---------------~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                                    +..               ...+.++++++.+++++..+|++..+|..+..++....+
T Consensus       495 ~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  565 (597)
T 2xpi_A          495 INHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKI  565 (597)
T ss_dssp             HHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCC
Confidence                          000               112347999999999999999999999999888866543

>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=99.12  E-value=1.1e-11  Score=119.52  Aligned_cols=110  Identities=23%  Similarity=0.172  Sum_probs=88.7

Q ss_pred             hcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCC-CCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEc
Q 005381          484 LYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYS-NSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDL  562 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~-~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdL  562 (699)
                      .+.+|+.|++++|.+. .+.                 .+..+. +++.       |++++|.++.++.+..+++|+.|+|
T Consensus        17 ~~~~L~~L~l~~n~l~-~i~-----------------~~~~~~~~L~~-------L~Ls~N~l~~~~~l~~l~~L~~L~L   71 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIP-VIE-----------------NLGATLDQFDA-------IDFSDNEIRKLDGFPLLRRLKTLLV   71 (176)
T ss_dssp             CTTSCEEEECTTSCCC-SCC-----------------CGGGGTTCCSE-------EECCSSCCCEECCCCCCSSCCEEEC
T ss_pred             CcCCceEEEeeCCCCc-hhH-----------------HhhhcCCCCCE-------EECCCCCCCcccccccCCCCCEEEC
Confidence            4678899999998722 111                 111111 3333       9999999999899999999999999


Q ss_pred             cCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          563 SHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       563 S~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      ++|.|+.+|+  +..+++|+.|+|++|.|+.++....+..+++|+.|++++|+++.+|
T Consensus        72 s~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~  129 (176)
T 1a9n_A           72 NNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKK  129 (176)
T ss_dssp             CSSCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGST
T ss_pred             CCCcccccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcH
Confidence            9999999987  6999999999999999988743347889999999999999998875

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.12  E-value=2.7e-09  Score=107.59  Aligned_cols=165  Identities=12%  Similarity=-0.022  Sum_probs=144.3

Q ss_pred             HHHHHHHHHHHHh----CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           42 KEAVELSTKLLET----NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        42 ~eaL~~~~~~L~~----nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      ++|+..+.+++..    +|.+..+|..++.+....+.            +++++..+++++..+|++..+|...+.++..
T Consensus        22 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~la~~~~~   89 (275)
T 1xnf_A           22 EVILARMEQILASRALTDDERAQLLYERGVLYDSLGL------------RALARNDFSQALAIRPDMPEVFNYLGIYLTQ   89 (275)
T ss_dssp             HHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHccc------------HHHHHHHHHHHHHcCCCcHHHHHHHHHHHHH
Confidence            7999999999998    46788999999999988865            8999999999999999999999999999988


Q ss_pred             CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          118 GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                      . +.+++++++++++++.+|.+..+|...+.+....|.+ ++.++++.++++.+|.+..+....... ...         
T Consensus        90 ~-~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~a~~~~~~~~~~~~~~~~~-~~~---------  157 (275)
T 1xnf_A           90 A-GNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRD-KLAQDDLLAFYQDDPNDPFRSLWLYLA-EQK---------  157 (275)
T ss_dssp             T-TCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHH-HHH---------
T ss_pred             c-cCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccH-HHHHHHHHHHHHhCCCChHHHHHHHHH-HHh---------
Confidence            7 6999999999999999999999999999999999998 789999999999999998665544433 222         


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                         +.+++++..+.+++..+|.+...|......++.
T Consensus       158 ---~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (275)
T 1xnf_A          158 ---LDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGN  190 (275)
T ss_dssp             ---HCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTS
T ss_pred             ---cCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHh
Confidence               237999999999999999998888766665554

>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=99.12  E-value=1.3e-10  Score=129.51  Aligned_cols=144  Identities=20%  Similarity=0.238  Sum_probs=102.7

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.++.+..+++|+.|++++|.++.++++..+++|+.|++++|.++++   ..+..+++|+.|++++|+++.+
T Consensus       226 L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~L~~n~l~~~  302 (466)
T 1o6v_A          226 LSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNI---SPLAGLTALTNLELNENQLEDI  302 (466)
T ss_dssp             EECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCC---GGGTTCTTCSEEECCSSCCSCC
T ss_pred             EECCCCCcccchhhhcCCCCCEEECCCCccccchhhhcCCCCCEEECCCCccCcc---ccccCCCccCeEEcCCCcccCc
Confidence            9999999998888899999999999999998887788999999999999999886   3378899999999999999887


Q ss_pred             CcccccccCCCCCcccccCCCCccceee----------cC-CcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhh
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVI----------DD-DIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIK  685 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~----------~~-~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~  685 (699)
                      +.     +..++-+..+++++|.+....          ++ .++..... ..+..+ +|+.|++++|++.  +..+  +.
T Consensus       303 ~~-----~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~l~~n~l~--~~~~--~~  372 (466)
T 1o6v_A          303 SP-----ISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDV-SSLANLTNINWLSAGHNQIS--DLTP--LA  372 (466)
T ss_dssp             GG-----GGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCCCC-GGGTTCTTCCEEECCSSCCC--BCGG--GT
T ss_pred             hh-----hcCCCCCCEEECcCCcCCCchhhccCccCCEeECCCCccCCc-hhhccCCCCCEEeCCCCccC--ccch--hh
Confidence            52     333334444566666554321          11 11222222 356667 7777888877772  1111  45


Q ss_pred             cCCcccccc
Q 005381          686 VLPGLKWLD  694 (699)
Q Consensus       686 ~l~~L~~LD  694 (699)
                      .+++|+.|+
T Consensus       373 ~l~~L~~L~  381 (466)
T 1o6v_A          373 NLTRITQLG  381 (466)
T ss_dssp             TCTTCCEEE
T ss_pred             cCCCCCEEe
Confidence            667776654

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

Probab=99.11  E-value=6.1e-11  Score=142.07  Aligned_cols=76  Identities=28%  Similarity=0.339  Sum_probs=43.5

Q ss_pred             EEccCCCCCc-cc---CCCCCcccCEEEccCCCCCCCc--C-CccccccceeecccCCCCCCCCCcccccc--ccccccc
Q 005381          538 LQLKNLSLSR-LG---SFDKLLWVQMLDLSHNELRSIE--G-LEALQLLSCLNLSNNILGSFTALEPIRQL--KSLRALN  608 (699)
Q Consensus       538 L~Ls~n~l~~-l~---~l~~L~~L~~LdLS~N~L~~l~--~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l--~~L~~L~  608 (699)
                      |+|++|.++. ++   .+..+++|++|||++|.+..++  . |.++++|+.|+|++|.++++ .+..+..+  ++|+.|+
T Consensus       102 L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~-~~~~l~~l~~~~L~~L~  180 (844)
T 3j0a_A          102 LRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLV-CEHELEPLQGKTLSFFS  180 (844)
T ss_dssp             EECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCC-CSGGGHHHHHCSSCCCE
T ss_pred             eeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCee-CHHHcccccCCccceEE
Confidence            6666666664 22   2666677777777777665442  2 66677777777777766554 22334333  4444444


Q ss_pred             cccccC
Q 005381          609 ISYNEI  614 (699)
Q Consensus       609 Ls~N~I  614 (699)
                      |++|.+
T Consensus       181 L~~n~l  186 (844)
T 3j0a_A          181 LAANSL  186 (844)
T ss_dssp             ECCSBS
T ss_pred             CCCCcc
Confidence            444444

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.10  E-value=1.9e-09  Score=119.07  Aligned_cols=165  Identities=9%  Similarity=-0.060  Sum_probs=125.5

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++|+..+.+++..+|++..+|...+.++...+            .+++++..+++++..+|.+..+|..++.++... +.
T Consensus       321 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~------------~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~-~~  387 (514)
T 2gw1_A          321 DQAGKDFDKAKELDPENIFPYIQLACLAYREN------------KFDDCETLFSEAKRKFPEAPEVPNFFAEILTDK-ND  387 (514)
T ss_dssp             THHHHHHHHHHHTCSSCSHHHHHHHHHTTTTT------------CHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHHHhChhhHHHHHHHHHHHHHcC------------CHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHC-CC
Confidence            45555555555555555555555555554443            377888888888888888888888888888776 57


Q ss_pred             hHHHHHHHHHHHHhCCCChh------hhhHHHHHHHh---cCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          122 IDNELRLLDKFQKADSRNFH------AWNYRRFVAAS---MNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~h------aW~yR~~vl~~---l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                      +++++..++++++.+|.+..      +|..++.+...   .|.+ ++.++++.++++.+|.+..+|..++.++...+.  
T Consensus       388 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~--  464 (514)
T 2gw1_A          388 FDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENF-IEATNLLEKASKLDPRSEQAKIGLAQMKLQQED--  464 (514)
T ss_dssp             HHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCH-HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcC--
Confidence            88888888888888887755      78888888877   7776 677888888888888888888888877776644  


Q ss_pred             ccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          193 VEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       193 ~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                                ++++++.+.+++..+|++..+|....++-.
T Consensus       465 ----------~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  494 (514)
T 2gw1_A          465 ----------IDEAITLFEESADLARTMEEKLQAITFAEA  494 (514)
T ss_dssp             ----------HHHHHHHHHHHHHHCSSHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence                      799999999999999999999998777654

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.10  E-value=4.4e-10  Score=108.12  Aligned_cols=122  Identities=19%  Similarity=0.168  Sum_probs=73.8

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      ++++++.++.++ ....++|+.|++++|.++.++.  |..+++|+.|++++|.|+.++ +..+..+++|+.|+|++|.|+
T Consensus        12 l~~~~~~l~~~p-~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~N~l~   89 (177)
T 2o6r_A           12 IRCNSKGLTSVP-TGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLP-DGVFDKLTKLTILYLHENKLQ   89 (177)
T ss_dssp             EECCSSCCSSCC-TTCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSCCC
T ss_pred             EEecCCCCccCC-CCCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeC-hhHccCCCccCEEECCCCCcc
Confidence            666666666665 1223566677777776666655  566666777777777666652 234566666777777777666


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .+|...   +..++-+..+++++|.+..+.          +..+..+ +|+.|+|++|++
T Consensus        90 ~~~~~~---~~~l~~L~~L~l~~N~l~~~~----------~~~~~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A           90 SLPNGV---FDKLTQLKELALDTNQLKSVP----------DGIFDRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             CCCTTT---TTTCTTCCEEECCSSCCSCCC----------TTTTTTCTTCCEEECCSSCB
T ss_pred             ccCHHH---hhCCcccCEEECcCCcceEeC----------HHHhcCCcccCEEEecCCCe
Confidence            664221   222333333455555553221          2346777 999999999999

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.09  E-value=2.2e-09  Score=112.34  Aligned_cols=165  Identities=9%  Similarity=0.008  Sum_probs=140.9

Q ss_pred             cHHHHHHHHHHHH-hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH-HHHHHHHHHHhC
Q 005381           41 SKEAVELSTKLLE-TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG-AWHHRKWILSKG  118 (699)
Q Consensus        41 ~~eaL~~~~~~L~-~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~-aW~hR~w~L~~~  118 (699)
                      .++|+..+++++. ++|++..+|...+.++...+.            ++++...++++++.+|+++. +|...+.++.+.
T Consensus        80 ~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  147 (308)
T 2ond_A           80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMK------------YEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRA  147 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCC------------HHHHHHHHHHHHhccccCccHHHHHHHHHHHHh
Confidence            3899999999999 799999999999999888765            89999999999999999997 999999888776


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH-hcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA-SMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~-~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                       +.++++.+.++++++.+|.++++|...+.+-. ..|.+ ++.++.++++++.+|.+..+|...+.++...+.       
T Consensus       148 -~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~-------  218 (308)
T 2ond_A          148 -EGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDK-SVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNE-------  218 (308)
T ss_dssp             -HCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC-------
T ss_pred             -cCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCC-------
Confidence             58999999999999999999999886655533 25666 789999999999999999999998888776643       


Q ss_pred             chhchHHHHHHHHHHHHHh---CCC-CchhHHHHHHHH
Q 005381          198 SKEKVLPDEYEFVHQAIFT---DPD-DQSGWFYHLWLL  231 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~---dP~-d~SaW~Y~~~Ll  231 (699)
                           ++++...+.+|+..   +|+ ....|.-...+.
T Consensus       219 -----~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~  251 (308)
T 2ond_A          219 -----DNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  251 (308)
T ss_dssp             -----HHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence                 78999999999995   564 777887544443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.08  E-value=2e-10  Score=131.16  Aligned_cols=121  Identities=19%  Similarity=0.132  Sum_probs=79.5

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |+|++|.|+.++.+..  +|+.|+|++|.|+.+|.  .+++|+.|+|++|.|++++  .   .+++|+.|+|++|+|+.+
T Consensus       105 L~Ls~N~l~~ip~l~~--~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp--~---~l~~L~~L~Ls~N~L~~l  175 (571)
T 3cvr_A          105 LDACDNRLSTLPELPA--SLKHLDVDNNQLTMLPE--LPALLEYINADNNQLTMLP--E---LPTSLEVLSVRNNQLTFL  175 (571)
T ss_dssp             EECCSSCCSCCCCCCT--TCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCSCCC--C---CCTTCCEEECCSSCCSCC
T ss_pred             EEccCCCCCCcchhhc--CCCEEECCCCcCCCCCC--cCccccEEeCCCCccCcCC--C---cCCCcCEEECCCCCCCCc
Confidence            8888888887776433  78888888888877877  6778888888888888762  2   467888888888888887


Q ss_pred             CcccccccCCCCCcccccCCCCcccee---------------ecC-CcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTV---------------IDD-DIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~---------------~~~-~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |.     +.  +.+..+++++|.++.+               .++ .++.+..+|..+..+ +|+.|+|++|+|
T Consensus       176 p~-----l~--~~L~~L~Ls~N~L~~lp~~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~l  242 (571)
T 3cvr_A          176 PE-----LP--ESLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNPL  242 (571)
T ss_dssp             CC-----CC--TTCCEEECCSSCCSSCCCCC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSSC
T ss_pred             ch-----hh--CCCCEEECcCCCCCchhhHHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCcC
Confidence            63     22  2333346667766432               112 223333445545555 666666666666

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.08  E-value=2e-11  Score=143.91  Aligned_cols=116  Identities=22%  Similarity=0.235  Sum_probs=91.9

Q ss_pred             CcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCCCc
Q 005381          477 HSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDKLL  555 (699)
Q Consensus       477 ~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~L~  555 (699)
                      ..++.+..+..|+.||+++|.+                 ..++..++.+..|+.       |+|++|.|+.++ .+..|+
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~l-----------------~~l~~~~~~l~~L~~-------L~Ls~N~l~~lp~~~~~l~  270 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQI-----------------FNISANIFKYDFLTR-------LYLNGNSLTELPAEIKNLS  270 (727)
T ss_dssp             -------CCCCCCEEECTTSCC-----------------SCCCGGGGGCCSCSC-------CBCTTSCCSCCCGGGGGGT
T ss_pred             cChhhhccCCCCcEEECCCCCC-----------------CCCChhhcCCCCCCE-------EEeeCCcCcccChhhhCCC
Confidence            4466788889999999999982                 223333444555555       899999999887 789999


Q ss_pred             ccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          556 WVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       556 ~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      +|+.|+|++|.|+.+|. |..|++|+.|+|++|.|+.+  |..|+.|++|+.|+|++|+|+..+
T Consensus       271 ~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~l--p~~~~~l~~L~~L~L~~N~l~~~~  332 (727)
T 4b8c_D          271 NLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTL--PWEFGNLCNLQFLGVEGNPLEKQF  332 (727)
T ss_dssp             TCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSCCCCC--CSSTTSCTTCCCEECTTSCCCSHH
T ss_pred             CCCEEeCcCCcCCccChhhcCCCCCCEEECCCCCCCcc--ChhhhcCCCccEEeCCCCccCCCC
Confidence            99999999999999988 99999999999999999877  566999999999999999998754

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.08  E-value=7.8e-11  Score=124.01  Aligned_cols=151  Identities=17%  Similarity=0.097  Sum_probs=100.9

Q ss_pred             HhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCc---cc---CCCCCcc
Q 005381          483 ELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSR---LG---SFDKLLW  556 (699)
Q Consensus       483 ~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~---l~---~l~~L~~  556 (699)
                      ..+++|++|++++|.+...                ....+..+.+++.       |+|++|.+..   ++   .+..+++
T Consensus       142 ~~~~~L~~L~Ls~n~l~~~----------------~~~~~~~l~~L~~-------L~Ls~N~l~~~~~~~~~~~~~~l~~  198 (310)
T 4glp_A          142 WLKPGLKVLSIAQAHSPAF----------------SCEQVRAFPALTS-------LDLSDNPGLGERGLMAALCPHKFPA  198 (310)
T ss_dssp             TBCSCCCEEEEECCSSCCC----------------CTTSCCCCTTCCE-------EECCSCTTCHHHHHHTTSCTTSSCC
T ss_pred             hhccCCCEEEeeCCCcchh----------------hHHHhccCCCCCE-------EECCCCCCccchhhhHHHhhhcCCC
Confidence            4577888888888872110                0111222333333       8888888753   22   3467888


Q ss_pred             cCEEEccCCCCCCCcC-----CccccccceeecccCCCCCCCCCcccccc---ccccccccccccCCCCCcccccccCCC
Q 005381          557 VQMLDLSHNELRSIEG-----LEALQLLSCLNLSNNILGSFTALEPIRQL---KSLRALNISYNEIGAHSIDTTKYLCSS  628 (699)
Q Consensus       557 L~~LdLS~N~L~~l~~-----l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l---~~L~~L~Ls~N~I~~lp~~~~~~l~~l  628 (699)
                      |++|+|++|.++.++.     +..+++|+.|+|++|+|++. .|..+..+   ++|+.|+|++|+|+.+|...+      
T Consensus       199 L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~-~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~------  271 (310)
T 4glp_A          199 IQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRAT-VNPSAPRCMWSSALNSLNLSFAGLEQVPKGLP------  271 (310)
T ss_dssp             CCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCC-CCSCCSSCCCCTTCCCEECCSSCCCSCCSCCC------
T ss_pred             CCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCcc-chhhHHhccCcCcCCEEECCCCCCCchhhhhc------
Confidence            8888888888877665     35678888888888888875 23445554   688888888888888763221      


Q ss_pred             CCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          629 PLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       629 ~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      +-+..+++++|.++.+           | .+..+ +|+.|+|++|+|.
T Consensus       272 ~~L~~L~Ls~N~l~~~-----------~-~~~~l~~L~~L~L~~N~l~  307 (310)
T 4glp_A          272 AKLRVLDLSSNRLNRA-----------P-QPDELPEVDNLTLDGNPFL  307 (310)
T ss_dssp             SCCSCEECCSCCCCSC-----------C-CTTSCCCCSCEECSSTTTS
T ss_pred             CCCCEEECCCCcCCCC-----------c-hhhhCCCccEEECcCCCCC
Confidence            2333347777777432           1 25677 8999999999994

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.07  E-value=9.5e-09  Score=107.17  Aligned_cols=164  Identities=12%  Similarity=-0.005  Sum_probs=129.6

Q ss_pred             cHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 005381           41 SKEAVELSTKLLET--NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        41 ~~eaL~~~~~~L~~--nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~  118 (699)
                      .++|++.+++++..  +|++.++|...+.++...++            +++++..+++     |.+..+|..++.++.+.
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~------------~~~Al~~l~~-----~~~~~~~~~l~~~~~~~  143 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQN------------PDAALRTLHQ-----GDSLECMAMTVQILLKL  143 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTC------------HHHHHHHHTT-----CCSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHhC-----CCCHHHHHHHHHHHHHC
Confidence            37999999999986  69999999999999988865            7888888777     88888888888888877


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH--hcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA--SMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~--~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                       ++++++++.++++++.+|.+.......+|+--  ..+++ ++.++.++++++.+|.+..+|+.++.++..+++      
T Consensus       144 -g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~-~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~------  215 (291)
T 3mkr_A          144 -DRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKL-QDAYYIFQEMADKCSPTLLLLNGQAACHMAQGR------  215 (291)
T ss_dssp             -TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHH-HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTC------
T ss_pred             -CCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCC------
Confidence             58888888888888888887644433444322  22445 678888888888888888888888888877755      


Q ss_pred             cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          197 VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                            ++++++.+.+|+..+|+|..+|+.+..++....
T Consensus       216 ------~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g  248 (291)
T 3mkr_A          216 ------WEAAEGVLQEALDKDSGHPETLINLVVLSQHLG  248 (291)
T ss_dssp             ------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             ------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence                  788888888888888888888888776665543

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.07  E-value=7.8e-10  Score=129.31  Aligned_cols=140  Identities=9%  Similarity=-0.091  Sum_probs=129.4

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHH
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHR  111 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR  111 (699)
                      ......|.+ ++|++.+++++..+|++..+|+.++.++...++            +++++..++++++.+|+++.+|..+
T Consensus       441 ~~~~~~g~~-~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~al~l~P~~~~~~~~l  507 (681)
T 2pzi_A          441 RALLDLGDV-AKATRKLDDLAERVGWRWRLVWYRAVAELLTGD------------YDSATKHFTEVLDTFPGELAPKLAL  507 (681)
T ss_dssp             HHHHHHTCH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHSTTCSHHHHHH
T ss_pred             HHHHhcCCH-HHHHHHHHHHhccCcchHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCChHHHHHH
Confidence            344566777 899999999999999999999999999998865            9999999999999999999999999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHH
Q 005381          112 KWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSN  187 (699)
Q Consensus       112 ~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~  187 (699)
                      +.++.+. +.+++ ++.|+++++++|.+..+|.+++.++..+|.+ ++++++++++++.+|.+..||.+++.++..
T Consensus       508 g~~~~~~-g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~-~~A~~~~~~al~l~P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          508 AATAELA-GNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDR-VGAVRTLDEVPPTSRHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHHHHHH-TCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHTSCTTSTTHHHHHHHHHHHTC-
T ss_pred             HHHHHHc-CChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCH-HHHHHHHHhhcccCcccHHHHHHHHHHHHc
Confidence            9999987 58899 9999999999999999999999999999998 789999999999999999999999988643

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.07  E-value=2.7e-09  Score=117.30  Aligned_cols=188  Identities=9%  Similarity=-0.093  Sum_probs=153.1

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      +.| ++|++++.++|.++|++..+|...+.+...++..         ..++++++.+++++..+|++..+|...+..+..
T Consensus       152 ~~y-~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~---------~~~~~al~~~~~al~l~p~~~~~~~~l~~~~~~  221 (472)
T 4g1t_A          152 NQN-ERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNW---------PPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHK  221 (472)
T ss_dssp             THH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHS---------CCCCCTHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             ccH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCc---------hHHHHHHHHHHHHhhcCCcchHHHHHHHHHHHH
Confidence            344 8999999999999999999999998887666431         124578899999999999999999999988876


Q ss_pred             CC---CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          118 GH---SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       118 ~~---~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      ..   +.++++++++++++..+|.+..+|.+.+.+....+.+ ++.++++.++++.+|.+..+|+..+.+..........
T Consensus       222 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~  300 (472)
T 4g1t_A          222 MREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEP-DKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMN  300 (472)
T ss_dssp             CC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCch-HHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhh
Confidence            43   4678999999999999999999999999999999998 6899999999999999999999998876544322110


Q ss_pred             -------CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          195 -------GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       195 -------~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                             ........++++++.+.+++..+|.+..+|+.+..+.....+
T Consensus       301 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          301 LRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQ  349 (472)
T ss_dssp             C------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhcc
Confidence                   011223457889999999999999999999998888766443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.07  E-value=2.3e-09  Score=119.42  Aligned_cols=146  Identities=10%  Similarity=0.029  Sum_probs=130.8

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR  138 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr  138 (699)
                      ..+|..++.+....+.            +++++..+++++..+|+ ..+|...+.++... +.+++++++++++++.+|.
T Consensus       243 ~~~~~~~g~~~~~~~~------------~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~  308 (537)
T 3fp2_A          243 ALALCYTGIFHFLKNN------------LLDAQVLLQESINLHPT-PNSYIFLALTLADK-ENSQEFFKFFQKAVDLNPE  308 (537)
T ss_dssp             HHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCCC-HHHHHHHHHHTCCS-SCCHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHhccc------------HHHHHHHHHHHHhcCCC-chHHHHHHHHHHHh-cCHHHHHHHHHHHhccCCC
Confidence            3467778887777654            89999999999999999 99999999988766 6899999999999999999


Q ss_pred             ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          139 NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       139 N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                      +..+|..++.+....+.+ ++.++++.++++.+|.+..+|..++.++...+.            ++++++.+.+++..+|
T Consensus       309 ~~~~~~~l~~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~~~~~~~  375 (537)
T 3fp2_A          309 YPPTYYHRGQMYFILQDY-KNAKEDFQKAQSLNPENVYPYIQLACLLYKQGK------------FTESEAFFNETKLKFP  375 (537)
T ss_dssp             CHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCC
Confidence            999999999999999998 789999999999999999999999999887755            7999999999999999


Q ss_pred             CCchhHHHHHHHH
Q 005381          219 DDQSGWFYHLWLL  231 (699)
Q Consensus       219 ~d~SaW~Y~~~Ll  231 (699)
                      ++..+|+++..++
T Consensus       376 ~~~~~~~~l~~~~  388 (537)
T 3fp2_A          376 TLPEVPTFFAEIL  388 (537)
T ss_dssp             TCTHHHHHHHHHH
T ss_pred             CChHHHHHHHHHH
Confidence            9999998776643

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.06  E-value=1.6e-09  Score=101.15  Aligned_cols=124  Identities=4%  Similarity=-0.245  Sum_probs=112.4

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHH
Q 005381           47 LSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNEL  126 (699)
Q Consensus        47 ~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL  126 (699)
                      .+.+++.++|++..+|+.++.++...++            +++++..+++++..+|++..+|..++.++... +.+++++
T Consensus         9 ~~~~al~~~p~~~~~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~-g~~~~A~   75 (148)
T 2vgx_A            9 TIAMLNEISSDTLEQLYSLAFNQYQSGX------------YEDAHXVFQALCVLDHYDSRFFLGLGACRQAM-GQYDLAI   75 (148)
T ss_dssp             SHHHHTTCCHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHH
T ss_pred             hHHHHHcCCHhhHHHHHHHHHHHHHcCC------------hHHHHHHHHHHHHcCcccHHHHHHHHHHHHHH-hhHHHHH
Confidence            3778899999999999999999988865            99999999999999999999999999999987 6999999


Q ss_pred             HHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          127 RLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       127 ~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      +.++++++++|.+..+|.+++.++..+|.+ +++++++.++++.+|.+...+..+..+
T Consensus        76 ~~~~~al~l~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~~~~~  132 (148)
T 2vgx_A           76 HSYSYGAVMDIXEPRFPFHAAECLLQXGEL-AEAESGLFLAQELIANXPEFXELSTRV  132 (148)
T ss_dssp             HHHHHHHHHSTTCTHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCCCCchHHHHHHHHHHHcCCH-HHHHHHHHHHHHHCcCCCcchHHHHHH
Confidence            999999999999999999999999999998 689999999999999877654444433

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.05  E-value=2.8e-10  Score=129.98  Aligned_cols=135  Identities=18%  Similarity=0.067  Sum_probs=88.7

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |+|++|.|+.++  ..+++|+.|+|++|.|+.+|.+..  +|+.|+|++|.|++++  .   .+++|+.|+|++|.|+.+
T Consensus        85 L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~l~~ip~l~~--~L~~L~Ls~N~l~~lp--~---~l~~L~~L~Ls~N~l~~l  155 (571)
T 3cvr_A           85 LEITQNALISLP--ELPASLEYLDACDNRLSTLPELPA--SLKHLDVDNNQLTMLP--E---LPALLEYINADNNQLTML  155 (571)
T ss_dssp             EECCSSCCSCCC--CCCTTCCEEECCSSCCSCCCCCCT--TCCEEECCSSCCSCCC--C---CCTTCCEEECCSSCCSCC
T ss_pred             EECcCCCCcccc--cccCCCCEEEccCCCCCCcchhhc--CCCEEECCCCcCCCCC--C---cCccccEEeCCCCccCcC
Confidence            888888888887  667888888888888888877443  8888888888888862  3   577888888888888887


Q ss_pred             CcccccccCCCCCcccccCCCCcccee--------ecC-CcchhhhhhccCCCCCc-------cEEEecCCCC-CCccch
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTV--------IDD-DIKSYWEAYFILKGLNL-------TQFDIVGNAI-VNEKFK  680 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~--------~~~-~~~~~~~~p~~l~~L~L-------~~LdLs~N~l-~~~~~~  680 (699)
                      |.       .++.+..+++++|.+..+        .++ .++.+..+|. |.. +|       +.|+|++|.| .++.  
T Consensus       156 p~-------~l~~L~~L~Ls~N~L~~lp~l~~~L~~L~Ls~N~L~~lp~-~~~-~L~~~~~~L~~L~Ls~N~l~~lp~--  224 (571)
T 3cvr_A          156 PE-------LPTSLEVLSVRNNQLTFLPELPESLEALDVSTNLLESLPA-VPV-RNHHSEETEIFFRCRENRITHIPE--  224 (571)
T ss_dssp             CC-------CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCC-CC---------CCEEEECCSSCCCCCCG--
T ss_pred             CC-------cCCCcCEEECCCCCCCCcchhhCCCCEEECcCCCCCchhh-HHH-hhhcccccceEEecCCCcceecCH--
Confidence            63       122333346666664432        222 3334445555 433 56       8888888888 3222  


Q ss_pred             HHHhhcCCcccccc
Q 005381          681 SFLIKVLPGLKWLD  694 (699)
Q Consensus       681 ~~~~~~l~~L~~LD  694 (699)
                       .+ ..+++|+.||
T Consensus       225 -~l-~~l~~L~~L~  236 (571)
T 3cvr_A          225 -NI-LSLDPTCTII  236 (571)
T ss_dssp             -GG-GGSCTTEEEE
T ss_pred             -HH-hcCCCCCEEE
Confidence             12 2367777655

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.05  E-value=1.5e-10  Score=136.46  Aligned_cols=98  Identities=22%  Similarity=0.189  Sum_probs=63.8

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |+|++|.+..++ .+..+++|+.|+|++|.|+.+|. |..|++|+.|+|++|.|+.+  |..++.|++|+.|+|++|.|+
T Consensus       229 L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~l--p~~~~~l~~L~~L~L~~N~l~  306 (727)
T 4b8c_D          229 LDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSL--PAELGSCFQLKYFYFFDNMVT  306 (727)
T ss_dssp             EECTTSCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSC--CSSGGGGTTCSEEECCSSCCC
T ss_pred             EECCCCCCCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCcc--ChhhcCCCCCCEEECCCCCCC
Confidence            777777777665 55567777777777777777766 77777777777777777755  556677777777777777777


Q ss_pred             CCCcccccccCCCCCcccccCCCCcc
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHG  641 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l  641 (699)
                      .+|.    .+..+..+..+++++|.+
T Consensus       307 ~lp~----~~~~l~~L~~L~L~~N~l  328 (727)
T 4b8c_D          307 TLPW----EFGNLCNLQFLGVEGNPL  328 (727)
T ss_dssp             CCCS----STTSCTTCCCEECTTSCC
T ss_pred             ccCh----hhhcCCCccEEeCCCCcc
Confidence            6652    133333333445555555

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.05  E-value=3.1e-09  Score=117.30  Aligned_cols=192  Identities=12%  Similarity=0.055  Sum_probs=133.6

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------CCchh------------hhhh
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------SDPDS------------LKSI   86 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~~~~~------------~~~~   86 (699)
                      .........|.+ ++|+..+.+++..+|+ ..+|...+.++...+...+          .+|+.            ....
T Consensus       242 ~~~~~~~~~~~~-~~A~~~~~~~l~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          242 HTGIFKFLKNDP-LGAHEDIKKAIELFPR-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHHSSCH-HHHHHHHHHHHHHCCC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCH-HHHHHHHHHHHhhCcc-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCC
Confidence            333444556666 6888888888888888 8888888887776654111          01100            0123


Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      +++++..+++++..+|++..+|...+.++... +.+++++..++++++.+|.+..+|...+.+....|.+ ++.++++.+
T Consensus       320 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~  397 (514)
T 2gw1_A          320 YDQAGKDFDKAKELDPENIFPYIQLACLAYRE-NKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDF-DKALKQYDL  397 (514)
T ss_dssp             TTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTT-TCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhChhhHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCH-HHHHHHHHH
Confidence            56667777777777777777777766666655 4677777777777777777777777777777777766 566777777


Q ss_pred             HHHhccCchH------HHHHHHHHHHH---hhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCC
Q 005381          167 MICNNFSNYS------AWHNRSLLLSN---LLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       167 ~I~~n~sN~S------AW~~R~~ll~~---l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~  236 (699)
                      +++.+|.+..      +|..++.++..   .            +.++++++.+.+++..+|++..+|+.+..++....+
T Consensus       398 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~------------~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~  464 (514)
T 2gw1_A          398 AIELENKLDGIYVGIAPLVGKATLLTRNPTV------------ENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQED  464 (514)
T ss_dssp             HHHHHHTSSSCSSCSHHHHHHHHHHHTSCCT------------THHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhhccchHHHHHHHHHHHHHHHhhhhhc------------CCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcC
Confidence            7777776654      77777766655   4            348999999999999999999999988888866443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.05  E-value=1e-08  Score=112.63  Aligned_cols=175  Identities=9%  Similarity=-0.100  Sum_probs=147.4

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhC--------CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           34 NHHNHIYSKEAVELSTKLLETN--------PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~n--------P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      ....|.+ ++|+..+++++.++        ++...++..+++++..++.          +.|++++.++++++..+|++.
T Consensus       104 y~~~g~~-~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~----------~~y~~A~~~~~kal~~~p~~~  172 (472)
T 4g1t_A          104 YYHMGRL-SDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGG----------NQNERAKVCFEKALEKKPKNP  172 (472)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCT----------THHHHHHHHHHHHHHHSTTCH
T ss_pred             HHHcCCh-HHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHcc----------ccHHHHHHHHHHHHHhCCCCH
Confidence            3456777 79999999999984        4567888899998887754          459999999999999999999


Q ss_pred             HHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh---HHHHHHHHHHHHhccCchHHHHH
Q 005381          106 GAWHHRKWILSKG--HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE---EDELKYTEDMICNNFSNYSAWHN  180 (699)
Q Consensus       106 ~aW~hR~w~L~~~--~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~---e~EL~~~~~~I~~n~sN~SAW~~  180 (699)
                      .+|...+.+...+  .+..+++++.+.++++++|.+..+|...+..+..++...   ++.+++++++++.+|.+..+|.+
T Consensus       173 ~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~  252 (472)
T 4g1t_A          173 EFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRS  252 (472)
T ss_dssp             HHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHH
Confidence            9999888775432  146788999999999999999999999998887765431   56888999999999999999999


Q ss_pred             HHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       181 R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      ++.++...+.            ++++++.+.+|+..+|++..+|+.+..+.
T Consensus       253 lg~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~lg~~y  291 (472)
T 4g1t_A          253 AAKFYRRKDE------------PDKAIELLKKALEYIPNNAYLHCQIGCCY  291 (472)
T ss_dssp             HHHHHHHTTC------------HHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCc------------hHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            9999887754            79999999999999999999998766554

>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=99.05  E-value=1.1e-10  Score=129.91  Aligned_cols=77  Identities=21%  Similarity=0.339  Sum_probs=59.3

Q ss_pred             eEEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          537 CLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       537 ~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      .|++++|.++.++.+..+++|++|++++|.++.+|..  ..+|+.|++++|.++++   +.++.+++|+.|++++|.++.
T Consensus       135 ~L~L~~n~l~~lp~~~~l~~L~~L~l~~N~l~~lp~~--~~~L~~L~L~~n~l~~l---~~~~~l~~L~~L~l~~N~l~~  209 (454)
T 1jl5_A          135 YLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDL--PPSLEFIAAGNNQLEEL---PELQNLPFLTAIYADNNSLKK  209 (454)
T ss_dssp             EEECCSSCCSSCCCCTTCTTCCEEECCSSCCSCCCCC--CTTCCEEECCSSCCSSC---CCCTTCTTCCEEECCSSCCSS
T ss_pred             EEECcCCCCCCCcccCCCCCCCEEECCCCcCcccCCC--cccccEEECcCCcCCcC---ccccCCCCCCEEECCCCcCCc
Confidence            3888888888877788888888888888888777762  24788888888888776   247778888888888888877


Q ss_pred             CC
Q 005381          617 HS  618 (699)
Q Consensus       617 lp  618 (699)
                      +|
T Consensus       210 l~  211 (454)
T 1jl5_A          210 LP  211 (454)
T ss_dssp             CC
T ss_pred             CC
Confidence            65

>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=99.05  E-value=3.8e-10  Score=127.13  Aligned_cols=112  Identities=18%  Similarity=0.123  Sum_probs=81.9

Q ss_pred             CCCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCC
Q 005381          475 ISHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKL  554 (699)
Q Consensus       475 ~~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L  554 (699)
                      .+..+..+..+++|++||+++|.+..-                .+..+..+.+++.       |+|++|.++.++.. .+
T Consensus        34 ~~~~~~~~~~l~~L~~L~Ls~n~l~~~----------------~~~~~~~l~~L~~-------L~Ls~N~l~~lp~~-~l   89 (520)
T 2z7x_B           34 SELWTSDILSLSKLRILIISHNRIQYL----------------DISVFKFNQELEY-------LDLSHNKLVKISCH-PT   89 (520)
T ss_dssp             CCCCHHHHTTCTTCCEEECCSSCCCEE----------------EGGGGTTCTTCCE-------EECCSSCCCEEECC-CC
T ss_pred             cccChhhccccccccEEecCCCccCCc----------------ChHHhhcccCCCE-------EecCCCceeecCcc-cc
Confidence            455567788888999999998872110                1222333344443       89999999888755 88


Q ss_pred             cccCEEEccCCCCCC--CcC-CccccccceeecccCCCCCCCCCccccccccc--cccccccccC
Q 005381          555 LWVQMLDLSHNELRS--IEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSL--RALNISYNEI  614 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~--l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L--~~L~Ls~N~I  614 (699)
                      ++|++|+|++|.++.  +|. |..+++|+.|++++|.|++    ..+..+++|  +.|++++|.+
T Consensus        90 ~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~----~~~~~l~~L~L~~L~l~~n~l  150 (520)
T 2z7x_B           90 VNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK----SSVLPIAHLNISKVLLVLGET  150 (520)
T ss_dssp             CCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG----GGGGGGTTSCEEEEEEEECTT
T ss_pred             CCccEEeccCCccccccchhhhccCCcceEEEecCcccch----hhccccccceeeEEEeecccc
Confidence            899999999999865  445 8889999999999998875    235566666  8888888888

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.05  E-value=1.5e-09  Score=101.44  Aligned_cols=124  Identities=4%  Similarity=-0.140  Sum_probs=113.6

Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc
Q 005381           92 RVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN  171 (699)
Q Consensus        92 ~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n  171 (699)
                      ..+++++..+|++..+|+.++.++.+. +.+++++..++++++.+|.|..+|..++.+....+.+ ++++++++++++.+
T Consensus         8 ~~~~~al~~~p~~~~~~~~~g~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~l~   85 (148)
T 2vgx_A            8 GTIAMLNEISSDTLEQLYSLAFNQYQS-GXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQY-DLAIHSYSYGAVMD   85 (148)
T ss_dssp             CSHHHHTTCCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHS
T ss_pred             hhHHHHHcCCHhhHHHHHHHHHHHHHc-CChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhH-HHHHHHHHHHHhcC
Confidence            457888999999999999999999887 6999999999999999999999999999999999998 78999999999999


Q ss_pred             cCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          172 FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       172 ~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      |.+..+|++++.++..+++            ++++++++.+++..+|++...+..+..
T Consensus        86 p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~~~~  131 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGE------------LAEAESGLFLAQELIANXPEFXELSTR  131 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             CCCchHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCcCCCcchHHHHH
Confidence            9999999999999988865            799999999999999998877655444

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

Probab=99.04  E-value=3e-10  Score=136.11  Aligned_cols=54  Identities=31%  Similarity=0.389  Sum_probs=32.0

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCC
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGS  591 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~  591 (699)
                      |+|++|.++.+.  .+..+++|+.|+|++|.++.+++  |..+++|+.|+|++|.++.
T Consensus       319 L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~  376 (844)
T 3j0a_A          319 LNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTT  376 (844)
T ss_dssp             EEEESCCCSCCCSCSCSSCTTCCEEECCSCCCCCCCSSCSCSCCCCCEEEEETCCSCC
T ss_pred             EECCCCCCCccCHHHhcCCCCCCEEECCCCCCCccChhhhcCCCCCCEEECCCCCCCc
Confidence            666666665442  55566666666666666655554  5556666666666665554

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

Probab=99.03  E-value=2.7e-10  Score=129.39  Aligned_cols=124  Identities=28%  Similarity=0.292  Sum_probs=82.6

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.++.++  .|..+++|++|+|++|.++.+++  |..+++|+.|+|++|.++.++ +..|..+++|+.|++++|.
T Consensus        33 L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~L~~n~  111 (570)
T 2z63_A           33 LDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLA-LGAFSGLSSLQKLVAVETN  111 (570)
T ss_dssp             EECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEEC-TTTTTTCTTCCEEECTTSC
T ss_pred             EEccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccC-HhhhcCccccccccccccc
Confidence            777777777665  67777777777777777776654  777777777777777777652 3567777777777777777


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      ++.++..   .+..+..+..+++++|.+..+         .+|..|.++ +|+.|++++|.+
T Consensus       112 l~~l~~~---~~~~l~~L~~L~L~~n~l~~~---------~lp~~~~~l~~L~~L~l~~n~l  161 (570)
T 2z63_A          112 LASLENF---PIGHLKTLKELNVAHNLIQSF---------KLPEYFSNLTNLEHLDLSSNKI  161 (570)
T ss_dssp             CCCSTTC---SCTTCTTCCEEECCSSCCCCC---------CCCGGGGGCTTCCEEECTTSCC
T ss_pred             cccCCCc---cccccccccEEecCCCcccee---------cChhhhcccCCCCEEeCcCCcc
Confidence            7776521   133344444445666655322         124566667 777777777777

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=99.02  E-value=8e-10  Score=104.66  Aligned_cols=106  Identities=8%  Similarity=-0.018  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC-------Chh-----hhhHHHHHHHhcCCChHHHHHHHHHHHHh---
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSR-------NFH-----AWNYRRFVAASMNRSEEDELKYTEDMICN---  170 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr-------N~h-----aW~yR~~vl~~l~~~~e~EL~~~~~~I~~---  170 (699)
                      ..|..++-.+.+. +++++++++|+++|+++|.       +..     +|.+|+.++..+|++ ++.+++++++|++   
T Consensus        12 ~~~~~~G~~l~~~-g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~-~eAl~~~~kAL~l~n~   89 (159)
T 2hr2_A           12 YLALSDAQRQLVA-GEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSF-DEALHSADKALHYFNR   89 (159)
T ss_dssp             HHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC-CCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhhhc
Confidence            4677888888877 6999999999999999999       444     999999999999999 7899999999999   


Q ss_pred             ----ccCchHHH----HHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          171 ----NFSNYSAW----HNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       171 ----n~sN~SAW----~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                          +|.+..||    +.|+.++..+++            ++++++++++|+.++|+|.....
T Consensus        90 ~~e~~pd~~~A~~~~~~~rG~aL~~lgr------------~eEAl~~y~kAlel~p~d~~~~~  140 (159)
T 2hr2_A           90 RGELNQDEGKLWISAVYSRALALDGLGR------------GAEAMPEFKKVVEMIEERKGETP  140 (159)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHCCSCCT
T ss_pred             cccCCCchHHHHHHHHHhHHHHHHHCCC------------HHHHHHHHHHHHhcCCCcHHHHH
Confidence                99999999    999999999966            89999999999999999987654

>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=99.02  E-value=2.6e-10  Score=111.60  Aligned_cols=102  Identities=24%  Similarity=0.243  Sum_probs=80.9

Q ss_pred             EEccCCCCCccc---CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG---SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~---~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |++++|.++.++   .+..+++|+.|+|++|.|+.+++  |..+++|+.|+|++|+|+++. +..|..+++|+.|+|++|
T Consensus        34 L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~l~~L~~L~L~~N  112 (192)
T 1w8a_A           34 LLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEIS-NKMFLGLHQLKTLNLYDN  112 (192)
T ss_dssp             EECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEEC-SSSSTTCTTCCEEECCSS
T ss_pred             EECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccC-HHHhcCCCCCCEEECCCC
Confidence            999999998776   27889999999999999987744  889999999999999998873 456888999999999999


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccce
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQT  643 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~  643 (699)
                      +|+.++.   ..+..++-+..+++.+|.+.+
T Consensus       113 ~l~~~~~---~~~~~l~~L~~L~L~~N~l~c  140 (192)
T 1w8a_A          113 QISCVMP---GSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CCCEECT---TSSTTCTTCCEEECTTCCBCC
T ss_pred             cCCeeCH---HHhhcCCCCCEEEeCCCCccC
Confidence            9988743   234444445556778887754

>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=99.02  E-value=2.5e-10  Score=128.56  Aligned_cols=119  Identities=13%  Similarity=0.147  Sum_probs=64.3

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      +++++|.++.+| .+.  ++|++|+|++|.++.+++  |..+++|+.|+|++|+|+++ .|..|..+++|++|+|++|+|
T Consensus         5 l~ls~n~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~Ls~N~l   81 (520)
T 2z7x_B            5 VDRSKNGLIHVPKDLS--QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYL-DISVFKFNQELEYLDLSHNKL   81 (520)
T ss_dssp             EECTTSCCSSCCCSCC--TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEE-EGGGGTTCTTCCEEECCSSCC
T ss_pred             EecCCCCccccccccc--ccccEEECCCCcccccChhhccccccccEEecCCCccCCc-ChHHhhcccCCCEEecCCCce
Confidence            666666666555 222  566666666666655543  66666666666666666554 234556666666666666666


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +.+|..      .++-+..+++++|.+..+         ..|..|+++ +|+.|+|++|.|
T Consensus        82 ~~lp~~------~l~~L~~L~L~~N~l~~~---------~~p~~~~~l~~L~~L~L~~n~l  127 (520)
T 2z7x_B           82 VKISCH------PTVNLKHLDLSFNAFDAL---------PICKEFGNMSQLKFLGLSTTHL  127 (520)
T ss_dssp             CEEECC------CCCCCSEEECCSSCCSSC---------CCCGGGGGCTTCCEEEEEESSC
T ss_pred             eecCcc------ccCCccEEeccCCccccc---------cchhhhccCCcceEEEecCccc
Confidence            655421      222233334555544321         123455555 666666666666

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.01  E-value=1.8e-09  Score=99.46  Aligned_cols=127  Identities=3%  Similarity=-0.213  Sum_probs=111.9

Q ss_pred             HHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHH
Q 005381           46 ELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNE  125 (699)
Q Consensus        46 ~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~E  125 (699)
                      ..+.+++.++|++..+|..++.++...++            +++++..+++++..+|++..+|...+.++... +.++++
T Consensus         5 ~~l~~al~~~p~~~~~~~~~a~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~-g~~~~A   71 (142)
T 2xcb_A            5 GTLAMLRGLSEDTLEQLYALGFNQYQAGK------------WDDAQKIFQALCMLDHYDARYFLGLGACRQSL-GLYEQA   71 (142)
T ss_dssp             ----CCTTCCHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHH
T ss_pred             hhHHHHHcCCHHHHHHHHHHHHHHHHHcc------------HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHH-hhHHHH
Confidence            45678889999999999999999888765            99999999999999999999999999999987 699999


Q ss_pred             HHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          126 LRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       126 L~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +.+++++++++|.+..+|.+.+.++..+|.+ ++.+++++++++.+|.+...+..+..+..
T Consensus        72 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~~~~~~~  131 (142)
T 2xcb_A           72 LQSYSYGALMDINEPRFPFHAAECHLQLGDL-DGAESGFYSARALAAAQPAHEALAARAGA  131 (142)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHTCGGGHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCcchHHHHHHHHH
Confidence            9999999999999999999999999999998 78999999999999988776655554433

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.00  E-value=1.5e-08  Score=105.67  Aligned_cols=162  Identities=10%  Similarity=0.033  Sum_probs=139.2

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....|.+ ++|++.+.+     |++..+|..++.++..+++            +++++..+++++..+|++..+....+|
T Consensus       111 ~~~~g~~-~~Al~~l~~-----~~~~~~~~~l~~~~~~~g~------------~~~A~~~l~~~~~~~p~~~~~~l~~a~  172 (291)
T 3mkr_A          111 YFYDQNP-DAALRTLHQ-----GDSLECMAMTVQILLKLDR------------LDLARKELKKMQDQDEDATLTQLATAW  172 (291)
T ss_dssp             HHHTTCH-HHHHHHHTT-----CCSHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHCCCH-HHHHHHHhC-----CCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHhhCcCcHHHHHHHHH
Confidence            3456666 799999888     9999999999999998876            899999999999999998765555555


Q ss_pred             HHH-hCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          114 ILS-KGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       114 ~L~-~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                      +-. ...+.+++++.+++++++.+|.+..+|..++.+...+|.+ ++..+++.++++.+|.|..+|.+++.++..+++  
T Consensus       173 ~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~-~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~--  249 (291)
T 3mkr_A          173 VSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRW-EAAEGVLQEALDKDSGHPETLINLVVLSQHLGK--  249 (291)
T ss_dssp             HHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC--
T ss_pred             HHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC--
Confidence            433 2236899999999999999999999999999999999998 678899999999999999999999999888755  


Q ss_pred             ccCccchhchHHH-HHHHHHHHHHhCCCCchhHHH
Q 005381          193 VEGFVSKEKVLPD-EYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       193 ~~~~~~~~~~~~e-eL~~~~~ai~~dP~d~SaW~Y  226 (699)
                                ..+ ..+++.+++.++|+|..+-.|
T Consensus       250 ----------~~eaa~~~~~~~~~~~P~~~~~~d~  274 (291)
T 3mkr_A          250 ----------PPEVTNRYLSQLKDAHRSHPFIKEY  274 (291)
T ss_dssp             ----------CHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             ----------CHHHHHHHHHHHHHhCCCChHHHHH
Confidence                      344 468889999999999987665

>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=99.00  E-value=6e-10  Score=127.03  Aligned_cols=120  Identities=18%  Similarity=0.186  Sum_probs=76.2

Q ss_pred             EEccCCCCCcccC-CCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNLSLSRLGS-FDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n~l~~l~~-l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      +++++|.++.+|. +.  ++|+.|+|++|.|+.+++  |..+++|+.|+|++|.|+++ .+..|..+++|++|+|++|+|
T Consensus        36 l~ls~~~L~~ip~~~~--~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls~N~l  112 (562)
T 3a79_B           36 VDYSNRNLTHVPKDLP--PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSL-DFHVFLFNQDLEYLDVSHNRL  112 (562)
T ss_dssp             EECTTSCCCSCCTTSC--TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEE-CTTTTTTCTTCCEEECTTSCC
T ss_pred             EEcCCCCCccCCCCCC--CCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcC-CHHHhCCCCCCCEEECCCCcC
Confidence            7777777776662 32  677777777777766654  77777777777777777665 345567777777777777777


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      +.+|..      .++-+..+++++|.+..+.         .|..|+++ +|+.|+|++|.|.
T Consensus       113 ~~lp~~------~l~~L~~L~Ls~N~l~~l~---------~p~~~~~l~~L~~L~L~~n~l~  159 (562)
T 3a79_B          113 QNISCC------PMASLRHLDLSFNDFDVLP---------VCKEFGNLTKLTFLGLSAAKFR  159 (562)
T ss_dssp             CEECSC------CCTTCSEEECCSSCCSBCC---------CCGGGGGCTTCCEEEEECSBCC
T ss_pred             CccCcc------ccccCCEEECCCCCccccC---------chHhhcccCcccEEecCCCccc
Confidence            766532      2233333456666554322         13466667 7777777777773

>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=99.00  E-value=1.1e-10  Score=125.27  Aligned_cols=161  Identities=13%  Similarity=0.072  Sum_probs=104.2

Q ss_pred             cHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhh-hccCCCCCCCCCCCCeEEccCCCCCccc--CCCCC
Q 005381          478 SEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSR-CFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKL  554 (699)
Q Consensus       478 ~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~-~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L  554 (699)
                      .+++|..+++|++||+++|...+.+                +.. +..+.++..+      +.+++|.++.++  .|..+
T Consensus        46 ~~~~f~~l~~L~~L~Ls~N~i~~~i----------------~~~~f~~L~~l~~~------l~~~~N~l~~l~~~~f~~l  103 (350)
T 4ay9_X           46 QKGAFSGFGDLEKIEISQNDVLEVI----------------EADVFSNLPKLHEI------RIEKANNLLYINPEAFQNL  103 (350)
T ss_dssp             CTTSSTTCTTCCEEEEECCTTCCEE----------------CTTSBCSCTTCCEE------EEEEETTCCEECTTSBCCC
T ss_pred             CHHHHcCCCCCCEEECcCCCCCCcc----------------ChhHhhcchhhhhh------hcccCCcccccCchhhhhc
Confidence            3446778899999999998732211                111 1223333332      667788888775  68888


Q ss_pred             cccCEEEccCCCCCCCcC--Cccccccceeeccc-CCCCCCCCCccccccc-cccccccccccCCCCCcccccccCCCCC
Q 005381          555 LWVQMLDLSHNELRSIEG--LEALQLLSCLNLSN-NILGSFTALEPIRQLK-SLRALNISYNEIGAHSIDTTKYLCSSPL  630 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~-N~l~~l~~~~~l~~l~-~L~~L~Ls~N~I~~lp~~~~~~l~~l~l  630 (699)
                      ++|++|++++|.|+.++.  +....++..|++++ |.+..++. ..|..+. .++.|+|++|+|+.+|...+   ....+
T Consensus       104 ~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~-~~f~~~~~~l~~L~L~~N~i~~i~~~~f---~~~~L  179 (350)
T 4ay9_X          104 PNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIER-NSFVGLSFESVILWLNKNGIQEIHNSAF---NGTQL  179 (350)
T ss_dssp             TTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECT-TSSTTSBSSCEEEECCSSCCCEECTTSS---TTEEE
T ss_pred             cccccccccccccccCCchhhcccchhhhhhhccccccccccc-cchhhcchhhhhhccccccccCCChhhc---cccch
Confidence            999999999999988877  55666677788755 56776632 3455554 68889999999988864322   12223


Q ss_pred             cccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          631 SHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       631 l~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      ..+.-..+|.++.+.          +..|.++ +|+.|||++|.|
T Consensus       180 ~~l~l~~~n~l~~i~----------~~~f~~l~~L~~LdLs~N~l  214 (350)
T 4ay9_X          180 DELNLSDNNNLEELP----------NDVFHGASGPVILDISRTRI  214 (350)
T ss_dssp             EEEECTTCTTCCCCC----------TTTTTTEECCSEEECTTSCC
T ss_pred             hHHhhccCCcccCCC----------HHHhccCcccchhhcCCCCc
Confidence            333211234443322          2467888 999999999999

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.00  E-value=1.6e-08  Score=100.72  Aligned_cols=165  Identities=7%  Similarity=-0.095  Sum_probs=139.2

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCch---HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH-
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELY---TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG-  106 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~y---taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~-  106 (699)
                      .......|.+ ++|+..+++++..+|+..   .+|..++.+....+.            +++++..++++++.+|++.. 
T Consensus        11 a~~~~~~g~~-~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~------------~~~A~~~~~~~l~~~P~~~~~   77 (225)
T 2yhc_A           11 AQQKLQDGNW-RQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNAD------------LPLAQAAIDRFIRLNPTHPNI   77 (225)
T ss_dssp             HHHHHHHTCH-HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCTTH
T ss_pred             HHHHHHcCCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCC------------HHHHHHHHHHHHHHCcCCCcH
Confidence            3445566888 899999999999999874   689999999988865            99999999999999999986 


Q ss_pred             --HHHHHHHHHHhC-----------------CCChHHHHHHHHHHHHhCCCChhhhh-----------------HHHHHH
Q 005381          107 --AWHHRKWILSKG-----------------HSSIDNELRLLDKFQKADSRNFHAWN-----------------YRRFVA  150 (699)
Q Consensus       107 --aW~hR~w~L~~~-----------------~~~~~~EL~~~~k~L~~dprN~haW~-----------------yR~~vl  150 (699)
                        +|+.++.++.+.                 .+.+++++..++++++.+|.+..+|.                 ..+.+.
T Consensus        78 ~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~  157 (225)
T 2yhc_A           78 DYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYY  157 (225)
T ss_dssp             HHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              899999887641                 14678999999999999999998884                 445556


Q ss_pred             HhcCCChHHHHHHHHHHHHhccCch---HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          151 ASMNRSEEDELKYTEDMICNNFSNY---SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       151 ~~l~~~~e~EL~~~~~~I~~n~sN~---SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                      ...+.+ ++.+..++++++.+|.+.   .+|..++.+...++.            ++++++.++.+....|++.
T Consensus       158 ~~~~~~-~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~------------~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          158 TERGAW-VAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQM------------NAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             HHHTCH-HHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHCCSCCC
T ss_pred             HHcCcH-HHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCC------------cHHHHHHHHHHHhhCCCch
Confidence            666777 689999999999999876   679999999888865            7999999999999888765

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.99  E-value=1.3e-09  Score=104.06  Aligned_cols=158  Identities=9%  Similarity=-0.033  Sum_probs=130.5

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      .......|.+ ++|+..+.+++..+|++..+|...+.++...++            +++++..+++++..+| +...+..
T Consensus        13 a~~~~~~g~~-~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~------------~~~A~~~~~~a~~~~p-~~~~~~~   78 (176)
T 2r5s_A           13 VSELLQQGEH-AQALNVIQTLSDELQSRGDVKLAKADCLLETKQ------------FELAQELLATIPLEYQ-DNSYKSL   78 (176)
T ss_dssp             HHHHHHTTCH-HHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTC------------HHHHHHHHTTCCGGGC-CHHHHHH
T ss_pred             HHHHHHcCCH-HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCC------------HHHHHHHHHHhhhccC-ChHHHHH
Confidence            3344567777 899999999999999999999999999998865            8999999999999999 7776665


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc--hHHHHHHHHHHHHh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN--YSAWHNRSLLLSNL  188 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN--~SAW~~R~~ll~~l  188 (699)
                      ...+.........++++.++++++.+|.+..+|...+.++...|.+ ++.++++.++++.+|..  ..+|...+.++..+
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~-~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~  157 (176)
T 2r5s_A           79 IAKLELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRD-EEALELLWNILKVNLGAQDGEVKKTFMDILSAL  157 (176)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccH-HHHHHHHHHHHHhCcccChHHHHHHHHHHHHHh
Confidence            5544321101223579999999999999999999999999999998 78999999999999876  56999999988887


Q ss_pred             hhhhccCccchhchHHHHHHHHHHHHH
Q 005381          189 LKRKVEGFVSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       189 ~~~~~~~~~~~~~~~~eeL~~~~~ai~  215 (699)
                      ++            .++++..+.+++.
T Consensus       158 g~------------~~~A~~~y~~al~  172 (176)
T 2r5s_A          158 GQ------------GNAIASKYRRQLY  172 (176)
T ss_dssp             CS------------SCHHHHHHHHHHH
T ss_pred             CC------------CCcHHHHHHHHHH
Confidence            65            4667777777764

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.99  E-value=7.5e-09  Score=92.59  Aligned_cols=118  Identities=8%  Similarity=-0.024  Sum_probs=106.6

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      |....+|..++..+...+.            +++++..+++++..+|++..+|..++.++.+. +.++++++.+++++++
T Consensus         1 p~~a~~~~~~g~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~-~~~~~A~~~~~~al~~   67 (126)
T 3upv_A            1 SMKAEEARLEGKEYFTKSD------------WPNAVKAYTEMIKRAPEDARGYSNRAAALAKL-MSFPEAIADCNKAIEK   67 (126)
T ss_dssp             CHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHh-cCHHHHHHHHHHHHHh
Confidence            4556789999988887755            99999999999999999999999999999988 6999999999999999


Q ss_pred             CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc------cCchHHHHHHHHHHHH
Q 005381          136 DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN------FSNYSAWHNRSLLLSN  187 (699)
Q Consensus       136 dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n------~sN~SAW~~R~~ll~~  187 (699)
                      +|.+..+|..++.+...+|.+ ++.++++.++++.+      |.|..++.....+...
T Consensus        68 ~p~~~~~~~~lg~~~~~~~~~-~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~~  124 (126)
T 3upv_A           68 DPNFVRAYIRKATAQIAVKEY-ASALETLDAARTKDAEVNNGSSAREIDQLYYKASQQ  124 (126)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHHhCH-HHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHHh
Confidence            999999999999999999998 78999999999999      8888888777665543

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.98  E-value=2.3e-09  Score=114.28  Aligned_cols=135  Identities=13%  Similarity=-0.056  Sum_probs=125.6

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---------------hH
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---------------YG  106 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---------------y~  106 (699)
                      ++|++.+.+++..+|+...+|+.++.++...++            +++++..+++++..+|.+               ..
T Consensus       130 ~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~------------~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~  197 (336)
T 1p5q_A          130 EKAKESWEMNSEEKLEQSTIVKERGTVYFKEGK------------YKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLA  197 (336)
T ss_dssp             ECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHH
T ss_pred             ccccchhcCCHHHHHHHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHH
Confidence            357777888899999999999999999988865            999999999999999999               59


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +|..++.++.+. +.+++++++|+++++++|.|..+|..++.++..++.+ +++++++.++++.+|.|..+|..++.+..
T Consensus       198 ~~~nla~~~~~~-g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          198 SHLNLAMCHLKL-QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDF-ELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            999999999988 6999999999999999999999999999999999998 78999999999999999999999999988


Q ss_pred             Hhhh
Q 005381          187 NLLK  190 (699)
Q Consensus       187 ~l~~  190 (699)
                      .++.
T Consensus       276 ~~~~  279 (336)
T 1p5q_A          276 RIRR  279 (336)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>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=98.97  E-value=1e-09  Score=126.81  Aligned_cols=53  Identities=30%  Similarity=0.232  Sum_probs=33.2

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-C---ccc--------------cccceeecccCCCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-L---EAL--------------QLLSCLNLSNNILGSF  592 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l---~~L--------------~~L~~L~Ls~N~l~~l  592 (699)
                      |++++|.++.++.  .+++|++|+|++|.|+.+|. +   ..|              ++|+.|++++|.|+++
T Consensus       126 L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~l~~l  196 (622)
T 3g06_A          126 LWIFGNQLTSLPV--LPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQLASL  196 (622)
T ss_dssp             EECCSSCCSCCCC--CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCC
T ss_pred             EECCCCCCCcCCC--CCCCCCEEECcCCcCCCcCCccCCCCEEECCCCCCCCCcccCCCCcEEECCCCCCCCC
Confidence            7777777776653  24677777777777766554 2   222              5566666666666654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.97  E-value=1.9e-09  Score=99.34  Aligned_cols=125  Identities=6%  Similarity=-0.135  Sum_probs=111.7

Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc
Q 005381           92 RVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNN  171 (699)
Q Consensus        92 ~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n  171 (699)
                      ..+++++..+|++..+|+.++.++.+. +.+++++..+++++..+|.|..+|...+.+....+.+ ++.+++++++++.+
T Consensus         5 ~~l~~al~~~p~~~~~~~~~a~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~   82 (142)
T 2xcb_A            5 GTLAMLRGLSEDTLEQLYALGFNQYQA-GKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLY-EQALQSYSYGALMD   82 (142)
T ss_dssp             ----CCTTCCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHC
T ss_pred             hhHHHHHcCCHHHHHHHHHHHHHHHHH-ccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhH-HHHHHHHHHHHhcC
Confidence            456778889999999999999999877 6999999999999999999999999999999999998 78999999999999


Q ss_pred             cCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          172 FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       172 ~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                      |.+..+|.+++.++..+++            ++++++.+.+++..+|++...+..+.-+
T Consensus        83 p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           83 INEPRFPFHAAECHLQLGD------------LDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             TTCTHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence            9999999999999988865            7999999999999999998887655443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.97  E-value=5.8e-09  Score=102.76  Aligned_cols=146  Identities=8%  Similarity=-0.053  Sum_probs=117.7

Q ss_pred             chHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH----------------HHHHHHhCCCC
Q 005381           58 LYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH----------------RKWILSKGHSS  121 (699)
Q Consensus        58 ~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h----------------R~w~L~~~~~~  121 (699)
                      ....+..++..+...++            +++++..+++++..+|++..+|+.                ++.++.+. +.
T Consensus         3 ~~~~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~-g~   69 (208)
T 3urz_A            3 SVDEMLQKVSAAIEAGQ------------NGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKN-RN   69 (208)
T ss_dssp             CHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHT-TC
T ss_pred             CHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHC-CC
Confidence            34556677777776654            999999999999999999999999                99999887 69


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhc
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEK  201 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~  201 (699)
                      +++++..++++++++|.+..+|..++.+....|.+ ++++++++++++.+|.|..+|..++.++...+.          .
T Consensus        70 ~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~----------~  138 (208)
T 3urz_A           70 YDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQE-KDALRMYEKILQLEADNLAANIFLGNYYYLTAE----------Q  138 (208)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH----------H
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhH----------H
Confidence            99999999999999999999999999999999998 789999999999999999999999998765543          1


Q ss_pred             hHHHHHHHHHHHHHhCCCCchhHHHHH
Q 005381          202 VLPDEYEFVHQAIFTDPDDQSGWFYHL  228 (699)
Q Consensus       202 ~~~eeL~~~~~ai~~dP~d~SaW~Y~~  228 (699)
                      ...++.+.+.+++..+|. ..+|+++.
T Consensus       139 ~~~~~~~~~~~~~~~~~~-~~a~~~~g  164 (208)
T 3urz_A          139 EKKKLETDYKKLSSPTKM-QYARYRDG  164 (208)
T ss_dssp             HHHHHHHHHC---CCCHH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCch-hHHHHHHH
Confidence            134556666666543332 23455443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.97  E-value=2.7e-09  Score=101.03  Aligned_cols=112  Identities=11%  Similarity=-0.006  Sum_probs=99.5

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC-------ChH-----HHHHHHHHHHhCCCChHHHH
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK-------SYG-----AWHHRKWILSKGHSSIDNEL  126 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK-------sy~-----aW~hR~w~L~~~~~~~~~EL  126 (699)
                      ...|..++..+...++            |++++..|+++|..+|.       +..     +|++|+.++.++ +++++++
T Consensus        11 a~~~~~~G~~l~~~g~------------~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~L-gr~~eAl   77 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGE------------YDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGL-RSFDEAL   77 (159)
T ss_dssp             HHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHT-TCHHHHH
T ss_pred             HHHHHHHHHHHHHCCC------------HHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHC-CCHHHHH
Confidence            4567788888888865            99999999999999999       554     999999999998 6999999


Q ss_pred             HHHHHHHHh-------CCCChhhh----hHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          127 RLLDKFQKA-------DSRNFHAW----NYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       127 ~~~~k~L~~-------dprN~haW----~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      .+|+++|++       +|.+..||    +.|+.++..++++ ++++++++++|+++|.+-....-+..+
T Consensus        78 ~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~-eEAl~~y~kAlel~p~d~~~~~~~~~~  145 (159)
T 2hr2_A           78 HSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRG-AEAMPEFKKVVEMIEERKGETPGKERM  145 (159)
T ss_dssp             HHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHCCSCCTTHHHH
T ss_pred             HHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCH-HHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            999999999       99999999    9999999999999 789999999999999987765544433

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.95  E-value=1.4e-10  Score=124.88  Aligned_cols=131  Identities=22%  Similarity=0.306  Sum_probs=75.9

Q ss_pred             EEccCCCCCccc------CCCCC-cccCEEEccCCCCCCCcC------Cccc-cccceeecccCCCCCCCC---Cccccc
Q 005381          538 LQLKNLSLSRLG------SFDKL-LWVQMLDLSHNELRSIEG------LEAL-QLLSCLNLSNNILGSFTA---LEPIRQ  600 (699)
Q Consensus       538 L~Ls~n~l~~l~------~l~~L-~~L~~LdLS~N~L~~l~~------l~~L-~~L~~L~Ls~N~l~~l~~---~~~l~~  600 (699)
                      |+|++|.++..+      .+..+ ++|+.|+|++|.|+..+.      +..+ .+|+.|+|++|.|+....   +..+..
T Consensus        85 L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~  164 (362)
T 3goz_A           85 LNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAA  164 (362)
T ss_dssp             EECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHT
T ss_pred             EECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhc
Confidence            888888877544      24444 788888888888866554      2232 478888888888774310   112233


Q ss_pred             cc-cccccccccccCCCCCcccc-cccCCC-CCcccccCCCCccceeecCCcchhhhhhccCCC-C-CccEEEecCCCC
Q 005381          601 LK-SLRALNISYNEIGAHSIDTT-KYLCSS-PLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKG-L-NLTQFDIVGNAI  674 (699)
Q Consensus       601 l~-~L~~L~Ls~N~I~~lp~~~~-~~l~~l-~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~-L-~L~~LdLs~N~l  674 (699)
                      ++ +|+.|+|++|+|+..+.... ..+... .-+..+++++|.+...      ....++..+.. . +|+.|+|++|.|
T Consensus       165 ~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~------~~~~l~~~l~~~~~~L~~L~Ls~N~l  237 (362)
T 3goz_A          165 IPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLK------SYAELAYIFSSIPNHVVSLNLCLNCL  237 (362)
T ss_dssp             SCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGS------CHHHHHHHHHHSCTTCCEEECCSSCC
T ss_pred             CCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChh------HHHHHHHHHhcCCCCceEEECcCCCC
Confidence            44 78888888888876642111 122222 1333346666665321      11123344444 3 677888888877

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.94  E-value=9.6e-09  Score=96.65  Aligned_cols=116  Identities=12%  Similarity=-0.017  Sum_probs=107.4

Q ss_pred             CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           55 NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        55 nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      +++...+|..++.++...++            +++++..+++++..+|++..+|..++.++.+. +.+++++..++++++
T Consensus         7 ~~~~a~~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~al~   73 (164)
T 3sz7_A            7 PTPESDKLKSEGNAAMARKE------------YSKAIDLYTQALSIAPANPIYLSNRAAAYSAS-GQHEKAAEDAELATV   73 (164)
T ss_dssp             CCHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHc-cCHHHHHHHHHHHHH
Confidence            56677889999998888765            99999999999999999999999999999987 699999999999999


Q ss_pred             hCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          135 ADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       135 ~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      ++|.+..+|..++.++..++.+ ++.++++.++++.+|.|..+|..++..
T Consensus        74 ~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~~~l~  122 (164)
T 3sz7_A           74 VDPKYSKAWSRLGLARFDMADY-KGAKEAYEKGIEAEGNGGSDAMKRGLE  122 (164)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHccCH-HHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            9999999999999999999998 789999999999999999999888754

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.92  E-value=2.6e-09  Score=102.64  Aligned_cols=102  Identities=25%  Similarity=0.278  Sum_probs=80.6

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |++++|.++.++  .+..+++|++|+|++|.|+.+++  |..+++|+.|++++|.|++++ +..+..+++|+.|+|++|.
T Consensus        33 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~-~~~~~~l~~L~~L~l~~N~  111 (177)
T 2o6r_A           33 LELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLP-NGVFDKLTQLKELALDTNQ  111 (177)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             EEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccC-HHHhhCCcccCEEECcCCc
Confidence            999999998776  47888999999999999988877  788999999999999998873 3557888999999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccce
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQT  643 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~  643 (699)
                      |+.+|...   +..++.+..+++.+|.+.+
T Consensus       112 l~~~~~~~---~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A          112 LKSVPDGI---FDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             CSCCCTTT---TTTCTTCCEEECCSSCBCC
T ss_pred             ceEeCHHH---hcCCcccCEEEecCCCeec
Confidence            99886432   2333444445777787654

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.92  E-value=1.4e-09  Score=104.36  Aligned_cols=81  Identities=28%  Similarity=0.387  Sum_probs=73.0

Q ss_pred             eEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      .|+|++|.|+.++  .|..+++|+.|+|++|+|+.+++  |..+++|+.|+|++|+|++++ +..|..+++|+.|+|++|
T Consensus        34 ~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~L~~N  112 (170)
T 3g39_A           34 VLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLKSIP-RGAFDNLKSLTHIWLLNN  112 (170)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSS
T ss_pred             EEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccCEeC-HHHhcCCCCCCEEEeCCC
Confidence            3999999999885  68999999999999999999987  899999999999999999973 356889999999999999


Q ss_pred             cCCCCC
Q 005381          613 EIGAHS  618 (699)
Q Consensus       613 ~I~~lp  618 (699)
                      ++...+
T Consensus       113 ~~~c~c  118 (170)
T 3g39_A          113 PWDCAC  118 (170)
T ss_dssp             CBCTTB
T ss_pred             CCCCCc
Confidence            997653

>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=98.91  E-value=1.6e-09  Score=115.66  Aligned_cols=81  Identities=22%  Similarity=0.215  Sum_probs=73.5

Q ss_pred             EEccCC-CCCcccCCCCCcccCEEEccC-CCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNL-SLSRLGSFDKLLWVQMLDLSH-NELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n-~l~~l~~l~~L~~L~~LdLS~-N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      ++++++ .|+.+|.+..+++|+.|+|++ |.|+.+++  |..|++|+.|+|++|+|+++ .+..|..+++|+.|+|++|+
T Consensus        13 v~~~~~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           13 LRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFV-APDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEE-CTTGGGSCSCCCEEECCSSC
T ss_pred             EEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCcccee-CHHHhcCCcCCCEEeCCCCc
Confidence            888888 899998888999999999996 99998886  99999999999999999997 34678999999999999999


Q ss_pred             CCCCCc
Q 005381          614 IGAHSI  619 (699)
Q Consensus       614 I~~lp~  619 (699)
                      |+.+|.
T Consensus        92 l~~~~~   97 (347)
T 2ifg_A           92 LESLSW   97 (347)
T ss_dssp             CSCCCS
T ss_pred             cceeCH
Confidence            999873

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=98.90  E-value=4.3e-08  Score=91.80  Aligned_cols=151  Identities=10%  Similarity=0.060  Sum_probs=134.4

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR  138 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr  138 (699)
                      ..+|..++.+....+.            +++++..+++++..+|++..+|...+.++... +.+++++++++++++.+|.
T Consensus         8 ~~~~~~~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~~~~~~~~   74 (186)
T 3as5_A            8 QVYYRDKGISHAKAGR------------YSQAVMLLEQVYDADAFDVDVALHLGIAYVKT-GAVDRGTELLERSLADAPD   74 (186)
T ss_dssp             HHHHHHHHHHHHHHTC------------HHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTT
T ss_pred             hHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHhCccChHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCC
Confidence            4566677777776654            89999999999999999999999999999877 6999999999999999999


Q ss_pred             ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          139 NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       139 N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                      +..+|...+.+....+.+ ++.+++++++++.+|.+..+|...+.++...+.            ++++++.+.+++..+|
T Consensus        75 ~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~~~~~~~  141 (186)
T 3as5_A           75 NVKVATVLGLTYVQVQKY-DLAVPLLIKVAEANPINFNVRFRLGVALDNLGR------------FDEAIDSFKIALGLRP  141 (186)
T ss_dssp             CHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHHhcCH-HHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCc------------HHHHHHHHHHHHhcCc
Confidence            999999999999999988 689999999999999999999999988877644            7999999999999999


Q ss_pred             CCchhHHHHHHHHcCcC
Q 005381          219 DDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       219 ~d~SaW~Y~~~Ll~~~~  235 (699)
                      ++..+|+.+..++....
T Consensus       142 ~~~~~~~~la~~~~~~~  158 (186)
T 3as5_A          142 NEGKVHRAIAFSYEQMG  158 (186)
T ss_dssp             TCHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHcC
Confidence            99999988777775543

>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=98.90  E-value=2.1e-09  Score=124.19  Aligned_cols=111  Identities=23%  Similarity=0.117  Sum_probs=75.5

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.++.  .+++|+.|++++|.|+.+|..  +++|+.|+|++|.|++++     ..+++|+.|+|++|.|+.+
T Consensus       186 L~Ls~N~l~~l~~--~~~~L~~L~L~~N~l~~l~~~--~~~L~~L~Ls~N~L~~lp-----~~l~~L~~L~Ls~N~L~~l  256 (622)
T 3g06_A          186 LSVSDNQLASLPT--LPSELYKLWAYNNRLTSLPAL--PSGLKELIVSGNRLTSLP-----VLPSELKELMVSGNRLTSL  256 (622)
T ss_dssp             EECCSSCCSCCCC--CCTTCCEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCC-----CCCTTCCEEECCSSCCSCC
T ss_pred             EECCCCCCCCCCC--ccchhhEEECcCCcccccCCC--CCCCCEEEccCCccCcCC-----CCCCcCcEEECCCCCCCcC
Confidence            7777777776553  246677777777777766652  367788888888887762     3456788888888888877


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      |.       .++.+..+++++|.+.           .+|..+.++ +|+.|+|++|++.
T Consensus       257 p~-------~~~~L~~L~Ls~N~L~-----------~lp~~l~~l~~L~~L~L~~N~l~  297 (622)
T 3g06_A          257 PM-------LPSGLLSLSVYRNQLT-----------RLPESLIHLSSETTVNLEGNPLS  297 (622)
T ss_dssp             CC-------CCTTCCEEECCSSCCC-----------SCCGGGGGSCTTCEEECCSCCCC
T ss_pred             Cc-------ccccCcEEeCCCCCCC-----------cCCHHHhhccccCEEEecCCCCC
Confidence            63       1122333456666553           346678888 9999999999993

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.89  E-value=1.4e-08  Score=90.90  Aligned_cols=117  Identities=9%  Similarity=-0.041  Sum_probs=106.2

Q ss_pred             CCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHH
Q 005381          102 FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNR  181 (699)
Q Consensus       102 PKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R  181 (699)
                      |....+|..++..+.+. +.++++++.++++++++|.+..+|..++.+...++.+ ++.+++++++++.+|.+..+|..+
T Consensus         1 p~~a~~~~~~g~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~l   78 (126)
T 3upv_A            1 SMKAEEARLEGKEYFTK-SDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF-PEAIADCNKAIEKDPNFVRAYIRK   78 (126)
T ss_dssp             CHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCH-HHHHHHHHHHHHhCCCcHHHHHHH
Confidence            44567899999998877 6999999999999999999999999999999999998 789999999999999999999999


Q ss_pred             HHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhC------CCCchhHHHHHHHHc
Q 005381          182 SLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTD------PDDQSGWFYHLWLLD  232 (699)
Q Consensus       182 ~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~d------P~d~SaW~Y~~~Ll~  232 (699)
                      +.++..++.            ++++++.+.+++..+      |++..+|..+.-+..
T Consensus        79 g~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           79 ATAQIAVKE------------YASALETLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HHHHHHTTC------------HHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC------------HHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            999988755            899999999999999      999999988766553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.89  E-value=1.7e-08  Score=104.75  Aligned_cols=162  Identities=9%  Similarity=-0.026  Sum_probs=136.8

Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH
Q 005381           27 LQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG  106 (699)
Q Consensus        27 ~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~  106 (699)
                      ...........|.+ ++|+..+.++|..+|++..+|...+.++...++            +++++..+++++..+|....
T Consensus       120 ~~~~a~~~~~~g~~-~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~------------~~~A~~~l~~~~~~~p~~~~  186 (287)
T 3qou_A          120 XAQQAMQLMQESNY-TDALPLLXDAWQLSNQNGEIGLLLAETLIALNR------------SEDAEAVLXTIPLQDQDTRY  186 (287)
T ss_dssp             HHHHHHHHHHTTCH-HHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTC------------HHHHHHHHTTSCGGGCSHHH
T ss_pred             HHHHHHHHHhCCCH-HHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCC------------HHHHHHHHHhCchhhcchHH
Confidence            33444555677887 899999999999999999999999999998876            89999999999999997766


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc--hHHHHHHHHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN--YSAWHNRSLL  184 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN--~SAW~~R~~l  184 (699)
                      .+...+..+... +..+++++.+.++++.+|.+..+|...+-++...|++ +++++.+.++++.+|.+  ..+|...+.+
T Consensus       187 ~~~~~~~~l~~~-~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~-~~A~~~l~~~l~~~p~~~~~~a~~~l~~~  264 (287)
T 3qou_A          187 QGLVAQIELLXQ-AADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRN-EEALELLFGHLRXDLTAADGQTRXTFQEI  264 (287)
T ss_dssp             HHHHHHHHHHHH-HTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTGGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHhh-cccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccH-HHHHHHHHHHHhcccccccchHHHHHHHH
Confidence            665555555544 3567899999999999999999999999999999998 78999999999999999  8899999999


Q ss_pred             HHHhhhhhccCccchhchHHHHHHHHHHHHH
Q 005381          185 LSNLLKRKVEGFVSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       185 l~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~  215 (699)
                      +..+++            .++++..+.+++.
T Consensus       265 ~~~~g~------------~~~a~~~~r~al~  283 (287)
T 3qou_A          265 LAALGT------------GDALASXYRRQLY  283 (287)
T ss_dssp             HHHHCT------------TCHHHHHHHHHHH
T ss_pred             HHHcCC------------CCcHHHHHHHHHH
Confidence            988865            3566666666653

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.89  E-value=9.6e-11  Score=115.09  Aligned_cols=130  Identities=22%  Similarity=0.273  Sum_probs=101.8

Q ss_pred             hhhccCCCCCCCCCCCCeEEccCC--CCCccc-CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCc
Q 005381          520 SRCFHYSNSPSNRGSPMCLQLKNL--SLSRLG-SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALE  596 (699)
Q Consensus       520 ~~~~~l~~l~~l~L~~~~L~Ls~n--~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~  596 (699)
                      ..+.....+..+++..  +.+.+.  .++.++ .+..+++|+.|+|++|.++.+|.+..+++|+.|++++|.|+.+  |.
T Consensus        12 ~~~~~~~~l~~l~l~~--~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l~~l--~~   87 (198)
T 1ds9_A           12 RIFEERKSVVATEAEK--VELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKI--EN   87 (198)
T ss_dssp             HHHHHTTCCCCTTCSE--EECCBCCTTCCCCHHHHHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEECSC--SS
T ss_pred             HHHHhcccccCcchhe--eEeccccCcHhhhhHHHhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCcccc--cc
Confidence            3344556677777777  777655  566666 7889999999999999999998899999999999999999977  45


Q ss_pred             cccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          597 PIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       597 ~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      .+..+++|+.|+|++|.|+.+|                                       .+..+ +|+.|+|++|.|.
T Consensus        88 ~~~~~~~L~~L~L~~N~l~~l~---------------------------------------~~~~l~~L~~L~l~~N~i~  128 (198)
T 1ds9_A           88 LDAVADTLEELWISYNQIASLS---------------------------------------GIEKLVNLRVLYMSNNKIT  128 (198)
T ss_dssp             HHHHHHHCSEEEEEEEECCCHH---------------------------------------HHHHHHHSSEEEESEEECC
T ss_pred             hhhcCCcCCEEECcCCcCCcCC---------------------------------------ccccCCCCCEEECCCCcCC
Confidence            6677899999999999998864                                       23344 7999999999994


Q ss_pred             C-ccchHHHhhcCCcccccc
Q 005381          676 N-EKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       676 ~-~~~~~~~~~~l~~L~~LD  694 (699)
                      . +..  ..+..+++|+.||
T Consensus       129 ~~~~~--~~l~~l~~L~~L~  146 (198)
T 1ds9_A          129 NWGEI--DKLAALDKLEDLL  146 (198)
T ss_dssp             CHHHH--HHHTTTTTCSEEE
T ss_pred             chhHH--HHHhcCCCCCEEE
Confidence            2 211  2456788888775

>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=98.89  E-value=1.7e-10  Score=125.21  Aligned_cols=131  Identities=15%  Similarity=0.212  Sum_probs=72.3

Q ss_pred             EEccCCCCC--ccc----CCCCCcccCEEEccCCCCC------CCc-CCccccccceeecccCCCCCC---CCCcccccc
Q 005381          538 LQLKNLSLS--RLG----SFDKLLWVQMLDLSHNELR------SIE-GLEALQLLSCLNLSNNILGSF---TALEPIRQL  601 (699)
Q Consensus       538 L~Ls~n~l~--~l~----~l~~L~~L~~LdLS~N~L~------~l~-~l~~L~~L~~L~Ls~N~l~~l---~~~~~l~~l  601 (699)
                      |+|++|.++  .++    .+..+++|+.|+|++|.|+      .++ .+..+++|+.|+|++|.|+..   ..+..+..+
T Consensus       164 L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~  243 (386)
T 2ca6_A          164 IICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSW  243 (386)
T ss_dssp             EECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGC
T ss_pred             EECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccC
Confidence            777777775  222    3456667777777777775      344 266677777777777776310   013445666


Q ss_pred             ccccccccccccCCCCCcc-ccccc--CCCCCcccccCCCCccceeecCCcchhhhhhccC-CCC-CccEEEecCCCC
Q 005381          602 KSLRALNISYNEIGAHSID-TTKYL--CSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFIL-KGL-NLTQFDIVGNAI  674 (699)
Q Consensus       602 ~~L~~L~Ls~N~I~~lp~~-~~~~l--~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l-~~L-~L~~LdLs~N~l  674 (699)
                      ++|+.|+|++|.|+..... ....+  ..++-+..+++++|.+...      ....+|..+ .++ +|+.|+|++|++
T Consensus       244 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~------g~~~l~~~l~~~l~~L~~L~l~~N~l  315 (386)
T 2ca6_A          244 PNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELD------AVRTLKTVIDEKMPDLLFLELNGNRF  315 (386)
T ss_dssp             TTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHH------HHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             CCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHH------HHHHHHHHHHhcCCCceEEEccCCcC
Confidence            7777777777777654210 01122  1123333345555555321      011234444 445 777777777777

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.88  E-value=3.3e-09  Score=118.05  Aligned_cols=135  Identities=14%  Similarity=-0.071  Sum_probs=121.6

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---------------hH
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---------------YG  106 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---------------y~  106 (699)
                      ++|++.+..++..+|+...+|+.++.++...++            |++++..+++++..+|.+               ..
T Consensus       251 ~~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~------------~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~  318 (457)
T 1kt0_A          251 EKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGK------------YMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLA  318 (457)
T ss_dssp             ECCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHH
T ss_pred             ccCcchhhcCHHHHHHHHHHHHHHHHHHHhCCC------------HHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHH
Confidence            367777888899999999999999999988865            999999999999999999               69


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +|..++.++.+. +.+++++.+|+++++++|.|..+|..|+.++..++.+ +++++++.++++.+|.|..+|..++.+..
T Consensus       319 ~~~nla~~~~~~-g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~-~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          319 AFLNLAMCYLKL-REYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEF-ESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-cCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            999999999988 6999999999999999999999999999999999998 78999999999999999999999999988


Q ss_pred             Hhhh
Q 005381          187 NLLK  190 (699)
Q Consensus       187 ~l~~  190 (699)
                      .++.
T Consensus       397 ~~~~  400 (457)
T 1kt0_A          397 KAKE  400 (457)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8755

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.88  E-value=2.3e-09  Score=103.31  Aligned_cols=80  Identities=30%  Similarity=0.401  Sum_probs=72.8

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |+|++|.|+.++  .|..+++|+.|+|++|+|+.+|.  |..+++|+.|+|++|+|+.++ +..+..+++|+.|+|++|+
T Consensus        38 L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~-~~~~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           38 LWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIP-RGAFDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCSEEECCSSC
T ss_pred             EEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeC-HHHhccccCCCEEEeCCCC
Confidence            999999999885  68999999999999999999988  799999999999999999873 3458899999999999999


Q ss_pred             CCCCC
Q 005381          614 IGAHS  618 (699)
Q Consensus       614 I~~lp  618 (699)
                      +...+
T Consensus       117 ~~c~~  121 (174)
T 2r9u_A          117 WDCEC  121 (174)
T ss_dssp             BCTTB
T ss_pred             ccccc
Confidence            98764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.88  E-value=1.7e-08  Score=94.91  Aligned_cols=116  Identities=9%  Similarity=-0.027  Sum_probs=106.5

Q ss_pred             CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHH
Q 005381          101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN  180 (699)
Q Consensus       101 nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~  180 (699)
                      +++...+|..++.++.+. +.+++++++++++++++|.+..+|..++.+...++.+ ++.+++++++++.+|.+..+|..
T Consensus         7 ~~~~a~~~~~~g~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~   84 (164)
T 3sz7_A            7 PTPESDKLKSEGNAAMAR-KEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQH-EKAAEDAELATVVDPKYSKAWSR   84 (164)
T ss_dssp             CCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCH-HHHHHHHHHHHHhCCCCHHHHHH
Confidence            566778999999999877 6999999999999999999999999999999999998 78999999999999999999999


Q ss_pred             HHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       181 R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                      ++.++..++.            ++++++++.+++.++|++..+|+.+...
T Consensus        85 lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~~~l~  122 (164)
T 3sz7_A           85 LGLARFDMAD------------YKGAKEAYEKGIEAEGNGGSDAMKRGLE  122 (164)
T ss_dssp             HHHHHHHTTC------------HHHHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             HHHHHHHccC------------HHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            9999988755            8999999999999999999999766554

>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=98.87  E-value=1.1e-10  Score=126.74  Aligned_cols=187  Identities=16%  Similarity=0.114  Sum_probs=114.4

Q ss_pred             HhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc------CCCCC--
Q 005381          483 ELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG------SFDKL--  554 (699)
Q Consensus       483 ~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~------~l~~L--  554 (699)
                      ..+++|++||+++|.+...            ....++..+..+.+++.       |+|++|.++..+      .+..+  
T Consensus        91 ~~~~~L~~L~Ls~n~l~~~------------~~~~l~~~l~~~~~L~~-------L~L~~n~l~~~~~~~l~~~l~~l~~  151 (386)
T 2ca6_A           91 LKCPKLHTVRLSDNAFGPT------------AQEPLIDFLSKHTPLEH-------LYLHNNGLGPQAGAKIARALQELAV  151 (386)
T ss_dssp             TTCTTCCEEECCSCCCCTT------------THHHHHHHHHHCTTCCE-------EECCSSCCHHHHHHHHHHHHHHHHH
T ss_pred             hhCCcccEEECCCCcCCHH------------HHHHHHHHHHhCCCCCE-------EECcCCCCCHHHHHHHHHHHHHHhh
Confidence            5677888888888773211            01122223333444444       888888887332      23334  


Q ss_pred             -------cccCEEEccCCCCC--CCc---C-CccccccceeecccCCCCCCC----CCccccccccccccccccccCCCC
Q 005381          555 -------LWVQMLDLSHNELR--SIE---G-LEALQLLSCLNLSNNILGSFT----ALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       555 -------~~L~~LdLS~N~L~--~l~---~-l~~L~~L~~L~Ls~N~l~~l~----~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                             ++|++|+|++|.++  .++   . +..+++|+.|+|++|.|+...    .+..+..+++|+.|+|++|.|+..
T Consensus       152 ~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~  231 (386)
T 2ca6_A          152 NKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHL  231 (386)
T ss_dssp             HHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHH
T ss_pred             hhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcH
Confidence                   78899999999885  444   2 667888999999999887210    112567788899999999988421


Q ss_pred             Cc-ccccccCCCCCcccccCCCCccceeecCCcchhhhhhccC--CCC-CccEEEecCCCCCCc---cchHHHhhcCCcc
Q 005381          618 SI-DTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFIL--KGL-NLTQFDIVGNAIVNE---KFKSFLIKVLPGL  690 (699)
Q Consensus       618 p~-~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l--~~L-~L~~LdLs~N~l~~~---~~~~~~~~~l~~L  690 (699)
                      .. ..+..+..++-+..+++++|.+...      ....++..+  ..+ +|+.|+|++|.|...   .+...+...+++|
T Consensus       232 g~~~l~~~l~~~~~L~~L~L~~n~i~~~------~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L  305 (386)
T 2ca6_A          232 GSSALAIALKSWPNLRELGLNDCLLSAR------GAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDL  305 (386)
T ss_dssp             HHHHHHHHGGGCTTCCEEECTTCCCCHH------HHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHccCCCcCEEECCCCCCchh------hHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCc
Confidence            10 0112333444444557777766321      112234555  347 999999999999421   2444444668888


Q ss_pred             cccc
Q 005381          691 KWLD  694 (699)
Q Consensus       691 ~~LD  694 (699)
                      +.||
T Consensus       306 ~~L~  309 (386)
T 2ca6_A          306 LFLE  309 (386)
T ss_dssp             CEEE
T ss_pred             eEEE
Confidence            8876

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.87  E-value=3.2e-08  Score=102.76  Aligned_cols=167  Identities=7%  Similarity=-0.076  Sum_probs=131.4

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCC------chHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPE------LYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---  104 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~------~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---  104 (699)
                      .+..|.+ ++|++.+.+++.+.++      ...+|+..+.++..+++            +++++.++++++...|+.   
T Consensus        47 ~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~------------~~~A~~~~~~Al~l~~~~g~~  113 (292)
T 1qqe_A           47 YRLRKEL-NLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGN------------SVNAVDSLENAIQIFTHRGQF  113 (292)
T ss_dssp             HHHTTCT-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHcCCH-HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHHHHHcCCH
Confidence            4567777 8999999999999643      26789999999988865            899999999999988765   


Q ss_pred             ---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          105 ---YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       105 ---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                         ..+|...+.++....+.+++++++++++++++|.+      ..+|...+.+...+|.+ ++++++++++++.+|.+.
T Consensus       114 ~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~~~~~  192 (292)
T 1qqe_A          114 RRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY-IEASDIYSKLIKSSMGNR  192 (292)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHTTSSCT
T ss_pred             HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHHHhcCC
Confidence               46888889999873259999999999999998865      46788889999999998 789999999999998875


Q ss_pred             H-------HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHH
Q 005381          176 S-------AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       176 S-------AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y  226 (699)
                      .       +|..++.+...++.            +++++.++.+++.++|+...++..
T Consensus       193 ~~~~~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~l~p~~~~~~~~  238 (292)
T 1qqe_A          193 LSQWSLKDYFLKKGLCQLAATD------------AVAAARTLQEGQSEDPNFADSRES  238 (292)
T ss_dssp             TTGGGHHHHHHHHHHHHHHTTC------------HHHHHHHHHGGGCC---------H
T ss_pred             cccHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCCCCCCcHHH
Confidence            4       46666766666543            799999999999999998776543

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.87  E-value=2.8e-08  Score=94.32  Aligned_cols=133  Identities=8%  Similarity=-0.024  Sum_probs=116.6

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHH-HHhcCCC-hHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFV-AASMNRS-EEDELK  162 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~v-l~~l~~~-~e~EL~  162 (699)
                      ..+++++..++.++..+|.+..+|...+.++... +.+++++.+++++++++|.+..+|...+.+ ....+.+ .++.++
T Consensus        24 ~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~  102 (177)
T 2e2e_A           24 QNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQ-NDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRA  102 (177)
T ss_dssp             ---CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHH
Confidence            4578899999999999999999999999999887 699999999999999999999999999999 6677776 367899


Q ss_pred             HHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          163 YTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       163 ~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                      +++++++.+|.+..+|...+.++...+.            ++++++.+.+++..+|++...+....-+
T Consensus       103 ~~~~al~~~p~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~~~~i  158 (177)
T 2e2e_A          103 MIDKALALDSNEITALMLLASDAFMQAN------------YAQAIELWQKVMDLNSPRINRTQLVESI  158 (177)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHTCCTTSCHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHccc------------HHHHHHHHHHHHhhCCCCccHHHHHHHH
Confidence            9999999999999999999998887754            7999999999999999998777554433

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.86  E-value=2.1e-08  Score=95.22  Aligned_cols=128  Identities=11%  Similarity=0.029  Sum_probs=113.3

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH-
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI-  114 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~-  114 (699)
                      ..+.+ ++|+..+.+++..+|++..+|...+.+....+.            +++++..+++++..+|.+..+|...+.+ 
T Consensus        22 ~~~~~-~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~la~~l   88 (177)
T 2e2e_A           22 SQQNP-EAQLQALQDKIRANPQNSEQWALLGEYYLWQND------------YSNSLLAYRQALQLRGENAELYAALATVL   88 (177)
T ss_dssp             ------CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHCSCHHHHHHHHHHH
T ss_pred             hccCH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            45555 689999999999999999999999999988865            8999999999999999999999999999 


Q ss_pred             HHhCCCCh--HHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHH
Q 005381          115 LSKGHSSI--DNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAW  178 (699)
Q Consensus       115 L~~~~~~~--~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW  178 (699)
                      .... +.+  ++++..++++++.+|.+..+|...+.+....|.+ +++++++.++++.+|.+...+
T Consensus        89 ~~~~-~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           89 YYQA-SQHMTAQTRAMIDKALALDSNEITALMLLASDAFMQANY-AQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             HHHT-TTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHTCCTTSCHH
T ss_pred             HHhc-CCcchHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccH-HHHHHHHHHHHhhCCCCccHH
Confidence            4444 577  9999999999999999999999999999999998 789999999999999997654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.86  E-value=5e-08  Score=98.80  Aligned_cols=155  Identities=6%  Similarity=-0.108  Sum_probs=130.9

Q ss_pred             HHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHhCCCChHHHHHH
Q 005381           52 LETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---YGAWHHRKWILSKGHSSIDNELRL  128 (699)
Q Consensus        52 L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---y~aW~hR~w~L~~~~~~~~~EL~~  128 (699)
                      ...+|+...++..++..+...++            +++++..+++++..+|.+   ..+|..++.++.+. +.+++++..
T Consensus         8 ~~~~~~~~~~~~~~a~~~~~~g~------------~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~-~~~~~A~~~   74 (261)
T 3qky_A            8 GRLRHSSPQEAFERAMEFYNQGK------------YDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQN-KEYLLAASE   74 (261)
T ss_dssp             ---CCSSHHHHHHHHHHHHHTTC------------HHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHT-TCHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCC------------HHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHh-CcHHHHHHH
Confidence            45789999999999999888765            999999999999999999   99999999999987 699999999


Q ss_pred             HHHHHHhCCCC---hhhhhHHHHHHHh--------cCCChHHHHHHHHHHHHhccCchHHH-----------------HH
Q 005381          129 LDKFQKADSRN---FHAWNYRRFVAAS--------MNRSEEDELKYTEDMICNNFSNYSAW-----------------HN  180 (699)
Q Consensus       129 ~~k~L~~dprN---~haW~yR~~vl~~--------l~~~~e~EL~~~~~~I~~n~sN~SAW-----------------~~  180 (699)
                      ++++++.+|.+   ..+|..++.+...        .+.+ +++++++.++++.+|.+..++                 .+
T Consensus        75 ~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~-~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~  153 (261)
T 3qky_A           75 YERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDT-RKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYE  153 (261)
T ss_dssp             HHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHH-HHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhH-HHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHH
Confidence            99999998865   5688899999888        7776 689999999999999998777                 55


Q ss_pred             HHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC---chhHHHHHHHHc
Q 005381          181 RSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD---QSGWFYHLWLLD  232 (699)
Q Consensus       181 R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d---~SaW~Y~~~Ll~  232 (699)
                      ++.++...+            .+++++..+.+++..+|++   ..+|+++..++.
T Consensus       154 la~~~~~~g------------~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~  196 (261)
T 3qky_A          154 AARLYERRE------------LYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYI  196 (261)
T ss_dssp             HHHHHHHTT------------CHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHcc------------CHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHH
Confidence            566555543            3899999999999999995   457777766654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.84  E-value=5.2e-08  Score=101.13  Aligned_cols=171  Identities=9%  Similarity=-0.013  Sum_probs=143.3

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      |..+.+.+.  ..+-..-|+...++...+..+...++            +++++..+++++..+|++..+|+..+-++.+
T Consensus        98 g~~~~~~l~--~~l~~~lp~~~~~~~~~a~~~~~~g~------------~~~A~~~~~~al~~~P~~~~a~~~la~~~~~  163 (287)
T 3qou_A           98 GPQPEEAIR--ALLDXVLPREEELXAQQAMQLMQESN------------YTDALPLLXDAWQLSNQNGEIGLLLAETLIA  163 (287)
T ss_dssp             SCCCHHHHH--HHHHHHSCCHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHH--HHHHHHcCCchhhHHHHHHHHHhCCC------------HHHHHHHHHHHHHhCCcchhHHHHHHHHHHH
Confidence            444544333  33334459999999999888877765            8999999999999999999999999999988


Q ss_pred             CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          118 GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       118 ~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                      . ++++++++.+++++..+|.+...+...+..+...+.. +++++.+.++++.+|.|..+|...+.++...++       
T Consensus       164 ~-g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~~~~-~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~-------  234 (287)
T 3qou_A          164 L-NRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQAAD-TPEIQQLQQQVAENPEDAALATQLALQLHQVGR-------  234 (287)
T ss_dssp             T-TCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHHHTS-CHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC-------
T ss_pred             C-CCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhhccc-CccHHHHHHHHhcCCccHHHHHHHHHHHHHccc-------
Confidence            7 6999999999999999997776666666666666665 567888899999999999999999999988755       


Q ss_pred             chhchHHHHHHHHHHHHHhCCCC--chhHHHHHHHHcCcCC
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDD--QSGWFYHLWLLDQTVR  236 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d--~SaW~Y~~~Ll~~~~~  236 (699)
                           ++++++.+.+++..+|++  ..+|..+.-++....+
T Consensus       235 -----~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          235 -----NEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             -----HHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             -----HHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence                 899999999999999998  8899988888876543

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.83  E-value=1.2e-08  Score=97.42  Aligned_cols=154  Identities=9%  Similarity=-0.035  Sum_probs=123.2

Q ss_pred             CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           55 NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        55 nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      ||.....+..++..+...++            +++++..+++++..+|++..+|...+.++... +.+++++..++++++
T Consensus         2 ~~~~~~~~~~~a~~~~~~g~------------~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~-g~~~~A~~~~~~a~~   68 (176)
T 2r5s_A            2 NASPDEQLLKQVSELLQQGE------------HAQALNVIQTLSDELQSRGDVKLAKADCLLET-KQFELAQELLATIPL   68 (176)
T ss_dssp             ----CTTHHHHHHHHHHTTC------------HHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHT-TCHHHHHHHHTTCCG
T ss_pred             CCCHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHC-CCHHHHHHHHHHhhh
Confidence            55566666777777766654            89999999999999999999999999999987 699999999999999


Q ss_pred             hCCCChhhhhHHHHHHH-hcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHH
Q 005381          135 ADSRNFHAWNYRRFVAA-SMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQA  213 (699)
Q Consensus       135 ~dprN~haW~yR~~vl~-~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~a  213 (699)
                      .+| +...+...+.+.. ..+.. .++++.++++++.+|.|..+|...+.++...++            ++++++.+.++
T Consensus        69 ~~p-~~~~~~~~~~~~~~~~~~~-~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~------------~~~A~~~~~~~  134 (176)
T 2r5s_A           69 EYQ-DNSYKSLIAKLELHQQAAE-SPELKRLEQELAANPDNFELACELAVQYNQVGR------------DEEALELLWNI  134 (176)
T ss_dssp             GGC-CHHHHHHHHHHHHHHHHTS-CHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHH
T ss_pred             ccC-ChHHHHHHHHHHHHhhccc-chHHHHHHHHHHhCCCCHHHHHHHHHHHHHccc------------HHHHHHHHHHH
Confidence            999 7766655554421 11122 246889999999999999999999999988755            89999999999


Q ss_pred             HHhCCCC--chhHHHHHHHHcCcC
Q 005381          214 IFTDPDD--QSGWFYHLWLLDQTV  235 (699)
Q Consensus       214 i~~dP~d--~SaW~Y~~~Ll~~~~  235 (699)
                      +..+|+.  ..+|..+.-++....
T Consensus       135 l~~~p~~~~~~a~~~l~~~~~~~g  158 (176)
T 2r5s_A          135 LKVNLGAQDGEVKKTFMDILSALG  158 (176)
T ss_dssp             HTTCTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHhCcccChHHHHHHHHHHHHHhC
Confidence            9999985  558888777776543

>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=98.82  E-value=6e-09  Score=115.92  Aligned_cols=105  Identities=18%  Similarity=0.174  Sum_probs=62.8

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      ++.+++|++||+++|.+.. ++.                .   ..++       +.|++++|.++.++.+..+++|+.|+
T Consensus       149 ~~~l~~L~~L~l~~N~l~~-lp~----------------~---~~~L-------~~L~L~~n~l~~l~~~~~l~~L~~L~  201 (454)
T 1jl5_A          149 LQNSSFLKIIDVDNNSLKK-LPD----------------L---PPSL-------EFIAAGNNQLEELPELQNLPFLTAIY  201 (454)
T ss_dssp             CTTCTTCCEEECCSSCCSC-CCC----------------C---CTTC-------CEEECCSSCCSSCCCCTTCTTCCEEE
T ss_pred             cCCCCCCCEEECCCCcCcc-cCC----------------C---cccc-------cEEECcCCcCCcCccccCCCCCCEEE
Confidence            5678888999998887321 111                0   0111       12666666666666666666666666


Q ss_pred             ccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          562 LSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       562 LS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      +++|.++.+|.+.  ++|+.|++++|.++.+  | .++.+++|+.|++++|+++.+|
T Consensus       202 l~~N~l~~l~~~~--~~L~~L~l~~n~l~~l--p-~~~~l~~L~~L~l~~N~l~~l~  253 (454)
T 1jl5_A          202 ADNNSLKKLPDLP--LSLESIVAGNNILEEL--P-ELQNLPFLTTIYADNNLLKTLP  253 (454)
T ss_dssp             CCSSCCSSCCCCC--TTCCEEECCSSCCSSC--C-CCTTCTTCCEEECCSSCCSSCC
T ss_pred             CCCCcCCcCCCCc--CcccEEECcCCcCCcc--c-ccCCCCCCCEEECCCCcCCccc
Confidence            6666666555421  3566666666666654  2 3556666666666666666554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.81  E-value=1.2e-07  Score=106.67  Aligned_cols=171  Identities=7%  Similarity=-0.030  Sum_probs=143.9

Q ss_pred             CCCCc------HHHHHHHHHHHH-hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh-HHH
Q 005381           37 NHIYS------KEAVELSTKLLE-TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY-GAW  108 (699)
Q Consensus        37 ~~~~~------~eaL~~~~~~L~-~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy-~aW  108 (699)
                      .|.+.      ++|++.+++++. ++|++..+|.....+....+.            ++++...+++++..+|++. .+|
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~  359 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMK------------YEKVHSIYNRLLAIEDIDPTLVY  359 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHSSSSCHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCC------------HHHHHHHHHHHhCccccCchHHH
Confidence            57764      499999999997 899999999999999888765            8999999999999999996 599


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHH-HhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHH
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA-ASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSN  187 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl-~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~  187 (699)
                      ...+.++.+. +.++++.+.++++++..|.+++.|...+++. ...|.+ ++..+.++++++.+|.+..+|...+.++..
T Consensus       360 ~~~~~~~~~~-~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~-~~A~~~~e~al~~~p~~~~~~~~~~~~~~~  437 (530)
T 2ooe_A          360 IQYMKFARRA-EGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDK-SVAFKIFELGLKKYGDIPEYVLAYIDYLSH  437 (530)
T ss_dssp             HHHHHHHHHH-HHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHh-cCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCCh-hHHHHHHHHHHHHCCCCHHHHHHHHHHHHh
Confidence            9999888765 4789999999999999999998887766663 346666 789999999999999999999888877665


Q ss_pred             hhhhhccCccchhchHHHHHHHHHHHHHhCCCCch----hHH-HHHHHHcC
Q 005381          188 LLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS----GWF-YHLWLLDQ  233 (699)
Q Consensus       188 l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S----aW~-Y~~~Ll~~  233 (699)
                      ++.            ++++...+.+|+...|.+..    .|. |.++....
T Consensus       438 ~g~------------~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~  476 (530)
T 2ooe_A          438 LNE------------DNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNI  476 (530)
T ss_dssp             TTC------------HHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHS
T ss_pred             CCC------------HhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHc
Confidence            543            68999999999998877655    894 56665543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.81  E-value=2.2e-07  Score=81.75  Aligned_cols=135  Identities=19%  Similarity=0.220  Sum_probs=119.7

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      .+|+..+.+....+.            +++++..++.++..+|.+..+|...+.+.... +.+++++.+++++++.+|.+
T Consensus         2 ~~~~~l~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~   68 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGD------------YDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPRS   68 (136)
T ss_dssp             HHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTC
T ss_pred             cHHHHHHHHHHHcCc------------HHHHHHHHHHHHHcCCcchhHHHHHHHHHHHh-cCHHHHHHHHHHHHHHCCCc
Confidence            467777777776654            89999999999999999999999998888766 58999999999999999999


Q ss_pred             hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCC
Q 005381          140 FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       140 ~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~  219 (699)
                      ..+|...+.+....+.+ ++.+++++++++.+|.+..+|...+.++...+.            ++++++.+.+++..+|+
T Consensus        69 ~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~------------~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           69 AEAWYNLGNAYYKQGDY-DEAIEYYQKALELDPRSAEAWYNLGNAYYKQGD------------YDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HHHHHHHHHHHHTTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC------------HHHHHHHHHHHHHHSTT
T ss_pred             hHHHHHHHHHHHHhcCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHcc------------HHHHHHHHHHHHccCCC
Confidence            99999999999999988 789999999999999999999998888776543            79999999999999986


Q ss_pred             C
Q 005381          220 D  220 (699)
Q Consensus       220 d  220 (699)
                      .
T Consensus       136 ~  136 (136)
T 2fo7_A          136 S  136 (136)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.80  E-value=7e-08  Score=108.65  Aligned_cols=174  Identities=9%  Similarity=-0.046  Sum_probs=140.9

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHh-------hhccCCCCchhhhhhHHHHHHHHHHHHH-hCCCChHHHHHHHH
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQH-------KLTENDSDPDSLKSILDEELRVVESALR-QNFKSYGAWHHRKW  113 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~-------l~~~~~~~~~~~~~~~~eEL~~~~~~L~-~nPKsy~aW~hR~w  113 (699)
                      ++++.+++++|..+|.+..+|...+.++..       .+.     .+......++++..+++++. .+|++..+|...+-
T Consensus       255 ~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~-----~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~  329 (530)
T 2ooe_A          255 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGD-----MNNAKLFSDEAANIYERAISTLLKKNMLLYFAYAD  329 (530)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTC-----CHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccc-----hhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            478899999999999999999999988875       322     11111112488999999997 89999999999999


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCCh-hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNF-HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK  192 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~-haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~  192 (699)
                      +..+. +.++++.+.++++++++|.++ .+|...+.+..+.+.+ ++..+.+.++++..|.++..|...+.+....    
T Consensus       330 ~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~----  403 (530)
T 2ooe_A          330 YEESR-MKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-KSGRMIFKKAREDARTRHHVYVTAALMEYYC----  403 (530)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHTCTTCCTHHHHHHHHHHHHH----
T ss_pred             HHHhc-CCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCH-HHHHHHHHHHHhccCCchHHHHHHHHHHHHH----
Confidence            99877 699999999999999999996 5999998888888776 6789999999999998887776555442211    


Q ss_pred             ccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          193 VEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       193 ~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                             .+.++++...+.+|+..+|++..+|..+.-++..
T Consensus       404 -------~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~  437 (530)
T 2ooe_A          404 -------SKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSH  437 (530)
T ss_dssp             -------TCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             -------cCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHh
Confidence                   1236899999999999999999999866666544

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.80  E-value=8e-08  Score=102.24  Aligned_cols=129  Identities=11%  Similarity=0.002  Sum_probs=112.0

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCc---------------hHHHHHHHHHHHhhhccCCCCchhhhhhHHHH
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPEL---------------YTAWNYRKLAVQHKLTENDSDPDSLKSILDEE   90 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~---------------ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eE   90 (699)
                      .+..........|.+ ++|+..+.++|.++|++               ..+|+.++.++..+++            ++++
T Consensus       149 ~~~~~g~~~~~~g~~-~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~------------~~~A  215 (336)
T 1p5q_A          149 IVKERGTVYFKEGKY-KQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQA------------FSAA  215 (336)
T ss_dssp             HHHHHHHHHHHHTCH-HHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTC------------HHHH
T ss_pred             HHHHHHHHHHHCCCH-HHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCC------------HHHH
Confidence            333444445567777 89999999999999999               6999999999998865            9999


Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381           91 LRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus        91 L~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      +..++++|..+|++..+|+.++.++... +.++++++.++++++++|.|..+|...+.+...++.+.+.+.+.+.+++
T Consensus       216 ~~~~~~al~~~p~~~~a~~~lg~~~~~~-g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          216 IESCNKALELDSNNEKGLSRRGEAHLAV-NDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999988 6999999999999999999999999999999988887555555555544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.80  E-value=7.4e-08  Score=85.51  Aligned_cols=120  Identities=11%  Similarity=0.062  Sum_probs=109.6

Q ss_pred             CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           55 NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        55 nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      .|....+|..++.+....+.            +++++..+++++..+|++..+|..++.++... +.+++++++++++++
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~a~~   78 (133)
T 2lni_A           12 NPDLALMVKNKGNECFQKGD------------YPQAMKHYTEAIKRNPKDAKLYSNRAACYTKL-LEFQLALKDCEECIQ   78 (133)
T ss_dssp             SSCHHHHHHHHHHHHHHTTC------------SHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTT-TCHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHh-ccHHHHHHHHHHHHH
Confidence            57788999999998887754            89999999999999999999999999999876 699999999999999


Q ss_pred             hCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          135 ADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       135 ~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      .+|.+..+|...+.+....+.+ +++++++.++++.+|.+..+|...+.++...
T Consensus        79 ~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           79 LEPTFIKGYTRKAAALEAMKDY-TKAMDVYQKALDLDSSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCGGGTHHHHHHHHHHHHH
T ss_pred             hCCCchHHHHHHHHHHHHHhhH-HHHHHHHHHHHHhCCCchHHHHHHHHHHHHh
Confidence            9999999999999999999998 7899999999999999999999888776543

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.80  E-value=1.3e-09  Score=117.30  Aligned_cols=134  Identities=19%  Similarity=0.177  Sum_probs=70.6

Q ss_pred             EEccCCCCCccc------CCCCCc-ccCEEEccCCCCCCCcC------Cccc-cccceeecccCCCCCCCC---Cccccc
Q 005381          538 LQLKNLSLSRLG------SFDKLL-WVQMLDLSHNELRSIEG------LEAL-QLLSCLNLSNNILGSFTA---LEPIRQ  600 (699)
Q Consensus       538 L~Ls~n~l~~l~------~l~~L~-~L~~LdLS~N~L~~l~~------l~~L-~~L~~L~Ls~N~l~~l~~---~~~l~~  600 (699)
                      |+|++|.++..+      .+..++ +|+.|+|++|.|+....      +..+ ++|+.|+|++|.|+....   +..+..
T Consensus       143 L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~  222 (362)
T 3goz_A          143 LNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSS  222 (362)
T ss_dssp             EECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHH
T ss_pred             EEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhc
Confidence            777777666322      233343 67777777777754432      2333 467777777777665210   122323


Q ss_pred             -cccccccccccccCCCCCcccc-cccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          601 -LKSLRALNISYNEIGAHSIDTT-KYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       601 -l~~L~~L~Ls~N~I~~lp~~~~-~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                       .++|+.|+|++|.|+..+.... ..+..++-+..+++++|.+..+..   .....++..+..+ +|+.|||++|+|
T Consensus       223 ~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~---~~~~~l~~~~~~l~~L~~LdL~~N~l  296 (362)
T 3goz_A          223 IPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSK---EQCKALGAAFPNIQKIILVDKNGKEI  296 (362)
T ss_dssp             SCTTCCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCH---HHHHHHHTTSTTCCEEEEECTTSCBC
T ss_pred             CCCCceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCccccCH---HHHHHHHHHhccCCceEEEecCCCcC
Confidence             2467777777777766543111 112222333333444444221111   1123345567777 788888888888

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.79  E-value=5.4e-08  Score=100.71  Aligned_cols=171  Identities=13%  Similarity=-0.005  Sum_probs=129.2

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHH
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAW  108 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW  108 (699)
                      .........|.+ ++|+..+.++|..+|++..+|..++.++..+++            +++++..+++++..+|.+..+|
T Consensus         9 ~~g~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~   75 (281)
T 2c2l_A            9 EQGNRLFVGRKY-PEAAACYGRAITRNPLVAVYYTNRALCYLKMQQ------------PEQALADCRRALELDGQSVKAH   75 (281)
T ss_dssp             HHHHHHHHTTCH-HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHTTSCTTCHHHH
T ss_pred             HHHHHHHHcCCH-HHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHhCCCCHHHH
Confidence            334445567777 799999999999999999999999999988865            8999999999999999999999


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      +.++.++... +.+++++..+.++++++|.+........|.....    .+..++....-...+.+...+.+.+.++.  
T Consensus        76 ~~lg~~~~~~-g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~i~~~l~~l~~--  148 (281)
T 2c2l_A           76 FFLGQCQLEM-ESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRI----AKKKRWNSIEERRIHQESELHSYLTRLIA--  148 (281)
T ss_dssp             HHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHH----HHHHHHHHHHHTCCCCCCHHHHHHHHHHH--
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHH----HHHHHHHHHHHHHHhhhHHHHHHHHHHHH--
Confidence            9999999987 6999999999999999997754443333332221    12223333333467777777777776653  


Q ss_pred             hhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          189 LKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       189 ~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                                  +.++++++.+.+|+..+|++.....-..-+.
T Consensus       149 ------------~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  179 (281)
T 2c2l_A          149 ------------AERERELEECQRNHEGHEDDGHIRAQQACIE  179 (281)
T ss_dssp             ------------HHHHHHHTTTSGGGTTTSCHHHHTHHHHHHH
T ss_pred             ------------HHHHHHHHHHHhhhccccchhhhhhHHHHHH
Confidence                        2268899999999999998876655444333

>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=98.78  E-value=5.4e-09  Score=111.96  Aligned_cols=81  Identities=22%  Similarity=0.194  Sum_probs=70.5

Q ss_pred             eEEccCCCCCccc--CCCCCcccCEEEccCCCC-CCCcC--Cccccccce-eecccCCCCCCCCCccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG--SFDKLLWVQMLDLSHNEL-RSIEG--LEALQLLSC-LNLSNNILGSFTALEPIRQLKSLRALNIS  610 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L-~~l~~--l~~L~~L~~-L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls  610 (699)
                      .|+|++|.|+.++  .|.++++|++|+|++|.+ +.+|.  |.++++|.. +.+++|+|+.++ +..|..+++|+.|+++
T Consensus        34 ~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~-~~~f~~l~~L~~L~l~  112 (350)
T 4ay9_X           34 ELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYIN-PEAFQNLPNLQYLLIS  112 (350)
T ss_dssp             EEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEEC-TTSBCCCTTCCEEEEE
T ss_pred             EEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccC-chhhhhcccccccccc
Confidence            3999999999987  689999999999999998 55765  889998765 677889999873 4778999999999999


Q ss_pred             cccCCCCC
Q 005381          611 YNEIGAHS  618 (699)
Q Consensus       611 ~N~I~~lp  618 (699)
                      +|+|+.+|
T Consensus       113 ~n~l~~~~  120 (350)
T 4ay9_X          113 NTGIKHLP  120 (350)
T ss_dssp             EECCSSCC
T ss_pred             ccccccCC
Confidence            99999887

>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=98.78  E-value=1.6e-09  Score=114.66  Aligned_cols=146  Identities=17%  Similarity=0.224  Sum_probs=79.0

Q ss_pred             EEccCC-CCCc--cc-CCCCCcccCEEEccCC-CCCC--CcC-Ccccc-ccceeecccCC--CCCCCCCccccccccccc
Q 005381          538 LQLKNL-SLSR--LG-SFDKLLWVQMLDLSHN-ELRS--IEG-LEALQ-LLSCLNLSNNI--LGSFTALEPIRQLKSLRA  606 (699)
Q Consensus       538 L~Ls~n-~l~~--l~-~l~~L~~L~~LdLS~N-~L~~--l~~-l~~L~-~L~~L~Ls~N~--l~~l~~~~~l~~l~~L~~  606 (699)
                      |++++| .++.  ++ .+..+++|++|++++| .++.  ++. +..++ +|+.|++++|.  ++.-..+..+..+++|+.
T Consensus       147 L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~  226 (336)
T 2ast_B          147 LNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVH  226 (336)
T ss_dssp             EECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSE
T ss_pred             EECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCE
Confidence            777777 5653  33 3566777777777777 6653  444 66677 77777777773  332111234456677777


Q ss_pred             ccccccc-CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHh
Q 005381          607 LNISYNE-IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLI  684 (699)
Q Consensus       607 L~Ls~N~-I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~  684 (699)
                      |++++|. ++...   ...+..++.+..+++++|.. . .       ......+..+ +|+.|+|++| ++...+ ..+.
T Consensus       227 L~l~~~~~l~~~~---~~~l~~l~~L~~L~l~~~~~-~-~-------~~~~~~l~~~~~L~~L~l~~~-i~~~~~-~~l~  292 (336)
T 2ast_B          227 LDLSDSVMLKNDC---FQEFFQLNYLQHLSLSRCYD-I-I-------PETLLELGEIPTLKTLQVFGI-VPDGTL-QLLK  292 (336)
T ss_dssp             EECTTCTTCCGGG---GGGGGGCTTCCEEECTTCTT-C-C-------GGGGGGGGGCTTCCEEECTTS-SCTTCH-HHHH
T ss_pred             EeCCCCCcCCHHH---HHHHhCCCCCCEeeCCCCCC-C-C-------HHHHHHHhcCCCCCEEeccCc-cCHHHH-HHHH
Confidence            7777776 44321   12223333333344444431 0 0       0111245567 8888888888 643333 2333


Q ss_pred             hcCCccccccCccC
Q 005381          685 KVLPGLKWLDGEQL  698 (699)
Q Consensus       685 ~~l~~L~~LD~~~i  698 (699)
                      ..++.|+ |++..+
T Consensus       293 ~~l~~L~-l~~n~l  305 (336)
T 2ast_B          293 EALPHLQ-INCSHF  305 (336)
T ss_dssp             HHSTTSE-ESCCCS
T ss_pred             hhCcceE-EecccC
Confidence            4577765 454433

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.75  E-value=4.7e-07  Score=83.69  Aligned_cols=133  Identities=8%  Similarity=-0.023  Sum_probs=112.5

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR  138 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr  138 (699)
                      ..+|...+.+....+.            +++++..+++++..+|++..+|..++.++... +.++++++.++++++.+|.
T Consensus        13 ~~~~~~~a~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~a~~~~~~   79 (166)
T 1a17_A           13 AEELKTQANDYFKAKD------------YENAIKFYSQAIELNPSNAIYYGNRSLAYLRT-ECYGYALGDATRAIELDKK   79 (166)
T ss_dssp             HHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHccC------------HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCcc
Confidence            4567777777776654            99999999999999999999999999999887 6999999999999999999


Q ss_pred             ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHH
Q 005381          139 NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       139 N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~  215 (699)
                      +..+|...+.+....+.+ ++.++++.++++.+|.+..+|.+.+.....+.          .+.++++++.+.++..
T Consensus        80 ~~~~~~~~a~~~~~~~~~-~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~----------~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           80 YIKGYYRRAASNMALGKF-RAALRDYETVVKVKPHDKDAKMKYQECNKIVK----------QKAFERAIAGDEHKRS  145 (166)
T ss_dssp             CHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhccH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH----------HHHHHHHHHcccchHH
Confidence            999999999999999998 78999999999999999999976655533221          1346788888776654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.75  E-value=1.3e-07  Score=83.24  Aligned_cols=122  Identities=11%  Similarity=0.022  Sum_probs=110.4

Q ss_pred             hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           54 TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQ  133 (699)
Q Consensus        54 ~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L  133 (699)
                      .+|....+|...+.+....+.            +++++..+++++..+|++..+|..++.++... +.++++++++++++
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~~~   73 (131)
T 2vyi_A            7 EDSAEAERLKTEGNEQMKVEN------------FEAAVHFYGKAIELNPANAVYFCNRAAAYSKL-GNYAGAVQDCERAI   73 (131)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             cchhhhHHHHHHHHHHHHccC------------HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHh-hchHHHHHHHHHHH
Confidence            456677888888888877754            89999999999999999999999999999877 69999999999999


Q ss_pred             HhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          134 KADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       134 ~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      +.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|...+.+...++
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           74 CIDPAYSKAYGRMGLALSSLNKH-VEAVAYYKKALELDPDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHT
T ss_pred             hcCccCHHHHHHHHHHHHHhCCH-HHHHHHHHHHHhcCccchHHHHHHHHHHHHHh
Confidence            99999999999999999999998 78999999999999999999999988877664

>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=98.74  E-value=8.2e-10  Score=116.89  Aligned_cols=175  Identities=17%  Similarity=0.121  Sum_probs=112.5

Q ss_pred             hcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcc-c-CCCCCcccCEEE
Q 005381          484 LYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRL-G-SFDKLLWVQMLD  561 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l-~-~l~~L~~L~~Ld  561 (699)
                      .+.+|++||+++|.+..               ..++..+..+.+++.       |+|++|.++.. + .+..+++|++|+
T Consensus        91 ~~~~L~~L~L~~~~l~~---------------~~~~~~~~~~~~L~~-------L~L~~~~l~~~~~~~l~~~~~L~~L~  148 (336)
T 2ast_B           91 SPFRVQHMDLSNSVIEV---------------STLHGILSQCSKLQN-------LSLEGLRLSDPIVNTLAKNSNLVRLN  148 (336)
T ss_dssp             CCBCCCEEECTTCEECH---------------HHHHHHHTTBCCCSE-------EECTTCBCCHHHHHHHTTCTTCSEEE
T ss_pred             cCCCCCEEEccCCCcCH---------------HHHHHHHhhCCCCCE-------EeCcCcccCHHHHHHHhcCCCCCEEE
Confidence            46778888887776211               112222333344444       89999988732 2 677899999999


Q ss_pred             ccCC-CCCC--CcC-CccccccceeecccC-CCCCCCCCccccccc-ccccccccccc--CCCCCcccccccCCCCCccc
Q 005381          562 LSHN-ELRS--IEG-LEALQLLSCLNLSNN-ILGSFTALEPIRQLK-SLRALNISYNE--IGAHSIDTTKYLCSSPLSHS  633 (699)
Q Consensus       562 LS~N-~L~~--l~~-l~~L~~L~~L~Ls~N-~l~~l~~~~~l~~l~-~L~~L~Ls~N~--I~~lp~~~~~~l~~l~ll~l  633 (699)
                      |++| .++.  ++. +..+++|+.|++++| .++....+..+..++ +|+.|+|++|.  ++...  ....+..++-+..
T Consensus       149 L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~--l~~~~~~~~~L~~  226 (336)
T 2ast_B          149 LSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSD--LSTLVRRCPNLVH  226 (336)
T ss_dssp             CTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHH--HHHHHHHCTTCSE
T ss_pred             CCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHH--HHHHHhhCCCCCE
Confidence            9999 6763  666 888999999999999 887522235577788 99999999994  43211  1112222333344


Q ss_pred             ccCCCCc-cceeecCCcchhhhhhccCCCC-CccEEEecCCC-CCCccchHHHhhcCCcccccc
Q 005381          634 VGSEWNH-GQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNA-IVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       634 l~l~~N~-l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~-l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +++++|. +.          ...+..+..+ +|+.|+|++|. +....+  ..+..+++|+.||
T Consensus       227 L~l~~~~~l~----------~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~l~~~~~L~~L~  278 (336)
T 2ast_B          227 LDLSDSVMLK----------NDCFQEFFQLNYLQHLSLSRCYDIIPETL--LELGEIPTLKTLQ  278 (336)
T ss_dssp             EECTTCTTCC----------GGGGGGGGGCTTCCEEECTTCTTCCGGGG--GGGGGCTTCCEEE
T ss_pred             EeCCCCCcCC----------HHHHHHHhCCCCCCEeeCCCCCCCCHHHH--HHHhcCCCCCEEe
Confidence            4556655 21          1234567788 99999999995 433222  2245688888886

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.74  E-value=3.8e-07  Score=84.28  Aligned_cols=126  Identities=16%  Similarity=0.082  Sum_probs=103.7

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      .+..........|.+ ++|+..+.+++..+|++..+|..++.++...+.            +++++..+++++..+|++.
T Consensus        15 ~~~~~a~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~a~~~~~~~~   81 (166)
T 1a17_A           15 ELKTQANDYFKAKDY-ENAIKFYSQAIELNPSNAIYYGNRSLAYLRTEC------------YGYALGDATRAIELDKKYI   81 (166)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHccCH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCcccH
Confidence            344444455567787 799999999999999999999999999988865            8999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHH--HHhcCCChHHHHHHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFV--AASMNRSEEDELKYTED  166 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~v--l~~l~~~~e~EL~~~~~  166 (699)
                      .+|...+.++... +.++++++.++++++.+|.+..+|.+.+.+  ....+.+ ++.++++.+
T Consensus        82 ~~~~~~a~~~~~~-~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~  142 (166)
T 1a17_A           82 KGYYRRAASNMAL-GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAF-ERAIAGDEH  142 (166)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH-HHHHHcccc
Confidence            9999999999987 699999999999999999999999766555  3333443 344444333

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.72  E-value=6.1e-07  Score=78.83  Aligned_cols=125  Identities=21%  Similarity=0.236  Sum_probs=112.6

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|++ ++|+..+.+++..+|++..+|...+.+....++            +++++..+++++..+|.+..+|...+.+
T Consensus        12 ~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~   78 (136)
T 2fo7_A           12 YKQGDY-DEAIEYYQKALELDPRSAEAWYNLGNAYYKQGD------------YDEAIEYYQKALELDPRSAEAWYNLGNA   78 (136)
T ss_dssp             HHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHcCcH-HHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcC------------HHHHHHHHHHHHHHCCCchHHHHHHHHH
Confidence            345666 799999999999999999999998888877754            8999999999999999999999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN  174 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN  174 (699)
                      +... +.++++++.++++++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+
T Consensus        79 ~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~~~~  136 (136)
T 2fo7_A           79 YYKQ-GDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDY-DEAIEYYQKALELDPRS  136 (136)
T ss_dssp             HHTT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH-HHHHHHHHHHHHHSTTC
T ss_pred             HHHh-cCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccH-HHHHHHHHHHHccCCCC
Confidence            8876 6999999999999999999999999999999999988 67899999999988863

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.71  E-value=3e-07  Score=82.60  Aligned_cols=120  Identities=8%  Similarity=-0.060  Sum_probs=105.5

Q ss_pred             HhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           53 ETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKF  132 (699)
Q Consensus        53 ~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~  132 (699)
                      ..+|....+|...+.+....+.            +++++..+++++..+|++..+|..++.++... +.+++++..++++
T Consensus         3 ~~~~~~~~~~~~~g~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a   69 (137)
T 3q49_B            3 HMKSPSAQELKEQGNRLFVGRK------------YPEAAACYGRAITRNPLVAVYYTNRALCYLKM-QQPEQALADCRRA   69 (137)
T ss_dssp             ---CCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHH
T ss_pred             CCccccHHHHHHHHHHHHHhCc------------HHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHh-cCHHHHHHHHHHH
Confidence            4678899999999999988765            99999999999999999999999999999987 6999999999999


Q ss_pred             HHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC-----chHHHHHHHHHHH
Q 005381          133 QKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFS-----NYSAWHNRSLLLS  186 (699)
Q Consensus       133 L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s-----N~SAW~~R~~ll~  186 (699)
                      ++++|.+..+|...+.+....+.+ ++.++++.++++.+|.     +..++.....+..
T Consensus        70 l~~~p~~~~~~~~l~~~~~~~~~~-~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~  127 (137)
T 3q49_B           70 LELDGQSVKAHFFLGQCQLEMESY-DEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKK  127 (137)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHH
T ss_pred             HHhCchhHHHHHHHHHHHHHHhhH-HHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998 6899999999999998     5566655554443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.71  E-value=3.3e-08  Score=92.71  Aligned_cols=112  Identities=13%  Similarity=0.031  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHh------------------CCCchHHHHHHHHHHHhhhccCCCCchhhhhh
Q 005381           25 RVLQSQFLHNHHNHIYSKEAVELSTKLLET------------------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSI   86 (699)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~------------------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~   86 (699)
                      ..+..........|.| ++|+..+.++|.+                  +|....+|..++.++..++.            
T Consensus        12 ~~~~~~G~~~~~~~~~-~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~------------   78 (162)
T 3rkv_A           12 EALRQKGNELFVQKDY-KEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGD------------   78 (162)
T ss_dssp             HHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTC------------
T ss_pred             HHHHHHHHHHHHcCCH-HHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCc------------
Confidence            3445555556678888 8999999999999                  66666777777777666654            


Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh-hhhhHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF-HAWNYRRFVA  150 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~-haW~yR~~vl  150 (699)
                      +++++..++++|..+|.+..+|+.++.++... +.+++++..++++++++|.|. .++...+.+.
T Consensus        79 ~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~-g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           79 LHEAEETSSEVLKREETNEKALFRRAKARIAA-WKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHHH-hcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            66777777777777777777777777776665 467777777777777777666 3344433333

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.71  E-value=7.5e-08  Score=109.47  Aligned_cols=136  Identities=10%  Similarity=-0.126  Sum_probs=110.2

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..+++++..++++++.+|++..+|...+.++... +.++++++.++++++++|.+..+|...+.+....+.+ +++++++
T Consensus         3 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQDFVAWLMLADAELGM-GDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRH-AEAAVLL   80 (568)
T ss_dssp             ------------------CCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCH-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-HHHHHHH
Confidence            3478999999999999999999999999999877 6999999999999999999999999999999999998 7899999


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      +++++.+|.+..+|...+.++..+++            ++++++.+.+++..+|++..+|..+..++...
T Consensus        81 ~~al~~~p~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  138 (568)
T 2vsy_A           81 QQASDAAPEHPGIALWLGHALEDAGQ------------AEAAAAAYTRAHQLLPEEPYITAQLLNWRRRL  138 (568)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999887754            79999999999999999999999888887665

>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=98.71  E-value=7.6e-10  Score=122.36  Aligned_cols=33  Identities=12%  Similarity=-0.009  Sum_probs=20.7

Q ss_pred             CccEEEecCCCCCCcc--chHHHhhcCCccccccC
Q 005381          663 NLTQFDIVGNAIVNEK--FKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       663 ~L~~LdLs~N~l~~~~--~~~~~~~~l~~L~~LD~  695 (699)
                      +|+.|+|++|.|....  .....+..+++|+.||-
T Consensus       371 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l  405 (461)
T 1z7x_W          371 VLRVLWLADCDVSDSSCSSLAATLLANHSLRELDL  405 (461)
T ss_dssp             CCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEEC
T ss_pred             ceEEEECCCCCCChhhHHHHHHHHHhCCCccEEEC
Confidence            7888888888884211  12233455778877653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.71  E-value=5.1e-07  Score=79.28  Aligned_cols=115  Identities=14%  Similarity=0.048  Sum_probs=102.4

Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHH
Q 005381           28 QSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGA  107 (699)
Q Consensus        28 ~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~a  107 (699)
                      ..........+.+ ++|+..+.+++..+|++..+|..++.+....+.            +++++..+++++..+|++..+
T Consensus        16 ~~~~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~   82 (131)
T 2vyi_A           16 KTEGNEQMKVENF-EAAVHFYGKAIELNPANAVYFCNRAAAYSKLGN------------YAGAVQDCERAICIDPAYSKA   82 (131)
T ss_dssp             HHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHccCH-HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhc------------hHHHHHHHHHHHhcCccCHHH
Confidence            3334444566777 799999999999999999999999999988765            899999999999999999999


Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC
Q 005381          108 WHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS  156 (699)
Q Consensus       108 W~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~  156 (699)
                      |...+.++... +.+++++.+++++++.+|.+..+|...+.+...++.+
T Consensus        83 ~~~~~~~~~~~-~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           83 YGRMGLALSSL-NKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHh-CCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999987 6999999999999999999999999999988887764

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.70  E-value=9.7e-08  Score=106.09  Aligned_cols=124  Identities=10%  Similarity=0.003  Sum_probs=105.1

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCc---------------hHHHHHHHHHHHhhhccCCCCchhhhhhHHHH
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPEL---------------YTAWNYRKLAVQHKLTENDSDPDSLKSILDEE   90 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~---------------ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eE   90 (699)
                      .+..........+.| ++|+..|.++|.++|++               ..+|+.++.++..+++            ++++
T Consensus       270 ~~~~~G~~~~~~g~~-~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~------------~~~A  336 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKY-MQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLRE------------YTKA  336 (457)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTC------------HHHH
T ss_pred             HHHHHHHHHHhCCCH-HHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcC------------HHHH
Confidence            444445555667888 89999999999999999               6999999999999865            9999


Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHH
Q 005381           91 LRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKY  163 (699)
Q Consensus        91 L~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~  163 (699)
                      +..++++|..+|++..+|+.|+.++..+ +.+++++..++++++++|.|..+|..++.+...++.+.+.+-+.
T Consensus       337 ~~~~~~al~~~p~~~~a~~~~g~a~~~~-g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~  408 (457)
T 1kt0_A          337 VECCDKALGLDSANEKGLYRRGEAQLLM-NEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRI  408 (457)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999988 69999999999999999999999999999998887764444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.70  E-value=1.8e-07  Score=87.56  Aligned_cols=117  Identities=9%  Similarity=-0.008  Sum_probs=102.9

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh------------------CCCChHHHHHHHHHHHhCCC
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ------------------NFKSYGAWHHRKWILSKGHS  120 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~------------------nPKsy~aW~hR~w~L~~~~~  120 (699)
                      ..+|..++..+...+.            |++++..+.+++..                  +|.+..+|..++.++.+. +
T Consensus        11 a~~~~~~G~~~~~~~~------------~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~-~   77 (162)
T 3rkv_A           11 VEALRQKGNELFVQKD------------YKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNI-G   77 (162)
T ss_dssp             HHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHH-T
T ss_pred             HHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhc-C
Confidence            4677788888877654            99999999999998                  888899999999999987 6


Q ss_pred             ChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch-HHHHHHHHHHHHhh
Q 005381          121 SIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY-SAWHNRSLLLSNLL  189 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~-SAW~~R~~ll~~l~  189 (699)
                      .+++++..|+++++++|.+..+|..++.+...+|.+ +++++++.++++.+|.|. .++.....+...+.
T Consensus        78 ~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~-~~A~~~~~~al~l~p~~~~~~~~~l~~~~~~~~  146 (162)
T 3rkv_A           78 DLHEAEETSSEVLKREETNEKALFRRAKARIAAWKL-DEAEEDLKLLLRNHPAAASVVAREMKIVTERRA  146 (162)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999 789999999999999999 55666666655553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.70  E-value=5.1e-07  Score=89.65  Aligned_cols=166  Identities=7%  Similarity=-0.041  Sum_probs=126.1

Q ss_pred             chHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh---HHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           58 LYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY---GAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        58 ~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy---~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      ...++..++..+...+.            +++++..+++++..+|.+.   .+|..++.++.+. +.++++++.++++++
T Consensus         3 ~~~~~~~~a~~~~~~g~------------~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~-~~~~~A~~~~~~~l~   69 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGN------------WRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKN-ADLPLAQAAIDRFIR   69 (225)
T ss_dssp             CHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHH
Confidence            34577778877777654            9999999999999999875   6899999999987 699999999999999


Q ss_pred             hCCCChh---hhhHHHHHHHhc------------------CCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhh-
Q 005381          135 ADSRNFH---AWNYRRFVAASM------------------NRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRK-  192 (699)
Q Consensus       135 ~dprN~h---aW~yR~~vl~~l------------------~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~-  192 (699)
                      .+|++..   ||.+++.+...+                  +.+ +++++.++++|+.+|.+..+|.-+..+........ 
T Consensus        70 ~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~  148 (225)
T 2yhc_A           70 LNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQA-RAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAK  148 (225)
T ss_dssp             HCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHH-HHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHH-HHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHH
Confidence            9999986   899999887653                  233 67899999999999999988854433211110000 


Q ss_pred             ----ccCccchhchHHHHHHHHHHHHHhCCCCc---hhHHHHHHHHcCcCCC
Q 005381          193 ----VEGFVSKEKVLPDEYEFVHQAIFTDPDDQ---SGWFYHLWLLDQTVRV  237 (699)
Q Consensus       193 ----~~~~~~~~~~~~eeL~~~~~ai~~dP~d~---SaW~Y~~~Ll~~~~~~  237 (699)
                          -+..-...+.+++++..+++++..+|++.   .+|+++..++....+.
T Consensus       149 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~  200 (225)
T 2yhc_A          149 YEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMN  200 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCc
Confidence                00011123458999999999999999986   5788888877665443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.69  E-value=1.5e-07  Score=83.49  Aligned_cols=119  Identities=8%  Similarity=-0.022  Sum_probs=108.1

Q ss_pred             hCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHH
Q 005381          100 QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWH  179 (699)
Q Consensus       100 ~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~  179 (699)
                      ..|.+..+|..++.++... +.+++++++++++++.+|.+..+|..++.+....+.+ ++.+++++++++.+|.+..+|.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~   88 (133)
T 2lni_A           11 MNPDLALMVKNKGNECFQK-GDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEF-QLALKDCEECIQLEPTFIKGYT   88 (133)
T ss_dssp             SSSCHHHHHHHHHHHHHHT-TCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCH-HHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cCcccHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccH-HHHHHHHHHHHHhCCCchHHHH
Confidence            3578889999999999877 6999999999999999999999999999999888888 7899999999999999999999


Q ss_pred             HHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          180 NRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       180 ~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                      .++.++..++.            ++++++.+.+++..+|++..+|..+..++.
T Consensus        89 ~la~~~~~~~~------------~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  129 (133)
T 2lni_A           89 RKAAALEAMKD------------YTKAMDVYQKALDLDSSCKEAADGYQRCMM  129 (133)
T ss_dssp             HHHHHHHHTTC------------HHHHHHHHHHHHHHCGGGTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhh------------HHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            99999887744            799999999999999999999988777664

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.69  E-value=3.5e-07  Score=88.90  Aligned_cols=136  Identities=7%  Similarity=-0.005  Sum_probs=118.3

Q ss_pred             HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh
Q 005381           61 AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF  140 (699)
Q Consensus        61 aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~  140 (699)
                      .++.++.+....+.            +++++..+++++  +| +..+|..++.++... +.++++++.++++++.+|.+.
T Consensus         8 ~~~~~g~~~~~~~~------------~~~A~~~~~~a~--~~-~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~~~~~   71 (213)
T 1hh8_A            8 SLWNEGVLAADKKD------------WKGALDAFSAVQ--DP-HSRICFNIGCMYTIL-KNMTEAEKAFTRSINRDKHLA   71 (213)
T ss_dssp             HHHHHHHHHHHTTC------------HHHHHHHHHTSS--SC-CHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHhCC------------HHHHHHHHHHHc--CC-ChHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCccch
Confidence            34556666666544            899999999996  34 788999999999887 699999999999999999999


Q ss_pred             hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch----------------HHHHHHHHHHHHhhhhhccCccchhchHH
Q 005381          141 HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY----------------SAWHNRSLLLSNLLKRKVEGFVSKEKVLP  204 (699)
Q Consensus       141 haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~----------------SAW~~R~~ll~~l~~~~~~~~~~~~~~~~  204 (699)
                      .+|..++.+....+.+ +++++++.++++..|.+.                .+|.+++.++..++.            ++
T Consensus        72 ~~~~~lg~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~  138 (213)
T 1hh8_A           72 VAYFQRGMLYYQTEKY-DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEE------------WK  138 (213)
T ss_dssp             HHHHHHHHHHHHTTCH-HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTC------------HH
T ss_pred             HHHHHHHHHHHHcccH-HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccC------------HH
Confidence            9999999999999998 789999999999888877                999999999887754            79


Q ss_pred             HHHHHHHHHHHhCCCCchhHH
Q 005381          205 DEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       205 eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      ++++.+.+++..+|++.....
T Consensus       139 ~A~~~~~~al~~~p~~~~~~~  159 (213)
T 1hh8_A          139 KAEEQLALATSMKSEPRHSKI  159 (213)
T ss_dssp             HHHHHHHHHHTTCCSGGGGHH
T ss_pred             HHHHHHHHHHHcCcccccchH
Confidence            999999999999998866543

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.69  E-value=1.8e-07  Score=84.06  Aligned_cols=120  Identities=8%  Similarity=-0.095  Sum_probs=107.3

Q ss_pred             HhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHH
Q 005381           99 RQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAW  178 (699)
Q Consensus        99 ~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW  178 (699)
                      ..+|.+..+|...+.++... +.+++++.++.++++.+|.+..+|..++.+....+.+ ++.++++.++++.+|.+..+|
T Consensus         3 ~~~~~~~~~~~~~g~~~~~~-~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~   80 (137)
T 3q49_B            3 HMKSPSAQELKEQGNRLFVG-RKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-EQALADCRRALELDGQSVKAH   80 (137)
T ss_dssp             ---CCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHH
T ss_pred             CCccccHHHHHHHHHHHHHh-CcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCH-HHHHHHHHHHHHhCchhHHHH
Confidence            35788999999999999877 6999999999999999999999999999999999998 689999999999999999999


Q ss_pred             HHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCC-----CchhHHHHHHHHc
Q 005381          179 HNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD-----DQSGWFYHLWLLD  232 (699)
Q Consensus       179 ~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~-----d~SaW~Y~~~Ll~  232 (699)
                      ..++.++..++.            ++++++.+.+++..+|+     +..+|...+.+..
T Consensus        81 ~~l~~~~~~~~~------------~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~  127 (137)
T 3q49_B           81 FFLGQCQLEMES------------YDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKK  127 (137)
T ss_dssp             HHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh------------HHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHH
Confidence            999999888754            79999999999999999     7888877766554

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.68  E-value=4.5e-07  Score=88.10  Aligned_cols=129  Identities=9%  Similarity=-0.023  Sum_probs=114.7

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHH
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAW  108 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW  108 (699)
                      .........|.+ ++|+..+.+++  +| +..+|+.++.+....+.            +++++..+++++..+|++..+|
T Consensus        11 ~~g~~~~~~~~~-~~A~~~~~~a~--~~-~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~   74 (213)
T 1hh8_A           11 NEGVLAADKKDW-KGALDAFSAVQ--DP-HSRICFNIGCMYTILKN------------MTEAEKAFTRSINRDKHLAVAY   74 (213)
T ss_dssp             HHHHHHHHTTCH-HHHHHHHHTSS--SC-CHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHhCCH-HHHHHHHHHHc--CC-ChHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCccchHHH
Confidence            334445567787 79999999996  44 77899999999988865            9999999999999999999999


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh----------------hhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNF----------------HAWNYRRFVAASMNRSEEDELKYTEDMICNNF  172 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~----------------haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~  172 (699)
                      ..++.++... +.++++++.++++++.+|.+.                .+|.+++.+....|.+ +++++++.++++.+|
T Consensus        75 ~~lg~~~~~~-~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           75 FQRGMLYYQT-EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEW-KKAEEQLALATSMKS  152 (213)
T ss_dssp             HHHHHHHHHT-TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHc-ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCH-HHHHHHHHHHHHcCc
Confidence            9999999987 699999999999999999887                9999999999999998 789999999999999


Q ss_pred             Cch
Q 005381          173 SNY  175 (699)
Q Consensus       173 sN~  175 (699)
                      .+.
T Consensus       153 ~~~  155 (213)
T 1hh8_A          153 EPR  155 (213)
T ss_dssp             SGG
T ss_pred             ccc
Confidence            873

>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=98.68  E-value=1.2e-09  Score=120.61  Aligned_cols=172  Identities=16%  Similarity=0.044  Sum_probs=108.6

Q ss_pred             HHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhc-cCCCCCCCCCCCCeEEccCCCCCc-----cc-CC
Q 005381          479 EEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCF-HYSNSPSNRGSPMCLQLKNLSLSR-----LG-SF  551 (699)
Q Consensus       479 ~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~-~l~~l~~l~L~~~~L~Ls~n~l~~-----l~-~l  551 (699)
                      .+.+..++.|+.||+++|.+.. ..           ...+..... ....++.       |++++|.++.     ++ .+
T Consensus       220 ~~~l~~~~~L~~L~Ls~n~l~~-~~-----------~~~l~~~~~~~~~~L~~-------L~L~~n~l~~~~~~~l~~~l  280 (461)
T 1z7x_W          220 CGIVASKASLRELALGSNKLGD-VG-----------MAELCPGLLHPSSRLRT-------LWIWECGITAKGCGDLCRVL  280 (461)
T ss_dssp             HHHHHHCTTCCEEECCSSBCHH-HH-----------HHHHHHHHTSTTCCCCE-------EECTTSCCCHHHHHHHHHHH
T ss_pred             HHHHHhCCCccEEeccCCcCCh-HH-----------HHHHHHHHhcCCCCceE-------EECcCCCCCHHHHHHHHHHH
Confidence            5566778888888888886211 00           111111111 1233333       9999999986     33 56


Q ss_pred             CCCcccCEEEccCCCCCCCcC--C-----ccccccceeecccCCCCCCC---CCccccccccccccccccccCCCCCccc
Q 005381          552 DKLLWVQMLDLSHNELRSIEG--L-----EALQLLSCLNLSNNILGSFT---ALEPIRQLKSLRALNISYNEIGAHSIDT  621 (699)
Q Consensus       552 ~~L~~L~~LdLS~N~L~~l~~--l-----~~L~~L~~L~Ls~N~l~~l~---~~~~l~~l~~L~~L~Ls~N~I~~lp~~~  621 (699)
                      ..+++|+.|+|++|.++....  +     ...++|+.|++++|.++...   .+..+..+++|+.|+|++|.|+......
T Consensus       281 ~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~  360 (461)
T 1z7x_W          281 RAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRE  360 (461)
T ss_dssp             HHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHH
T ss_pred             hhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHH
Confidence            678999999999999854322  2     23368999999999987631   1234566789999999999987653211


Q ss_pred             c-cccCC-CCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          622 T-KYLCS-SPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       622 ~-~~l~~-l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      . ..+.. .+-+..+++++|.+..      .....+|..+..+ +|+.|+|++|+|.
T Consensus       361 l~~~l~~~~~~L~~L~L~~n~i~~------~~~~~l~~~l~~~~~L~~L~l~~N~i~  411 (461)
T 1z7x_W          361 LCQGLGQPGSVLRVLWLADCDVSD------SSCSSLAATLLANHSLRELDLSNNCLG  411 (461)
T ss_dssp             HHHHHTSTTCCCCEEECTTSCCCH------HHHHHHHHHHHHCCCCCEEECCSSSCC
T ss_pred             HHHHHcCCCCceEEEECCCCCCCh------hhHHHHHHHHHhCCCccEEECCCCCCC
Confidence            1 11211 2233344667776531      1122456677778 9999999999994

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.67  E-value=1.9e-07  Score=83.72  Aligned_cols=103  Identities=6%  Similarity=0.015  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      ..|..++.++.+. +.+++++..++++++.+|.+..+|...+.+....|.+ ++++++++++++.+|.+..+|..++.++
T Consensus        18 ~~~~~~g~~~~~~-g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~-~~A~~~~~~al~l~P~~~~~~~~la~~~   95 (121)
T 1hxi_A           18 ENPMEEGLSMLKL-ANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKD-GLAIIALNHARMLDPKDIAVHAALAVSH   95 (121)
T ss_dssp             SCHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHc-CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4577788887776 6999999999999999999999999999999999998 6899999999999999999999999999


Q ss_pred             HHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          186 SNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       186 ~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                      ...++            ++++++.+.+++..+|++..
T Consensus        96 ~~~g~------------~~~A~~~~~~al~~~P~~~~  120 (121)
T 1hxi_A           96 TNEHN------------ANAALASLRAWLLSQPQYEQ  120 (121)
T ss_dssp             HHHHH------------HHHHHHHHHHHHC-------
T ss_pred             HHcCC------------HHHHHHHHHHHHHhCcCCCC
Confidence            88865            79999999999999998753

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.64  E-value=1e-07  Score=101.57  Aligned_cols=136  Identities=10%  Similarity=-0.044  Sum_probs=78.7

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCch-----------------HHHHHHHHHHHhhhccCCCCchhhhhhHH
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELY-----------------TAWNYRKLAVQHKLTENDSDPDSLKSILD   88 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~y-----------------taWn~R~~~l~~l~~~~~~~~~~~~~~~~   88 (699)
                      .+..........+.| ++|+..|.++|.++|++.                 .+|+.++.++..+++            ++
T Consensus       181 ~~~~~g~~~~~~g~~-~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~------------~~  247 (338)
T 2if4_A          181 RRKMDGNSLFKEEKL-EEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKR------------YD  247 (338)
T ss_dssp             HHHHHHHHTCSSSCC-HHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTC------------CH
T ss_pred             HHHHHHHHHHhcCCH-HHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCC------------HH
Confidence            344555566778888 899999999999999987                 388888888877754            78


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381           89 EELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus        89 eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      +++..++++|..+|++..+|+.++.++... +.+++++..++++++++|.|..+|...+.+........+++.+.+.+++
T Consensus       248 ~A~~~~~~al~~~p~~~~a~~~lg~a~~~~-g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l  326 (338)
T 2if4_A          248 EAIGHCNIVLTEEEKNPKALFRRGKAKAEL-GQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEMYKGIF  326 (338)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHTT-TCHHHHHHHHHHTTC----------------------------------
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            888888888888888888888888888876 5888888888888888888888888877775555444456667777777


Q ss_pred             HhccCch
Q 005381          169 CNNFSNY  175 (699)
Q Consensus       169 ~~n~sN~  175 (699)
                      ..+|.+-
T Consensus       327 ~~~p~~~  333 (338)
T 2if4_A          327 KGKDEGG  333 (338)
T ss_dssp             -------
T ss_pred             CCCCCCC
Confidence            7777653

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.64  E-value=1.2e-07  Score=89.50  Aligned_cols=98  Identities=12%  Similarity=0.018  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC--
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH--  119 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~--  119 (699)
                      ++|++.+++++.++|++..+|+..+.++..+++..  ...+....+++++..++++|+++|++..+|+..+-++....  
T Consensus        19 eeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~--~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l   96 (158)
T 1zu2_A           19 EQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFH--SISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFL   96 (158)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHS--CHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccc--hhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhccc
Confidence            68999999999999999999999999998886411  11223345789999999999999999999999999997542  


Q ss_pred             --------CChHHHHHHHHHHHHhCCCChh
Q 005381          120 --------SSIDNELRLLDKFQKADSRNFH  141 (699)
Q Consensus       120 --------~~~~~EL~~~~k~L~~dprN~h  141 (699)
                              +.+++++++|+++++++|.|..
T Consensus        97 ~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~  126 (158)
T 1zu2_A           97 TPDETEAKHNFDLATQFFQQAVDEQPDNTH  126 (158)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             CcchhhhhccHHHHHHHHHHHHHhCCCCHH
Confidence                    2578888888888888887743

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.63  E-value=7e-08  Score=107.91  Aligned_cols=132  Identities=14%  Similarity=0.048  Sum_probs=111.5

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      ...|++ ++|++++.++|.++|++..+|+.++.++..+++            +++++..++++++.+|++..+|+.++.+
T Consensus        17 ~~~g~~-~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~l~p~~~~~~~~lg~~   83 (477)
T 1wao_1           17 FKAKDY-ENAIKFYSQAIELNPSNAIYYGNRSLAYLRTEC------------YGYALGDATRAIELDKKYIKGYYRRAAS   83 (477)
T ss_dssp             TTTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HHhCCH-HHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            345666 899999999999999999999999999998865            9999999999999999999999999999


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHH--HHhcCCChHHHHHHHH-----------HHHHhccCchHHHHHH
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFV--AASMNRSEEDELKYTE-----------DMICNNFSNYSAWHNR  181 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~v--l~~l~~~~e~EL~~~~-----------~~I~~n~sN~SAW~~R  181 (699)
                      +... +.++++++.++++++++|.+..+|.+.+.+  +...+.+ +++++.++           ++++.+|+...+++..
T Consensus        84 ~~~~-g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~al~~~~~~~~~~~~~  161 (477)
T 1wao_1           84 NMAL-GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAF-ERAIAGDEHKRSVVDSLDIESMTIEDEYSGPKLED  161 (477)
T ss_dssp             HHHH-TCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHH-CCC------CCSTTTCCTTSSCCCCTTCCSCCCGG
T ss_pred             HHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH-HHHhccccccchhHhhhhhhhcccccccccccccc
Confidence            9887 699999999999999999999999999888  5555665 46777777           8888888877666543

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.62  E-value=6.9e-07  Score=76.99  Aligned_cols=114  Identities=10%  Similarity=-0.004  Sum_probs=102.3

Q ss_pred             chHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCC
Q 005381           58 LYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADS  137 (699)
Q Consensus        58 ~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dp  137 (699)
                      ...+|...+.+....+.            +++++..+++++..+|.+..+|..++.+.... +.+++++..++++++.+|
T Consensus         3 ~~~~~~~~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~   69 (118)
T 1elw_A            3 QVNELKEKGNKALSVGN------------IDDALQCYSEAIKLDPHNHVLYSNRSAAYAKK-GDYQKAYEDGCKTVDLKP   69 (118)
T ss_dssp             HHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCT
T ss_pred             hHHHHHHHHHHHHHccc------------HHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHhCc
Confidence            34677788887776654            89999999999999999999999999999876 699999999999999999


Q ss_pred             CChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          138 RNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       138 rN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      .+..+|...+.+....+.+ ++.++++.++++.+|.+..+|...+.+.
T Consensus        70 ~~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           70 DWGKGYSRKAAALEFLNRF-EEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             TCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhH-HHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            9999999999999999998 6899999999999999999998877653

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.61  E-value=2.4e-07  Score=79.31  Aligned_cols=108  Identities=6%  Similarity=0.022  Sum_probs=99.7

Q ss_pred             hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           54 TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQ  133 (699)
Q Consensus        54 ~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L  133 (699)
                      ++|++..+|...+.+....++            +++++..+++++..+|.+..+|..++.++... +.++++++++++++
T Consensus         1 l~p~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~a~   67 (112)
T 2kck_A            1 MVDQNPEEYYLEGVLQYDAGN------------YTESIDLFEKAIQLDPEESKYWLMKGKALYNL-ERYEEAVDCYNYVI   67 (112)
T ss_dssp             CCCSSTTGGGGHHHHHHSSCC------------HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHhhh------------HHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHc-cCHHHHHHHHHHHH
Confidence            478999999999999887755            89999999999999999999999999999887 69999999999999


Q ss_pred             HhCCC--ChhhhhHHHHHHHhc-CCChHHHHHHHHHHHHhccCch
Q 005381          134 KADSR--NFHAWNYRRFVAASM-NRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       134 ~~dpr--N~haW~yR~~vl~~l-~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      +.+|.  +..+|...+.+...+ +.+ +++++++.+++..+|.+.
T Consensus        68 ~~~~~~~~~~~~~~l~~~~~~~~~~~-~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           68 NVIEDEYNKDVWAAKADALRYIEGKE-VEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTSCCTTCHHHHHHHHHHHTTCSSCS-HHHHHHHHHHGGGCCCCC
T ss_pred             HhCcccchHHHHHHHHHHHHHHhCCH-HHHHHHHHHHhhcccCCC
Confidence            99999  999999999999999 998 789999999999998763

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.61  E-value=1.8e-07  Score=88.36  Aligned_cols=119  Identities=9%  Similarity=-0.033  Sum_probs=72.3

Q ss_pred             hhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHH
Q 005381           84 KSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKY  163 (699)
Q Consensus        84 ~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~  163 (699)
                      ...+++++..+++++..+|++..+|...+-++... +.++...+..+                        .+ ++++.+
T Consensus        15 ~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l-~~~~~g~~al~------------------------~~-~eAi~~   68 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLEL-SQFHSISDAKQ------------------------MI-QEAITK   68 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-HHHSCHHHHHH------------------------HH-HHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHh-cccchhhhhHh------------------------HH-HHHHHH
Confidence            35578888888888888888888888887777754 22221111000                        01 445555


Q ss_pred             HHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          164 TEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       164 ~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      ++++|+++|.+..||++++.++..++.- ..+.....+.++++++++++|+.++|++...|..+.-
T Consensus        69 le~AL~ldP~~~~A~~~LG~ay~~lg~l-~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~  133 (158)
T 1zu2_A           69 FEEALLIDPKKDEAVWCIGNAYTSFAFL-TPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHhccc-CcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            5555555555555555555555544321 0111112245899999999999999999877765443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.61  E-value=6.4e-07  Score=81.03  Aligned_cols=121  Identities=12%  Similarity=-0.017  Sum_probs=108.9

Q ss_pred             HhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC---hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381           99 RQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN---FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus        99 ~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN---~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      ..+|++..+|..++...... +.+++++++++++++.+|.+   ..+|..++.+....+.+ ++.+++++++++.+|.+.
T Consensus        22 ~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~~~~~~   99 (148)
T 2dba_A           22 TPGASSVEQLRKEGNELFKC-GDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDY-DKAETEASKAIEKDGGDV   99 (148)
T ss_dssp             CTTCCCHHHHHHHHHHHHTT-TCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHTSCCH
T ss_pred             ccchHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccH-HHHHHHHHHHHhhCccCH
Confidence            35788999999999998876 69999999999999999998   89999999999999988 789999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          176 SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       176 SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      .+|..++.++..++.            ++++++.+.+++..+|++..+|..+.-+...
T Consensus       100 ~~~~~~a~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  145 (148)
T 2dba_A          100 KALYRRSQALEKLGR------------LDQAVLDLQRCVSLEPKNKVFQEALRNISGP  145 (148)
T ss_dssp             HHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCSSCHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHcCC------------HHHHHHHHHHHHHcCCCcHHHHHHHHHHHhh
Confidence            999999999887754            7999999999999999999999877666543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.61  E-value=1.2e-07  Score=98.27  Aligned_cols=178  Identities=7%  Similarity=-0.087  Sum_probs=129.9

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCc------hHHHHHHHHHHHhh-hccCCCCchhhhhhHHHHHHHHHHHHHhCCCC--
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPEL------YTAWNYRKLAVQHK-LTENDSDPDSLKSILDEELRVVESALRQNFKS--  104 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~------ytaWn~R~~~l~~l-~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs--  104 (699)
                      ....|.+ ++|+.++.++|.+.|+.      ..+|+..+.++... ++            +++++..+++++..+|+.  
T Consensus        87 ~~~~g~~-~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~------------~~~A~~~~~~Al~~~~~~~~  153 (292)
T 1qqe_A           87 FKSGGNS-VNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHD------------YAKAIDCYELAGEWYAQDQS  153 (292)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCC------------HHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHCCCH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcC------------HHHHHHHHHHHHHHHHhCCC
Confidence            3456677 89999999999998865      56888888888874 65            899999999999998865  


Q ss_pred             ----hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChh-------hhhHHHHHHHhcCCChHHHHHHHHHHHHhccC
Q 005381          105 ----YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH-------AWNYRRFVAASMNRSEEDELKYTEDMICNNFS  173 (699)
Q Consensus       105 ----y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~h-------aW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s  173 (699)
                          ..+|...+.++.+. +.+++++++++++++++|.+..       +|...+.+...+|.+ ++++.+++++++.+|+
T Consensus       154 ~~~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~l~p~  231 (292)
T 1qqe_A          154 VALSNKCFIKCADLKALD-GQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDA-VAAARTLQEGQSEDPN  231 (292)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCH-HHHHHHHHGGGCC---
T ss_pred             hHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhhCCC
Confidence                56788889999887 6999999999999999998865       466778888888988 7899999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          174 NYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       174 N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      ...++..+.  +..+...-..   ...+.++++++.+++++.++|.....|.=..-.+
T Consensus       232 ~~~~~~~~~--l~~l~~~~~~---~~~~~~~~A~~~~~~~~~l~~~~~~~~~~~k~~~  284 (292)
T 1qqe_A          232 FADSRESNF--LKSLIDAVNE---GDSEQLSEHCKEFDNFMRLDKWKITILNKIKESI  284 (292)
T ss_dssp             ------HHH--HHHHHHHHHT---TCTTTHHHHHHHHTTSSCCCHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHH--HHHHHHHHHc---CCHHHHHHHHHHhccCCccHHHHHHHHHHHHHHh
Confidence            887765433  2222211000   1224579999999999999997766554443333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=7.7e-07  Score=80.52  Aligned_cols=118  Identities=10%  Similarity=-0.054  Sum_probs=107.3

Q ss_pred             HhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHhCCCChHHHHHHH
Q 005381           53 ETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---YGAWHHRKWILSKGHSSIDNELRLL  129 (699)
Q Consensus        53 ~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---y~aW~hR~w~L~~~~~~~~~EL~~~  129 (699)
                      ..+|+...+|+.++......+.            +++++..+++++..+|.+   ..+|..++.++... +.++++++.+
T Consensus        22 ~~~~~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~   88 (148)
T 2dba_A           22 TPGASSVEQLRKEGNELFKCGD------------YGGALAAYTQALGLDATPQDQAVLHRNRAACHLKL-EDYDKAETEA   88 (148)
T ss_dssp             CTTCCCHHHHHHHHHHHHTTTC------------HHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHT-TCHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHhCC------------HHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHH-ccHHHHHHHH
Confidence            3578899999999998887755            999999999999999998   99999999999877 6999999999


Q ss_pred             HHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          130 DKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       130 ~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      +++++.+|.+..+|..++.++...+.+ ++.++++.++++.+|.+..+|.....+
T Consensus        89 ~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (148)
T 2dba_A           89 SKAIEKDGGDVKALYRRSQALEKLGRL-DQAVLDLQRCVSLEPKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHTSCCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHhhCccCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHcCCCcHHHHHHHHHH
Confidence            999999999999999999999999998 789999999999999999998766554

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.60  E-value=4.6e-07  Score=87.77  Aligned_cols=122  Identities=8%  Similarity=-0.050  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCch----------------HHHHHHHHHHHhhhccCCCCchhh
Q 005381           20 KAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELY----------------TAWNYRKLAVQHKLTENDSDPDSL   83 (699)
Q Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~y----------------taWn~R~~~l~~l~~~~~~~~~~~   83 (699)
                      +.+....+..........|.| ++|+..+.+++.+.|++.                .+|..++.++..++.         
T Consensus        34 ~~~~~~~~~~~g~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~---------  103 (198)
T 2fbn_A           34 KVQSAFDIKEEGNEFFKKNEI-NEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKD---------  103 (198)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTC---------
T ss_pred             HHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcC---------
Confidence            333344555555666678888 799999999999999987                788888888777754         


Q ss_pred             hhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCC
Q 005381           84 KSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus        84 ~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~  155 (699)
                         +++++..+++++..+|++..+|..++.++... +.++++++.+.++++++|.+..+|...+.+...++.
T Consensus       104 ---~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~  171 (198)
T 2fbn_A          104 ---YPKAIDHASKVLKIDKNNVKALYKLGVANMYF-GFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKE  171 (198)
T ss_dssp             ---HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHc-ccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHH
Confidence               78888888888888888888888888888766 578888888888888888888888877777666543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.60  E-value=1.4e-07  Score=91.43  Aligned_cols=132  Identities=12%  Similarity=-0.012  Sum_probs=114.5

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh----------------HHH
Q 005381           45 VELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY----------------GAW  108 (699)
Q Consensus        45 L~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy----------------~aW  108 (699)
                      .+.++......++...+|..++.++...++            +++++..+++++...|++.                .+|
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           24 KSIYDYTDEEKVQSAFDIKEEGNEFFKKNE------------INEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             CSGGGCCHHHHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             CchhhCCHHHHHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Confidence            333334444555566778888888877654            9999999999999999998                899


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      ..++.++... +.+++++.+++++++++|.+..+|..++.+...++.+ +++++++.++++.+|.+..+|...+.+...+
T Consensus        92 ~~la~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A           92 LNLATCYNKN-KDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFL-EEAKENLYKAASLNPNNLDIRNSYELCVNKL  169 (198)
T ss_dssp             HHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh-cCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccH-HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHH
Confidence            9999999887 6999999999999999999999999999999999998 7899999999999999999999999888877


Q ss_pred             hh
Q 005381          189 LK  190 (699)
Q Consensus       189 ~~  190 (699)
                      +.
T Consensus       170 ~~  171 (198)
T 2fbn_A          170 KE  171 (198)
T ss_dssp             HH
T ss_pred             HH
Confidence            55

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.59  E-value=2.6e-07  Score=82.89  Aligned_cols=102  Identities=9%  Similarity=0.024  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      ..|..++.++...++            +++++..++++++.+|++..+|...+.++... +.+++++..++++++++|.+
T Consensus        18 ~~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~-g~~~~A~~~~~~al~l~P~~   84 (121)
T 1hxi_A           18 ENPMEEGLSMLKLAN------------LAEAALAFEAVCQKEPEREEAWRSLGLTQAEN-EKDGLAIIALNHARMLDPKD   84 (121)
T ss_dssp             SCHHHHHHHHHHTTC------------HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC
T ss_pred             hhHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCC
Confidence            356777777776654            89999999999999999999999999999987 69999999999999999999


Q ss_pred             hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          140 FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       140 ~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      ..+|...+.++...|.+ ++.+++++++++.+|.+.
T Consensus        85 ~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           85 IAVHAALAVSHTNEHNA-NAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCcCCC
Confidence            99999999999999988 689999999999999764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.59  E-value=1.6e-06  Score=75.28  Aligned_cols=120  Identities=18%  Similarity=0.163  Sum_probs=104.9

Q ss_pred             hCCCc-hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           54 TNPEL-YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKF  132 (699)
Q Consensus        54 ~nP~~-ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~  132 (699)
                      .+|+. ..+|...+.+....+.            +++++..+++++..+|.+..+|...+.++... +.+++++.+++++
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~   69 (125)
T 1na0_A            3 MDPGNSAEAWYNLGNAYYKQGD------------YDEAIEYYQKALELDPNNAEAWYNLGNAYYKQ-GDYDEAIEYYQKA   69 (125)
T ss_dssp             ----CHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHH
T ss_pred             CCccccHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHh-CCHHHHHHHHHHH
Confidence            45665 7788888888877754            89999999999999999999999999999877 6999999999999


Q ss_pred             HHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHH
Q 005381          133 QKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSN  187 (699)
Q Consensus       133 L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~  187 (699)
                      ++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..++...+.+...
T Consensus        70 ~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           70 LELDPNNAEAWYNLGNAYYKQGDY-DEAIEYYQKALELDPNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHhCCccHHHHHHHHHHHHHhcCH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHh
Confidence            999999999999999999999988 789999999999999999999888776543

>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=98.59  E-value=2.7e-08  Score=105.50  Aligned_cols=184  Identities=11%  Similarity=0.061  Sum_probs=105.1

Q ss_pred             cccccccCCCCCccc--cchhhhHHh-hhhccchHHHhhhhc-c--------CCCCCCCCCCCCeEEccCCCCCccc--C
Q 005381          485 YNDLMRLDPTHVQYY--KDQHSLVLL-QQVTSNWESLLSRCF-H--------YSNSPSNRGSPMCLQLKNLSLSRLG--S  550 (699)
Q Consensus       485 l~~L~~LDls~n~~~--~~l~sl~~l-~~l~~~~~~l~~~~~-~--------l~~l~~l~L~~~~L~Ls~n~l~~l~--~  550 (699)
                      +.+|++||+++|...  ......+.. .........++...| .        ..+++.       +.|.+ .++.|+  .
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~-------l~L~~-~i~~I~~~a  119 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEK-------VILSE-KIKNIEDAA  119 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC--------CBCT-TCCEECTTT
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcE-------EECCc-cccchhHHH
Confidence            677999999999854  111111100 001000112222222 2        355555       78887 888887  7


Q ss_pred             CCCCcccCEEEccCCCCCCCcC--Ccc-----------------------------------------------------
Q 005381          551 FDKLLWVQMLDLSHNELRSIEG--LEA-----------------------------------------------------  575 (699)
Q Consensus       551 l~~L~~L~~LdLS~N~L~~l~~--l~~-----------------------------------------------------  575 (699)
                      |.+|++|+.|++++|.+..++.  |.+                                                     
T Consensus       120 F~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~  199 (329)
T 3sb4_A          120 FKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGL  199 (329)
T ss_dssp             TTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTC
T ss_pred             hhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhccc
Confidence            9999999999999998644443  322                                                     


Q ss_pred             -------------------------ccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCC
Q 005381          576 -------------------------LQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPL  630 (699)
Q Consensus       576 -------------------------L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~l  630 (699)
                                               +++|+.|+|++|.++.++. ..|..|++|+.|+|.+| +..++...+.....   
T Consensus       200 ~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~-~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~---  274 (329)
T 3sb4_A          200 QPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPD-FTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGR---  274 (329)
T ss_dssp             CGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECT-TTTTTCTTCCEEECCTT-CCEECTTTTTTCTT---
T ss_pred             CccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecH-hhhhCCCCCCEEECCcc-cceehHHHhhCChh---
Confidence                                     4566667777766666632 55667777777777766 66664323222222   


Q ss_pred             cc-cccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          631 SH-SVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       631 l~-ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +. .+.+.. .++.+          .+.+|.++ +|+.|++++|.|.  .+....+..+++|+.|.
T Consensus       275 L~~~l~l~~-~l~~I----------~~~aF~~c~~L~~l~l~~n~i~--~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          275 LAGTLELPA-SVTAI----------EFGAFMGCDNLRYVLATGDKIT--TLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             CCEEEEECT-TCCEE----------CTTTTTTCTTEEEEEECSSCCC--EECTTTTCTTCCCCEEE
T ss_pred             ccEEEEEcc-cceEE----------chhhhhCCccCCEEEeCCCccC--ccchhhhcCCcchhhhc
Confidence            11 112222 11111          13588999 9999999999982  22223446788888764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.58  E-value=2.4e-07  Score=79.30  Aligned_cols=108  Identities=11%  Similarity=0.082  Sum_probs=98.9

Q ss_pred             hCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC--chHH
Q 005381          100 QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFS--NYSA  177 (699)
Q Consensus       100 ~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s--N~SA  177 (699)
                      .+|.+..+|...+.+.... +.+++++.+++++++.+|.+..+|..++.+....+.+ ++.+++++++++.+|.  +..+
T Consensus         1 l~p~~~~~~~~~~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~   78 (112)
T 2kck_A            1 MVDQNPEEYYLEGVLQYDA-GNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERY-EEAVDCYNYVINVIEDEYNKDV   78 (112)
T ss_dssp             CCCSSTTGGGGHHHHHHSS-CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHTSCCTTCHHH
T ss_pred             CCCCcHHHHHHHHHHHHHh-hhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCH-HHHHHHHHHHHHhCcccchHHH
Confidence            3789999999999999876 6999999999999999999999999999999999998 7899999999999999  9999


Q ss_pred             HHHHHHHHHHh-hhhhccCccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          178 WHNRSLLLSNL-LKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       178 W~~R~~ll~~l-~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                      |..++.++..+ +.            ++++++++.+++..+|.+.
T Consensus        79 ~~~l~~~~~~~~~~------------~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           79 WAAKADALRYIEGK------------EVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHHHHHHTTCSSC------------SHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHHHHHHhCC------------HHHHHHHHHHHhhcccCCC
Confidence            99999887766 55            6999999999999999875

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.58  E-value=9.9e-07  Score=75.98  Aligned_cols=113  Identities=9%  Similarity=-0.016  Sum_probs=101.5

Q ss_pred             hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          105 YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       105 y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      ..+|...+.+.... +.+++++.+++++++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|..++.+
T Consensus         4 ~~~~~~~~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSV-GNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDY-QKAYEDGCKTVDLKPDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-ccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccH-HHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            46788888888776 6999999999999999999999999999999999998 789999999999999999999999999


Q ss_pred             HHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          185 LSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       185 l~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      +..++.            ++++++.+.+++..+|++..+|..+.-+.
T Consensus        82 ~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           82 LEFLNR------------FEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHHTTC------------HHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHhh------------HHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            887754            79999999999999999999998766543

>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=98.57  E-value=5.6e-08  Score=103.53  Aligned_cols=78  Identities=28%  Similarity=0.311  Sum_probs=66.8

Q ss_pred             EEccC-CCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKN-LSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~-n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |+|++ |.|+.++  .|..|++|+.|+|++|+|+.+++  |..|++|+.|+|++|+|++++ +..+..+. |+.|+|.+|
T Consensus        36 L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~-~~~~~~~~-L~~l~l~~N  113 (347)
T 2ifg_A           36 LYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLS-WKTVQGLS-LQELVLSGN  113 (347)
T ss_dssp             EECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCC-STTTCSCC-CCEEECCSS
T ss_pred             EEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccceeC-HHHcccCC-ceEEEeeCC
Confidence            99996 9999887  69999999999999999988876  899999999999999999873 34455554 999999999


Q ss_pred             cCCCC
Q 005381          613 EIGAH  617 (699)
Q Consensus       613 ~I~~l  617 (699)
                      ++...
T Consensus       114 ~~~c~  118 (347)
T 2ifg_A          114 PLHCS  118 (347)
T ss_dssp             CCCCC
T ss_pred             CccCC
Confidence            98753

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.56  E-value=6.5e-07  Score=92.51  Aligned_cols=148  Identities=7%  Similarity=-0.051  Sum_probs=118.5

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      |+...+|..++.++...++            +++++..+++++..+|.+..+|..++.++... +.++++++.+++++++
T Consensus         1 p~~a~~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-~~~~~A~~~~~~al~~   67 (281)
T 2c2l_A            1 SPSAQELKEQGNRLFVGRK------------YPEAAACYGRAITRNPLVAVYYTNRALCYLKM-QQPEQALADCRRALEL   67 (281)
T ss_dssp             CCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTS
T ss_pred             ChhHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHh
Confidence            6778899999998888765            99999999999999999999999999999987 6999999999999999


Q ss_pred             CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHH
Q 005381          136 DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIF  215 (699)
Q Consensus       136 dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~  215 (699)
                      +|.+..+|..++.++..+|.+ +++++++.++++.+|.+..++....+.....               .+..........
T Consensus        68 ~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~  131 (281)
T 2c2l_A           68 DGQSVKAHFFLGQCQLEMESY-DEAIANLQRAYSLAKEQRLNFGDDIPSALRI---------------AKKKRWNSIEER  131 (281)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCCCCSHHHHHHHH---------------HHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCccchhhHHHHHHHHHHH---------------HHHHHHHHHHHH
Confidence            999999999999999999998 7899999999999997743221111111111               122222233445


Q ss_pred             hCCCCchhHHHHHHHHc
Q 005381          216 TDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       216 ~dP~d~SaW~Y~~~Ll~  232 (699)
                      ..|.+...+.|+.-++.
T Consensus       132 ~~~~~~~i~~~l~~l~~  148 (281)
T 2c2l_A          132 RIHQESELHSYLTRLIA  148 (281)
T ss_dssp             CCCCCCHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            78889999888887763

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.56  E-value=3e-07  Score=83.09  Aligned_cols=109  Identities=13%  Similarity=0.062  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      .+|...|.++.+. +.+++++++++++++++|.+..+|..++.+...++.+ ++.++++.++|+++|.+..+|..++.++
T Consensus         9 ~a~~~lG~~~~~~-~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQ-KDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKF-AECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhH-HHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4677778888876 6999999999999999999999999999999999998 7899999999999998877666655555


Q ss_pred             HHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          186 SNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       186 ~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                      ..++..     ....+.++++++++.+++..+|+..
T Consensus        87 ~~lg~~-----~~~~~~~~~A~~~~~kal~~~~~~~  117 (127)
T 4gcn_A           87 SRAGNA-----FQKQNDLSLAVQWFHRSLSEFRDPE  117 (127)
T ss_dssp             HHHHHH-----HHHTTCHHHHHHHHHHHHHHSCCHH
T ss_pred             HHHHHH-----HHHcCCHHHHHHHHHHHHhhCcCHH
Confidence            554431     1122348999999999999998643

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.55  E-value=7.9e-07  Score=90.74  Aligned_cols=177  Identities=12%  Similarity=0.095  Sum_probs=141.4

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHh--------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLET--------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ  100 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~--------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~  100 (699)
                      .........|.+ ++|+.++.+++.+        +|....+|...+.+....++            +++++..+++++..
T Consensus        32 ~l~~~~~~~g~~-~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~   98 (311)
T 3nf1_A           32 NLVIQYASQGRY-EVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNK------------YKDAANLLNDALAI   98 (311)
T ss_dssp             HHHHHHHHTTCH-HHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCH-HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHH
Confidence            333344566777 7999999999995        78888999999999888765            88899999998876


Q ss_pred             --------CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhC--------CCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381          101 --------NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKAD--------SRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus       101 --------nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~d--------prN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                              +|....+|...+.++... +.++++++++++++++.        |....+|...+.+....+.+ ++.++++
T Consensus        99 ~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~  176 (311)
T 3nf1_A           99 REKTLGKDHPAVAATLNNLAVLYGKR-GKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKY-EEVEYYY  176 (311)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCH-HHHHHHH
T ss_pred             HHHHhCCCChHHHHHHHHHHHHHHHc-CcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCH-HHHHHHH
Confidence                    577788999999999877 69999999999999874        66778899999999999988 7899999


Q ss_pred             HHHHHh--------ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHh---------CCCCchhHHHH
Q 005381          165 EDMICN--------NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFT---------DPDDQSGWFYH  227 (699)
Q Consensus       165 ~~~I~~--------n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~---------dP~d~SaW~Y~  227 (699)
                      .++++.        +|....+|...+.++...++            ++++++.+.+++..         +|.....|...
T Consensus       177 ~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~  244 (311)
T 3nf1_A          177 QRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGK------------FKQAETLYKEILTRAHEREFGSVDDENKPIWMHA  244 (311)
T ss_dssp             HHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHHHHHC------CCHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHH
Confidence            999998        78888889999988887754            78888888888864         45555566555


Q ss_pred             HHHHc
Q 005381          228 LWLLD  232 (699)
Q Consensus       228 ~~Ll~  232 (699)
                      ..+..
T Consensus       245 ~~~~~  249 (311)
T 3nf1_A          245 EEREE  249 (311)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.54  E-value=8.4e-07  Score=90.55  Aligned_cols=158  Identities=10%  Similarity=0.055  Sum_probs=131.7

Q ss_pred             hcCCCCcHHHHHHHHHHHHh--------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhC-----
Q 005381           35 HHNHIYSKEAVELSTKLLET--------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQN-----  101 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~--------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~n-----  101 (699)
                      ...|.+ ++|+..+.+++.+        +|....+|+..+.+....+.            +++++..+++++...     
T Consensus        80 ~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~a~~~~~~~~~  146 (311)
T 3nf1_A           80 RDQNKY-KDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGK------------YKEAEPLCKRALEIREKVLG  146 (311)
T ss_dssp             HHTTCH-HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTC------------HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHCCCH-HHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCc------------HHHHHHHHHHHHHHHHHhcC
Confidence            445666 7999999999988        57778888889988888765            889999999999763     


Q ss_pred             ---CCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh--------CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHh
Q 005381          102 ---FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA--------DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICN  170 (699)
Q Consensus       102 ---PKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~--------dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~  170 (699)
                         |....+|...+.++... +.+++++++++++++.        +|....+|...+.+....|.+ ++.++++.++++.
T Consensus       147 ~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~  224 (311)
T 3nf1_A          147 KDHPDVAKQLNNLALLCQNQ-GKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKF-KQAETLYKEILTR  224 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHH
Confidence               77788899999999877 6999999999999998        788888999999999999998 6788888999874


Q ss_pred             -------------------------------------------------ccCchHHHHHHHHHHHHhhhhhccCccchhc
Q 005381          171 -------------------------------------------------NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEK  201 (699)
Q Consensus       171 -------------------------------------------------n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~  201 (699)
                                                                       +|.+..+|...+.++...+.           
T Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~-----------  293 (311)
T 3nf1_A          225 AHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGK-----------  293 (311)
T ss_dssp             HHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTC-----------
T ss_pred             HHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCC-----------
Confidence                                                             45566777777777766644           


Q ss_pred             hHHHHHHHHHHHHHhCCC
Q 005381          202 VLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       202 ~~~eeL~~~~~ai~~dP~  219 (699)
                       ++++++++.+|+.+.|+
T Consensus       294 -~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          294 -FEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             -HHHHHHHHHHHHHHHC-
T ss_pred             -HHHHHHHHHHHHHHhhc
Confidence             79999999999998876

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.53  E-value=7.9e-06  Score=82.78  Aligned_cols=165  Identities=9%  Similarity=-0.022  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC---
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG---  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~---  118 (699)
                      ++|+..+.+++..+  +..+|+..+.++.....        ....+++++.++++++..+  +..+|...+.++...   
T Consensus        59 ~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~--------~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~  126 (273)
T 1ouv_A           59 KKAASFYAKACDLN--YSNGCHLLGNLYYSGQG--------VSQNTNKALQYYSKACDLK--YAEGCASLGGIYHDGKVV  126 (273)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSS--------SCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSS
T ss_pred             HHHHHHHHHHHHCC--CHHHHHHHHHHHhCCCC--------cccCHHHHHHHHHHHHHcC--CccHHHHHHHHHHcCCCc
Confidence            45566666655554  45555555555544100        0122556666666666553  555666666555541   


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHh----cCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAAS----MNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE  194 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~----l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~  194 (699)
                      .+.+++++++++++++.+  +..++.+.+.+...    .+.+ ++.+++++++++.  .+..++...+.++..-.     
T Consensus       127 ~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~-~~A~~~~~~a~~~--~~~~a~~~lg~~~~~g~-----  196 (273)
T 1ouv_A          127 TRDFKKAVEYFTKACDLN--DGDGCTILGSLYDAGRGTPKDL-KKALASYDKACDL--KDSPGCFNAGNMYHHGE-----  196 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCH-HHHHHHHHHHHHT--TCHHHHHHHHHHHHHTC-----
T ss_pred             ccCHHHHHHHHHHHHhcC--cHHHHHHHHHHHHcCCCCCCCH-HHHHHHHHHHHHC--CCHHHHHHHHHHHHcCC-----
Confidence            135566666666666554  44555555555554    4443 4555566666554  23455555555544300     


Q ss_pred             CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          195 GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       195 ~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                         ...+.++++++++.+++..+|  ..+++.+..++..
T Consensus       197 ---~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~  230 (273)
T 1ouv_A          197 ---GATKNFKEALARYSKACELEN--GGGCFNLGAMQYN  230 (273)
T ss_dssp             ---SSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHT
T ss_pred             ---CCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHc
Confidence               001235666666666666654  5556665555544

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.53  E-value=2.9e-08  Score=111.07  Aligned_cols=128  Identities=8%  Similarity=0.008  Sum_probs=106.7

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..+++++..++++++.+|++..+|..++.++.+. +.+++++++++++++++|.+..+|..++.++..++.+ +++++++
T Consensus        20 g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~-~eA~~~~   97 (477)
T 1wao_1           20 KDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRT-ECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-RAALRDY   97 (477)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH-HHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-HHHHHHH
Confidence            4599999999999999999999999999999987 6999999999999999999999999999999999998 7899999


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHH-----------HHHHhCCCCchhH
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVH-----------QAIFTDPDDQSGW  224 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~-----------~ai~~dP~d~SaW  224 (699)
                      +++++.+|.+..+|.+.+.+...+..          +.++++++.+.           +++..+|+...++
T Consensus        98 ~~al~~~p~~~~~~~~l~~~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~~~  158 (477)
T 1wao_1           98 ETVVKVKPHDKDAKMKYQECNKIVKQ----------KAFERAIAGDEHKRSVVDSLDIESMTIEDEYSGPK  158 (477)
T ss_dssp             HHHHHHSTTCTTHHHHHHHHHHHHHH----------HHHCCC------CCSTTTCCTTSSCCCCTTCCSCC
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHHHH----------HHHHHHhccccccchhHhhhhhhhccccccccccc
Confidence            99999999999999998877332211          23677778777           7777777655444

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.53  E-value=6.3e-08  Score=103.17  Aligned_cols=144  Identities=10%  Similarity=-0.014  Sum_probs=91.4

Q ss_pred             HhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh-----------------HHHHHHHHHH
Q 005381           53 ETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY-----------------GAWHHRKWIL  115 (699)
Q Consensus        53 ~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy-----------------~aW~hR~w~L  115 (699)
                      ...++...+|+.++.++...++            +++++..+++++..+|.+.                 .+|..++.++
T Consensus       173 ~~~~~~a~~~~~~g~~~~~~g~------------~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~  240 (338)
T 2if4_A          173 EERIGAADRRKMDGNSLFKEEK------------LEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCSSSC------------CHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCC------------HHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHH
Confidence            3445566778888887776654            8999999999999999987                 4999999999


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                      .+. +.+++++..|+++++++|.|..+|..++.++..++.+ +++++++.++++.+|.|..+|.....+.....      
T Consensus       241 ~~~-g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~-~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~------  312 (338)
T 2if4_A          241 IKL-KRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQM-DSARDDFRKAQKYAPDDKAIRRELRALAEQEK------  312 (338)
T ss_dssp             HTT-TCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH-HHHHHHHHHTTC--------------------------
T ss_pred             HHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH------
Confidence            877 6999999999999999999999999999999999998 68999999999999999999988876644331      


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCc
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQ  221 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~  221 (699)
                           +..+++...+.+++..+|++.
T Consensus       313 -----~~~~~a~~~~~~~l~~~p~~~  333 (338)
T 2if4_A          313 -----ALYQKQKEMYKGIFKGKDEGG  333 (338)
T ss_dssp             --------------------------
T ss_pred             -----HHHHHHHHHHHHhhCCCCCCC
Confidence                 235677788899999888765

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.53  E-value=1.1e-06  Score=87.98  Aligned_cols=166  Identities=13%  Similarity=0.099  Sum_probs=139.0

Q ss_pred             HHHHHHHHHHHHh--------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh--------CCCCh
Q 005381           42 KEAVELSTKLLET--------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ--------NFKSY  105 (699)
Q Consensus        42 ~eaL~~~~~~L~~--------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~--------nPKsy  105 (699)
                      ++|+.++.+++..        +|....+|...+.+....+.            +++++..+++++..        +|...
T Consensus        18 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (283)
T 3edt_B           18 GSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNK------------YKEAAHLLNDALAIREKTLGKDHPAVA   85 (283)
T ss_dssp             SSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHccc------------HHHHHHHHHHHHHHHHHHcCCcchHHH
Confidence            4666666666663        37788999999999988865            89999999999976        57778


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHh--------CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHh-------
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKA--------DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICN-------  170 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~--------dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~-------  170 (699)
                      .+|...+.++... +.++++++++.+++++        +|....+|...+.+....+.+ +++++++.++++.       
T Consensus        86 ~~~~~l~~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~~~~~~~  163 (283)
T 3edt_B           86 ATLNNLAVLYGKR-GKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKA-EEVEYYYRRALEIYATRLGP  163 (283)
T ss_dssp             HHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCH-HHHHHHHHHHHHHHHHHSCT
T ss_pred             HHHHHHHHHHHHh-ccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHHHHHhcCC
Confidence            8999999999876 6999999999999998        688889999999999999998 7899999999998       


Q ss_pred             -ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHh---------CCCCchhHHHHHHHHcC
Q 005381          171 -NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFT---------DPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       171 -n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~---------dP~d~SaW~Y~~~Ll~~  233 (699)
                       +|....+|...+.+....+.            ++++++.+.+++..         +|.....|.....+...
T Consensus       164 ~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  224 (283)
T 3edt_B          164 DDPNVAKTKNNLASCYLKQGK------------YQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREES  224 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhc
Confidence             88888999999998887754            78999999999876         66677777776655544

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.53  E-value=3.5e-07  Score=82.72  Aligned_cols=105  Identities=6%  Similarity=-0.028  Sum_probs=89.8

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      ++...+|...|.++...+.            |++++..++++|..+|++..+|..++.++.+. +.++++++.+++++++
T Consensus         5 ~d~A~a~~~lG~~~~~~~~------------~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~-~~~~~A~~~~~~al~~   71 (127)
T 4gcn_A            5 TDAAIAEKDLGNAAYKQKD------------FEKAHVHYDKAIELDPSNITFYNNKAAVYFEE-KKFAECVQFCEKAVEV   71 (127)
T ss_dssp             HHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHh-hhHHHHHHHHHHHHHh
Confidence            3455677788888877754            99999999999999999999999999999988 6999999999999999


Q ss_pred             CCCChh-------hhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc
Q 005381          136 DSRNFH-------AWNYRRFVAASMNRSEEDELKYTEDMICNNFSN  174 (699)
Q Consensus       136 dprN~h-------aW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN  174 (699)
                      +|.+..       +|...|.+...++.+ +++++++.++++.+|..
T Consensus        72 ~~~~~~~~~~~a~~~~~lg~~~~~~~~~-~~A~~~~~kal~~~~~~  116 (127)
T 4gcn_A           72 GRETRADYKLIAKAMSRAGNAFQKQNDL-SLAVQWFHRSLSEFRDP  116 (127)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSCCH
T ss_pred             CcccchhhHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhhCcCH
Confidence            998864       556667777777887 78999999999988753

>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=98.52  E-value=1.9e-08  Score=103.64  Aligned_cols=112  Identities=27%  Similarity=0.333  Sum_probs=79.5

Q ss_pred             CCCcccCE--EEccCCCCCCCcC-----CccccccceeecccCCCCCCCCC-ccccccccccccccccccCCCCCccccc
Q 005381          552 DKLLWVQM--LDLSHNELRSIEG-----LEALQLLSCLNLSNNILGSFTAL-EPIRQLKSLRALNISYNEIGAHSIDTTK  623 (699)
Q Consensus       552 ~~L~~L~~--LdLS~N~L~~l~~-----l~~L~~L~~L~Ls~N~l~~l~~~-~~l~~l~~L~~L~Ls~N~I~~lp~~~~~  623 (699)
                      ...+.|..  ++++.|....++.     ...+++|+.|+|++|+|+++... ..+..+++|+.|+|++|+|+.+.  .. 
T Consensus       138 ~~dp~L~~~~l~l~~N~~~~~~~~l~i~~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~--~l-  214 (267)
T 3rw6_A          138 RSDPDLVAQNIDVVLNRRSCMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER--EL-  214 (267)
T ss_dssp             GGCHHHHHTTCCCCTTSHHHHHHHHHHHHHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGG--GG-
T ss_pred             CCCcchhhcCccccCCHHHHHHHHHHHHHhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCch--hh-
Confidence            34444554  6677776655443     35678889999999998887321 33457889999999999998762  11 


Q ss_pred             ccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCCC-----CccchHHHhhcCCccccccCccC
Q 005381          624 YLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIV-----NEKFKSFLIKVLPGLKWLDGEQL  698 (699)
Q Consensus       624 ~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l~-----~~~~~~~~~~~l~~L~~LD~~~i  698 (699)
                                                       ..+..++|+.|+|++|++.     .+.++..++..+|+|+.|||.+|
T Consensus       215 ---------------------------------~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~il~~~P~L~~LDg~~v  261 (267)
T 3rw6_A          215 ---------------------------------DKIKGLKLEELWLDGNSLCDTFRDQSTYISAIRERFPKLLRLDGHEL  261 (267)
T ss_dssp             ---------------------------------GGGTTSCCSEEECTTSTTGGGCSSHHHHHHHHHHHCTTCCEESSCBC
T ss_pred             ---------------------------------hhcccCCcceEEccCCcCccccCcchhHHHHHHHHCcccCeECCcCC
Confidence                                             1222236999999999992     23677788899999999999988


Q ss_pred             C
Q 005381          699 H  699 (699)
Q Consensus       699 ~  699 (699)
                      +
T Consensus       262 ~  262 (267)
T 3rw6_A          262 P  262 (267)
T ss_dssp             C
T ss_pred             C
Confidence            5

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.51  E-value=7.6e-07  Score=95.52  Aligned_cols=183  Identities=7%  Similarity=-0.137  Sum_probs=147.5

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCch----HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh
Q 005381           25 RVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELY----TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ  100 (699)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~y----taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~  100 (699)
                      ..+..........|.+ ++|+..+.+++..+|++.    .+|...+.+....+.            +++++..+++++..
T Consensus        49 ~~l~~~g~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~  115 (411)
T 4a1s_A           49 LELALEGERLCNAGDC-RAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGD------------YNKAMQYHKHDLTL  115 (411)
T ss_dssp             HHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcH-HHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHH
Confidence            3444444555677887 799999999999999987    588888988888765            89999999999987


Q ss_pred             ------CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh------CCCChhhhhHHHHHHHhcCC-------------
Q 005381          101 ------NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA------DSRNFHAWNYRRFVAASMNR-------------  155 (699)
Q Consensus       101 ------nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~------dprN~haW~yR~~vl~~l~~-------------  155 (699)
                            +|....+|...+.++... +.++++++++++++++      ++....+|...+.+....+.             
T Consensus       116 ~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~  194 (411)
T 4a1s_A          116 AKSMNDRLGEAKSSGNLGNTLKVM-GRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDD  194 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHH
T ss_pred             HHHccCchHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhh
Confidence                  688889999999999887 6999999999999998      67777899999999998888             


Q ss_pred             ----ChHHHHHHHHHHHHhc------cCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch---
Q 005381          156 ----SEEDELKYTEDMICNN------FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS---  222 (699)
Q Consensus       156 ----~~e~EL~~~~~~I~~n------~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S---  222 (699)
                          + ++.++++.++++..      +....+|...+.++...+.            ++++++++.+++...|....   
T Consensus       195 a~~~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~  261 (411)
T 4a1s_A          195 VKEAL-TRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGD------------FQAAIEHHQERLRIAREFGDRAA  261 (411)
T ss_dssp             HHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             hhHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCC------------hHHHHHHHHHHHHHHHhcCCcHH
Confidence                6 67888888888763      3334577778777776644            79999999999998886555   


Q ss_pred             ---hHHHHHHHHcCc
Q 005381          223 ---GWFYHLWLLDQT  234 (699)
Q Consensus       223 ---aW~Y~~~Ll~~~  234 (699)
                         +|+.+..++...
T Consensus       262 ~~~~~~~la~~~~~~  276 (411)
T 4a1s_A          262 ERRANSNLGNSHIFL  276 (411)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHC
Confidence               666666666543

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.47  E-value=2.1e-06  Score=85.92  Aligned_cols=124  Identities=12%  Similarity=0.083  Sum_probs=108.2

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHh--------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh---
Q 005381           32 LHNHHNHIYSKEAVELSTKLLET--------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ---  100 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~--------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~---  100 (699)
                      ......|.+ ++|+..+.+++.+        +|....+|+..+.++...++            +++++..+++++..   
T Consensus        51 ~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~  117 (283)
T 3edt_B           51 LVYRDQNKY-KEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGK------------YKEAEPLCKRALEIREK  117 (283)
T ss_dssp             HHHHHTTCH-HHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTC------------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcccH-HHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhcc------------HHHHHHHHHHHHHHHHH
Confidence            334566777 7999999999988        47778889999999888765            88999999999987   


Q ss_pred             -----CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh--------CCCChhhhhHHHHHHHhcCCChHHHHHHHHHH
Q 005381          101 -----NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA--------DSRNFHAWNYRRFVAASMNRSEEDELKYTEDM  167 (699)
Q Consensus       101 -----nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~--------dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~  167 (699)
                           +|....+|...+.++... +.++++++++++++++        +|....+|...+.+....|.+ +++++++.++
T Consensus       118 ~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~~  195 (283)
T 3edt_B          118 VLGKFHPDVAKQLNNLALLCQNQ-GKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKY-QDAETLYKEI  195 (283)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHH
T ss_pred             HcCCCChHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCH-HHHHHHHHHH
Confidence                 688899999999999877 6999999999999999        888889999999999999998 6889999999


Q ss_pred             HHh
Q 005381          168 ICN  170 (699)
Q Consensus       168 I~~  170 (699)
                      ++.
T Consensus       196 l~~  198 (283)
T 3edt_B          196 LTR  198 (283)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            986

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.45  E-value=6e-07  Score=96.97  Aligned_cols=117  Identities=14%  Similarity=-0.028  Sum_probs=83.2

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHH----------------hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHH
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLE----------------TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDE   89 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~----------------~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~e   89 (699)
                      .+..........++| ++|++.+.++|.                .+|....+|+.++.++..+++            +++
T Consensus       225 ~~~~~g~~~~~~g~~-~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~------------~~~  291 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNW-EMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSD------------WQG  291 (370)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTC------------HHH
T ss_pred             HHHHHHHHHHHhcCH-HHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccC------------HHH
Confidence            344445555677888 899999999999                666667777777777766644            677


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC
Q 005381           90 ELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS  156 (699)
Q Consensus        90 EL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~  156 (699)
                      ++..++++|..+|++..+|+.++.++... +.++++++.++++++++|.|..+|...+.+...++.+
T Consensus       292 A~~~~~~al~~~p~~~~a~~~lg~~~~~~-g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~  357 (370)
T 1ihg_A          292 AVDSCLEALEIDPSNTKALYRRAQGWQGL-KEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQ  357 (370)
T ss_dssp             HHHHHHHHHTTCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCchhHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Confidence            77777777777777777777777777666 4677777777777777777777777666666555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=5.1e-06  Score=72.03  Aligned_cols=117  Identities=15%  Similarity=0.141  Sum_probs=102.0

Q ss_pred             CCCC-hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHH
Q 005381          101 NFKS-YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWH  179 (699)
Q Consensus       101 nPKs-y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~  179 (699)
                      +|.. ..+|...+.+.... +.+++++++++++++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~   81 (125)
T 1na0_A            4 DPGNSAEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDY-DEAIEYYQKALELDPNNAEAWY   81 (125)
T ss_dssp             ---CHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CccccHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHhCCccHHHHH
Confidence            5555 77898888888876 6999999999999999999999999999999999988 7899999999999999999999


Q ss_pred             HHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          180 NRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       180 ~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                      ..+.++...+.            ++++++.+.+++..+|++..++..+..+.
T Consensus        82 ~la~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  121 (125)
T 1na0_A           82 NLGNAYYKQGD------------YDEAIEYYQKALELDPNNAEAKQNLGNAK  121 (125)
T ss_dssp             HHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC------------HHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            99988877644            79999999999999999999988766554

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.43  E-value=2e-05  Score=79.77  Aligned_cols=159  Identities=11%  Similarity=-0.037  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHh----hhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHh
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQH----KLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSK  117 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~----l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~  117 (699)
                      ++|+.++.+++.  |++..+|+..+.++..    .+            .+++++.++++++..+  +..+|+..+.++..
T Consensus        23 ~~A~~~~~~a~~--~~~~~a~~~lg~~~~~g~~~~~------------~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~   86 (273)
T 1ouv_A           23 TQAKKYFEKACD--LKENSGCFNLGVLYYQGQGVEK------------NLKKAASFYAKACDLN--YSNGCHLLGNLYYS   86 (273)
T ss_dssp             HHHHHHHHHHHH--TTCHHHHHHHHHHHHHTSSSCC------------CHHHHHHHHHHHHHTT--CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCcCC------------CHHHHHHHHHHHHHCC--CHHHHHHHHHHHhC
Confidence            566666666655  5555666666655554    32            2556666666666554  55666666666655


Q ss_pred             ----CCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHh----cCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          118 ----GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAAS----MNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       118 ----~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~----l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                          . ..+++++++++++++.+  +..+|...+.+...    .+.+ ++.++++.++++.+  +..++.+.+.++..-.
T Consensus        87 g~~~~-~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~-~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~  160 (273)
T 1ouv_A           87 GQGVS-QNTNKALQYYSKACDLK--YAEGCASLGGIYHDGKVVTRDF-KKAVEYFTKACDLN--DGDGCTILGSLYDAGR  160 (273)
T ss_dssp             TSSSC-CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCH-HHHHHHHHHHHHTT--CHHHHHHHHHHHHHTS
T ss_pred             CCCcc-cCHHHHHHHHHHHHHcC--CccHHHHHHHHHHcCCCcccCH-HHHHHHHHHHHhcC--cHHHHHHHHHHHHcCC
Confidence                3 35566666666666553  55566666666555    4444 45566666666554  4455555555554410


Q ss_pred             hhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          190 KRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       190 ~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                      ..        .+.++++++++.+++..  ++..+++.+..++.
T Consensus       161 ~~--------~~~~~~A~~~~~~a~~~--~~~~a~~~lg~~~~  193 (273)
T 1ouv_A          161 GT--------PKDLKKALASYDKACDL--KDSPGCFNAGNMYH  193 (273)
T ss_dssp             SS--------CCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHH
T ss_pred             CC--------CCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHH
Confidence            00        01145566666666554  34455555544443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.42  E-value=1.7e-06  Score=91.85  Aligned_cols=176  Identities=9%  Similarity=-0.080  Sum_probs=140.7

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCch----HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh------
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELY----TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ------  100 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~y----taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~------  100 (699)
                      .......|.+ ++|+.++.+++..+|++.    .+|...+.+....+.            +++++..+++++..      
T Consensus        16 g~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~   82 (406)
T 3sf4_A           16 GERLCKSGDC-RAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHD------------YAKALEYHHHDLTLARTIGD   82 (406)
T ss_dssp             HHHHHHTTCH-HHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhccH-HHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHHHHhccc
Confidence            3444567777 799999999999999984    678888888887754            88999999998876      


Q ss_pred             CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh------hhhhHHHHHHHhcCC-------------------
Q 005381          101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF------HAWNYRRFVAASMNR-------------------  155 (699)
Q Consensus       101 nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~------haW~yR~~vl~~l~~-------------------  155 (699)
                      .|....+|...+.++... +.+++++.++++++++.++..      .+|...+.+....|.                   
T Consensus        83 ~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~  161 (406)
T 3sf4_A           83 QLGEAKASGNLGNTLKVL-GNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRD  161 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHH
Confidence            456678899999999877 699999999999999887763      488889999888888                   


Q ss_pred             -ChHHHHHHHHHHHHh------ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch------
Q 005381          156 -SEEDELKYTEDMICN------NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS------  222 (699)
Q Consensus       156 -~~e~EL~~~~~~I~~------n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S------  222 (699)
                       + ++.++++.++++.      .+....+|...+.+....+.            ++++++++.+++...|....      
T Consensus       162 ~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~  228 (406)
T 3sf4_A          162 AL-QAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGN------------FRDAVIAHEQRLLIAKEFGDKAAERR  228 (406)
T ss_dssp             HH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTB------------HHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HH-HHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccC------------HHHHHHHHHHHHHHHHhcCCcHHHHH
Confidence             5 6788888888886      44455678888887776644            79999999999988776655      


Q ss_pred             hHHHHHHHHcC
Q 005381          223 GWFYHLWLLDQ  233 (699)
Q Consensus       223 aW~Y~~~Ll~~  233 (699)
                      +|+.+..++..
T Consensus       229 ~~~~la~~~~~  239 (406)
T 3sf4_A          229 AYSNLGNAYIF  239 (406)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666666544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.41  E-value=2.7e-05  Score=80.29  Aligned_cols=167  Identities=15%  Similarity=0.073  Sum_probs=126.1

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchH-----HHH-HHHHHHHhhhccCCCCchhhhhhHHHHHHHHHH
Q 005381           23 KLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYT-----AWN-YRKLAVQHKLTENDSDPDSLKSILDEELRVVES   96 (699)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~yt-----aWn-~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~   96 (699)
                      ....+..........+.| ++|++.+.+++...|....     .|. +.+.+....            ..+++++..+++
T Consensus        74 ~~~~l~~~~~~~~~~~~y-~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~A~~~~~~  140 (293)
T 2qfc_A           74 RKKQFKDQVIMLCKQKRY-KEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKK------------VDYEYCILELKK  140 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTS------------SCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhH-HHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcC------------CCHHHHHHHHHH
Confidence            334555566666778888 8999999999999887542     222 233333333            248999999999


Q ss_pred             HHHhCCCC------hHHHHHHHHHHHhCCCChHHHHHHHHHHH---HhCCCCh----hhhhHHHHHHHhcCCChHHHHHH
Q 005381           97 ALRQNFKS------YGAWHHRKWILSKGHSSIDNELRLLDKFQ---KADSRNF----HAWNYRRFVAASMNRSEEDELKY  163 (699)
Q Consensus        97 ~L~~nPKs------y~aW~hR~w~L~~~~~~~~~EL~~~~k~L---~~dprN~----haW~yR~~vl~~l~~~~e~EL~~  163 (699)
                      ++...++.      ..+|+..+.+.... +.++++++++++++   +..+.+.    .++...+.+....+.+ ++++++
T Consensus       141 al~~~~~~~~~~~~~~~~~~lg~~y~~~-~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y-~~Al~~  218 (293)
T 2qfc_A          141 LLNQQLTGIDVYQNLYIENAIANIYAEN-GYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRY-EESLYQ  218 (293)
T ss_dssp             HHTTCCCSSCTTHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCH-HHHHHH
T ss_pred             HHHHHhcCCchHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhH-HHHHHH
Confidence            99877666      56888999999887 69999999999999   5555543    6899999999999999 789999


Q ss_pred             HHHHHHhccCc------hHHHHHHHHHHHHhhhhhccCccchhchHHHH-HHHHHHHHHh
Q 005381          164 TEDMICNNFSN------YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDE-YEFVHQAIFT  216 (699)
Q Consensus       164 ~~~~I~~n~sN------~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~ee-L~~~~~ai~~  216 (699)
                      ++++++..+..      ..++.+.+.+...++.            ++++ .+++++|+.+
T Consensus       219 ~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~------------~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          219 VNKAIEISCRINSMALIGQLYYQRGECLRKLEY------------EEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTC------------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCC------------cHHHHHHHHHHHHHH
Confidence            99999876431      5678888888877754            5667 5667777644

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.39  E-value=5e-06  Score=88.96  Aligned_cols=173  Identities=11%  Similarity=-0.036  Sum_probs=138.1

Q ss_pred             HhcCCCCcHHHHHHHHHHHHh---CC---CchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---
Q 005381           34 NHHNHIYSKEAVELSTKLLET---NP---ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---  104 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~---nP---~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---  104 (699)
                      ....|.+ ++|+..+.+++.+   .|   ....+|+..+.+...++.            +++++..+++++...++.   
T Consensus       113 ~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          113 ELDQREY-LSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQ------------TYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHTTCH-HHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHhcCH-HHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHhCccc
Confidence            4567777 8999999999998   33   356888889998888865            899999999999875554   


Q ss_pred             ----hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh------hhhhHHHHHHHhcCCChHHHHHHHHHHHH-----
Q 005381          105 ----YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF------HAWNYRRFVAASMNRSEEDELKYTEDMIC-----  169 (699)
Q Consensus       105 ----y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~------haW~yR~~vl~~l~~~~e~EL~~~~~~I~-----  169 (699)
                          ..++...+.+.... +.++++++.+++++++.++.-      .++...+++....|.+ +++++++.++++     
T Consensus       180 ~~~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~-~~A~~~~~~al~~~~~~  257 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDL-KQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQY-EDAIPYFKRAIAVFEES  257 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHhh
Confidence                34777888888877 699999999999999876654      4899999999999998 789999999999     


Q ss_pred             hc-cCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhC-----CCCchhHHHHHHHHcC
Q 005381          170 NN-FSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTD-----PDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       170 ~n-~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~d-----P~d~SaW~Y~~~Ll~~  233 (699)
                      .+ |....++...+.+...++.            ++++++++.+|+...     |.....+..+..+...
T Consensus       258 ~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~  315 (383)
T 3ulq_A          258 NILPSLPQAYFLITQIHYKLGK------------IDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLS  315 (383)
T ss_dssp             TCGGGHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTS
T ss_pred             ccchhHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Confidence            56 8888899999998887754            789999999999874     4444444444444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.38  E-value=6.6e-07  Score=92.67  Aligned_cols=185  Identities=8%  Similarity=-0.013  Sum_probs=147.3

Q ss_pred             HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHH-------HHHHHhhhccCC----------CCc----
Q 005381           22 EKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYR-------KLAVQHKLTEND----------SDP----   80 (699)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R-------~~~l~~l~~~~~----------~~~----   80 (699)
                      +.++..++...-. ..+.+ .+|++.+.+++.++|+...+|..|       +.+|..+.+..+          ..|    
T Consensus         5 ~~~~~~~~~~~~~-~~~d~-~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~   82 (282)
T 4f3v_A            5 DRLASLFESAVSM-LPMSE-ARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLN   82 (282)
T ss_dssp             HHHHHHHHHHHHH-TTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGC
T ss_pred             HHHHHHHHHHhcc-cCCCH-HHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhh
Confidence            4556666555543 34555 799999999999999999999999       788877765311          011    


Q ss_pred             ---h--------------------------hhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           81 ---D--------------------------SLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDK  131 (699)
Q Consensus        81 ---~--------------------------~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k  131 (699)
                         .                          .....|+++.+.++.++..+|... +++-++-+..+. .+|++++.++++
T Consensus        83 a~~~~~g~y~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~-~~~~~a~l~~~~-~r~~dA~~~l~~  160 (282)
T 4f3v_A           83 ARIAIGGLYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHL-VAWMKAVVYGAA-ERWTDVIDQVKS  160 (282)
T ss_dssp             CEEECCTTTCCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHH-HHHHHHHHHHHT-TCHHHHHHHHTT
T ss_pred             hhhccCCcccccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchH-HHHHHHHHHHHc-CCHHHHHHHHHH
Confidence               0                          012568999999999999999888 888899888877 699999999998


Q ss_pred             HHHhCCCC---hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc--cC-chHHHHHHHHHHHHhhhhhccCccchhchHHH
Q 005381          132 FQKADSRN---FHAWNYRRFVAASMNRSEEDELKYTEDMICNN--FS-NYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPD  205 (699)
Q Consensus       132 ~L~~dprN---~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n--~s-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~e  205 (699)
                      +.... .+   ..++.+.+.++..+|.+ ++.++++++++...  |. .-.++.+++.++..+++            .++
T Consensus       161 a~~~~-d~~~~~~a~~~LG~al~~LG~~-~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr------------~de  226 (282)
T 4f3v_A          161 AGKWP-DKFLAGAAGVAHGVAAANLALF-TEAERRLTEANDSPAGEACARAIAWYLAMARRSQGN------------ESA  226 (282)
T ss_dssp             GGGCS-CHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTC------------HHH
T ss_pred             hhccC-CcccHHHHHHHHHHHHHHCCCH-HHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCC------------HHH
Confidence            76643 33   24899999999999998 78999999998654  66 55699999999999976            699


Q ss_pred             HHHHHHHHHHhCCCCchhHH
Q 005381          206 EYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       206 eL~~~~~ai~~dP~d~SaW~  225 (699)
                      +.+.+++++..+|+ ..+|.
T Consensus       227 A~~~l~~a~a~~P~-~~~~~  245 (282)
T 4f3v_A          227 AVALLEWLQTTHPE-PKVAA  245 (282)
T ss_dssp             HHHHHHHHHHHSCC-HHHHH
T ss_pred             HHHHHHHHHhcCCc-HHHHH
Confidence            99999999999999 76664

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.36  E-value=6.3e-07  Score=79.24  Aligned_cols=100  Identities=12%  Similarity=0.054  Sum_probs=69.9

Q ss_pred             CCCcHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Q 005381           38 HIYSKEAVELSTKLLET---NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWI  114 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~---nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~  114 (699)
                      |.+ ++|+..+.++|.+   +|++..+|...+.++...++            +++++..+++++..+|++..+|...+.+
T Consensus         4 g~~-~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~l~~~   70 (117)
T 3k9i_A            4 GLE-AQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGE------------YRKAEAVLANGVKQFPNHQALRVFYAMV   70 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CcH-HHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            344 4677777777777   47777777777777776654            7777777777777777777777777777


Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH
Q 005381          115 LSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA  151 (699)
Q Consensus       115 L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~  151 (699)
                      +.+. +.++++++.++++++.+|.+.....|++-+..
T Consensus        71 ~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~~~ai~~  106 (117)
T 3k9i_A           71 LYNL-GRYEQGVELLLKIIAETSDDETIQSYKQAILF  106 (117)
T ss_dssp             HHHH-TCHHHHHHHHHHHHHHHCCCHHHHHTHHHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            7766 47777777777777777777766666554433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.36  E-value=4.3e-07  Score=80.30  Aligned_cols=98  Identities=10%  Similarity=-0.001  Sum_probs=56.4

Q ss_pred             ChHHHHHHHHHHHHh---CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          121 SIDNELRLLDKFQKA---DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~---dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                      .+++++.++++++++   +|.+..+|...+.+....+.+ ++.++++.++++.+|.+..+|.+.+.++..+++       
T Consensus         5 ~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~-------   76 (117)
T 3k9i_A            5 LEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEY-RKAEAVLANGVKQFPNHQALRVFYAMVLYNLGR-------   76 (117)
T ss_dssp             --CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC-------
T ss_pred             cHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCC-------
Confidence            345555566666665   455556666666665555555 455555566666666666666666655555533       


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                           ++++++.+.+++..+|++.....|.+-+.
T Consensus        77 -----~~~A~~~~~~al~~~p~~~~~~~~~~ai~  105 (117)
T 3k9i_A           77 -----YEQGVELLLKIIAETSDDETIQSYKQAIL  105 (117)
T ss_dssp             -----HHHHHHHHHHHHHHHCCCHHHHHTHHHHH
T ss_pred             -----HHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence                 55666666666666666666666555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.34  E-value=1.3e-05  Score=70.77  Aligned_cols=104  Identities=11%  Similarity=-0.012  Sum_probs=76.2

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCch---HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---hHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELY---TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---YGA  107 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~y---taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---y~a  107 (699)
                      ....|.+ ++|+..+.+++..+|++.   .+|...+.+....++            +++++..+++++..+|++   ..+
T Consensus        12 ~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~------------~~~A~~~~~~~~~~~p~~~~~~~~   78 (129)
T 2xev_A           12 ALKNGKY-DDASQLFLSFLELYPNGVYTPNALYWLGESYYATRN------------FQLAEAQFRDLVSRYPTHDKAAGG   78 (129)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTSTTHHHH
T ss_pred             HHHhCCH-HHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhcc------------HHHHHHHHHHHHHHCCCCcccHHH
Confidence            3455666 677888888888888777   677777777776654            777888888888888877   777


Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH
Q 005381          108 WHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA  151 (699)
Q Consensus       108 W~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~  151 (699)
                      |...+.++... +.+++++..++++++.+|.+..++.-+..+-.
T Consensus        79 ~~~la~~~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~  121 (129)
T 2xev_A           79 LLKLGLSQYGE-GKNTEAQQTLQQVATQYPGSDAARVAQERLQS  121 (129)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHCCCChHHHHHHHHHHH
Confidence            77777777766 57778888888888888877777666555443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.34  E-value=3.9e-06  Score=85.87  Aligned_cols=176  Identities=9%  Similarity=-0.094  Sum_probs=135.5

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCc----hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh------
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPEL----YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ------  100 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~----ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~------  100 (699)
                      .......|.+ ++|+..+.+++..+|++    ..+|...+.+....+.            +++++..+++++..      
T Consensus        12 g~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~   78 (338)
T 3ro2_A           12 GERLCKSGDC-RAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHD------------YAKALEYHHHDLTLARTIGD   78 (338)
T ss_dssp             HHHHHHTTCH-HHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhccH-HHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHhhcccc
Confidence            3445567777 79999999999999998    4677788888877754            88889999888876      


Q ss_pred             CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChh------hhhHHHHHHHhcCC-------------------
Q 005381          101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH------AWNYRRFVAASMNR-------------------  155 (699)
Q Consensus       101 nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~h------aW~yR~~vl~~l~~-------------------  155 (699)
                      .|....+|...+.+.... +.++++++.+++++++.++...      +|...+.+....+.                   
T Consensus        79 ~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~  157 (338)
T 3ro2_A           79 QLGEAKASGNLGNTLKVL-GNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRN  157 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHH
Confidence            566678888899988877 6999999999999998776544      88888888888887                   


Q ss_pred             -ChHHHHHHHHHHHHh------ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch------
Q 005381          156 -SEEDELKYTEDMICN------NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS------  222 (699)
Q Consensus       156 -~~e~EL~~~~~~I~~------n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S------  222 (699)
                       + ++.++++.++++.      .+....+|...+.+....+.            ++++++.+.+++...|....      
T Consensus       158 ~~-~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~~~  224 (338)
T 3ro2_A          158 AL-QAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGN------------FRDAVIAHEQRLLIAKEFGDKAAERR  224 (338)
T ss_dssp             HH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HH-HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCC------------HHHHHHHHHHHHHHHHhcCChHHHHH
Confidence             5 6788888888775      33344567777777666543            78899999999887765444      


Q ss_pred             hHHHHHHHHcC
Q 005381          223 GWFYHLWLLDQ  233 (699)
Q Consensus       223 aW~Y~~~Ll~~  233 (699)
                      +|..+..++..
T Consensus       225 ~~~~l~~~~~~  235 (338)
T 3ro2_A          225 AYSNLGNAYIF  235 (338)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            56665555544

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.33  E-value=3.8e-06  Score=90.67  Aligned_cols=118  Identities=8%  Similarity=-0.110  Sum_probs=106.3

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH----------------hCCCChHHHHHHHHHHHhCCCCh
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR----------------QNFKSYGAWHHRKWILSKGHSSI  122 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~----------------~nPKsy~aW~hR~w~L~~~~~~~  122 (699)
                      ..+|..++..+...++            +++++..++++++                .+|.+..+|..+++++.+. +.+
T Consensus       223 a~~~~~~g~~~~~~g~------------~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~-g~~  289 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQN------------WEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKM-SDW  289 (370)
T ss_dssp             HHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHT-TCH
T ss_pred             HHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhc-cCH
Confidence            4567778877777654            8999999999998                8899999999999999987 699


Q ss_pred             HHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          123 DNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       123 ~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      ++++++|+++++++|.+..+|..++.++..++.+ +++++++.++++.+|.|..+|.....+...+..
T Consensus       290 ~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~  356 (370)
T 1ihg_A          290 QGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEY-DQALADLKKAQEIAPEDKAIQAELLKVKQKIKA  356 (370)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999998 789999999999999999999999888777644

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.33  E-value=4.3e-06  Score=87.14  Aligned_cols=163  Identities=7%  Similarity=-0.027  Sum_probs=124.3

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCc------hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPEL------YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---  104 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~------ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---  104 (699)
                      .+..+.+ ++|++.+.+++.+.++.      ..+++..+.++..+++            +++++..+++++...++.   
T Consensus        46 ~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~------------~~~A~~~~~~Al~l~~~~g~~  112 (307)
T 2ifu_A           46 FKNAKQL-EQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQR------------MPEAVQYIEKASVMYVENGTP  112 (307)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC------------GGGGHHHHHHHHHHHHTTTCH
T ss_pred             HHHcCCH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC------------HHHHHHHHHHHHHHHHHcCCH
Confidence            3455666 79999999999987643      4567777777777654            788888888888774432   


Q ss_pred             ---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          105 ---YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       105 ---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                         ..+|...+.++..  +.++++++++++++++.+..      ..++...+.+...++.+ ++++++++++++..+.+.
T Consensus       113 ~~~a~~~~~lg~~~~~--g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~~~~~  189 (307)
T 2ifu_A          113 DTAAMALDRAGKLMEP--LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKF-DEAAASLQKEKSMYKEME  189 (307)
T ss_dssp             HHHHHHHHHHHHHHTT--TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHHHHHcC
Confidence               3577777888865  69999999999999988765      46788889999999999 789999999999877654


Q ss_pred             H------HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          176 S------AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       176 S------AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      .      +|..++.+...++            .+++++.++.+++ .+|.......
T Consensus       190 ~~~~~~~~~~~~g~~~~~~g------------~~~~A~~~~~~al-~~p~~~~~~e  232 (307)
T 2ifu_A          190 NYPTCYKKCIAQVLVQLHRA------------DYVAAQKCVRESY-SIPGFSGSED  232 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHTT------------CHHHHHHHHHHHT-TSTTSTTSHH
T ss_pred             ChhHHHHHHHHHHHHHHHcC------------CHHHHHHHHHHHh-CCCCCCCCHH
Confidence            3      3444444433332            3799999999999 9998776543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.32  E-value=6.8e-06  Score=72.04  Aligned_cols=118  Identities=8%  Similarity=-0.020  Sum_probs=101.9

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      |+...+|...+.+....+.            +++++..+++++..+|.+..+|...+.++... +.+++++.+++++++.
T Consensus         1 ~~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~   67 (131)
T 1elr_A            1 GKQALKEKELGNDAYKKKD------------FDTALKHYDKAKELDPTNMTYITNQAAVYFEK-GDYNKCRELCEKAIEV   67 (131)
T ss_dssp             CHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh-ccHHHHHHHHHHHHhh
Confidence            3456678888887777654            89999999999999999999999999999876 5999999999999999


Q ss_pred             CCCC-------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          136 DSRN-------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       136 dprN-------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      +|.+       ..+|...+.+....+.+ ++.++++.++++.+| +..++.....+...+
T Consensus        68 ~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  125 (131)
T 1elr_A           68 GRENREDYRQIAKAYARIGNSYFKEEKY-KDAIHFYNKSLAEHR-TPDVLKKCQQAEKIL  125 (131)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             ccccchhHHHHHHHHHHHHHHHHHhccH-HHHHHHHHHHHHhCC-CHHHHHHHHHHHHHH
Confidence            9988       88999999999999988 789999999999998 677777776665554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.28  E-value=1.4e-05  Score=70.77  Aligned_cols=109  Identities=6%  Similarity=-0.114  Sum_probs=95.4

Q ss_pred             HHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh---HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC
Q 005381           62 WNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY---GAWHHRKWILSKGHSSIDNELRLLDKFQKADSR  138 (699)
Q Consensus        62 Wn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy---~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr  138 (699)
                      +..++.+....+.            +++++..++.++..+|.+.   .+|...+.+.... +.+++++..++++++.+|.
T Consensus         5 ~~~~a~~~~~~~~------------~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~-~~~~~A~~~~~~~~~~~p~   71 (129)
T 2xev_A            5 AYNVAFDALKNGK------------YDDASQLFLSFLELYPNGVYTPNALYWLGESYYAT-RNFQLAEAQFRDLVSRYPT   71 (129)
T ss_dssp             HHHHHHHHHHTTC------------HHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhCC------------HHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHHCCC
Confidence            4556666665543            9999999999999999999   7999999999887 6999999999999999999


Q ss_pred             C---hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHH
Q 005381          139 N---FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       139 N---~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~l  184 (699)
                      +   ..+|...+.+....|.+ ++.+++++++++.+|.+..++.-+..+
T Consensus        72 ~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~~~~~~p~~~~~~~a~~~l  119 (129)
T 2xev_A           72 HDKAAGGLLKLGLSQYGEGKN-TEAQQTLQQVATQYPGSDAARVAQERL  119 (129)
T ss_dssp             STTHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTSHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            9   88899999999999998 789999999999999998887666554

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.28  E-value=1.6e-05  Score=82.02  Aligned_cols=165  Identities=12%  Similarity=-0.002  Sum_probs=122.7

Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchH----HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC
Q 005381           28 QSQFLHNHHNHIYSKEAVELSTKLLETNPELYT----AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK  103 (699)
Q Consensus        28 ~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~yt----aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK  103 (699)
                      ...+......++| ++|+.++.+++...+....    +..+..........          ..+++++..+++++...++
T Consensus        79 ~~~i~~~~~~~~y-~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~Ai~~~~~al~~~~~  147 (293)
T 3u3w_A           79 KDQVIMLCKQKRY-KEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKK----------VDYEYCILELKKLLNQQLT  147 (293)
T ss_dssp             HHHHHHHHHTTCH-HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTS----------SCHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHhhH-HHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcc----------cCHHHHHHHHHHHHHHhcc
Confidence            3344455667888 8999999999998877655    32333222222221          3489999999999997655


Q ss_pred             ChH------HHHHHHHHHHhCCCChHHHHHHHHHHHHh-------CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHh
Q 005381          104 SYG------AWHHRKWILSKGHSSIDNELRLLDKFQKA-------DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICN  170 (699)
Q Consensus       104 sy~------aW~hR~w~L~~~~~~~~~EL~~~~k~L~~-------dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~  170 (699)
                      ...      +++.-+.+.... +.+++++++++++++.       .+....++.+.+.+...++.+ ++++++++++++.
T Consensus       148 ~~~~~~~~~~~~~lg~~y~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y-~~A~~~~~~al~~  225 (293)
T 3u3w_A          148 GIDVYQNLYIENAIANIYAEN-GYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRY-EESLYQVNKAIEI  225 (293)
T ss_dssp             CSCTTHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHH-HHHHHHHHHHHHH
Confidence            443      677888888777 6999999999999952       223345889999999999999 7899999999998


Q ss_pred             ccCc------hHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHh
Q 005381          171 NFSN------YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFT  216 (699)
Q Consensus       171 n~sN------~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~  216 (699)
                      .+..      ..+|.+++.+...++.           .++++++++++|+.+
T Consensus       226 ~~~~~~~~~~~~~~~~lg~~~~~~g~-----------~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          226 SCRINSMALIGQLYYQRGECLRKLEY-----------EEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHTTBCTTHHHHHHHHHHHHHHTTC-----------CHHHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHHHHHHHhCC-----------cHHHHHHHHHHHHHH
Confidence            7554      5688999988887753           258889999988864

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.25  E-value=3.7e-08  Score=106.65  Aligned_cols=132  Identities=17%  Similarity=0.173  Sum_probs=64.3

Q ss_pred             EEccCCCCCccc---CCCCCcccCEEEccCCCCCCCcC--C-----ccccccceeecccCCCCCCC---CCccccccccc
Q 005381          538 LQLKNLSLSRLG---SFDKLLWVQMLDLSHNELRSIEG--L-----EALQLLSCLNLSNNILGSFT---ALEPIRQLKSL  604 (699)
Q Consensus       538 L~Ls~n~l~~l~---~l~~L~~L~~LdLS~N~L~~l~~--l-----~~L~~L~~L~Ls~N~l~~l~---~~~~l~~l~~L  604 (699)
                      |+|++|.++..+   ....+.+|+.|+|++|.|+....  +     ...++|+.|+|++|.|+...   ....+..+++|
T Consensus       106 L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L  185 (372)
T 3un9_A          106 VNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSV  185 (372)
T ss_dssp             EECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSC
T ss_pred             EEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCc
Confidence            666666665322   22234556666666666644322  1     23455666666666664311   01122445566


Q ss_pred             cccccccccCCCCCcc-cccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          605 RALNISYNEIGAHSID-TTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       605 ~~L~Ls~N~I~~lp~~-~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      +.|+|++|.|+..... ....+...+-+..+++++|.+...      ....+...+... +|+.|+|++|+|.
T Consensus       186 ~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~------g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          186 THLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDT------AALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             CEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHH------HHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             CEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHH------HHHHHHHHHHhCCCCCEEeccCCCCC
Confidence            6666666666543210 011122222233335555544211      111223345555 7889999999884

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.22  E-value=1.4e-05  Score=70.03  Aligned_cols=116  Identities=14%  Similarity=-0.038  Sum_probs=99.3

Q ss_pred             CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc-------h
Q 005381          103 KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN-------Y  175 (699)
Q Consensus       103 Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN-------~  175 (699)
                      +...+|...+.+.... +.+++++.+++++++.+|.+..+|...+.+....+.+ ++.++++.++++.+|.+       .
T Consensus         2 ~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~   79 (131)
T 1elr_A            2 KQALKEKELGNDAYKK-KDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDY-NKCRELCEKAIEVGRENREDYRQIA   79 (131)
T ss_dssp             HHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccH-HHHHHHHHHHHhhccccchhHHHHH
Confidence            3456788888888776 6999999999999999999999999999999999998 78999999999999987       7


Q ss_pred             HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          176 SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       176 SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      .+|...+.++..++.            ++++++++.+++..+| +...+.....+...
T Consensus        80 ~~~~~la~~~~~~~~------------~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  124 (131)
T 1elr_A           80 KAYARIGNSYFKEEK------------YKDAIHFYNKSLAEHR-TPDVLKKCQQAEKI  124 (131)
T ss_dssp             HHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc------------HHHHHHHHHHHHHhCC-CHHHHHHHHHHHHH
Confidence            888888888776644            7999999999999999 67777776665543

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.17  E-value=4.3e-08  Score=106.13  Aligned_cols=150  Identities=14%  Similarity=0.098  Sum_probs=98.8

Q ss_pred             EEccCCCCCccc------CCC-CCcccCEEEccCCCCCCCc--C-CccccccceeecccCCCCCCCCCccc-----cccc
Q 005381          538 LQLKNLSLSRLG------SFD-KLLWVQMLDLSHNELRSIE--G-LEALQLLSCLNLSNNILGSFTALEPI-----RQLK  602 (699)
Q Consensus       538 L~Ls~n~l~~l~------~l~-~L~~L~~LdLS~N~L~~l~--~-l~~L~~L~~L~Ls~N~l~~l~~~~~l-----~~l~  602 (699)
                      |+|++|.++..+      .+. ...+|+.|+|++|.|+...  . ...+.+|+.|+|++|.|+... ...+     ...+
T Consensus        77 L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~-~~~L~~~L~~~~~  155 (372)
T 3un9_A           77 LNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEA-CKDLRDLLLHDQC  155 (372)
T ss_dssp             EECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHH-HHHHHHHHHSTTC
T ss_pred             EEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHH-HHHHHHHHHhcCC
Confidence            999999998543      222 3379999999999996532  2 456788999999999997531 1222     2357


Q ss_pred             cccccccccccCCCCCccc-ccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccc-
Q 005381          603 SLRALNISYNEIGAHSIDT-TKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKF-  679 (699)
Q Consensus       603 ~L~~L~Ls~N~I~~lp~~~-~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~-  679 (699)
                      +|+.|+|++|.|+...... ...+...+-+..+++++|.+...      ....+...+... +|+.|+|++|.|..... 
T Consensus       156 ~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~------g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~  229 (372)
T 3un9_A          156 QITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDE------GLELLAAQLDRNRQLQELNVAYNGAGDTAAL  229 (372)
T ss_dssp             CCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHH------HHHHHHHHGGGCSCCCEEECCSSCCCHHHHH
T ss_pred             ccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcH------HHHHHHHHHhcCCCcCeEECCCCCCCHHHHH
Confidence            8999999999997643111 12223334445557888876321      122334567777 99999999999943222 


Q ss_pred             -hHHHhhcCCcccccc
Q 005381          680 -KSFLIKVLPGLKWLD  694 (699)
Q Consensus       680 -~~~~~~~l~~L~~LD  694 (699)
                       ....+...++|+.||
T Consensus       230 ~l~~~L~~~~~L~~L~  245 (372)
T 3un9_A          230 ALARAAREHPSLELLH  245 (372)
T ss_dssp             HHHHHHHHCSSCCEEE
T ss_pred             HHHHHHHhCCCCCEEe
Confidence             122344568888776

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.16  E-value=4.3e-06  Score=89.60  Aligned_cols=171  Identities=9%  Similarity=-0.089  Sum_probs=135.3

Q ss_pred             cCCCCcHHHHHHHHHHHHh------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh------CCC
Q 005381           36 HNHIYSKEAVELSTKLLET------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ------NFK  103 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~------nPK  103 (699)
                      ..|++ ++|+..+.+++.+      .|....+|...+.++...+.            +++++..+++++..      .|.
T Consensus        98 ~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~  164 (411)
T 4a1s_A           98 YLGDY-NKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGR------------FDEAAICCERHLTLARQLGDRLS  164 (411)
T ss_dssp             HHTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HCCCH-HHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHHHHHhhchHH
Confidence            45666 7999999999998      78888999999999988865            88999999999987      667


Q ss_pred             ChHHHHHHHHHHHhCCCC-----------------hHHHHHHHHHHHHhC------CCChhhhhHHHHHHHhcCCChHHH
Q 005381          104 SYGAWHHRKWILSKGHSS-----------------IDNELRLLDKFQKAD------SRNFHAWNYRRFVAASMNRSEEDE  160 (699)
Q Consensus       104 sy~aW~hR~w~L~~~~~~-----------------~~~EL~~~~k~L~~d------prN~haW~yR~~vl~~l~~~~e~E  160 (699)
                      ...+|...+.++... +.                 ++++++++.+++++.      +....+|...+.+....+.+ ++.
T Consensus       165 ~~~~~~~l~~~~~~~-g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A  242 (411)
T 4a1s_A          165 EGRALYNLGNVYHAK-GKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDF-QAA  242 (411)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH-HHH
T ss_pred             HHHHHHHHHHHHHHc-CcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCh-HHH
Confidence            777899999888866 47                 889999999988864      33345888889999999988 689


Q ss_pred             HHHHHHHHHhccCchH------HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC------chhHHHHH
Q 005381          161 LKYTEDMICNNFSNYS------AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD------QSGWFYHL  228 (699)
Q Consensus       161 L~~~~~~I~~n~sN~S------AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d------~SaW~Y~~  228 (699)
                      ++++.++++..+.+..      +|.+.+.++...+.            ++++++.+++++...|..      ..+|..+.
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  310 (411)
T 4a1s_A          243 IEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQ------------FEDAAEHYKRTLALAVELGEREVEAQSCYSLG  310 (411)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTC------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcC------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999998876555      77777777766543            788888888888887754      44555555


Q ss_pred             HHHcC
Q 005381          229 WLLDQ  233 (699)
Q Consensus       229 ~Ll~~  233 (699)
                      .++..
T Consensus       311 ~~~~~  315 (411)
T 4a1s_A          311 NTYTL  315 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.16  E-value=1.2e-05  Score=70.41  Aligned_cols=98  Identities=13%  Similarity=0.036  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381           89 EELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus        89 eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      +++..+++++..+|.+..+|...+.++... +.++++++.++++++.+|.+..+|.+.+.+....|.+ +++++++.+++
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEH-EQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDR-AGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCH-HHHHHHHHHHH
Confidence            567899999999999999999999999887 6999999999999999999999999999999999998 68999999999


Q ss_pred             HhccCch--HHHHHHHHHHHHh
Q 005381          169 CNNFSNY--SAWHNRSLLLSNL  188 (699)
Q Consensus       169 ~~n~sN~--SAW~~R~~ll~~l  188 (699)
                      +.+|.+.  .+......++..+
T Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l  102 (115)
T 2kat_A           81 AAAQSRGDQQVVKELQVFLRRL  102 (115)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhccccccHHHHHHHHHHHHHh
Confidence            9988654  4444444444444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.13  E-value=1e-05  Score=70.83  Aligned_cols=87  Identities=11%  Similarity=-0.021  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCCh
Q 005381           43 EAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSI  122 (699)
Q Consensus        43 eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~  122 (699)
                      +|++.+.+++..+|++..+|+..+.++...++            +++++..+++++..+|.+..+|...+.++... +.+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-g~~   69 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQ------------FDAALPHLRAALDFDPTYSVAWKWLGKTLQGQ-GDR   69 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccC------------HHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHc-CCH
Confidence            68899999999999999999999999988865            89999999999999999999999999999887 699


Q ss_pred             HHHHHHHHHHHHhCCCChhh
Q 005381          123 DNELRLLDKFQKADSRNFHA  142 (699)
Q Consensus       123 ~~EL~~~~k~L~~dprN~ha  142 (699)
                      ++++..++++++++|.+...
T Consensus        70 ~~A~~~~~~al~~~~~~~~~   89 (115)
T 2kat_A           70 AGARQAWESGLAAAQSRGDQ   89 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHhccccccH
Confidence            99999999999999865443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.12  E-value=6.3e-06  Score=87.44  Aligned_cols=172  Identities=10%  Similarity=-0.029  Sum_probs=134.6

Q ss_pred             HhcCCCCcHHHHHHHHHHHHh------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---
Q 005381           34 NHHNHIYSKEAVELSTKLLET------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---  104 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---  104 (699)
                      ....|++ ++|+..+.+++.+      .|....+|...+.+....+.            +++++..+++++...|+.   
T Consensus        57 ~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~  123 (406)
T 3sf4_A           57 YFYLHDY-AKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGN------------FDEAIVCCQRHLDISRELNDK  123 (406)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHhcCH-HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHhcccc
Confidence            3456676 7999999999888      56667888899998888765            899999999999887765   


Q ss_pred             ---hHHHHHHHHHHHhCCCC--------------------hHHHHHHHHHHHHh------CCCChhhhhHHHHHHHhcCC
Q 005381          105 ---YGAWHHRKWILSKGHSS--------------------IDNELRLLDKFQKA------DSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus       105 ---y~aW~hR~w~L~~~~~~--------------------~~~EL~~~~k~L~~------dprN~haW~yR~~vl~~l~~  155 (699)
                         ..+|...+.+.... +.                    ++++++.+++++++      .+....+|...+.+....|.
T Consensus       124 ~~~~~~~~~l~~~~~~~-g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  202 (406)
T 3sf4_A          124 VGEARALYNLGNVYHAK-GKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGN  202 (406)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTB
T ss_pred             cchHHHHHHHHHHHHHc-CCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccC
Confidence               44888888888765 46                    89999999999887      44445688888999999998


Q ss_pred             ChHHHHHHHHHHHHhccCchH------HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC------chh
Q 005381          156 SEEDELKYTEDMICNNFSNYS------AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD------QSG  223 (699)
Q Consensus       156 ~~e~EL~~~~~~I~~n~sN~S------AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d------~Sa  223 (699)
                      + ++.++++.++++..+....      +|...+.++...+.            ++++++.+.+++...|..      ..+
T Consensus       203 ~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~  269 (406)
T 3sf4_A          203 F-RDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE------------FETASEYYKKTLLLARQLKDRAVEAQS  269 (406)
T ss_dssp             H-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             H-HHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC------------hHHHHHHHHHHHHHHHhCcCchHHHHH
Confidence            8 6899999999998766554      77888877776644            789999999999887765      334


Q ss_pred             HHHHHHHHc
Q 005381          224 WFYHLWLLD  232 (699)
Q Consensus       224 W~Y~~~Ll~  232 (699)
                      |..+..++.
T Consensus       270 ~~~la~~~~  278 (406)
T 3sf4_A          270 CYSLGNTYT  278 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.05  E-value=1.7e-05  Score=81.09  Aligned_cols=173  Identities=10%  Similarity=-0.025  Sum_probs=130.9

Q ss_pred             HhcCCCCcHHHHHHHHHHHHh------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH-
Q 005381           34 NHHNHIYSKEAVELSTKLLET------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG-  106 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~-  106 (699)
                      ....|++ ++|+..+.+++.+      .|....+|...+.+....+.            +++++..+++++...|+... 
T Consensus        53 ~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~  119 (338)
T 3ro2_A           53 YFYLHDY-AKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGN------------FDEAIVCCQRHLDISRELNDK  119 (338)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHcCCH-HHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccC------------HHHHHHHHHHHHHHHHHhcCc
Confidence            4456666 7999999999888      66667888888888887765            89999999999987766533 


Q ss_pred             -----HHHHHHHHHHhCCCC--------------------hHHHHHHHHHHHHh------CCCChhhhhHHHHHHHhcCC
Q 005381          107 -----AWHHRKWILSKGHSS--------------------IDNELRLLDKFQKA------DSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus       107 -----aW~hR~w~L~~~~~~--------------------~~~EL~~~~k~L~~------dprN~haW~yR~~vl~~l~~  155 (699)
                           +|...+.+.... +.                    ++++++.+++++++      .+....+|...+.+....+.
T Consensus       120 ~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  198 (338)
T 3ro2_A          120 VGEARALYNLGNVYHAK-GKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGN  198 (338)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHc-CcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCC
Confidence                 788888887765 45                    88999999998876      34445678888888888888


Q ss_pred             ChHHHHHHHHHHHHhccCchH------HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC------chh
Q 005381          156 SEEDELKYTEDMICNNFSNYS------AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD------QSG  223 (699)
Q Consensus       156 ~~e~EL~~~~~~I~~n~sN~S------AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d------~Sa  223 (699)
                      + ++.++++.++++..+....      +|...+.++...+.            ++++++.+.+++...|..      ..+
T Consensus       199 ~-~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (338)
T 3ro2_A          199 F-RDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE------------FETASEYYKKTLLLARQLKDRAVEAQS  265 (338)
T ss_dssp             H-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             H-HHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHhhcchhHHHHH
Confidence            8 6789999999988766544      77777777766644            788888888888877765      334


Q ss_pred             HHHHHHHHcC
Q 005381          224 WFYHLWLLDQ  233 (699)
Q Consensus       224 W~Y~~~Ll~~  233 (699)
                      +..+..++..
T Consensus       266 ~~~la~~~~~  275 (338)
T 3ro2_A          266 CYSLGNTYTL  275 (338)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444433

>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=98.04  E-value=8.4e-07  Score=101.05  Aligned_cols=72  Identities=13%  Similarity=0.104  Sum_probs=41.8

Q ss_pred             EEccCCCCCccc------CCCCCcccCEEEccCCCCCCC-----cC-CccccccceeecccCCCCCCCCCcccccccccc
Q 005381          538 LQLKNLSLSRLG------SFDKLLWVQMLDLSHNELRSI-----EG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLR  605 (699)
Q Consensus       538 L~Ls~n~l~~l~------~l~~L~~L~~LdLS~N~L~~l-----~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~  605 (699)
                      |+|++|.++..+      .+..+++|+.|++++|.++.+     +. +..+++|+.|++++|.+.++  +..+..+++|+
T Consensus       169 L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l--~~~~~~~~~L~  246 (592)
T 3ogk_B          169 LLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILEL--VGFFKAAANLE  246 (592)
T ss_dssp             EECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGG--HHHHHHCTTCC
T ss_pred             EECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHH--HHHHhhhhHHH
Confidence            666666554221      234556677777777766522     22 45566677777777666554  34455666666


Q ss_pred             cccccc
Q 005381          606 ALNISY  611 (699)
Q Consensus       606 ~L~Ls~  611 (699)
                      .|+++.
T Consensus       247 ~L~l~~  252 (592)
T 3ogk_B          247 EFCGGS  252 (592)
T ss_dssp             EEEECB
T ss_pred             hhcccc
Confidence            666654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.02  E-value=0.00012  Score=78.20  Aligned_cols=159  Identities=9%  Similarity=-0.106  Sum_probs=128.1

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhC------CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---
Q 005381           34 NHHNHIYSKEAVELSTKLLETN------PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---  104 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~n------P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---  104 (699)
                      ....|++ ++|+..+.+++.+.      |....+++..+.+...++.            +.+++..+++++...++.   
T Consensus       111 ~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~------------~~~A~~~~~~al~~~~~~~~~  177 (378)
T 3q15_A          111 EFDQKEY-VEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQ------------THVSMYHILQALDIYQNHPLY  177 (378)
T ss_dssp             HHHTTCH-HHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHTSTTC
T ss_pred             HHHHCCH-HHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCC------------cHHHHHHHHHHHHHHHhCCCc
Confidence            3467777 89999999999873      2345677778888887765            899999999999865542   


Q ss_pred             ----hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC------ChhhhhHHHHHHHhcCCChHHHHHHHHHHHH-----
Q 005381          105 ----YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR------NFHAWNYRRFVAASMNRSEEDELKYTEDMIC-----  169 (699)
Q Consensus       105 ----y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr------N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~-----  169 (699)
                          ..++...+.+.... +.++++++.+++++++.++      -..++...+++....|.+ +++++++.++++     
T Consensus       178 ~~~~~~~~~~lg~~y~~~-~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~-~~A~~~~~~al~~~~~~  255 (378)
T 3q15_A          178 SIRTIQSLFVIAGNYDDF-KHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDD-QMAVEHFQKAAKVSREK  255 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHhh
Confidence                34677778888777 6999999999999986432      235778889999999998 789999999999     


Q ss_pred             hccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCC
Q 005381          170 NNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       170 ~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~  219 (699)
                      .+|....++...+.+...++.            ++++++++++|+...+.
T Consensus       256 ~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~  293 (378)
T 3q15_A          256 VPDLLPKVLFGLSWTLCKAGQ------------TQKAFQFIEEGLDHITA  293 (378)
T ss_dssp             CGGGHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCCT
T ss_pred             CChhHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHHHHH
Confidence            888888899999988887754            79999999999998654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.94  E-value=7.5e-05  Score=61.42  Aligned_cols=82  Identities=18%  Similarity=0.124  Sum_probs=53.2

Q ss_pred             chHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCC
Q 005381           58 LYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADS  137 (699)
Q Consensus        58 ~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dp  137 (699)
                      ...+|...+.+....++            +++++..+++++..+|.+..+|...+.++.+. +.++++++.++++++++|
T Consensus         8 ~~~~~~~la~~~~~~~~------------~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~p   74 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGD------------YDEAIEYYQKALELDPNNAEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDP   74 (91)
T ss_dssp             HHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCT
T ss_pred             cHHHHHHHHHHHHHccC------------HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH-hhHHHHHHHHHHHHhcCC
Confidence            44566666666555543            66677777777777777777777666666655 466677777777777777


Q ss_pred             CChhhhhHHHHHHHh
Q 005381          138 RNFHAWNYRRFVAAS  152 (699)
Q Consensus       138 rN~haW~yR~~vl~~  152 (699)
                      .+..+|...+.+...
T Consensus        75 ~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           75 NNAEAKQNLGNAKQK   89 (91)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh
Confidence            766666666655543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.91  E-value=6.1e-05  Score=64.39  Aligned_cols=83  Identities=5%  Similarity=0.007  Sum_probs=46.2

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR  138 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr  138 (699)
                      ..+|..++.+....++            +++++..+++++..+|++..+|..++.++... +.++++++.++++++++|.
T Consensus         4 ~~~~~~~g~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~   70 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGL------------YREAVHCYDQLITAQPQNPVGYSNKAMALIKL-GEYTQAIQMCQQGLRYTST   70 (111)
T ss_dssp             HHHHHHHHHHHHTTTC------------HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTSCSS
T ss_pred             HHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCCC
Confidence            3455555555554433            55666666666666666666666666655554 3556666666666666665


Q ss_pred             C------hhhhhHHHHHHHhcC
Q 005381          139 N------FHAWNYRRFVAASMN  154 (699)
Q Consensus       139 N------~haW~yR~~vl~~l~  154 (699)
                      +      ..++..++.+...++
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~   92 (111)
T 2l6j_A           71 AEHVAIRSKLQYRLELAQGAVG   92 (111)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHH
Confidence            5      444554454444443

>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=97.89  E-value=9.2e-06  Score=92.39  Aligned_cols=108  Identities=13%  Similarity=0.062  Sum_probs=53.7

Q ss_pred             CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchh
Q 005381          573 LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSY  652 (699)
Q Consensus       573 l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~  652 (699)
                      +..+++|+.|+++++....+  +..+..+++|+.|+|++|.++...+  ...+..++.+..+.+. +.         ...
T Consensus       266 l~~~~~L~~L~l~~~~~~~l--~~~~~~~~~L~~L~Ls~~~l~~~~~--~~~~~~~~~L~~L~L~-~~---------~~~  331 (592)
T 3ogk_B          266 LVFPRKLCRLGLSYMGPNEM--PILFPFAAQIRKLDLLYALLETEDH--CTLIQKCPNLEVLETR-NV---------IGD  331 (592)
T ss_dssp             CCCCTTCCEEEETTCCTTTG--GGGGGGGGGCCEEEETTCCCCHHHH--HHHHTTCTTCCEEEEE-GG---------GHH
T ss_pred             hhccccccccCccccchhHH--HHHHhhcCCCcEEecCCCcCCHHHH--HHHHHhCcCCCEEecc-Cc---------cCH
Confidence            34444455555544433322  3445567778888888777644321  1111222222222222 11         111


Q ss_pred             hhhhccCCCC-CccEEEecC-----------CCCCCccchHHHhhcCCccccccC
Q 005381          653 WEAYFILKGL-NLTQFDIVG-----------NAIVNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       653 ~~~p~~l~~L-~L~~LdLs~-----------N~l~~~~~~~~~~~~l~~L~~LD~  695 (699)
                      ...+..+..+ +|+.|+|++           |.+....+ ..+...+++|+.|+-
T Consensus       332 ~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~-~~l~~~~~~L~~L~l  385 (592)
T 3ogk_B          332 RGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGL-IALAQGCQELEYMAV  385 (592)
T ss_dssp             HHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHH-HHHHHHCTTCSEEEE
T ss_pred             HHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHH-HHHHhhCccCeEEEe
Confidence            2233444566 899999993           55542223 234556888888863

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.86  E-value=6.7e-05  Score=80.06  Aligned_cols=149  Identities=7%  Similarity=-0.019  Sum_probs=119.9

Q ss_pred             HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh------CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           61 AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ------NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        61 aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~------nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      .|.+++.+....+.            +++++..+++++..      .+....+|+..+++.... +.++++++++.++++
T Consensus       105 ~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~-~~~~~A~~~~~~al~  171 (383)
T 3ulq_A          105 FNFFRGMYELDQRE------------YLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYM-KQTYFSMDYARQAYE  171 (383)
T ss_dssp             HHHHHHHHHHHTTC------------HHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC------------HHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHH
Confidence            45558887777654            99999999999986      233557889999999887 699999999999999


Q ss_pred             hCCCC-------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch------HHHHHHHHHHHHhhhhhccCccchhc
Q 005381          135 ADSRN-------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY------SAWHNRSLLLSNLLKRKVEGFVSKEK  201 (699)
Q Consensus       135 ~dprN-------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~------SAW~~R~~ll~~l~~~~~~~~~~~~~  201 (699)
                      +.++.       ..++...+.+...+|.+ +++++++.++++..+...      .++++.+.+...++.           
T Consensus       172 ~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~-----------  239 (383)
T 3ulq_A          172 IYKEHEAYNIRLLQCHSLFATNFLDLKQY-EDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQ-----------  239 (383)
T ss_dssp             HHHTCSTTHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-----------
T ss_pred             HHHhCccchHHHHHHHHHHHHHHHHhcCH-HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCC-----------
Confidence            85544       35888889999999998 789999999999866544      488888888877654           


Q ss_pred             hHHHHHHHHHHHHH-----hC-CCCchhHHHHHHHHcCcC
Q 005381          202 VLPDEYEFVHQAIF-----TD-PDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       202 ~~~eeL~~~~~ai~-----~d-P~d~SaW~Y~~~Ll~~~~  235 (699)
                       ++++++++.+|+.     .+ |....+++.+..++....
T Consensus       240 -~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g  278 (383)
T 3ulq_A          240 -YEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLG  278 (383)
T ss_dssp             -HHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTT
T ss_pred             -HHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCC
Confidence             8999999999998     56 777778888777775543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.84  E-value=5e-05  Score=65.12  Aligned_cols=70  Identities=10%  Similarity=0.010  Sum_probs=32.8

Q ss_pred             CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc
Q 005381          101 NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNF  172 (699)
Q Consensus       101 nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~  172 (699)
                      +|++..+|...+.++... +.++++++.++++++++|.+..+|.+.+.+...+|.+ +++++++.++++..+
T Consensus         3 ~p~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-~~A~~~~~~al~l~~   72 (100)
T 3ma5_A            3 DPEDPFTRYALAQEHLKH-DNASRALALFEELVETDPDYVGTYYHLGKLYERLDRT-DDAIDTYAQGIEVAR   72 (100)
T ss_dssp             --CCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhhhh
Confidence            444444554444444443 3444555555555555555555555555444444444 344444444444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.83  E-value=9.8e-05  Score=60.69  Aligned_cols=83  Identities=17%  Similarity=0.149  Sum_probs=75.2

Q ss_pred             CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHH
Q 005381          103 KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRS  182 (699)
Q Consensus       103 Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~  182 (699)
                      .+..+|...+.++... +.+++++.+++++++.+|.+..+|...+.+....+.+ +++++++.++++.+|.+..+|..++
T Consensus         7 ~~~~~~~~la~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~a~~~~p~~~~~~~~l~   84 (91)
T 1na3_A            7 NSAEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDY-DEAIEYYQKALELDPNNAEAKQNLG   84 (91)
T ss_dssp             HHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHc-cCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhH-HHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            4567888888888876 6999999999999999999999999999999999998 7899999999999999999999988


Q ss_pred             HHHHH
Q 005381          183 LLLSN  187 (699)
Q Consensus       183 ~ll~~  187 (699)
                      .++..
T Consensus        85 ~~~~~   89 (91)
T 1na3_A           85 NAKQK   89 (91)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            87654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.82  E-value=0.0001  Score=62.95  Aligned_cols=85  Identities=7%  Similarity=0.034  Sum_probs=75.6

Q ss_pred             ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc------hHH
Q 005381          104 SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN------YSA  177 (699)
Q Consensus       104 sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN------~SA  177 (699)
                      +..+|..++.++... +.++++++.++++++++|.+..+|..++.+...++.+ ++.+++++++++.+|.+      ..+
T Consensus         3 ~~~~~~~~g~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQ-GLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEY-TQAIQMCQQGLRYTSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTSCSSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCH-HHHHHHHHHHHHhCCCccHHHHHHHH
Confidence            457899999998876 6999999999999999999999999999999999998 78999999999999999      777


Q ss_pred             HHHHHHHHHHhhh
Q 005381          178 WHNRSLLLSNLLK  190 (699)
Q Consensus       178 W~~R~~ll~~l~~  190 (699)
                      +..++.+...++.
T Consensus        81 ~~~~~~~~~~~~~   93 (111)
T 2l6j_A           81 QYRLELAQGAVGS   93 (111)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777766653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.82  E-value=3e-05  Score=65.55  Aligned_cols=81  Identities=16%  Similarity=0.068  Sum_probs=43.4

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchH-HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYT-AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~yt-aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      .|++ ++|+..+.+++..+|++.. +|..++.++...+.            +++++..+++++..+|++..+|.+     
T Consensus        13 ~~~~-~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~~-----   74 (99)
T 2kc7_A           13 QGDI-ENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGD------------WQKALNNYQSAIELNPDSPALQAR-----   74 (99)
T ss_dssp             HTCH-HHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTSTHHHHH-----
T ss_pred             cCCH-HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhcCCCcHHHHHH-----
Confidence            3444 4556666666666666555 55555555555543            555556666666666655555533     


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCC
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                          ..+.+.+.++++++..+|.+
T Consensus        75 ----~~~~~a~~~~~~~~~~~p~~   94 (99)
T 2kc7_A           75 ----KMVMDILNFYNKDMYNQLEH   94 (99)
T ss_dssp             ----HHHHHHHHHHCCTTHHHHCC
T ss_pred             ----HHHHHHHHHHHHHhccCccc
Confidence                12344455555555554443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.81  E-value=0.00028  Score=69.18  Aligned_cols=162  Identities=9%  Similarity=-0.075  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC--
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH--  119 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~--  119 (699)
                      .+|+..+.++...  .+..+++.-+.++...+            ++++++.++++++..  .+..+++.-+.++....  
T Consensus         3 ~eA~~~~~~aa~~--g~~~a~~~lg~~~~~~~------------~~~~A~~~~~~a~~~--g~~~a~~~lg~~y~~~g~~   66 (212)
T 3rjv_A            3 TEPGSQYQQQAEA--GDRRAQYYLADTWVSSG------------DYQKAEYWAQKAAAQ--GDGDALALLAQLKIRNPQQ   66 (212)
T ss_dssp             -CTTHHHHHHHHT--TCHHHHHHHHHHHHHHT------------CHHHHHHHHHHHHHT--TCHHHHHHHHHHTTSSTTS
T ss_pred             chHHHHHHHHHHC--CCHHHHHHHHHHHhcCC------------CHHHHHHHHHHHHHc--CCHHHHHHHHHHHHcCCCC
Confidence            3455555555543  45555555555554432            255666666665543  34555555555554310  


Q ss_pred             CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHh----cCCChHHHHHHHHHHHHhccC--chHHHHHHHHHHHHhhhhhc
Q 005381          120 SSIDNELRLLDKFQKADSRNFHAWNYRRFVAAS----MNRSEEDELKYTEDMICNNFS--NYSAWHNRSLLLSNLLKRKV  193 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~----l~~~~e~EL~~~~~~I~~n~s--N~SAW~~R~~ll~~l~~~~~  193 (699)
                      .+++++++++.++++  +.+..|+..-+.+...    .+.+ ++.++++.++++..++  +..|+++.+.++..-.    
T Consensus        67 ~~~~~A~~~~~~A~~--~g~~~a~~~Lg~~y~~g~g~~~d~-~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~----  139 (212)
T 3rjv_A           67 ADYPQARQLAEKAVE--AGSKSGEIVLARVLVNRQAGATDV-AHAITLLQDAARDSESDAAVDAQMLLGLIYASGV----  139 (212)
T ss_dssp             CCHHHHHHHHHHHHH--TTCHHHHHHHHHHHTCGGGSSCCH-HHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTS----
T ss_pred             CCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCCccCH-HHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCC----
Confidence            145566666666533  3455555555555443    2222 4556666666665553  3555555555543310    


Q ss_pred             cCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005381          194 EGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLL  231 (699)
Q Consensus       194 ~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll  231 (699)
                          ...+.++++++++.+|+.. |++..+++.+..++
T Consensus       140 ----g~~~d~~~A~~~~~~A~~~-~~~~~a~~~Lg~~y  172 (212)
T 3rjv_A          140 ----HGPEDDVKASEYFKGSSSL-SRTGYAEYWAGMMF  172 (212)
T ss_dssp             ----SSSCCHHHHHHHHHHHHHT-SCTTHHHHHHHHHH
T ss_pred             ----CCCCCHHHHHHHHHHHHHc-CCCHHHHHHHHHHH
Confidence                0012245566666666655 55555555555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.80  E-value=6.4e-05  Score=64.40  Aligned_cols=54  Identities=9%  Similarity=0.107  Sum_probs=36.1

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      +.+++++..++++++.+|++..+|..++.++... +.++++++.++++++++|++
T Consensus        21 g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~-g~~~~A~~~~~~al~l~~~~   74 (100)
T 3ma5_A           21 DNASRALALFEELVETDPDYVGTYYHLGKLYERL-DRTDDAIDTYAQGIEVAREE   74 (100)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhhhcC
Confidence            4566677777777777777777777777666665 46667777777776665543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.79  E-value=4e-05  Score=64.75  Aligned_cols=90  Identities=13%  Similarity=0.163  Sum_probs=66.2

Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCCChh-hhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          111 RKWILSKGHSSIDNELRLLDKFQKADSRNFH-AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       111 R~w~L~~~~~~~~~EL~~~~k~L~~dprN~h-aW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      ++.++... +.++++++.++++++.+|.+.. +|..++.+....+.+ ++++++++++++.+|.+..+|.+.        
T Consensus         6 ~a~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~~--------   75 (99)
T 2kc7_A            6 TIKELINQ-GDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDW-QKALNNYQSAIELNPDSPALQARK--------   75 (99)
T ss_dssp             HHHHHHHH-TCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCTTSTHHHHHH--------
T ss_pred             HHHHHHHc-CCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhcCCCcHHHHHHH--------
Confidence            33344333 4788888888888888888888 888888888888877 678888888888888888887551        


Q ss_pred             hhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          190 KRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       190 ~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                                  .+.+.++++.+++..+|++.+
T Consensus        76 ------------~~~~a~~~~~~~~~~~p~~~~   96 (99)
T 2kc7_A           76 ------------MVMDILNFYNKDMYNQLEHHH   96 (99)
T ss_dssp             ------------HHHHHHHHHCCTTHHHHCCSS
T ss_pred             ------------HHHHHHHHHHHHhccCccccc
Confidence                        146777777777777776643

>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=97.79  E-value=2e-05  Score=83.17  Aligned_cols=78  Identities=17%  Similarity=0.278  Sum_probs=68.3

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--Cccccccc-eeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLS-CLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~-~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      ++|++|.++.|+  .|.++.+|+.|+|++| +..|+.  |.++.+|+ .+++.+ .++.+. ...|..|++|+.|+++.|
T Consensus       231 l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~-~~aF~~c~~L~~l~l~~n  307 (329)
T 3sb4_A          231 LDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIE-FGAFMGCDNLRYVLATGD  307 (329)
T ss_dssp             EECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEEC-TTTTTTCTTEEEEEECSS
T ss_pred             EECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEc-hhhhhCCccCCEEEeCCC
Confidence            999999999887  7999999999999998 888887  99999999 999988 777763 377899999999999999


Q ss_pred             cCCCCC
Q 005381          613 EIGAHS  618 (699)
Q Consensus       613 ~I~~lp  618 (699)
                      .|+.++
T Consensus       308 ~i~~I~  313 (329)
T 3sb4_A          308 KITTLG  313 (329)
T ss_dssp             CCCEEC
T ss_pred             ccCccc
Confidence            998885

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.73  E-value=0.0006  Score=69.98  Aligned_cols=137  Identities=12%  Similarity=-0.022  Sum_probs=102.4

Q ss_pred             hhHHHHHHHHHHHHHhCCCChH-----HHHHH-HHHHHhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHh
Q 005381           85 SILDEELRVVESALRQNFKSYG-----AWHHR-KWILSKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAAS  152 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~-----aW~hR-~w~L~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~  152 (699)
                      ..++++++.++.++...|+...     .|++. +.+.... +.+++++++++++++..+++      ..+|+..+.+...
T Consensus        89 ~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~  167 (293)
T 2qfc_A           89 KRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKK-VDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAE  167 (293)
T ss_dssp             TCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTS-SCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHH
Confidence            3489999999999998887543     33333 3333333 68999999999999877655      5588889999999


Q ss_pred             cCCChHHHHHHHHHHH---HhccCch----HHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC-----
Q 005381          153 MNRSEEDELKYTEDMI---CNNFSNY----SAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD-----  220 (699)
Q Consensus       153 l~~~~e~EL~~~~~~I---~~n~sN~----SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d-----  220 (699)
                      .+.+ +++++++.+++   +..+.+.    .++++.+.++..++.            ++++++++.+|+...+..     
T Consensus       168 ~~~~-~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~------------y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          168 NGYL-KKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSR------------YEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             TTCH-HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             cCCH-HHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhh------------HHHHHHHHHHHHHHHHhcCcHHH
Confidence            9998 78999999999   4455533    688888888877754            899999999999876431     


Q ss_pred             -chhHHHHHHHHcCcC
Q 005381          221 -QSGWFYHLWLLDQTV  235 (699)
Q Consensus       221 -~SaW~Y~~~Ll~~~~  235 (699)
                       ..+++....+.....
T Consensus       235 ~~~~~~~lg~~y~~~g  250 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLE  250 (293)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcC
Confidence             455666666655443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=97.72  E-value=0.00041  Score=71.95  Aligned_cols=143  Identities=10%  Similarity=0.016  Sum_probs=108.9

Q ss_pred             CCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC------hHHHHHH
Q 005381           38 HIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS------YGAWHHR  111 (699)
Q Consensus        38 ~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs------y~aW~hR  111 (699)
                      +.+ ++|+.++.++.              .++...+            .+++++..+.+++...++.      ..++...
T Consensus        30 ~~~-~~A~~~~~~a~--------------~~~~~~g------------~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~l   82 (307)
T 2ifu_A           30 PDY-DSAASEYAKAA--------------VAFKNAK------------QLEQAKDAYLQEAEAHANNRSLFHAAKAFEQA   82 (307)
T ss_dssp             CCH-HHHHHHHHHHH--------------HHHHHTT------------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCH-HHHHHHHHHHH--------------HHHHHcC------------CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            443 78888888763              2333443            3899999999999877654      4467777


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc------hHHHH
Q 005381          112 KWILSKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN------YSAWH  179 (699)
Q Consensus       112 ~w~L~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN------~SAW~  179 (699)
                      +.++... +.++++++++++++++.+..      ..+|...+.+... +.+ ++.++++.++++..+..      ..++.
T Consensus        83 g~~~~~~-g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~-~~A~~~~~~Al~~~~~~~~~~~~~~~~~  159 (307)
T 2ifu_A           83 GMMLKDL-QRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDL-SKAVHLYQQAAAVFENEERLRQAAELIG  159 (307)
T ss_dssp             HHHHHHT-TCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhC-CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCH-HHHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            7777776 68999999999999986432      3577778888887 877 78999999999988754      35677


Q ss_pred             HHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          180 NRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       180 ~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                      ..+.++..+++            ++++++.+.+++.+.|++..
T Consensus       160 ~lg~~~~~~g~------------~~~A~~~~~~al~~~~~~~~  190 (307)
T 2ifu_A          160 KASRLLVRQQK------------FDEAAASLQKEKSMYKEMEN  190 (307)
T ss_dssp             HHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCC------------HHHHHHHHHHHHHHHHHcCC
Confidence            77777776644            89999999999999886653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.72  E-value=0.00027  Score=67.16  Aligned_cols=160  Identities=13%  Similarity=-0.025  Sum_probs=114.3

Q ss_pred             CCCCcHHHHHHHHHHHHhCC-CchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH------hCCCChHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNP-ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR------QNFKSYGAWH  109 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP-~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~------~nPKsy~aW~  109 (699)
                      .|.+ ++|.+....+. -+| ....+|+..+.+....++            +++++..+++++.      ..|....+|.
T Consensus         5 ~g~~-~~A~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~   70 (203)
T 3gw4_A            5 AHDY-ALAERQAQALL-AHPATASGARFMLGYVYAFMDR------------FDEARASFQALQQQAQKSGDHTAEHRALH   70 (203)
T ss_dssp             --CH-HHHHHHHHHHH-TSTTTHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             cccH-HHHHHHHHHhc-CChHHHHHHHHHHHHHHHHhCc------------HHHHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            4555 56666443333 355 677889999988887765            8999999999998      5666778888


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHh---CC----CChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC--ch----H
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKA---DS----RNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFS--NY----S  176 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~---dp----rN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s--N~----S  176 (699)
                      ..+++.... +.++++++++.+++++   .+    ....++...+.+....|.+ ++.++++.++++....  +.    .
T Consensus        71 ~l~~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~  148 (203)
T 3gw4_A           71 QVGMVERMA-GNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDL-AGARQEYEKSLVYAQQADDQVAIAC  148 (203)
T ss_dssp             HHHHHHHHT-TCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHc-CCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHHHHhccchHHHHH
Confidence            899999877 6999999999999998   33    2346678889998889988 6788999999876432  22    1


Q ss_pred             HHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhH
Q 005381          177 AWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGW  224 (699)
Q Consensus       177 AW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW  224 (699)
                      ++...+.+....+.            ++++++++.+++.+.......|
T Consensus       149 ~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~  184 (203)
T 3gw4_A          149 AFRGLGDLAQQEKN------------LLEAQQHWLRARDIFAELEDSE  184 (203)
T ss_dssp             HHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHCcC------------HHHHHHHHHHHHHHHHHcCCHH
Confidence            23455555544433            7889999998887655443333

>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=97.65  E-value=7.1e-06  Score=93.29  Aligned_cols=19  Identities=5%  Similarity=0.102  Sum_probs=11.5

Q ss_pred             HHHHhcccccccCCCCCcc
Q 005381          480 EVLELYNDLMRLDPTHVQY  498 (699)
Q Consensus       480 ~~l~~l~~L~~LDls~n~~  498 (699)
                      ..+..++.|+.|+++.+..
T Consensus        60 ~~~~~~~~L~~L~L~~~~~   78 (594)
T 2p1m_B           60 TVIRRFPKVRSVELKGKPH   78 (594)
T ss_dssp             HHHHHCTTCCEEEEECSCG
T ss_pred             HHHhhCCCceEEeccCCCc
Confidence            4455666666666666543

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.65  E-value=4e-05  Score=83.62  Aligned_cols=118  Identities=10%  Similarity=0.104  Sum_probs=66.5

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCC-----CCCCCccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILG-----SFTALEPIRQLKSLRALN  608 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~-----~l~~~~~l~~l~~L~~L~  608 (699)
                      +.+..+ ++.|+  .|.+ .+|+.+.| .|.++.++.  |.++++|+.+.+.+|.+.     .+. ...|..|++|+.+.
T Consensus       231 l~l~~~-l~~I~~~aF~~-~~L~~i~l-p~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~-~~aF~~c~~L~~l~  306 (401)
T 4fdw_A          231 IEIPEN-VSTIGQEAFRE-SGITTVKL-PNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIH-PYCLEGCPKLARFE  306 (401)
T ss_dssp             EECCTT-CCEECTTTTTT-CCCSEEEE-ETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEEC-TTTTTTCTTCCEEC
T ss_pred             EecCCC-ccCcccccccc-CCccEEEe-CCCccEEChhHhhCCCCCCEEEeCCccccCCcccEEC-HHHhhCCccCCeEE
Confidence            555543 45444  4444 56666666 344666655  777777777777777654     232 25577777777777


Q ss_pred             cccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCC
Q 005381          609 ISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAI  674 (699)
Q Consensus       609 Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l  674 (699)
                      |. |.+..++...+.....   +..+.+..| +..+          ...+|.+++|+.|++++|.+
T Consensus       307 l~-~~i~~I~~~aF~~c~~---L~~l~lp~~-l~~I----------~~~aF~~~~L~~l~l~~n~~  357 (401)
T 4fdw_A          307 IP-ESIRILGQGLLGGNRK---VTQLTIPAN-VTQI----------NFSAFNNTGIKEVKVEGTTP  357 (401)
T ss_dssp             CC-TTCCEECTTTTTTCCS---CCEEEECTT-CCEE----------CTTSSSSSCCCEEEECCSSC
T ss_pred             eC-CceEEEhhhhhcCCCC---ccEEEECcc-ccEE----------cHHhCCCCCCCEEEEcCCCC
Confidence            77 4466664322222111   222222222 1111          12466666899999998877

>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=97.57  E-value=3.4e-05  Score=79.31  Aligned_cols=61  Identities=31%  Similarity=0.348  Sum_probs=30.4

Q ss_pred             CcccCEEEccCCCCCCCcC----CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          554 LLWVQMLDLSHNELRSIEG----LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       554 L~~L~~LdLS~N~L~~l~~----l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      +++|+.|+||+|+|+.+++    +..+++|+.|+|++|+|+++..+..+..+ +|+.|+|++|++.
T Consensus       169 l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~l~~l~~l-~L~~L~L~~Npl~  233 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGL-KLEELWLDGNSLC  233 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTS-CCSEEECTTSTTG
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccC-CcceEEccCCcCc
Confidence            4445555555555544432    33555555555555555554222223323 5555566555554

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.56  E-value=1.2e-05  Score=78.00  Aligned_cols=104  Identities=17%  Similarity=0.236  Sum_probs=74.7

Q ss_pred             EEccCC-CCCccc------CCCCCcccCEEEccCCCCCC-----CcC-CccccccceeecccCCCCCCC---CCcccccc
Q 005381          538 LQLKNL-SLSRLG------SFDKLLWVQMLDLSHNELRS-----IEG-LEALQLLSCLNLSNNILGSFT---ALEPIRQL  601 (699)
Q Consensus       538 L~Ls~n-~l~~l~------~l~~L~~L~~LdLS~N~L~~-----l~~-l~~L~~L~~L~Ls~N~l~~l~---~~~~l~~l  601 (699)
                      |+|++| .+..-+      .+...++|++|+|++|.|+.     +.. +...+.|+.|+|++|.|+...   ....+...
T Consensus        41 L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l~~~L~~n  120 (185)
T 1io0_A           41 VNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSN  120 (185)
T ss_dssp             EECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGC
T ss_pred             EEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHHHHHHHhC
Confidence            999998 887422      56677899999999999965     222 556678999999999987521   01345667


Q ss_pred             cccccccc--ccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          602 KSLRALNI--SYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       602 ~~L~~L~L--s~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      ++|+.|+|  ++|.|+...   ..                              .+...+... +|+.|+|++|.|
T Consensus       121 ~~L~~L~L~~~~N~i~~~g---~~------------------------------~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          121 TSLIELRIDNQSQPLGNNV---EM------------------------------EIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             SSCCEEECCCCSSCCCHHH---HH------------------------------HHHHHHHHCSSCCEEECCCSSH
T ss_pred             CCceEEEecCCCCCCCHHH---HH------------------------------HHHHHHHhCCCcCEEeccCCCC
Confidence            78999999  889887642   10                              111244445 899999999999

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.52  E-value=0.0001  Score=80.37  Aligned_cols=76  Identities=14%  Similarity=0.205  Sum_probs=47.3

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      +.+.. .++.|+  .|.+|.+|+.++|++|.++.++.  |. ..+|+.+.|..| ++.+. ...|..|++|+.+.+..| 
T Consensus       162 i~lp~-~l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~-~~~L~~l~lp~~-l~~I~-~~aF~~~~~L~~l~l~~~-  236 (401)
T 4fdw_A          162 IVFPS-TLEQLKEDIFYYCYNLKKADLSKTKITKLPASTFV-YAGIEEVLLPVT-LKEIG-SQAFLKTSQLKTIEIPEN-  236 (401)
T ss_dssp             EECCT-TCCEECSSTTTTCTTCCEEECTTSCCSEECTTTTT-TCCCSEEECCTT-CCEEC-TTTTTTCTTCCCEECCTT-
T ss_pred             EEeCC-CccEehHHHhhCcccCCeeecCCCcceEechhhEe-ecccCEEEeCCc-hheeh-hhHhhCCCCCCEEecCCC-
Confidence            56654 555554  67777777777777777777766  44 466777777643 55543 255666777777777653 


Q ss_pred             CCCCC
Q 005381          614 IGAHS  618 (699)
Q Consensus       614 I~~lp  618 (699)
                      ++.++
T Consensus       237 l~~I~  241 (401)
T 4fdw_A          237 VSTIG  241 (401)
T ss_dssp             CCEEC
T ss_pred             ccCcc
Confidence            44443

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.43  E-value=1.7e-05  Score=76.77  Aligned_cols=119  Identities=9%  Similarity=0.067  Sum_probs=80.1

Q ss_pred             HHHHHhcccccccCCCCC-ccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc------CC
Q 005381          479 EEVLELYNDLMRLDPTHV-QYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG------SF  551 (699)
Q Consensus       479 ~~~l~~l~~L~~LDls~n-~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~------~l  551 (699)
                      ..++...+.|++|++++| .+ .+..           ...+...+.....++       .|+|++|.|..-+      .+
T Consensus        29 ~~~l~~~~~L~~L~L~~n~~i-~~~g-----------~~~l~~~L~~~~~L~-------~L~Ls~n~i~~~g~~~l~~~L   89 (185)
T 1io0_A           29 KRIQNNDPDLEEVNLNNIMNI-PVPT-----------LKACAEALKTNTYVK-------KFSIVGTRSNDPVAFALAEML   89 (185)
T ss_dssp             HHHHTTCTTCCEEECTTCTTC-CHHH-----------HHHHHHHHTTCCSCC-------EEECTTSCCCHHHHHHHHHHH
T ss_pred             HHHHhcCCCCCEEEecCCCCC-CHHH-----------HHHHHHHHHhCCCcC-------EEECcCCCCChHHHHHHHHHH
Confidence            345667788999999998 52 1111           111122222222333       3999999998532      45


Q ss_pred             CCCcccCEEEccCCCCCC-----CcC-Cccccccceeec--ccCCCCCCC---CCccccccccccccccccccCCC
Q 005381          552 DKLLWVQMLDLSHNELRS-----IEG-LEALQLLSCLNL--SNNILGSFT---ALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       552 ~~L~~L~~LdLS~N~L~~-----l~~-l~~L~~L~~L~L--s~N~l~~l~---~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      ...+.|++|+|++|.|+.     +.. +...+.|+.|+|  ++|.|+.-.   ....+...++|+.|+|++|.|+.
T Consensus        90 ~~n~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~~  165 (185)
T 1io0_A           90 KVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQGP  165 (185)
T ss_dssp             HHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHHH
T ss_pred             HhCCCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCCh
Confidence            666899999999999976     223 777788999999  889987521   01234556889999999998864

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.41  E-value=0.0047  Score=60.24  Aligned_cols=167  Identities=11%  Similarity=-0.008  Sum_probs=127.0

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           37 NHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS  116 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~  116 (699)
                      .+.+ ++|+.++.+++..  .+..+++.-+.++.. +.        +.+++++++.++++++.  +.+..+++.-+.++.
T Consensus        31 ~~~~-~~A~~~~~~a~~~--g~~~a~~~lg~~y~~-~g--------~~~~~~~A~~~~~~A~~--~g~~~a~~~Lg~~y~   96 (212)
T 3rjv_A           31 SGDY-QKAEYWAQKAAAQ--GDGDALALLAQLKIR-NP--------QQADYPQARQLAEKAVE--AGSKSGEIVLARVLV   96 (212)
T ss_dssp             HTCH-HHHHHHHHHHHHT--TCHHHHHHHHHHTTS-ST--------TSCCHHHHHHHHHHHHH--TTCHHHHHHHHHHHT
T ss_pred             CCCH-HHHHHHHHHHHHc--CCHHHHHHHHHHHHc-CC--------CCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHH
Confidence            4555 8999999999875  688999988887765 21        12358999999999964  678999999999987


Q ss_pred             hC---CCChHHHHHHHHHHHHhCC--CChhhhhHHHHHHHh----cCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHH
Q 005381          117 KG---HSSIDNELRLLDKFQKADS--RNFHAWNYRRFVAAS----MNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSN  187 (699)
Q Consensus       117 ~~---~~~~~~EL~~~~k~L~~dp--rN~haW~yR~~vl~~----l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~  187 (699)
                      ..   ..+++++++++.++++.++  .+..|+..-+.+...    .+.+ ++.++++.++++. +.+..|+++.+.++..
T Consensus        97 ~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~-~~A~~~~~~A~~~-~~~~~a~~~Lg~~y~~  174 (212)
T 3rjv_A           97 NRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDD-VKASEYFKGSSSL-SRTGYAEYWAGMMFQQ  174 (212)
T ss_dssp             CGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCH-HHHHHHHHHHHHT-SCTTHHHHHHHHHHHH
T ss_pred             cCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCH-HHHHHHHHHHHHc-CCCHHHHHHHHHHHHc
Confidence            51   3589999999999999988  458999999998877    3334 7899999999998 6777788888887654


Q ss_pred             hhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHH
Q 005381          188 LLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYH  227 (699)
Q Consensus       188 l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~  227 (699)
                      -..    |  .....+++++.++.+|+...  +..+-..+
T Consensus       175 g~g----g--~~~~d~~~A~~~~~~A~~~g--~~~A~~~l  206 (212)
T 3rjv_A          175 GEK----G--FIEPNKQKALHWLNVSCLEG--FDTGCEEF  206 (212)
T ss_dssp             CBT----T--TBCCCHHHHHHHHHHHHHHT--CHHHHHHH
T ss_pred             CCC----C--CCCCCHHHHHHHHHHHHHcC--CHHHHHHH
Confidence            210    0  01223799999999999874  45554443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.39  E-value=0.0015  Score=58.59  Aligned_cols=133  Identities=8%  Similarity=-0.111  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh------HHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY------GAWHHRKWILSKGHSSIDNELRLLDKFQ  133 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy------~aW~hR~w~L~~~~~~~~~EL~~~~k~L  133 (699)
                      .+|...+.+....+.            +++++..+++++...++..      .++...+++.... +.++++++++++++
T Consensus        10 ~~~~~l~~~~~~~~~------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~a~   76 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGN------------FRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFL-GEFETASEYYKKTL   76 (164)
T ss_dssp             HHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC------------HHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence            466677777766654            8899999999998766543      4788888888877 69999999999999


Q ss_pred             HhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc------hHHHHHHHHHHHHhhhhhccCccchhc
Q 005381          134 KADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN------YSAWHNRSLLLSNLLKRKVEGFVSKEK  201 (699)
Q Consensus       134 ~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN------~SAW~~R~~ll~~l~~~~~~~~~~~~~  201 (699)
                      ++.++.      ..++...+.+....+.+ ++.++++.++++.....      ..++...+.+....+            
T Consensus        77 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g------------  143 (164)
T 3ro3_A           77 LLARQLKDRAVEAQSCYSLGNTYTLLQDY-EKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALG------------  143 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT------------
T ss_pred             HHHHHhCCcHHHHHHHHHHHHHHHHHhhH-HHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHcc------------
Confidence            887654      56788888888889988 68899999998864322      234444555444443            


Q ss_pred             hHHHHHHHHHHHHHhCC
Q 005381          202 VLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       202 ~~~eeL~~~~~ai~~dP  218 (699)
                      .++++++++.+++.+..
T Consensus       144 ~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A          144 NHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             CHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHH
Confidence            37899999999887643

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=97.35  E-value=0.0015  Score=66.91  Aligned_cols=120  Identities=13%  Similarity=-0.027  Sum_probs=96.3

Q ss_pred             CCCCcHHHHHHHHHHHHhCCCch------HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH-------hCCC
Q 005381           37 NHIYSKEAVELSTKLLETNPELY------TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR-------QNFK  103 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP~~y------taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~-------~nPK  103 (699)
                      .+.+ ++|+..+.++|.+.++..      .+++.-+.+....+.            +++++..+++++.       ..+.
T Consensus       128 ~~~~-~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~  194 (293)
T 3u3w_A          128 KVDY-EYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGY------------LKKGIDLFEQILKQLEALHDNEEF  194 (293)
T ss_dssp             SSCH-HHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHSSCCHHH
T ss_pred             ccCH-HHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHhcccchhH
Confidence            3455 899999999999755433      367888888877755            8999999999994       2233


Q ss_pred             ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHh
Q 005381          104 SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMICN  170 (699)
Q Consensus       104 sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~  170 (699)
                      ...+++..++++.+. +.++++++++++++++.+.+      ..+|...+.+...+|...+++++++.+++..
T Consensus       195 ~~~~~~nlg~~y~~~-~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          195 DVKVRYNHAKALYLD-SRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH-hHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            445889999999987 69999999999999987555      5789999999999996546899998888874

>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=97.29  E-value=2.2e-05  Score=89.28  Aligned_cols=33  Identities=12%  Similarity=0.089  Sum_probs=18.3

Q ss_pred             cCCCC-CccEEEecCCCCCCccchHHHhhcCCccc
Q 005381          658 ILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLK  691 (699)
Q Consensus       658 ~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~  691 (699)
                      .+..+ +|+.|+|++|++.. .....+...+|.|+
T Consensus       501 ~~~~l~~L~~L~l~~~~~~~-~~~~~l~~~lp~l~  534 (594)
T 2p1m_B          501 NASKLETMRSLWMSSCSVSF-GACKLLGQKMPKLN  534 (594)
T ss_dssp             TGGGGGGSSEEEEESSCCBH-HHHHHHHHHCTTEE
T ss_pred             HHHhCCCCCEEeeeCCCCCH-HHHHHHHHhCCCCE
Confidence            34445 77777887777722 22223335566653

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.28  E-value=0.0015  Score=69.51  Aligned_cols=150  Identities=7%  Similarity=-0.123  Sum_probs=116.4

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC------CChHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF------KSYGAWHHRKWILSKGHSSIDNELRLLDKFQ  133 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP------Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L  133 (699)
                      -.|.+++......+.            +++++..+++++...+      ....+++..+.+.... +.+++++.++.+++
T Consensus       102 ~~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~-~~~~~A~~~~~~al  168 (378)
T 3q15_A          102 YSLFFRGMYEFDQKE------------YVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHM-KQTHVSMYHILQAL  168 (378)
T ss_dssp             HHHHHHHHHHHHTTC------------HHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCC------------HHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHc-CCcHHHHHHHHHHH
Confidence            367778887776654            9999999999997632      3456777888888877 69999999999999


Q ss_pred             HhCCCC-------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC------chHHHHHHHHHHHHhhhhhccCccchh
Q 005381          134 KADSRN-------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFS------NYSAWHNRSLLLSNLLKRKVEGFVSKE  200 (699)
Q Consensus       134 ~~dprN-------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s------N~SAW~~R~~ll~~l~~~~~~~~~~~~  200 (699)
                      ++.++.       ..++...+.+...+|.+ +++++++.++++....      -..++++.+.+....+.          
T Consensus       169 ~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~----------  237 (378)
T 3q15_A          169 DIYQNHPLYSIRTIQSLFVIAGNYDDFKHY-DKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGD----------  237 (378)
T ss_dssp             HHHHTSTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC----------
T ss_pred             HHHHhCCCchhhHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC----------
Confidence            976542       34777888888899998 6899999999986331      22567777777776644          


Q ss_pred             chHHHHHHHHHHHHH-----hCCCCchhHHHHHHHHcCcC
Q 005381          201 KVLPDEYEFVHQAIF-----TDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       201 ~~~~eeL~~~~~ai~-----~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                        ++++++++.+|+.     .+|....+++.+..+.....
T Consensus       238 --~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g  275 (378)
T 3q15_A          238 --DQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAG  275 (378)
T ss_dssp             --HHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTT
T ss_pred             --HHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCC
Confidence              7999999999999     78888778887777776544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.19  E-value=0.0078  Score=66.41  Aligned_cols=162  Identities=10%  Similarity=-0.040  Sum_probs=118.6

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC--
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH--  119 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~--  119 (699)
                      ++|+.++.+++..  .+..+++..+.+......       ....++++++.++++++..  .+..+|...++++....  
T Consensus       276 ~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~~~~-------g~~~~~~~A~~~~~~a~~~--~~~~a~~~lg~~y~~~g~~  344 (490)
T 2xm6_A          276 LKALEWYRKSAEQ--GNSDGQYYLAHLYDKGAE-------GVAKNREQAISWYTKSAEQ--GDATAQANLGAIYFRLGSE  344 (490)
T ss_dssp             HHHHHHHHHHHTT--TCHHHHHHHHHHHHHCBT-------TBCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHSCCH
T ss_pred             HHHHHHHHHHHHc--CCHHHHHHHHHHHHcCCC-------CCcCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCc
Confidence            6777777777654  456677777766654310       1124578999999999886  45688999999887651  


Q ss_pred             CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHh----cCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          120 SSIDNELRLLDKFQKADSRNFHAWNYRRFVAAS----MNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~----l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                      .+++++++++.++++.  .+..+|.+-+.+...    .+.+ ++.++++.++++.+  +..||.+.+.++..-.     |
T Consensus       345 ~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~-~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~-----g  414 (490)
T 2xm6_A          345 EEHKKAVEWFRKAAAK--GEKAAQFNLGNALLQGKGVKKDE-QQAAIWMRKAAEQG--LSAAQVQLGEIYYYGL-----G  414 (490)
T ss_dssp             HHHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-HHHHHHHHHHHHTT--CHHHHHHHHHHHHHTS-----S
T ss_pred             ccHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCH-HHHHHHHHHHHhCC--CHHHHHHHHHHHHcCC-----C
Confidence            1578999999999987  578899999998877    4444 78999999998864  6788888888776410     0


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCC---CchhHHHH
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPD---DQSGWFYH  227 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~---d~SaW~Y~  227 (699)
                         ....++++++.+.+|+..+|+   +..+++.+
T Consensus       415 ---~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l  446 (490)
T 2xm6_A          415 ---VERDYVQAWAWFDTASTNDMNLFGTENRNITE  446 (490)
T ss_dssp             ---SCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             ---CCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHH
Confidence               123379999999999999954   77777654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.18  E-value=0.00078  Score=69.56  Aligned_cols=132  Identities=11%  Similarity=-0.082  Sum_probs=109.3

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC--hHH
Q 005381           30 QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS--YGA  107 (699)
Q Consensus        30 ~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs--y~a  107 (699)
                      +.......|+| ++|.++++.++..+|+.. +.+.++.+..+.++            +.+++..++.+....+..  ..+
T Consensus       108 yA~~L~~~g~y-~eA~~~l~~~~~~~p~~~-~~~~~a~l~~~~~r------------~~dA~~~l~~a~~~~d~~~~~~a  173 (282)
T 4f3v_A          108 FAACEAAQGNY-ADAMEALEAAPVAGSEHL-VAWMKAVVYGAAER------------WTDVIDQVKSAGKWPDKFLAGAA  173 (282)
T ss_dssp             HHHHHHHHTCH-HHHHHHHTSSCCTTCHHH-HHHHHHHHHHHTTC------------HHHHHHHHTTGGGCSCHHHHHHH
T ss_pred             HHHHHHHCCCH-HHHHHHHHHHHhcCCchH-HHHHHHHHHHHcCC------------HHHHHHHHHHhhccCCcccHHHH
Confidence            34445567788 899999999999999999 88889988877755            999999999887653222  348


Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhC--CC-ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHH
Q 005381          108 WHHRKWILSKGHSSIDNELRLLDKFQKAD--SR-NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAW  178 (699)
Q Consensus       108 W~hR~w~L~~~~~~~~~EL~~~~k~L~~d--pr-N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW  178 (699)
                      +++.+.++.++ +.+++++..+++++.-.  |. ...++.+++.++..+|+. ++..+.+.+++..+|. --+|
T Consensus       174 ~~~LG~al~~L-G~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~-deA~~~l~~a~a~~P~-~~~~  244 (282)
T 4f3v_A          174 GVAHGVAAANL-ALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNE-SAAVALLEWLQTTHPE-PKVA  244 (282)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHSCC-HHHH
T ss_pred             HHHHHHHHHHC-CCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhcCCc-HHHH
Confidence            99999999988 69999999999998544  55 557999999999999998 6789999999999998 5544

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.17  E-value=0.0092  Score=62.74  Aligned_cols=155  Identities=12%  Similarity=-0.087  Sum_probs=114.7

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchH-----HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHH---
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYT-----AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGA---  107 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~yt-----aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~a---  107 (699)
                      ..|++ ++|+..+.++|...|....     +++..+.+....+.            +++++..+++++...|+.-..   
T Consensus        26 ~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~~~~~~   92 (373)
T 1hz4_A           26 NDGNP-DEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGE------------LTRSLALMQQTEQMARQHDVWHYA   92 (373)
T ss_dssp             HTTCH-HHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HCCCH-HHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCc------------HHHHHHHHHHHHHHHHhcCcHHHH
Confidence            46666 7999999999999987643     45566666665544            889999999999876654332   


Q ss_pred             ---HHHHHHHHHhCCCChHHHHHHHHHHHHhCC--------CChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc--
Q 005381          108 ---WHHRKWILSKGHSSIDNELRLLDKFQKADS--------RNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN--  174 (699)
Q Consensus       108 ---W~hR~w~L~~~~~~~~~EL~~~~k~L~~dp--------rN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN--  174 (699)
                         ..+.+.+.... +.++++++.++++++..+        ....++...+.+....|.+ ++..+++.++++..+..  
T Consensus        93 ~~~~~~la~~~~~~-G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~~~~~~  170 (373)
T 1hz4_A           93 LWSLIQQSEILFAQ-GFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARL-DEAEASARSGIEVLSSYQP  170 (373)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHTTTSCG
T ss_pred             HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCH-HHHHHHHHHHHHHhhccCc
Confidence               45567776665 699999999999998763        2334666678888888988 67889999999987642  


Q ss_pred             ---hHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhC
Q 005381          175 ---YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTD  217 (699)
Q Consensus       175 ---~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~d  217 (699)
                         ..++...+.+....+.            ++++++.+.+++...
T Consensus       171 ~~~~~~~~~la~~~~~~g~------------~~~A~~~l~~a~~~~  204 (373)
T 1hz4_A          171 QQQLQCLAMLIQCSLARGD------------LDNARSQLNRLENLL  204 (373)
T ss_dssp             GGGHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHH
Confidence               2455666666555433            789999999998763

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.15  E-value=0.0034  Score=56.22  Aligned_cols=123  Identities=8%  Similarity=-0.067  Sum_probs=94.4

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCch------HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC---
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELY------TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS---  104 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~y------taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs---  104 (699)
                      ....|.+ ++|+..+.+++.+.++..      .++...+.+....+.            +++++..+++++...++.   
T Consensus        19 ~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~a~~~~~~~~~~   85 (164)
T 3ro3_A           19 HYLLGNF-RDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGE------------FETASEYYKKTLLLARQLKDR   85 (164)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHhcCH-HHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHHhCCc
Confidence            3455666 799999999999876643      477777887777754            899999999999876654   


Q ss_pred             ---hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhc
Q 005381          105 ---YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMICNN  171 (699)
Q Consensus       105 ---y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n  171 (699)
                         ..++...+++.... +.+++++++++++++..++.      ..++...+.+....|.+ ++.++++.++++..
T Consensus        86 ~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           86 AVEAQSCYSLGNTYTLL-QDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNH-DQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH-hhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCH-HHHHHHHHHHHHHH
Confidence               56788888888877 69999999999999874332      34566667777777887 67888888888754

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.09  E-value=0.012  Score=62.73  Aligned_cols=157  Identities=8%  Similarity=-0.031  Sum_probs=105.9

Q ss_pred             HHHHHhCCCchHHHHH--HHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC---CCC--
Q 005381           49 TKLLETNPELYTAWNY--RKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG---HSS--  121 (699)
Q Consensus        49 ~~~L~~nP~~ytaWn~--R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~---~~~--  121 (699)
                      +.+...-|++..||-+  |++-+....     ++    ..+.+++.+++++++.+|.+..+|..+.|+.-..   .+.  
T Consensus       184 ~r~~~~~p~~~~Aydl~Lra~~~l~~~-----~~----~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~  254 (372)
T 3ly7_A          184 ETLQKILPHRGALLTNFYQAHDYLLHG-----DD----KSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDE  254 (372)
T ss_dssp             HHHHHHSCSSGGGHHHHHHHHHHHHHC-----SH----HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCH
T ss_pred             HHHhccCCCCHHHHHHHHHHHHHHHcC-----CH----HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCch
Confidence            3455667888888774  444333221     12    4579999999999999999999999887766421   011  


Q ss_pred             -----hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          122 -----IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       122 -----~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                           +.++++.. .++..+|.+..++.--+.+.-..+.+ ++.++..++++..||+ .-+|..++++....|.      
T Consensus       255 ~~~~~l~~a~~a~-~a~~~~~~~a~~~~alal~~l~~gd~-d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~------  325 (372)
T 3ly7_A          255 KQLAALNTEIDNI-VTLPELNNLSIIYQIKAVSALVKGKT-DESYQAINTGIDLEMS-WLNYVLLGKVYEMKGM------  325 (372)
T ss_dssp             HHHHHHHHHHHHH-HTCGGGTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTC------
T ss_pred             hhHHHHHHHHHHH-HhcccCCcCHHHHHHHHHHHHhCCCH-HHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCC------
Confidence                 11222211 23355676666554444444444666 7899999999999974 6677778887776644      


Q ss_pred             cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          197 VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                            ++++++.+.+|+.++|.+. .+++...|
T Consensus       326 ------~~eA~e~~~~AlrL~P~~~-t~~~~~~l  352 (372)
T 3ly7_A          326 ------NREAADAYLTAFNLRPGAN-TLYWIENG  352 (372)
T ss_dssp             ------HHHHHHHHHHHHHHSCSHH-HHHHHHHS
T ss_pred             ------HHHHHHHHHHHHhcCCCcC-hHHHHhCc
Confidence                  7999999999999999986 45444433

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.07  E-value=0.0086  Score=69.51  Aligned_cols=166  Identities=6%  Similarity=-0.146  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHH-HHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           43 EAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEEL-RVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        43 eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL-~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++..+|+++|..+|.++.+|..-...+...+.            ..++. .++++++..+|++...|..-.-+.... +.
T Consensus       327 Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~------------~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~-~~  393 (679)
T 4e6h_A          327 RMTYVYMQAAQHVCFAPEIWFNMANYQGEKNT------------DSTVITKYLKLGQQCIPNSAVLAFSLSEQYELN-TK  393 (679)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSC------------CTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCc------------HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh-CC
Confidence            45678999999999999999987777766543            34676 899999999999999998887777766 57


Q ss_pred             hHHHHHHHHHHHHhC-----------CC-----------ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHh-ccCchHHH
Q 005381          122 IDNELRLLDKFQKAD-----------SR-----------NFHAWNYRRFVAASMNRSEEDELKYTEDMICN-NFSNYSAW  178 (699)
Q Consensus       122 ~~~EL~~~~k~L~~d-----------pr-----------N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~-n~sN~SAW  178 (699)
                      ++++-+.++++++.-           |.           +-.+|-.-.-+..+.+.. +.+.+.+.++++. .+.....|
T Consensus       394 ~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l-~~AR~vf~~A~~~~~~~~~~ly  472 (679)
T 4e6h_A          394 IPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGL-AASRKIFGKCRRLKKLVTPDIY  472 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCH-HHHHHHHHHHHHTGGGSCTHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhcCCCChHHH
Confidence            999999999999752           43           224677666555555544 6778888999887 55556777


Q ss_pred             HHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhH-HHHHHHHcC
Q 005381          179 HNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGW-FYHLWLLDQ  233 (699)
Q Consensus       179 ~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW-~Y~~~Ll~~  233 (699)
                      ..-..+-...+.           -++++...+..++...|++...| .|..++...
T Consensus       473 i~~A~lE~~~~~-----------d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~  517 (679)
T 4e6h_A          473 LENAYIEYHISK-----------DTKTACKVLELGLKYFATDGEYINKYLDFLIYV  517 (679)
T ss_dssp             HHHHHHHHTTTS-----------CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------CHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC
Confidence            655444333321           14788889999999999999999 687776643

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.02  E-value=0.007  Score=64.61  Aligned_cols=129  Identities=9%  Similarity=0.026  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      .+|+.+++++++++|++..+|-.+..+...+...... +......+.+++... .++..+|....++.--..+.... ++
T Consensus       216 ~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~-~~~~~~~l~~a~~a~-~a~~~~~~~a~~~~alal~~l~~-gd  292 (372)
T 3ly7_A          216 NRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPL-DEKQLAALNTEIDNI-VTLPELNNLSIIYQIKAVSALVK-GK  292 (372)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHHHH-HTCGGGTTCHHHHHHHHHHHHHH-TC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCC-chhhHHHHHHHHHHH-HhcccCCcCHHHHHHHHHHHHhC-CC
Confidence            7999999999999999999999877765433221111 111112334444422 34466788777665444433322 68


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                      +++++..+++++.++| +..+|...+++....|.+ ++.++.+.+++..+|+..
T Consensus       293 ~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~-~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          293 TDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMN-REAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             HHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHSCSHH
T ss_pred             HHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhcCCCcC
Confidence            9999999999999996 577888999999999998 789999999999999985

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.99  E-value=0.017  Score=63.44  Aligned_cols=168  Identities=10%  Similarity=-0.083  Sum_probs=132.3

Q ss_pred             cHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHH--hC
Q 005381           41 SKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS--KG  118 (699)
Q Consensus        41 ~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~--~~  118 (699)
                      .++|+..+.++...+|....+|+.-+.++.....        ...++++++.+++++.   |.+..+++..+.++.  ..
T Consensus       195 ~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~--------~~~d~~~A~~~~~~aa---~g~~~a~~~Lg~~~~~~~~  263 (452)
T 3e4b_A          195 QAELLKQMEAGVSRGTVTAQRVDSVARVLGDATL--------GTPDEKTAQALLEKIA---PGYPASWVSLAQLLYDFPE  263 (452)
T ss_dssp             HHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGG--------SSCCHHHHHHHHHHHG---GGSTHHHHHHHHHHHHSGG
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC--------CCCCHHHHHHHHHHHc---CCCHHHHHHHHHHHHhCCC
Confidence            3799999999999999999998888888754421        2245899999999998   999999999999843  22


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc-C--CChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASM-N--RSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l-~--~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                      ..+++++++++.++++.+  +..|+..-+.+...- +  ...++.++++.+++   +.+..|+++.+.++.. +.    +
T Consensus       264 ~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa---~g~~~A~~~Lg~~y~~-G~----g  333 (452)
T 3e4b_A          264 LGDVEQMMKYLDNGRAAD--QPRAELLLGKLYYEGKWVPADAKAAEAHFEKAV---GREVAADYYLGQIYRR-GY----L  333 (452)
T ss_dssp             GCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHTTT---TTCHHHHHHHHHHHHT-TT----T
T ss_pred             CCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHh---CCCHHHHHHHHHHHHC-CC----C
Confidence            368999999999998655  889999999888732 1  12378999999998   8899999999977654 11    1


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                         ....++++++++.+|+.  +++..+.+.+..++...
T Consensus       334 ---~~~d~~~A~~~~~~Aa~--~g~~~A~~~Lg~~y~~G  367 (452)
T 3e4b_A          334 ---GKVYPQKALDHLLTAAR--NGQNSADFAIAQLFSQG  367 (452)
T ss_dssp             ---SSCCHHHHHHHHHHHHT--TTCTTHHHHHHHHHHSC
T ss_pred             ---CCcCHHHHHHHHHHHHh--hChHHHHHHHHHHHHhC
Confidence               12346899999999986  67888888888887653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.98  E-value=0.011  Score=64.93  Aligned_cols=162  Identities=12%  Similarity=0.055  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC---C
Q 005381           43 EAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG---H  119 (699)
Q Consensus        43 eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~---~  119 (699)
                      ++..++..+...+|+   +++..+.++...+.         .+.+++++.++.++...+|....+|+.-+.++...   .
T Consensus       163 ~a~~~~~~a~~~~~~---a~~~Lg~~~~~~g~---------~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~  230 (452)
T 3e4b_A          163 DVERICKAALNTTDI---CYVELATVYQKKQQ---------PEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGT  230 (452)
T ss_dssp             HHHHHHHHHTTTCTT---HHHHHHHHHHHTTC---------HHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSS
T ss_pred             HHHHHHHHHHcCCHH---HHHHHHHHHHHcCC---------cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCC
Confidence            345556666666666   77888877776542         24689999999999999999999998888888643   1


Q ss_pred             CChHHHHHHHHHHHHhCCCChhhhhHHHHH-H--HhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCc
Q 005381          120 SSIDNELRLLDKFQKADSRNFHAWNYRRFV-A--ASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGF  196 (699)
Q Consensus       120 ~~~~~EL~~~~k~L~~dprN~haW~yR~~v-l--~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~  196 (699)
                      .+++++++++.++.   |.+..|+...+.+ .  ...+.+ ++.++++.++++.+  +..|+++.+.++. .+.    + 
T Consensus       231 ~d~~~A~~~~~~aa---~g~~~a~~~Lg~~~~~~~~~~d~-~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~-~G~----g-  298 (452)
T 3e4b_A          231 PDEKTAQALLEKIA---PGYPASWVSLAQLLYDFPELGDV-EQMMKYLDNGRAAD--QPRAELLLGKLYY-EGK----W-  298 (452)
T ss_dssp             CCHHHHHHHHHHHG---GGSTHHHHHHHHHHHHSGGGCCH-HHHHHHHHHHHHTT--CHHHHHHHHHHHH-HCS----S-
T ss_pred             CCHHHHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHHCC--CHHHHHHHHHHHH-cCC----C-
Confidence            47899999999988   8999999999988 4  334444 78999999998654  8899999998776 221    1 


Q ss_pred             cchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          197 VSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       197 ~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                        ....++++++++.+|+   |++..+++.+..++..
T Consensus       299 --~~~d~~~A~~~~~~Aa---~g~~~A~~~Lg~~y~~  330 (452)
T 3e4b_A          299 --VPADAKAAEAHFEKAV---GREVAADYYLGQIYRR  330 (452)
T ss_dssp             --SCCCHHHHHHHHHTTT---TTCHHHHHHHHHHHHT
T ss_pred             --CCCCHHHHHHHHHHHh---CCCHHHHHHHHHHHHC
Confidence              1224799999999999   9999999999988865

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=96.87  E-value=0.038  Score=60.84  Aligned_cols=166  Identities=10%  Similarity=-0.049  Sum_probs=115.2

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC---
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG---  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~---  118 (699)
                      ++|+.++.+++..  .+..++...+.+......        ...++++++.++++++..  .+..+++..+.+....   
T Consensus       240 ~~A~~~~~~a~~~--~~~~a~~~lg~~y~~g~~--------~~~d~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~~~~g  307 (490)
T 2xm6_A          240 TQSRVLFSQSAEQ--GNSIAQFRLGYILEQGLA--------GAKEPLKALEWYRKSAEQ--GNSDGQYYLAHLYDKGAEG  307 (490)
T ss_dssp             HHHHHHHHHHHTT--TCHHHHHHHHHHHHHTTT--------SSCCHHHHHHHHHHHHTT--TCHHHHHHHHHHHHHCBTT
T ss_pred             HHHHHHHHHHHHC--CCHHHHHHHHHHHHCCCC--------CCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHcCCCC
Confidence            4555555555543  334455555554443110        124578888888888765  5677888888888764   


Q ss_pred             -CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC--hHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          119 -HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS--EEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       119 -~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~--~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                       ..++++++.++.++++.+  +..||...+.+....+..  .++.++++.++++.  .+..||.+.+.++..-.     +
T Consensus       308 ~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~-----g  378 (490)
T 2xm6_A          308 VAKNREQAISWYTKSAEQG--DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK--GEKAAQFNLGNALLQGK-----G  378 (490)
T ss_dssp             BCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTS-----S
T ss_pred             CcCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCC-----C
Confidence             147889999999988764  567888888887765521  26788888998887  57788988888765410     0


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                         ..+.++++++++.+|+..  ++..+|+.+.+++..
T Consensus       379 ---~~~~~~~A~~~~~~A~~~--~~~~a~~~Lg~~y~~  411 (490)
T 2xm6_A          379 ---VKKDEQQAAIWMRKAAEQ--GLSAAQVQLGEIYYY  411 (490)
T ss_dssp             ---SCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHH
T ss_pred             ---CCCCHHHHHHHHHHHHhC--CCHHHHHHHHHHHHc
Confidence               123479999999999985  578899998888865

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=96.82  E-value=0.038  Score=67.91  Aligned_cols=170  Identities=8%  Similarity=0.013  Sum_probs=117.0

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC-------
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS-------  104 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs-------  104 (699)
                      .+....|.+ +||++.|.++     +++.+|.....+..++++            ++++++++..+.+..+.+       
T Consensus      1113 KAql~~G~~-kEAIdsYiKA-----dD~say~eVa~~~~~lGk------------yEEAIeyL~mArk~~~e~~Idt~La 1174 (1630)
T 1xi4_A         1113 KAQLQKGMV-KEAIDSYIKA-----DDPSSYMEVVQAANTSGN------------WEELVKYLQMARKKARESYVETELI 1174 (1630)
T ss_pred             HHHHhCCCH-HHHHHHHHhc-----CChHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhcccccccHHHH
Confidence            444456666 7999999664     888888888888888865            777777776666555332       


Q ss_pred             --------------------hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381          105 --------------------YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus       105 --------------------y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                                          ...|..-+-.+... +.|++|+.+|.++        ..|...+.++.++|.+ +++++++
T Consensus      1175 faYAKl~rleele~fI~~~n~ad~~~iGd~le~e-g~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~-q~AIEaa 1244 (1630)
T 1xi4_A         1175 FALAKTNRLAELEEFINGPNNAHIQQVGDRCYDE-KMYDAAKLLYNNV--------SNFGRLASTLVHLGEY-QAAVDGA 1244 (1630)
T ss_pred             HHHHhhcCHHHHHHHHhCCCHHHHHHHHHHHHhc-CCHHHHHHHHHhh--------hHHHHHHHHHHHhCCH-HHHHHHH
Confidence                                23444444444444 5788888888886        4777888888888887 6788888


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhh-----hhh------cc-------CccchhchHHHHHHHHHHHHHhCCCCchhHHH
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLL-----KRK------VE-------GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~-----~~~------~~-------~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y  226 (699)
                      .++     .|..+|..-.+..-..+     ...      ..       ..-...+.++++|.++.+++.++|.+...|..
T Consensus      1245 rKA-----~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftE 1319 (1630)
T 1xi4_A         1245 RKA-----NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTE 1319 (1630)
T ss_pred             HHh-----CCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHH
Confidence            887     66688875554442110     000      00       01123356899999999999999999999988


Q ss_pred             HHHHHcCc
Q 005381          227 HLWLLDQT  234 (699)
Q Consensus       227 ~~~Ll~~~  234 (699)
                      +.=|+.+.
T Consensus      1320 LaiLyaKy 1327 (1630)
T 1xi4_A         1320 LAILYSKF 1327 (1630)
T ss_pred             HHHHHHhC
Confidence            88777653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=96.67  E-value=0.0087  Score=56.46  Aligned_cols=127  Identities=7%  Similarity=-0.172  Sum_probs=96.4

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHH------hCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh---CC
Q 005381           32 LHNHHNHIYSKEAVELSTKLLE------TNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ---NF  102 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~------~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~---nP  102 (699)
                      ......|++ ++|+..+.+++.      ..|....+|+..+.+....++            +++++..+++++..   .+
T Consensus        34 ~~~~~~g~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~------------~~~A~~~~~~al~~~~~~~  100 (203)
T 3gw4_A           34 YVYAFMDRF-DEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN------------WDAARRCFLEERELLASLP  100 (203)
T ss_dssp             HHHHHTTCH-HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHhCcH-HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHHHHcC
Confidence            344556777 799999999999      566667888888888887765            88999999999987   44


Q ss_pred             ----CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh------hhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc
Q 005381          103 ----KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF------HAWNYRRFVAASMNRSEEDELKYTEDMICNNF  172 (699)
Q Consensus       103 ----Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~------haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~  172 (699)
                          ....++...+++.... +.+++++.++++++++.++.-      .++...+.+....|.+ ++.++++.++++.-.
T Consensus       101 ~~~~~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~~~~al~~~~  178 (203)
T 3gw4_A          101 EDPLAASANAYEVATVALHF-GDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL-LEAQQHWLRARDIFA  178 (203)
T ss_dssp             CCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH-HHHHHHHHHHHHHHH
Confidence                2345677788888776 689999999999997643222      2346677778888887 678888888888644


Q ss_pred             C
Q 005381          173 S  173 (699)
Q Consensus       173 s  173 (699)
                      .
T Consensus       179 ~  179 (203)
T 3gw4_A          179 E  179 (203)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=96.66  E-value=0.037  Score=68.05  Aligned_cols=140  Identities=13%  Similarity=0.022  Sum_probs=89.8

Q ss_pred             CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 005381           56 PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKA  135 (699)
Q Consensus        56 P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~  135 (699)
                      .+...+|...+.+....++            ++++++.|.++     +++.+|...+.++.+. +.++++++++..+.+.
T Consensus      1102 vn~p~vWsqLAKAql~~G~------------~kEAIdsYiKA-----dD~say~eVa~~~~~l-GkyEEAIeyL~mArk~ 1163 (1630)
T 1xi4_A         1102 CNEPAVWSQLAKAQLQKGM------------VKEAIDSYIKA-----DDPSSYMEVVQAANTS-GNWEELVKYLQMARKK 1163 (1630)
T ss_pred             cCCHHHHHHHHHHHHhCCC------------HHHHHHHHHhc-----CChHHHHHHHHHHHHc-CCHHHHHHHHHHHHhh
Confidence            4667888888888887765            88999998775     8888888888888887 6889999999888877


Q ss_pred             CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC-------c-------cchhc
Q 005381          136 DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG-------F-------VSKEK  201 (699)
Q Consensus       136 dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~-------~-------~~~~~  201 (699)
                      ++.. .+=.+.++++.+++.+  ++++.+   |  +..|...|...+..+...+....+.       .       -...+
T Consensus      1164 ~~e~-~Idt~LafaYAKl~rl--eele~f---I--~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA~ny~rLA~tLvkLg 1235 (1630)
T 1xi4_A         1164 ARES-YVETELIFALAKTNRL--AELEEF---I--NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLG 1235 (1630)
T ss_pred             cccc-cccHHHHHHHHhhcCH--HHHHHH---H--hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhhhHHHHHHHHHHHhC
Confidence            7332 2223466666666654  234433   1  2334455555555444433211000       0       01113


Q ss_pred             hHHHHHHHHHHHHHhCCCCchhHHH
Q 005381          202 VLPDEYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       202 ~~~eeL~~~~~ai~~dP~d~SaW~Y  226 (699)
                      .+++|++++.+|     ++..+|.-
T Consensus      1236 e~q~AIEaarKA-----~n~~aWke 1255 (1630)
T 1xi4_A         1236 EYQAAVDGARKA-----NSTRTWKE 1255 (1630)
T ss_pred             CHHHHHHHHHHh-----CCHHHHHH
Confidence            378899999888     56688873

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=96.60  E-value=0.00027  Score=75.92  Aligned_cols=131  Identities=13%  Similarity=0.008  Sum_probs=69.5

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCc--CC--ccccccceeeccc--CCCCCCCCC----ccc--ccccccc
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIE--GL--EALQLLSCLNLSN--NILGSFTAL----EPI--RQLKSLR  605 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~--~l--~~L~~L~~L~Ls~--N~l~~l~~~----~~l--~~l~~L~  605 (699)
                      |.|+++.-..++.+ .+++|+.|+|+.+.++.-.  .+  ..+++|+.|+|+.  |...+-...    ..+  ..+++|+
T Consensus       177 L~L~g~~~l~l~~~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr  255 (362)
T 2ra8_A          177 LKIKGTNNLSIGKK-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLK  255 (362)
T ss_dssp             EEEECCBTCBCCSC-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCC
T ss_pred             EEEeCCCCceeccc-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcC
Confidence            77777632233343 3788999999888774321  23  3678888888853  221111000    112  2468899


Q ss_pred             ccccccccCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          606 ALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       606 ~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      .|+|++|.++............++-+..++++.|.+...      ....++..+..+ +|+.|+|++|.|.
T Consensus       256 ~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~------G~~~L~~~L~~l~~L~~L~L~~n~i~  320 (362)
T 2ra8_A          256 WLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDE------GARLLLDHVDKIKHLKFINMKYNYLS  320 (362)
T ss_dssp             EEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHH------HHHHHHTTHHHHTTCSEEECCSBBCC
T ss_pred             EEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChH------HHHHHHhhcccCCcceEEECCCCcCC
Confidence            999988887642100000011223333345555554221      111223333456 7888999888884

>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=96.22  E-value=0.00092  Score=64.07  Aligned_cols=100  Identities=20%  Similarity=0.225  Sum_probs=65.4

Q ss_pred             cccCEEEccCCCCCC--CcCCccccccceeecccCC-CCCCCCCcccccc----cccccccccccc-CCCCCcccccccC
Q 005381          555 LWVQMLDLSHNELRS--IEGLEALQLLSCLNLSNNI-LGSFTALEPIRQL----KSLRALNISYNE-IGAHSIDTTKYLC  626 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~--l~~l~~L~~L~~L~Ls~N~-l~~l~~~~~l~~l----~~L~~L~Ls~N~-I~~lp~~~~~~l~  626 (699)
                      ..|+.||||++.|+.  +..+..+++|+.|+|+++. |+.. .+..++.+    ++|+.|+|+++. |+.-.        
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~-gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~G--------  131 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDG-CLERLSQLENLQKSMLEMEIISCGNVTDKG--------  131 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHH-HHHHHHTCHHHHHHCCEEEEESCTTCCHHH--------
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHH-HHHHHHhcccccCCCCEEEcCCCCcCCHHH--------
Confidence            468899999888754  3337788899999999885 6542 22334443    478999998863 65531        


Q ss_pred             CCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccc-hHHHhhcCCcccc
Q 005381          627 SSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKF-KSFLIKVLPGLKW  692 (699)
Q Consensus       627 ~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~-~~~~~~~l~~L~~  692 (699)
                                                   ...+.++ +|+.|+|++.+- ..... ...+...+|+++.
T Consensus       132 -----------------------------l~~L~~~~~L~~L~L~~c~~Itd~gl~~~~L~~~lP~l~V  171 (176)
T 3e4g_A          132 -----------------------------IIALHHFRNLKYLFLSDLPGVKEKEKIVQAFKTSLPSLEL  171 (176)
T ss_dssp             -----------------------------HHHGGGCTTCCEEEEESCTTCCCHHHHHHHHHHHCTTCEE
T ss_pred             -----------------------------HHHHhcCCCCCEEECCCCCCCCchHHHHHHHHHHCCCcEE
Confidence                                         1134456 899999999864 43322 3344567888763

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=96.09  E-value=0.0022  Score=68.76  Aligned_cols=136  Identities=18%  Similarity=0.182  Sum_probs=73.3

Q ss_pred             CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCcccc--cccccccccccc--ccC-CCCCcccc-c
Q 005381          550 SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIR--QLKSLRALNISY--NEI-GAHSIDTT-K  623 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~--~l~~L~~L~Ls~--N~I-~~lp~~~~-~  623 (699)
                      .+..+++|+.|+|++|.--.++++. +++|+.|+|..+.++.- ....+.  .+++|+.|+|+.  |.. +...+... .
T Consensus       167 ll~~~P~L~~L~L~g~~~l~l~~~~-~~~L~~L~L~~~~l~~~-~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~  244 (362)
T 2ra8_A          167 VLDAMPLLNNLKIKGTNNLSIGKKP-RPNLKSLEIISGGLPDS-VVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP  244 (362)
T ss_dssp             HHHTCTTCCEEEEECCBTCBCCSCB-CTTCSEEEEECSBCCHH-HHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGG
T ss_pred             HHhcCCCCcEEEEeCCCCceecccc-CCCCcEEEEecCCCChH-HHHHHHHccCCCCcEEEEeccccccccchhHHHHHH
Confidence            3466799999999998422344443 88999999999887542 112232  689999999863  332 22111000 1


Q ss_pred             ccC--CCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHH--hhcCCcccccc
Q 005381          624 YLC--SSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFL--IKVLPGLKWLD  694 (699)
Q Consensus       624 ~l~--~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~--~~~l~~L~~LD  694 (699)
                      .+.  ..+.+..+.+.+|.+..       ...........+ +|+.|+|+.|.|.........  +..+++|+.||
T Consensus       245 ~l~~~~~p~Lr~L~L~~~~i~~-------~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~  313 (362)
T 2ra8_A          245 LFSKDRFPNLKWLGIVDAEEQN-------VVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFIN  313 (362)
T ss_dssp             GSCTTTCTTCCEEEEESCTTHH-------HHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEE
T ss_pred             HHhcCCCCCcCEEeCCCCCCch-------HHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEE
Confidence            111  12223333443333311       000111111345 899999999999432221111  23567777776

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=95.98  E-value=0.11  Score=54.20  Aligned_cols=121  Identities=12%  Similarity=-0.035  Sum_probs=91.7

Q ss_pred             hHHHHHHHHHHHHHhCCCChH-----HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChh------hhhHHHHHHHhcC
Q 005381           86 ILDEELRVVESALRQNFKSYG-----AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH------AWNYRRFVAASMN  154 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~-----aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~h------aW~yR~~vl~~l~  154 (699)
                      .+++++..+++++...|....     ++...+.+.... +.+++++..+.+++.+.++.-.      +..+.+.+....|
T Consensus        29 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G  107 (373)
T 1hz4_A           29 NPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCK-GELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQG  107 (373)
T ss_dssp             CHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhc-CcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCC
Confidence            389999999999998887643     455666666655 6899999999999987765432      2456778888888


Q ss_pred             CChHHHHHHHHHHHHhcc--------CchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCC
Q 005381          155 RSEEDELKYTEDMICNNF--------SNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDD  220 (699)
Q Consensus       155 ~~~e~EL~~~~~~I~~n~--------sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d  220 (699)
                      .+ ++.++++.++++..+        ....++...+.++...+.            ++++++.+.+++...|..
T Consensus       108 ~~-~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~------------~~~A~~~~~~al~~~~~~  168 (373)
T 1hz4_A          108 FL-QTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWAR------------LDEAEASARSGIEVLSSY  168 (373)
T ss_dssp             CH-HHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHTTTS
T ss_pred             CH-HHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHHhhcc
Confidence            88 678899999998753        234456666766665543            799999999999988864

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.97  E-value=0.075  Score=49.38  Aligned_cols=99  Identities=16%  Similarity=0.158  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHhCC--CChHHHHHHHHHHHHhC-C-CChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           91 LRVVESALRQNFKSYGAWHHRKWILSKGH--SSIDNELRLLDKFQKAD-S-RNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        91 L~~~~~~L~~nPKsy~aW~hR~w~L~~~~--~~~~~EL~~~~k~L~~d-p-rN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      -+-|...+..+|.+.++...=+|+|-+..  ...++.+.+++.+++.+ | ++-.|++|.+...-+++.| +++++|+++
T Consensus        18 ~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y-~~A~~y~~~   96 (152)
T 1pc2_A           18 EKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY-EKALKYVRG   96 (152)
T ss_dssp             HHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCH-HHHHHHHHH
T ss_pred             HHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCH-HHHHHHHHH
Confidence            34445555566667777777777776642  13456777777777766 5 5566777777666666666 567777777


Q ss_pred             HHHhccCchHHHHHHHHHHHHhhh
Q 005381          167 MICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       167 ~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      +++++|.|.-|-.=+..+-..+.+
T Consensus        97 lL~ieP~n~QA~~Lk~~ie~~~~k  120 (152)
T 1pc2_A           97 LLQTEPQNNQAKELERLIDKAMKK  120 (152)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhcCCCCHHHHHHHHHHHHHHHH
Confidence            777777777776666665555544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.95  E-value=0.028  Score=47.56  Aligned_cols=74  Identities=11%  Similarity=-0.048  Sum_probs=46.9

Q ss_pred             CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           55 NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        55 nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      +|++..+|..++.++.....         .....++...++++|..+|++..++...+.+..+. ++|++++..+.++++
T Consensus         2 ~p~~~~~~~~~a~al~~~~~---------~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~-g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            2 NAVTATQLAAKATTLYYLHK---------QAMTDEVSLLLEQALQLEPYNEAALSLIANDHFIS-FRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CCCCHHHHHHHHHHHHHTTT---------TCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHhcC---------CCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHh
Confidence            56666777766666643221         01235666677777777777777777776666655 467777777777777


Q ss_pred             hCCC
Q 005381          135 ADSR  138 (699)
Q Consensus       135 ~dpr  138 (699)
                      .+|.
T Consensus        72 ~~p~   75 (93)
T 3bee_A           72 SNDP   75 (93)
T ss_dssp             CCCT
T ss_pred             hCCC
Confidence            7666

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.88  E-value=0.008  Score=54.46  Aligned_cols=51  Identities=24%  Similarity=0.195  Sum_probs=36.6

Q ss_pred             EEccCCCCC--cccCCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCC
Q 005381          538 LQLKNLSLS--RLGSFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNIL  589 (699)
Q Consensus       538 L~Ls~n~l~--~l~~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l  589 (699)
                      ++.+++.++  .+|.- --.+|+.|+|++|+|+.++.  |..+++|+.|+|++|.+
T Consensus        13 v~Cs~~~L~~~~vP~~-lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           13 VDCGRRGLTWASLPTA-FPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EECCSSCCCTTTSCSC-CCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEeCCCCCccccCCCC-CCcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            777777777  66621 12367788888888877776  77777888888888765

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.72  E-value=0.094  Score=48.71  Aligned_cols=66  Identities=9%  Similarity=0.068  Sum_probs=57.2

Q ss_pred             hhHHHHHHHHHHHHHhC-C-CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH
Q 005381           85 SILDEELRVVESALRQN-F-KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA  151 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~n-P-Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~  151 (699)
                      ..+++.+..++.+++.+ | +.-.++++.+-...++ +.|++++.+++++|+++|.|-.|-.-+.-+-.
T Consensus        49 ~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl-~~Y~~A~~y~~~lL~ieP~n~QA~~Lk~~ie~  116 (152)
T 1pc2_A           49 DDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRL-KEYEKALKYVRGLLQTEPQNNQAKELERLIDK  116 (152)
T ss_dssp             HHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHT-SCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHc-cCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            46789999999999999 7 6789999998888877 69999999999999999999999776655443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.69  E-value=0.014  Score=52.74  Aligned_cols=55  Identities=20%  Similarity=0.218  Sum_probs=46.7

Q ss_pred             CEEEccCCCCC--CCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCC
Q 005381          558 QMLDLSHNELR--SIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       558 ~~LdLS~N~L~--~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      ..++.+++.|+  .+|. +.  .+|+.|+|++|+|+.++ ...|..+++|+.|+|++|.+.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~-~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALP-PGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCC-TTTGGGCTTCCEEECCSSCCB
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccC-hhhhhhccccCEEEecCCCee
Confidence            47899999998  8886 32  36899999999999984 367888999999999999884

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.68  E-value=0.07  Score=45.08  Aligned_cols=63  Identities=16%  Similarity=0.049  Sum_probs=55.1

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK  103 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK  103 (699)
                      +..+-....+..+++|..++.++|..+|++..++...+.+....++            |++++..+++++..+|.
T Consensus        13 a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~------------y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A           13 ATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFR------------FQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             HHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHTCCCT
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhhCCC
Confidence            3334445667778999999999999999999999999998888765            99999999999999999

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.63  E-value=0.26  Score=50.66  Aligned_cols=126  Identities=6%  Similarity=-0.043  Sum_probs=97.5

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHhC----CC
Q 005381           47 LSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK--SYGAWHHRKWILSKG----HS  120 (699)
Q Consensus        47 ~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK--sy~aW~hR~w~L~~~----~~  120 (699)
                      +-..+-..+|++..++.+.+.+..........++.. -....++....+++++++|+  +-.+|...+-+..+.    .+
T Consensus       140 ~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~~A-l~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gG  218 (301)
T 3u64_A          140 LHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGSAL-PDTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGG  218 (301)
T ss_dssp             HHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTSCC-HHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTC
T ss_pred             HHHHHHHcCccccHHHHHHHHHHHHHHhcCCCChHH-HHhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCC
Confidence            344566789999999999998887654312233322 35578899999999999999  555999999998875    25


Q ss_pred             ChHHHHHHHHHHHHhCCC-ChhhhhHHHHHHHh-cCCChHHHHHHHHHHHHhccCc
Q 005381          121 SIDNELRLLDKFQKADSR-NFHAWNYRRFVAAS-MNRSEEDELKYTEDMICNNFSN  174 (699)
Q Consensus       121 ~~~~EL~~~~k~L~~dpr-N~haW~yR~~vl~~-l~~~~e~EL~~~~~~I~~n~sN  174 (699)
                      ..+++-++++++|+++|. |..++.+-+..+.. .+.+ ++..++.++++..+|+-
T Consensus       219 d~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~-~~a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          219 GMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR-AGFDEALDRALAIDPES  273 (301)
T ss_dssp             CHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH-HHHHHHHHHHHHCCGGG
T ss_pred             CHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH-HHHHHHHHHHHcCCCCC
Confidence            789999999999999996 48887777666655 4665 66788999999988874

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=95.53  E-value=0.31  Score=56.44  Aligned_cols=160  Identities=6%  Similarity=-0.077  Sum_probs=114.4

Q ss_pred             HHHH-HHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh-----------CCC------
Q 005381           42 KEAV-ELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ-----------NFK------  103 (699)
Q Consensus        42 ~eaL-~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~-----------nPK------  103 (699)
                      ++|. +++.+++..+|+....|.....+....+.            ++++-.++++++..           .|.      
T Consensus       360 ~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~------------~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~  427 (679)
T 4e6h_A          360 STVITKYLKLGQQCIPNSAVLAFSLSEQYELNTK------------IPEIETTILSCIDRIHLDLAALMEDDPTNESAIN  427 (679)
T ss_dssp             TTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCC------------HHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhh
Confidence            5787 99999999999999999877777666643            45555556666543           353      


Q ss_pred             -----ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHh-CCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHH
Q 005381          104 -----SYGAWHHRKWILSKGHSSIDNELRLLDKFQKA-DSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSA  177 (699)
Q Consensus       104 -----sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~-dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SA  177 (699)
                           ...+|..-.-+..+. +..+++-..+.++++. .+...+.|..-+.+-.+.+.-.+.+.+.++.+++..|.+...
T Consensus       428 ~~~~~~~~vWi~y~~~erR~-~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~  506 (679)
T 4e6h_A          428 QLKSKLTYVYCVYMNTMKRI-QGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEY  506 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-HCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHH
T ss_pred             hhccchHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHH
Confidence                 345788877666655 4678999999999998 556678887666555555542378899999999999999998


Q ss_pred             HHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCC---CchhHHH
Q 005381          178 WHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD---DQSGWFY  226 (699)
Q Consensus       178 W~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~---d~SaW~Y  226 (699)
                      |.--..++...+.            .+.+-+.+.+|+...|+   ....|.+
T Consensus       507 w~~y~~fe~~~~~------------~~~AR~lferal~~~~~~~~~~~lw~~  546 (679)
T 4e6h_A          507 INKYLDFLIYVNE------------ESQVKSLFESSIDKISDSHLLKMIFQK  546 (679)
T ss_dssp             HHHHHHHHHHHTC------------HHHHHHHHHHHTTTSSSTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCC------------HHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            8333333333322            57788899999988883   4456654

>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=95.33  E-value=0.0038  Score=59.74  Aligned_cols=78  Identities=13%  Similarity=0.262  Sum_probs=59.6

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCC-CCC--CcCCccc----cccceeecccCC-CCCCCCCcccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNE-LRS--IEGLEAL----QLLSCLNLSNNI-LGSFTALEPIRQLKSLRAL  607 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~-L~~--l~~l~~L----~~L~~L~Ls~N~-l~~l~~~~~l~~l~~L~~L  607 (699)
                      |+++++.++..+  .+..+++|+.|+|+++. |+.  +..+..+    ++|+.|+|+++. |+.- ....+..+++|+.|
T Consensus        66 LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~-Gl~~L~~~~~L~~L  144 (176)
T 3e4g_A           66 IDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDK-GIIALHHFRNLKYL  144 (176)
T ss_dssp             EEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHH-HHHHGGGCTTCCEE
T ss_pred             EeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHH-HHHHHhcCCCCCEE
Confidence            999999998654  78899999999999985 544  2225554    479999999985 7653 33567789999999


Q ss_pred             cccccc-CCC
Q 005381          608 NISYNE-IGA  616 (699)
Q Consensus       608 ~Ls~N~-I~~  616 (699)
                      +|++.. |+.
T Consensus       145 ~L~~c~~Itd  154 (176)
T 3e4g_A          145 FLSDLPGVKE  154 (176)
T ss_dssp             EEESCTTCCC
T ss_pred             ECCCCCCCCc
Confidence            998764 444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.32  E-value=0.2  Score=53.20  Aligned_cols=158  Identities=11%  Similarity=0.028  Sum_probs=107.0

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchH-----------------HHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHH
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYT-----------------AWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESA   97 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~yt-----------------aWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~   97 (699)
                      ...|+| ++|++.+.+++...|+...                 +....+.+....+.            ++++++.+..+
T Consensus        15 ~~~~~y-~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~------------~~~a~~~~~~~   81 (434)
T 4b4t_Q           15 VNEKQY-NEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGA------------KDKLREFIPHS   81 (434)
T ss_dssp             HHHTCH-HHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHT
T ss_pred             HHCCCH-HHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC------------HHHHHHHHHHH
Confidence            345777 7899999999998888653                 34555666665544            88999999999


Q ss_pred             HHhCCCChHHHHHHHH--HHH---hCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           98 LRQNFKSYGAWHHRKW--ILS---KGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        98 L~~nPKsy~aW~hR~w--~L~---~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      +...++...+-..+.-  .+.   ...+.++++++++.+++...+..      ..++...+-+....|.+ .++++++.+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-~~A~~~l~~  160 (434)
T 4b4t_Q           82 TEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQY-KDSLALIND  160 (434)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCH-HHHHHHHHH
T ss_pred             HHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccCh-HHHHHHHHH
Confidence            9876665544322211  111   22367899999999998765433      23555667777777888 678888888


Q ss_pred             HHHh------ccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          167 MICN------NFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       167 ~I~~------n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                      ++..      .+....++...+.+...++.            +.++...+++++.+.|
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~A~~~~~~al~~~~  206 (434)
T 4b4t_Q          161 LLREFKKLDDKPSLVDVHLLESKVYHKLRN------------LAKSKASLTAARTAAN  206 (434)
T ss_dssp             HHHHHTTSSCSTHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccchhHHHHHHHHHHHHHHhCc------------HHHHHHHHHHHHHHhh
Confidence            7765      22333566666666665533            7888888888887644

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=95.14  E-value=0.18  Score=52.51  Aligned_cols=153  Identities=10%  Similarity=0.006  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC--CChHHHHHHHHHHHhCCCC
Q 005381           44 AVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF--KSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        44 aL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP--Ksy~aW~hR~w~L~~~~~~  121 (699)
                      ++..+++++...+....+...-+.++...+.            ++++++++.+.|..+|  .+..+..-..-++-+. ++
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~------------~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~-~r  151 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGD------------LDKSLETCVEGIDNDEAEGTTELLLLAIEVALLN-NN  151 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCC------------HHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHC-CC
Confidence            4455566666555667777777777777654            9999999999999997  8888888888888777 69


Q ss_pred             hHHHHHHHHHHHHhCCC----ChhhhhH--HHHHHHhcC--CChHHHHHHHHHHHHhccCchH--HHHHHHHHHHHhhhh
Q 005381          122 IDNELRLLDKFQKADSR----NFHAWNY--RRFVAASMN--RSEEDELKYTEDMICNNFSNYS--AWHNRSLLLSNLLKR  191 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dpr----N~haW~y--R~~vl~~l~--~~~e~EL~~~~~~I~~n~sN~S--AW~~R~~ll~~l~~~  191 (699)
                      .+.+.+.++++.+.+|.    +-....+  -+|+--..|  .+ ++.+.+++++.+..|...+  ....   +..+++  
T Consensus       152 ~d~A~k~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~-q~A~~~f~El~~~~p~~~~~~lLln---~~~~~g--  225 (310)
T 3mv2_B          152 VSTASTIFDNYTNAIEDTVSGDNEMILNLAESYIKFATNKETA-TSNFYYYEELSQTFPTWKTQLGLLN---LHLQQR--  225 (310)
T ss_dssp             HHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTT-THHHHHHHHHHTTSCSHHHHHHHHH---HHHHHT--
T ss_pred             HHHHHHHHHHHHhcCccccccchHHHHHHHHHHHHHHhCCccH-HHHHHHHHHHHHhCCCcccHHHHHH---HHHHcC--
Confidence            99999999999999983    2222222  356544444  55 6789999999888876222  2222   333332  


Q ss_pred             hccCccchhchHHHHHHHHHHHHHh----------CCCCchhHH
Q 005381          192 KVEGFVSKEKVLPDEYEFVHQAIFT----------DPDDQSGWF  225 (699)
Q Consensus       192 ~~~~~~~~~~~~~eeL~~~~~ai~~----------dP~d~SaW~  225 (699)
                                .++++-+.++.++..          +|+|..+-.
T Consensus       226 ----------~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~La  259 (310)
T 3mv2_B          226 ----------NIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLA  259 (310)
T ss_dssp             ----------CHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHH
T ss_pred             ----------CHHHHHHHHHHHHHhcccccccccCCCCCHHHHH
Confidence                      367777777766666          588887763

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=94.95  E-value=0.44  Score=42.76  Aligned_cols=116  Identities=9%  Similarity=-0.076  Sum_probs=88.6

Q ss_pred             hhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHh----cCCChH
Q 005381           83 LKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAAS----MNRSEE  158 (699)
Q Consensus        83 ~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~----l~~~~e  158 (699)
                      +.+++++++.+++++...+.....    -+.+.... ...+++++++.++.+.  .+..|+..-+.+...    .+.+ +
T Consensus         7 ~~~d~~~A~~~~~~aa~~g~~~a~----lg~~y~~g-~~~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~-~   78 (138)
T 1klx_A            7 VKKDLKKAIQYYVKACELNEMFGC----LSLVSNSQ-INKQKLFQYLSKACEL--NSGNGCRFLGDFYENGKYVKKDL-R   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCTTHH----HHHHTCTT-SCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHCSSSCCCH-H
T ss_pred             CccCHHHHHHHHHHHHcCCCHhhh----HHHHHHcC-CCHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCCCccH-H
Confidence            457799999999999988744443    55555544 4678899999999987  678899999988876    3333 7


Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHh
Q 005381          159 DELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFT  216 (699)
Q Consensus       159 ~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~  216 (699)
                      +.++++.++++.  .+..|.++.+.+...=     .+   ....++++++++.+|+..
T Consensus        79 ~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G-----~g---~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           79 KAAQYYSKACGL--NDQDGCLILGYKQYAG-----KG---VVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHHHT--TCHHHHHHHHHHHHHT-----SS---SCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcC--CCHHHHHHHHHHHHCC-----CC---CCcCHHHHHHHHHHHHHC
Confidence            899999999987  6788888888776541     01   123479999999999987

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=94.47  E-value=0.57  Score=48.72  Aligned_cols=158  Identities=6%  Similarity=-0.060  Sum_probs=114.6

Q ss_pred             CCCCcHHHHHHHHHHHHhCC--CchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC------CChHHH
Q 005381           37 NHIYSKEAVELSTKLLETNP--ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF------KSYGAW  108 (699)
Q Consensus        37 ~~~~~~eaL~~~~~~L~~nP--~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP------Ksy~aW  108 (699)
                      .|.+ ++||+++.+.|..+|  .+..+.-..-.++..+++            .+.+.+.++++...+|      ......
T Consensus       113 ~g~~-eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r------------~d~A~k~l~~~~~~~~d~~~~~d~~l~~  179 (310)
T 3mv2_B          113 LGDL-DKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNN------------VSTASTIFDNYTNAIEDTVSGDNEMILN  179 (310)
T ss_dssp             HTCH-HHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             cCCH-HHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHhcCccccccchHHHHH
Confidence            4666 899999999999997  888888888888888866            7899999999999999      344444


Q ss_pred             HHHHHHHHh-CCCChHHHHHHHHHHHHhCCC--Ch-hhhhHHHHHHHhcCCChHHHHHHHHHHHHh----------ccCc
Q 005381          109 HHRKWILSK-GHSSIDNELRLLDKFQKADSR--NF-HAWNYRRFVAASMNRSEEDELKYTEDMICN----------NFSN  174 (699)
Q Consensus       109 ~hR~w~L~~-~~~~~~~EL~~~~k~L~~dpr--N~-haW~yR~~vl~~l~~~~e~EL~~~~~~I~~----------n~sN  174 (699)
                      ---.|+--. ....+++++.+++.+.+..|.  .. .-|+    +..++|.++ ++-+..+.+++.          +|.|
T Consensus       180 Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln----~~~~~g~~~-eAe~~L~~l~~~~p~~~~k~~~~p~~  254 (310)
T 3mv2_B          180 LAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLN----LHLQQRNIA-EAQGIVELLLSDYYSVEQKENAVLYK  254 (310)
T ss_dssp             HHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHH----HHHHHTCHH-HHHHHHHHHHSHHHHTTTCHHHHSSH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHH----HHHHcCCHH-HHHHHHHHHHHhcccccccccCCCCC
Confidence            444666543 334789999999999888875  22 2233    566778884 444555666665          5888


Q ss_pred             hHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHH
Q 005381          175 YSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFY  226 (699)
Q Consensus       175 ~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y  226 (699)
                      ..+..+...+-..+++              ++.+++.++...+|+|.-.=-|
T Consensus       255 ~~~LaN~i~l~~~lgk--------------~a~~l~~qL~~~~P~hp~i~d~  292 (310)
T 3mv2_B          255 PTFLANQITLALMQGL--------------DTEDLTNQLVKLDHEHAFIKHH  292 (310)
T ss_dssp             HHHHHHHHHHHHHTTC--------------TTHHHHHHHHHTTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCh--------------HHHHHHHHHHHhCCCChHHHHH
Confidence            8887777655554421              4557788899999999866544

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=93.97  E-value=0.29  Score=53.44  Aligned_cols=101  Identities=11%  Similarity=0.033  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh--------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHH
Q 005381           23 KLRVLQSQFLHNHHNHIYSKEAVELSTKLLET--------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVV   94 (699)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~--------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~   94 (699)
                      .-+..+..+......|.| ++|+.++.++|.+        +|+-.+..+.-+.+....++            |++++.++
T Consensus       297 ~~~~~le~~~~~~~~g~~-~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~------------~~eA~~~~  363 (433)
T 3qww_A          297 YARNVIEEFRRAKHYKSP-SELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQD------------WEGALKYG  363 (433)
T ss_dssp             HHHHHHHHHHHHTTTSCH-HHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTC------------HHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccCH-HHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcC------------HHHHHHHH
Confidence            344555666666677777 7999999999996        34445667777777777765            88888888


Q ss_pred             HHHHHh--------CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCC
Q 005381           95 ESALRQ--------NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADS  137 (699)
Q Consensus        95 ~~~L~~--------nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dp  137 (699)
                      +++|.+        +|.-...++.-+.++... +.+++++.++++++++..
T Consensus       364 ~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~q-g~~~eA~~~~~~Al~i~~  413 (433)
T 3qww_A          364 QKIIKPYSKHYPVYSLNVASMWLKLGRLYMGL-ENKAAGEKALKKAIAIME  413 (433)
T ss_dssp             HHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCChHHHHHHHHHHHHHHhc-cCHHHHHHHHHHHHHHHH
Confidence            888853        566666777778888766 699999999999998753

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=93.77  E-value=0.25  Score=50.73  Aligned_cols=91  Identities=14%  Similarity=0.059  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHHhCCCc--hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHhC
Q 005381           42 KEAVELSTKLLETNPEL--YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFK-SYGAWHHRKWILSKG  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~--ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPK-sy~aW~hR~w~L~~~  118 (699)
                      .+|....+++|+++|+.  -.+|.+.+.+....       |+..-...+++-..++++|+++|. +..+++.-+..+...
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~v-------Pp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~  252 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAA-------PESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIP  252 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHS-------CTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhC-------CCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHh
Confidence            58888999999999994  56999999888765       222224578999999999999996 599999999888764


Q ss_pred             CCChHHHHHHHHHHHHhCCCC
Q 005381          119 HSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN  139 (699)
                      .++++++..++++++..+|+-
T Consensus       253 ~gd~~~a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          253 LNNRAGFDEALDRALAIDPES  273 (301)
T ss_dssp             TTCHHHHHHHHHHHHHCCGGG
T ss_pred             cCCHHHHHHHHHHHHcCCCCC
Confidence            468899999999999999884

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=93.74  E-value=0.075  Score=58.12  Aligned_cols=128  Identities=9%  Similarity=0.087  Sum_probs=84.6

Q ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHH
Q 005381           87 LDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTED  166 (699)
Q Consensus        87 ~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~  166 (699)
                      |+++++.+.++     .+..+|.--..+.-.. +.++.+..+... +..+|.+...   -.-+.++.|.+ ++.+.+.++
T Consensus       164 yq~AVea~~KA-----~~~~~Wk~v~~aCv~~-~ef~lA~~~~l~-L~~~ad~l~~---lv~~Yek~G~~-eEai~lLe~  232 (449)
T 1b89_A          164 YQAAVDGARKA-----NSTRTWKEVCFACVDG-KEFRLAQMCGLH-IVVHADELEE---LINYYQDRGYF-EELITMLEA  232 (449)
T ss_dssp             HHHHHHHHHHH-----TCHHHHHHHHHHHHHT-TCHHHHHHTTTT-TTTCHHHHHH---HHHHHHHTTCH-HHHHHHHHH
T ss_pred             HHHHHHHHHHc-----CCchhHHHHHHHHHHc-CcHHHHHHHHHH-HHhCHhhHHH---HHHHHHHCCCH-HHHHHHHHH
Confidence            55555555555     2445554444444433 345544333332 2233322110   11234555666 678899999


Q ss_pred             HHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC-----CCchhHHHHHHHHcCcC
Q 005381          167 MICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP-----DDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       167 ~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP-----~d~SaW~Y~~~Ll~~~~  235 (699)
                      ++..++-...+|...+.+..+..+          +.+.+.++.+-..+.+.|     ++...|.=..+|.....
T Consensus       233 aL~le~ah~~~ftel~il~~ky~p----------~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~  296 (449)
T 1b89_A          233 ALGLERAHMGMFTELAILYSKFKP----------QKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYE  296 (449)
T ss_dssp             HTTSTTCCHHHHHHHHHHHHTTCH----------HHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTT
T ss_pred             HhCCcHHHHHHHHHHHHHHHhcCH----------HHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999988887644          567899999999999999     99999999999996543

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=93.62  E-value=0.018  Score=56.16  Aligned_cols=75  Identities=15%  Similarity=0.187  Sum_probs=46.0

Q ss_pred             EEccCC-CCCccc------CCCCCcccCEEEccCCCCCCC-----cC-CccccccceeecccCCCCCCCC---Ccccccc
Q 005381          538 LQLKNL-SLSRLG------SFDKLLWVQMLDLSHNELRSI-----EG-LEALQLLSCLNLSNNILGSFTA---LEPIRQL  601 (699)
Q Consensus       538 L~Ls~n-~l~~l~------~l~~L~~L~~LdLS~N~L~~l-----~~-l~~L~~L~~L~Ls~N~l~~l~~---~~~l~~l  601 (699)
                      |+|++| .|..-+      .+..-+.|+.|+|++|.|+.-     -. +..-..|+.|+|++|.|+.-..   -+.+..-
T Consensus        46 L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N  125 (197)
T 1pgv_A           46 VNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVT  125 (197)
T ss_dssp             EECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTT
T ss_pred             EECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHHHhhC
Confidence            788774 666321      455667788888888888542     22 4455668888888888754210   0123334


Q ss_pred             ccccccccccc
Q 005381          602 KSLRALNISYN  612 (699)
Q Consensus       602 ~~L~~L~Ls~N  612 (699)
                      +.|+.|+|++|
T Consensus       126 ~tL~~L~L~n~  136 (197)
T 1pgv_A          126 QSIVEFKADNQ  136 (197)
T ss_dssp             CCCSEEECCCC
T ss_pred             CceeEEECCCC
Confidence            56777777754

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=93.19  E-value=0.44  Score=52.93  Aligned_cols=102  Identities=12%  Similarity=0.007  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh--------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHH
Q 005381           21 AEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLET--------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELR   92 (699)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~--------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~   92 (699)
                      .+..+...+.+...+.+|.| ++|+.++.++|.+        +|+..++.+.-+.++...++            |++++.
T Consensus       306 l~~a~~~le~a~~~~~qg~~-~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~------------~~eA~~  372 (490)
T 3n71_A          306 IQFSKDTLEKIDKARSEGLY-HEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQA------------YEEASH  372 (490)
T ss_dssp             HHHHHHHHHHHHHHHTTTCH-HHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTC------------HHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCCH-HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcC------------HHHHHH
Confidence            44445666677777888988 7999999999987        44455677777777777765            778888


Q ss_pred             HHHHHHH--------hCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhC
Q 005381           93 VVESALR--------QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKAD  136 (699)
Q Consensus        93 ~~~~~L~--------~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~d  136 (699)
                      +++++|.        .+|.-..+.+.-+.++... +.++++..++.+++++-
T Consensus       373 ~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~-G~~~eA~~~~~~Al~i~  423 (490)
T 3n71_A          373 YARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHA-GHIEVGHGMICKAYAIL  423 (490)
T ss_dssp             HHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHH
Confidence            8777774        3455555666677777766 68999999999999774

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=93.15  E-value=0.038  Score=59.34  Aligned_cols=76  Identities=9%  Similarity=0.242  Sum_probs=46.9

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      +.+..+ +..++  .|.++..|+.+.+. +.+..++.  |.++.+|+.+.|..+ ++.+.. ..|.+|.+|+.+.|..+ 
T Consensus       270 i~lp~~-~~~I~~~aF~~c~~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~-~aF~~C~~L~~i~ip~s-  344 (394)
T 4gt6_A          270 VKMPDS-VVSIGTGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDIPEG-ITQILD-DAFAGCEQLERIAIPSS-  344 (394)
T ss_dssp             EECCTT-CCEECTTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEECCTT-CCEECT-TTTTTCTTCCEEEECTT-
T ss_pred             Eecccc-cceecCcccccccccccccCC-CcccccCceeecCCCCcCEEEeCCc-ccEehH-hHhhCCCCCCEEEECcc-
Confidence            555433 23343  66777777777775 45666665  777777777777654 444422 55777777777777543 


Q ss_pred             CCCCC
Q 005381          614 IGAHS  618 (699)
Q Consensus       614 I~~lp  618 (699)
                      ++.++
T Consensus       345 v~~I~  349 (394)
T 4gt6_A          345 VTKIP  349 (394)
T ss_dssp             CCBCC
T ss_pred             cCEEh
Confidence            55553

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=93.00  E-value=1.9  Score=38.47  Aligned_cols=109  Identities=11%  Similarity=0.035  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC---
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG---  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~---  118 (699)
                      ++|+.++.++...+.....    -+.+....            ..+++++.+++++...  .+..+++.-+.++...   
T Consensus        12 ~~A~~~~~~aa~~g~~~a~----lg~~y~~g------------~~~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~   73 (138)
T 1klx_A           12 KKAIQYYVKACELNEMFGC----LSLVSNSQ------------INKQKLFQYLSKACEL--NSGNGCRFLGDFYENGKYV   73 (138)
T ss_dssp             HHHHHHHHHHHHTTCTTHH----HHHHTCTT------------SCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHCSSS
T ss_pred             HHHHHHHHHHHcCCCHhhh----HHHHHHcC------------CCHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCC
Confidence            6889999999988754443    34333322            1256699999999987  6889999999999873   


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHh----cCCChHHHHHHHHHHHHhc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAAS----MNRSEEDELKYTEDMICNN  171 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~----l~~~~e~EL~~~~~~I~~n  171 (699)
                      ..+++++++++.++.+.  .+..|+..-+.+...    .+.+ ++.++++.++++..
T Consensus        74 ~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~-~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           74 KKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKGVVKNE-KQAVKTFEKACRLG  127 (138)
T ss_dssp             CCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-HHHHHHHHHHHHTT
T ss_pred             CccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCH-HHHHHHHHHHHHCC
Confidence            35899999999999987  678898888888876    3333 78899999998863

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.75  E-value=0.76  Score=48.65  Aligned_cols=166  Identities=8%  Similarity=-0.020  Sum_probs=106.2

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHH--HHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC------hHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYR--KLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS------YGA  107 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R--~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs------y~a  107 (699)
                      ..|.+ ++|++.+.+++.+.+....+-..+  +..+.....        ....+++++.++..++...++.      ..+
T Consensus        67 ~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           67 TMGAK-DKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQ--------VPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHTCH-HHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCS--------CCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HCCCH-HHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHh--------CCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            45566 689999999988877765442221  111222211        1134788888888888654333      345


Q ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhCC------CChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHH
Q 005381          108 WHHRKWILSKGHSSIDNELRLLDKFQKADS------RNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNR  181 (699)
Q Consensus       108 W~hR~w~L~~~~~~~~~EL~~~~k~L~~dp------rN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R  181 (699)
                      +...+-+.... +.++++++++.+++..-.      .-..++...+.+...++.+ +++..++++++...+..+..+...
T Consensus       138 ~~~la~~~~~~-g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~A~~~~~~al~~~~~~~~~~~~~  215 (434)
T 4b4t_Q          138 SIKLATLHYQK-KQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNL-AKSKASLTAARTAANSIYCPTQTV  215 (434)
T ss_dssp             HHHHHHHHHHH-TCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHc-cChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcH-HHHHHHHHHHHHHhhcCCCchHHH
Confidence            66666666655 689999999999887522      2234677778888888888 678888899998876666555545


Q ss_pred             HHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhC
Q 005381          182 SLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTD  217 (699)
Q Consensus       182 ~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~d  217 (699)
                      +.+...++..     ....+.++++..++..++.+.
T Consensus       216 ~~~~~~~g~~-----~~~~~~y~~A~~~~~~a~~~~  246 (434)
T 4b4t_Q          216 AELDLMSGIL-----HCEDKDYKTAFSYFFESFESY  246 (434)
T ss_dssp             HHHHHHHHHH-----TTSSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-----HHHHHhHHHHHHHHHHHHHHh
Confidence            5444444331     112244788888888887653

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=92.40  E-value=0.19  Score=53.80  Aligned_cols=112  Identities=13%  Similarity=0.155  Sum_probs=72.5

Q ss_pred             CCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcc
Q 005381          545 LSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSID  620 (699)
Q Consensus       545 l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~  620 (699)
                      ++.++  .|.++..|+.+.+..+. ..+..  |.++..|+.+.+. +.++.+.. ..|..|.+|+.+.|..+ ++.++..
T Consensus       253 v~~i~~~aF~~c~~L~~i~lp~~~-~~I~~~aF~~c~~L~~i~l~-~~i~~I~~-~aF~~c~~L~~i~lp~~-v~~I~~~  328 (394)
T 4gt6_A          253 VARIETHAFDSCAYLASVKMPDSV-VSIGTGAFMNCPALQDIEFS-SRITELPE-SVFAGCISLKSIDIPEG-ITQILDD  328 (394)
T ss_dssp             EEEECTTTTTTCSSCCEEECCTTC-CEECTTTTTTCTTCCEEECC-TTCCEECT-TTTTTCTTCCEEECCTT-CCEECTT
T ss_pred             ceEcccceeeecccccEEeccccc-ceecCcccccccccccccCC-CcccccCc-eeecCCCCcCEEEeCCc-ccEehHh
Confidence            44444  78899999999997654 44554  8999999999996 45666533 67889999999999754 6666422


Q ss_pred             cccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          621 TTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       621 ~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .+   .....+..+.+-.+ ++.+          ...+|.++ +|+.+++.+|..
T Consensus       329 aF---~~C~~L~~i~ip~s-v~~I----------~~~aF~~C~~L~~i~~~~~~~  369 (394)
T 4gt6_A          329 AF---AGCEQLERIAIPSS-VTKI----------PESAFSNCTALNNIEYSGSRS  369 (394)
T ss_dssp             TT---TTCTTCCEEEECTT-CCBC----------CGGGGTTCTTCCEEEESSCHH
T ss_pred             Hh---hCCCCCCEEEECcc-cCEE----------hHhHhhCCCCCCEEEECCcee
Confidence            22   22111111121111 1111          12478999 999999998865

>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=92.25  E-value=0.12  Score=54.81  Aligned_cols=59  Identities=7%  Similarity=0.145  Sum_probs=32.1

Q ss_pred             CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccc
Q 005381          550 SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNIS  610 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls  610 (699)
                      .+.++..|+.+.+.. .+..++.  |.++.+|+.+.+.++.++.+.. ..|.+|.+|+.+.|.
T Consensus       258 aF~~~~~l~~i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~-~aF~~c~~L~~i~lp  318 (379)
T 4h09_A          258 LLQNCTALKTLNFYA-KVKTVPYLLCSGCSNLTKVVMDNSAIETLEP-RVFMDCVKLSSVTLP  318 (379)
T ss_dssp             TTTTCTTCCEEEECC-CCSEECTTTTTTCTTCCEEEECCTTCCEECT-TTTTTCTTCCEEECC
T ss_pred             ccceeehhccccccc-cceeccccccccccccccccccccccceehh-hhhcCCCCCCEEEcC
Confidence            455555566665543 2444444  5556666666665555555422 445556666666554

>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=91.94  E-value=0.04  Score=53.63  Aligned_cols=79  Identities=16%  Similarity=0.143  Sum_probs=53.8

Q ss_pred             eEEccCCCCCccc------CCCCCcccCEEEccCCCCCCCc-----C-CccccccceeecccCCCCCCCC------Cccc
Q 005381          537 CLQLKNLSLSRLG------SFDKLLWVQMLDLSHNELRSIE-----G-LEALQLLSCLNLSNNILGSFTA------LEPI  598 (699)
Q Consensus       537 ~L~Ls~n~l~~l~------~l~~L~~L~~LdLS~N~L~~l~-----~-l~~L~~L~~L~Ls~N~l~~l~~------~~~l  598 (699)
                      .|+|++|.|...+      .+..-+.|+.|+|++|.|+.-.     . +..-..|+.|+|++|....+..      -..+
T Consensus        74 ~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL  153 (197)
T 1pgv_A           74 KFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAI  153 (197)
T ss_dssp             EEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHH
T ss_pred             EEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHH
Confidence            3999999998543      3445588999999999996522     2 5556679999998764322210      0123


Q ss_pred             cccccccccccccccCC
Q 005381          599 RQLKSLRALNISYNEIG  615 (699)
Q Consensus       599 ~~l~~L~~L~Ls~N~I~  615 (699)
                      ..-+.|+.|+++.|.++
T Consensus       154 ~~N~tL~~L~l~~~~~g  170 (197)
T 1pgv_A          154 EENESLLRVGISFASME  170 (197)
T ss_dssp             HHCSSCCEEECCCCCHH
T ss_pred             HhCCCcCeEeccCCCcc
Confidence            44567888888877654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=91.73  E-value=0.96  Score=38.32  Aligned_cols=65  Identities=17%  Similarity=0.153  Sum_probs=51.2

Q ss_pred             hhHHHHHHHHHHHHHhC-------CCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHH
Q 005381           85 SILDEELRVVESALRQN-------FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA  150 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~n-------PKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl  150 (699)
                      +.|..++.+++.+++..       +....++.+-+.++.+. +.+++++.+++++++++|.+-.+...++++-
T Consensus        19 ~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~-g~~~~A~~~~~~al~l~P~~~~~~~n~~~~~   90 (104)
T 2v5f_A           19 ADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQ-GDLDKALLLTKKLLELDPEHQRANGNLKYFE   90 (104)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHc-cCHHHHHHHHHHHHhcCCCCHHHHhhHHHHH
Confidence            34899999999999753       34567788888888877 5888899999999999998888877776443

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=90.46  E-value=0.22  Score=53.28  Aligned_cols=122  Identities=10%  Similarity=0.111  Sum_probs=65.0

Q ss_pred             CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCC
Q 005381          550 SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSP  629 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~  629 (699)
                      .+..+..++.+.+..+.+... .|..+.+|+.+.+..+ ++.+. ...|..|.+|+.++|..+ ++.++...   +..+.
T Consensus       271 ~F~~~~~l~~~~~~~~~i~~~-~F~~~~~L~~i~l~~~-i~~I~-~~aF~~c~~L~~i~lp~~-v~~I~~~a---F~~c~  343 (394)
T 4fs7_A          271 LFYNCSGLKKVIYGSVIVPEK-TFYGCSSLTEVKLLDS-VKFIG-EEAFESCTSLVSIDLPYL-VEEIGKRS---FRGCT  343 (394)
T ss_dssp             TTTTCTTCCEEEECSSEECTT-TTTTCTTCCEEEECTT-CCEEC-TTTTTTCTTCCEECCCTT-CCEECTTT---TTTCT
T ss_pred             ccccccccceeccCceeeccc-cccccccccccccccc-cceec-hhhhcCCCCCCEEEeCCc-ccEEhHHh---ccCCC
Confidence            666777777777665543211 1667777777777654 54442 255777777777777643 65553222   22221


Q ss_pred             CcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCccccc
Q 005381          630 LSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWL  693 (699)
Q Consensus       630 ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~L  693 (699)
                      -+..+.+..| ++.+.          ..+|.++ +|+.++|..+--.   + ...+..+++|+.+
T Consensus       344 ~L~~i~lp~~-l~~I~----------~~aF~~C~~L~~i~lp~~~~~---~-~~~F~~c~~L~~I  393 (394)
T 4fs7_A          344 SLSNINFPLS-LRKIG----------ANAFQGCINLKKVELPKRLEQ---Y-RYDFEDTTKFKWI  393 (394)
T ss_dssp             TCCEECCCTT-CCEEC----------TTTBTTCTTCCEEEEEGGGGG---G-GGGBCTTCEEEEE
T ss_pred             CCCEEEECcc-ccEeh----------HHHhhCCCCCCEEEECCCCEE---h-hheecCCCCCcEE
Confidence            1222222222 11111          2478888 9999998765211   1 1224456666653

>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=90.24  E-value=0.32  Score=51.54  Aligned_cols=77  Identities=12%  Similarity=0.150  Sum_probs=61.7

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      +.+.. .++.++  .|.++.+|+.+.+.++.++.|+.  |.++.+|+.+.|..+ ++.+.. ..|.+|.+|+.+.+..+ 
T Consensus       268 i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~-~aF~~C~~L~~i~ip~~-  343 (379)
T 4h09_A          268 LNFYA-KVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPTA-LKTIQV-YAFKNCKALSTISYPKS-  343 (379)
T ss_dssp             EEECC-CCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCTT-CCEECT-TTTTTCTTCCCCCCCTT-
T ss_pred             ccccc-cceeccccccccccccccccccccccceehhhhhcCCCCCCEEEcCcc-ccEEHH-HHhhCCCCCCEEEECCc-
Confidence            66643 466665  78999999999999999999987  999999999999765 666633 67899999999998754 


Q ss_pred             CCCCC
Q 005381          614 IGAHS  618 (699)
Q Consensus       614 I~~lp  618 (699)
                      ++.+.
T Consensus       344 v~~I~  348 (379)
T 4h09_A          344 ITLIE  348 (379)
T ss_dssp             CCEEC
T ss_pred             cCEEc
Confidence            66653

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=89.57  E-value=0.24  Score=52.99  Aligned_cols=65  Identities=15%  Similarity=0.184  Sum_probs=44.3

Q ss_pred             CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          550 SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       550 ~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      .+..+.+|+.+.+..+ +..|+.  |.++.+|+.+++..+ ++.+. ...|.+|.+|+.+.+..| ++.++
T Consensus       292 ~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~~-v~~I~-~~aF~~c~~L~~i~lp~~-l~~I~  358 (394)
T 4fs7_A          292 TFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPYL-VEEIG-KRSFRGCTSLSNINFPLS-LRKIG  358 (394)
T ss_dssp             TTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCTT-CCEEC-TTTTTTCTTCCEECCCTT-CCEEC
T ss_pred             cccccccccccccccc-cceechhhhcCCCCCCEEEeCCc-ccEEh-HHhccCCCCCCEEEECcc-ccEeh
Confidence            5667777888777654 666655  777778888777644 55553 256777778888877665 66654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=88.92  E-value=3.1  Score=35.06  Aligned_cols=72  Identities=15%  Similarity=0.058  Sum_probs=57.8

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhC-------CCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETN-------PELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS  104 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~n-------P~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs  104 (699)
                      ......+.| +.|...+.+++...       +....++.+-+.++.+++.            +++++..++++++.+|.+
T Consensus        13 ~~~~~~~~y-~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~------------~~~A~~~~~~al~l~P~~   79 (104)
T 2v5f_A           13 KVAYTEADY-YHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGD------------LDKALLLTKKLLELDPEH   79 (104)
T ss_dssp             HHHHHTTCH-HHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHccch-HHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccC------------HHHHHHHHHHHHhcCCCC
Confidence            334567777 79999999999874       3456788888888888865            899999999999999999


Q ss_pred             hHHHHHHHHHHH
Q 005381          105 YGAWHHRKWILS  116 (699)
Q Consensus       105 y~aW~hR~w~L~  116 (699)
                      ..+.+.++++-.
T Consensus        80 ~~~~~n~~~~~~   91 (104)
T 2v5f_A           80 QRANGNLKYFEY   91 (104)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHH
Confidence            999887775443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=88.60  E-value=11  Score=41.45  Aligned_cols=182  Identities=12%  Similarity=-0.001  Sum_probs=103.4

Q ss_pred             HHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHH-
Q 005381           21 AEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR-   99 (699)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~-   99 (699)
                      +...|.+.+.+.+....+++ +++-.++++++...| ++.+|..--......+.    .++.+.       ..|+.++. 
T Consensus        11 i~~aR~vyer~l~~~P~~~~-e~~~~iferal~~~p-s~~LW~~Y~~f~~~~~~----~~~~i~-------~~fe~al~~   77 (493)
T 2uy1_A           11 LSSPSAIMEHARRLYMSKDY-RSLESLFGRCLKKSY-NLDLWMLYIEYVRKVSQ----KKFKLY-------EVYEFTLGQ   77 (493)
T ss_dssp             -CCHHHHHHHHHHHHHTTCH-HHHHHHHHHHSTTCC-CHHHHHHHHHHHHHHC--------CTH-------HHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCCCCH-HHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCc----hHHHHH-------HHHHHHHHH
Confidence            44566777777777777777 789999999999888 78899855444433321    111222       23344443 


Q ss_pred             --hCCCChHHHHHHHHHHHhCC---CChHHHHHHHHHHHHhCCCC-----------------------------------
Q 005381          100 --QNFKSYGAWHHRKWILSKGH---SSIDNELRLLDKFQKADSRN-----------------------------------  139 (699)
Q Consensus       100 --~nPKsy~aW~hR~w~L~~~~---~~~~~EL~~~~k~L~~dprN-----------------------------------  139 (699)
                        .+|.++.+|.--.-.+....   +..++.-..|++++..=+.+                                   
T Consensus        78 vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar  157 (493)
T 2uy1_A           78 FENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSF  157 (493)
T ss_dssp             STTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHH
Confidence              36777777754333222110   12333444444444421111                                   


Q ss_pred             --------------hhhhhHHHHH-HHhc---CCCh----HHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          140 --------------FHAWNYRRFV-AASM---NRSE----EDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       140 --------------~haW~yR~~v-l~~l---~~~~----e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                                    ...|.  .++ +..-   +..+    +.....+++++...|.....|......+...+        
T Consensus       158 ~~y~~~~~~~~~~s~~~W~--~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~--------  227 (493)
T 2uy1_A          158 QRYQQIQPLIRGWSVKNAA--RLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIG--------  227 (493)
T ss_dssp             HHHHHHHHHHHTCSHHHHH--HHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTT--------
T ss_pred             HHHHHHHHHHhhccHHHHH--HHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcC--------
Confidence                          12221  111 1111   1110    12245678888888988888976655544332        


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                          ..+++.+.+.+|+.. |.+...|+++.-+
T Consensus       228 ----~~~~ar~i~erAi~~-P~~~~l~~~y~~~  255 (493)
T 2uy1_A          228 ----QKEKAKKVVERGIEM-SDGMFLSLYYGLV  255 (493)
T ss_dssp             ----CHHHHHHHHHHHHHH-CCSSHHHHHHHHH
T ss_pred             ----CHHHHHHHHHHHHhC-CCcHHHHHHHHhh
Confidence                257888999999999 9999999865444

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=88.55  E-value=0.84  Score=49.83  Aligned_cols=34  Identities=6%  Similarity=-0.036  Sum_probs=29.7

Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCc
Q 005381          201 KVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQT  234 (699)
Q Consensus       201 ~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~  234 (699)
                      +.+++++.++.+++.++|.+..+|..+.=|....
T Consensus       221 G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky  254 (449)
T 1b89_A          221 GYFEELITMLEAALGLERAHMGMFTELAILYSKF  254 (449)
T ss_dssp             TCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhc
Confidence            4579999999999999999999999997777653

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=88.35  E-value=1.2  Score=48.36  Aligned_cols=98  Identities=5%  Similarity=-0.084  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHh-----CCCc---hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHH
Q 005381           25 RVLQSQFLHNHHNHIYSKEAVELSTKLLET-----NPEL---YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVES   96 (699)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~-----nP~~---ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~   96 (699)
                      ++....+.+.+.+|.| ++|+.++.++|.+     -|+|   .++.+.-+.+....++            |++++.++++
T Consensus       288 ~~ll~~ie~~~~~g~~-~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~------------~~eA~~~~~~  354 (429)
T 3qwp_A          288 QESLKKIEELKAHWKW-EQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGL------------LEEALFYGTR  354 (429)
T ss_dssp             HHHHHHHHHHHHTTCH-HHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccH-HHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhcc------------HHHHHHHHHH
Confidence            3444555556677877 7999999999976     2344   4556666666666654            8888888888


Q ss_pred             HHHh--------CCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhC
Q 005381           97 ALRQ--------NFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKAD  136 (699)
Q Consensus        97 ~L~~--------nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~d  136 (699)
                      +|.+        +|.-...++.-+.++... +.+++++.++.+++++-
T Consensus       355 ~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~-g~~~eA~~~~~~Al~i~  401 (429)
T 3qwp_A          355 TMEPYRIFFPGSHPVRGVQVMKVGKLQLHQ-GMFPQAMKNLRLAFDIM  401 (429)
T ss_dssp             HHHHHHHHSCSSCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHcCCCChHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHH
Confidence            8843        344445566666666665 68999999999999754

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=86.96  E-value=24  Score=38.65  Aligned_cols=56  Identities=7%  Similarity=-0.093  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      .++..+|+++|...|....+|..-...+...+.            .+++...+++++.. |++...|..
T Consensus       196 ~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~------------~~~ar~i~erAi~~-P~~~~l~~~  251 (493)
T 2uy1_A          196 SRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQ------------KEKAKKVVERGIEM-SDGMFLSLY  251 (493)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHH-CCSSHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHhC-CCcHHHHHH
Confidence            356789999999999999999977666655432            68889999999999 999988864

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=86.25  E-value=5.3  Score=35.58  Aligned_cols=66  Identities=9%  Similarity=0.068  Sum_probs=44.9

Q ss_pred             hhHHHHHHHHHHHHHhC-C-CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH
Q 005381           85 SILDEELRVVESALRQN-F-KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA  151 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~n-P-Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~  151 (699)
                      ....+-+.+++.+++.+ | ....+-++-.....++ +.|++++.+++.+|+++|.|-.|..-+.-+-.
T Consensus        52 ~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~ykl-g~Y~~A~~~~~~lL~~eP~n~QA~~Lk~~i~~  119 (126)
T 1nzn_A           52 DDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRL-KEYEKALKYVRGLLQTEPQNNQAKELERLIDK  119 (126)
T ss_dssp             HHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHh-hhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            34566777777777766 4 4455555555555566 58888888888888888888888776655433

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=85.80  E-value=9.1  Score=34.37  Aligned_cols=66  Identities=8%  Similarity=-0.015  Sum_probs=48.0

Q ss_pred             hhHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH
Q 005381           85 SILDEELRVVESALRQNF-KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA  151 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nP-Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~  151 (699)
                      .+..+.+.+++.+++.+| ..-..+++-..--.++ +.|++++.+++.+|+++|.|-.|=.-+.-+-.
T Consensus        57 ~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~ykl-gdY~~Ar~y~d~lL~~eP~N~QA~~Lk~~Ie~  123 (134)
T 3o48_A           57 NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKL-GEYSMAKRYVDTLFEHERNNKQVGALKSMVED  123 (134)
T ss_dssp             HHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHh-hhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Confidence            456777888888888777 4466677776666666 58888888888888888888887665554433

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.64  E-value=18  Score=32.84  Aligned_cols=65  Identities=8%  Similarity=-0.027  Sum_probs=44.9

Q ss_pred             hhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHH
Q 005381           85 SILDEELRVVESALRQNFK-SYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA  150 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPK-sy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl  150 (699)
                      .+.++-+.+++.+++.+|. .-..-++...-..++ +.|++++.+++.+|+++|.|-.|=.-+.-+-
T Consensus        56 ~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl-~~Y~~Ar~y~d~lL~~eP~n~QA~~Lk~~Ie  121 (144)
T 1y8m_A           56 NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKL-GEYSMAKRYVDTLFEHERNNKQVGALKSMVE  121 (144)
T ss_dssp             HHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHh-hhHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            4567788888888887774 333444444444455 5888888888888888888888766554443

---

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	699
d1dcea1	334	a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltr	9e-36
d2h6fa1	315	a.118.6.1 (A:55-369) Protein farnesyltransferase a	5e-16
d2h6fa1	315	a.118.6.1 (A:55-369) Protein farnesyltransferase a	0.003
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	5e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.003
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	2e-08
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	6e-06
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	4e-05
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	3e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-04
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	6e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.001
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	0.002

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 334

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  135 bits (341), Expect = 9e-36
 Identities = 95/240 (39%), Positives = 128/240 (53%), Gaps = 9/240 (3%)

Query: 1   MHGRPRKPLKPEDAAAS----AAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNP 56
           MHGR +     E A A       K +  +                +  +EL++++L  NP
Sbjct: 1   MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANP 60

Query: 57  ELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILS 116
           +  T WN R+  +QH   E +  P+   +++  EL  +ES LR N KSYG WHHR W+LS
Sbjct: 61  DFATLWNCRREVLQH--LETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS 118

Query: 117 K-GHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY 175
           +    +   EL L  +F +AD RNFH W+YRRFVAA    +  +EL +T+ +I  NFSNY
Sbjct: 119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNY 178

Query: 176 SAWHNRSLLLSNLLKRK--VEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ 233
           S+WH RS LL  L  +          E VL  E E V  A FTDP+DQS WFYH WLL +
Sbjct: 179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR 238

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 315

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 77.3 bits (189), Expect = 5e-16
 Identities = 44/194 (22%), Positives = 89/194 (45%), Gaps = 19/194 (9%)

Query: 40  YSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALR 99
            S+ A +L+   +E N   YT W++R++ ++            L+  L EE+  + + + 
Sbjct: 58  RSERAFKLTRDAIELNAANYTVWHFRRVLLKS-----------LQKDLHEEMNYITAIIE 106

Query: 100 QNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEED 159
           +  K+Y  WHHR+ ++         EL  +      D++N+HAW +R++V        ++
Sbjct: 107 EQPKNYQVWHHRRVLVEW-LRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKL-WDN 164

Query: 160 ELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD 219
           EL+Y + ++  +  N S W+ R  ++SN         + +      E ++  + I   P 
Sbjct: 165 ELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLER------EVQYTLEMIKLVPH 218

Query: 220 DQSGWFYHLWLLDQ 233
           ++S W Y   +L  
Sbjct: 219 NESAWNYLKGILQD 232

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 315

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.6 bits (86), Expect = 0.003
 Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 1/71 (1%)

Query: 142 AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEK 201
            ++Y R V     RSE    K T D I  N +NY+ WH R +LL +L K   E       
Sbjct: 45  VYDYFRAVLQRDERSER-AFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITA 103

Query: 202 VLPDEYEFVHQ 212
           ++ ++ +    
Sbjct: 104 IIEEQPKNYQV 114

>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 = 55.0 bits (131), Expect = 1e-08
 Identities = 34/180 (18%), Positives = 62/180 (34%), Gaps = 10/180 (5%)

Query: 434 IAKEIDHFRELLSLINCKIGKL-TLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLD 492
               I    + LSL   ++  + TLA L    D  +    N+IS+   +  L   L  L 
Sbjct: 213 TPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLA--NNQISNLAPLSGLTK-LTELK 269

Query: 493 PTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFD 552
               Q         L                   +  SN  +   L L   ++S +    
Sbjct: 270 LGANQISNISPLAGLTALTNLELNE---NQLEDISPISNLKNLTYLTLYFNNISDISPVS 326

Query: 553 KLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN 612
            L  +Q L  ++N++  +  L  L  ++ L+  +N     + L P+  L  +  L ++  
Sbjct: 327 SLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHN---QISDLTPLANLTRITQLGLNDQ 383

>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 = 46.9 bits (110), Expect = 5e-06
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 3/75 (4%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
             L   +++   S   L  V  L      ++SI+G+E L  L+ +N SNN     T + P
Sbjct: 27  TVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNN---QLTDITP 83

Query: 598 IRQLKSLRALNISYN 612
           ++ L  L  + ++ N
Sbjct: 84  LKNLTKLVDILMNNN 98

>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 = 38.1 bits (87), Expect = 0.003
 Identities = 24/108 (22%), Positives = 48/108 (44%), Gaps = 4/108 (3%)

Query: 508 LQQVTSNWESLLSRCFHYSNSP-SNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNE 566
           L  +T+  +  L+     + +P S       L+L    +S +     L  +  L+L+ N+
Sbjct: 237 LASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQ 296

Query: 567 LRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           L  I  +  L+ L+ L L  N   + + + P+  L  L+ L  + N++
Sbjct: 297 LEDISPISNLKNLTYLTLYFN---NISDISPVSSLTKLQRLFFANNKV 341

>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 = 52.1 bits (124), Expect = 2e-08
 Identities = 31/161 (19%), Positives = 57/161 (35%), Gaps = 8/161 (4%)

Query: 539 QLKNLSLSRL-GSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEP 597
           +LK   + +L     K        L    LRS   L A  +   LN  +++  +   +E 
Sbjct: 3   ELKPEQVEQLKLIMSKRYDGSQQALDLKGLRSDPDLVAQNIDVVLNRRSSMAATLRIIE- 61

Query: 598 IRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYF 657
              +  L +LN+S N +      ++    +  L     S  N  ++  + D     +   
Sbjct: 62  -ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLS-GNELKSERELDKIKGLKL-- 117

Query: 658 ILKGLNLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQL 698
             + L L    +         + S + +  P L  LDG +L
Sbjct: 118 --EELWLDGNSLSDTFRDQSTYISAIRERFPKLLRLDGHEL 156

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {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: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.9 bits (105), Expect = 6e-06
 Identities = 26/154 (16%), Positives = 54/154 (35%), Gaps = 14/154 (9%)

Query: 545 LSRLGSFDKLLWVQMLDLSHNELRSIEGL-EALQLLSCLNLSNNILGSFTALEPIRQLKS 603
           + +   +   +  + LDL   ++  IE L   L     ++ S+N +        +R+LK+
Sbjct: 8   IEQAAQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKT 67

Query: 604 LRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLN 663
           L   N     IG         L    L+++   E                +    LK L 
Sbjct: 68  LLVNNNRICRIGEGLDQALPDLTELILTNNSLVEL------------GDLDPLASLKSLT 115

Query: 664 LTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQ 697
                        + ++ ++I  +P ++ LD ++
Sbjct: 116 YLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQK 148

>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 = 41.2 bits (96), Expect = 4e-05
 Identities = 29/100 (29%), Positives = 42/100 (42%), Gaps = 23/100 (23%)

Query: 538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELR----SIEGLEALQLLSC------------ 581
           L L +  L+ L   ++LL V  LDLSHN LR    ++  L  L++L              
Sbjct: 3   LHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVA 62

Query: 582 -------LNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
                  L L NN L    A++P+     L  LN+  N +
Sbjct: 63  NLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSL 102

>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 = 38.9 bits (90), Expect = 3e-04
 Identities = 25/137 (18%), Positives = 53/137 (38%), Gaps = 16/137 (11%)

Query: 558 QMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH 617
           ++L L+H +L  +  LE L L++ L+LS+N L +         L +LR L +      A 
Sbjct: 1   RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPP-----ALAALRCLEVLQASDNAL 55

Query: 618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIVN- 676
                           +           ++ ++       ++    L   ++ GN++   
Sbjct: 56  ENVDGVANLPRLQELLLC----------NNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQE 105

Query: 677 EKFKSFLIKVLPGLKWL 693
           E  +  L ++LP +  +
Sbjct: 106 EGIQERLAEMLPSVSSI 122

>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 = 41.3 bits (95), Expect = 3e-04
 Identities = 20/93 (21%), Positives = 34/93 (36%), Gaps = 7/93 (7%)

Query: 522 CFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSC 581
                 S  +   P    L   S       D    ++ L++S+N+L  +  L     L  
Sbjct: 251 VSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPAL--PPRLER 308

Query: 582 LNLSNNILGSFTALEPIRQLKSLRALNISYNEI 614
           L  S N L     L      ++L+ L++ YN +
Sbjct: 309 LIASFNHLAEVPEL-----PQNLKQLHVEYNPL 336

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

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]

 Score = 39.6 bits (91), Expect = 6e-04
 Identities = 24/175 (13%), Positives = 55/175 (31%), Gaps = 3/175 (1%)

Query: 436 KEIDHFRELLSLINCKIGKLTLARLLMAHDAMMCPPANKISHSEEVLELYNDLMRLDPTH 495
             I+  + L +LI  ++    +  L    +           +  + +     L  +    
Sbjct: 54  TTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSAIAGLQSIKTLD 113

Query: 496 VQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLL 555
           +   +      L          L        +  +   +   L + N  +S L     L 
Sbjct: 114 LTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLS 173

Query: 556 WVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNIS 610
            +  L    N++  I  L +L  L  ++L NN     + + P+    +L  + ++
Sbjct: 174 KLTTLKADDNKISDISPLASLPNLIEVHLKNN---QISDVSPLANTSNLFIVTLT 225

>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 = 40.0 bits (91), Expect = 0.001
 Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 6/65 (9%)

Query: 557 VQMLDLSHNEL---RSIEGLEALQLLSCLNLSNNILGSFTA---LEPIRQLKSLRALNIS 610
           +Q LD+   EL   R  E L  LQ    + L +  L           +R   +L  LN+ 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 611 YNEIG 615
            NE+G
Sbjct: 64  SNELG 68

>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 = 37.7 bits (86), Expect = 0.002
 Identities = 26/148 (17%), Positives = 51/148 (34%), Gaps = 7/148 (4%)

Query: 549 GSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALN 608
            +   L   + L LS N +  I  L  ++ L  L+L  N++     L+ +        ++
Sbjct: 42  ATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWIS 101

Query: 609 ISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFD 668
            +     +              ++ + +     +    D ++        L G  L    
Sbjct: 102 YNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLL-----LAGNPLYNDY 156

Query: 669 IVGNAIVNEKFKSFLIKVLPGLKWLDGE 696
              NA     ++  ++K LP LK LDG 
Sbjct: 157 KENNATSE--YRIEVVKRLPNLKKLDGM 182

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	699
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.97
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.95
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.84
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.65
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.58
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.57
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.46
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.44
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.42
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.37
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.37
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.33
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.33
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.32
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.31
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.25
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.22
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.2
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.2
d1dcea2	109	Rab geranylgeranyltransferase alpha-subunit, inser	99.19
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.15
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.14
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.14
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.13
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.13
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.07
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.05
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.05
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.02
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.01
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.01
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.94
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.94
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.94
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.94
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.94
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.87
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.85
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.85
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.84
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.84
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.8
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.8
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.79
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.78
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.76
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.76
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.75
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.72
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.7
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.6
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.59
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.59
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.58
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.56
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.55
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.55
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.52
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.45
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.43
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.37
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.36
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.36
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.35
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.29
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.29
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.28
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.25
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.17
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.97
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.96
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.9
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.88
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.76
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.66
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	97.64
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	97.63
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.52
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.51
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.42
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.39
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.32
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.29
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.06
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.03
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.61
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.53
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.47
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.89
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	95.56
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.27
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.21
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.74
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	92.26
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	90.52

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.1e-29  Score=267.62  Aligned_cols=201  Identities=24%  Similarity=0.470  Sum_probs=185.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHH
Q 005381           14 AAASAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRV   93 (699)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~   93 (699)
                      +.+.+++.++|.++++.+...+.+++.+++||++++++|.+||++++||++|+.++..+++           .+++|+.+
T Consensus        32 ~~~~I~~~p~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~-----------~~~eal~~  100 (315)
T d2h6fa1          32 PVVQIIYSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQK-----------DLHEEMNY  100 (315)
T ss_dssp             CSSEECCCHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC-----------CHHHHHHH
T ss_pred             cccccccCHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCc-----------CHHHHHHH
Confidence            3345667789999999999999999999999999999999999999999999999998853           48999999


Q ss_pred             HHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccC
Q 005381           94 VESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFS  173 (699)
Q Consensus        94 ~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~s  173 (699)
                      ++++++.+||++.+|+||+|++.++ +.+++|++++++++++||+|+++|.+|+|++..++.+ ++++++++++|+.||+
T Consensus       101 ~~~al~~~p~~~~a~~~~~~~~~~l-~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~-~~Al~~~~~al~~~p~  178 (315)
T d2h6fa1         101 ITAIIEEQPKNYQVWHHRRVLVEWL-RDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLW-DNELQYVDQLLKEDVR  178 (315)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHH-TCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-TTHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHhhhhHHHHHhHHHHhh-ccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhh-HHHHHHHHHHHHHCCc
Confidence            9999999999999999999999987 6899999999999999999999999999999999999 6899999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          174 NYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       174 N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      |.+||++|+.++..++..      .....+++|++.+.+||..+|+|.++|+|+++++..
T Consensus       179 n~~a~~~r~~~l~~~~~~------~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~  232 (315)
T d2h6fa1         179 NNSVWNQRYFVISNTTGY------NDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD  232 (315)
T ss_dssp             CHHHHHHHHHHHHHTTCS------CSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHcccc------chhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh
Confidence            999999999999877542      234567999999999999999999999999999965

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.95  E-value=4.5e-27  Score=247.93  Aligned_cols=231  Identities=41%  Similarity=0.712  Sum_probs=196.6

Q ss_pred             CCCCcCCCCChHHHH-H---HHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccC
Q 005381            1 MHGRPRKPLKPEDAA-A---SAAKAEKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEN   76 (699)
Q Consensus         1 mhg~~~~~~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~   76 (699)
                      ||||+|+.+.+|+++ +   +..+++.|....+.++..++.++++++|++++.++|.+||+++++|++|+.++..+..  
T Consensus         1 ~~g~~~~~~~~e~~~~~~~e~~~k~~~~~~~~~~~~~~~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~--   78 (334)
T d1dcea1           1 MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLET--   78 (334)
T ss_dssp             CCSCBCSSCSTTSSCCSCCCCHHHHHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHT--
T ss_pred             CCCcccccCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhh--
Confidence            999999855555544 3   4566777778888899999999999999999999999999999999999999998864  


Q ss_pred             CCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCC
Q 005381           77 DSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH-SSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus        77 ~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~-~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~  155 (699)
                      ..........+++|+.+++++++.+||++.+|+||+|++.... ..+++|+..++++++.||+++++|.++.+.+.....
T Consensus        79 ~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~  158 (334)
T d1dcea1          79 EKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAV  158 (334)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCC
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhcc
Confidence            2233445567899999999999999999999999999999764 358999999999999999999999988877666544


Q ss_pred             ChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhcc--CccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          156 SEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVE--GFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       156 ~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~--~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      ..++++++++++|+.||+|+++|++++.++..+++...+  ......++...+++.+..++.++|.++++|.|.+.+...
T Consensus       159 ~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         159 APAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             CHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             ccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC
Confidence            448899999999999999999999999999999765432  233344567788999999999999999999999999865

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=5.4e-21  Score=200.63  Aligned_cols=160  Identities=18%  Similarity=0.459  Sum_probs=149.0

Q ss_pred             HHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           51 LLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLD  130 (699)
Q Consensus        51 ~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~  130 (699)
                      .|..+|++..|+++.|.++...+.            ++++|..+++||+.||.++.||++|+-++..+...+++|+++++
T Consensus        35 ~I~~~p~~~~a~~~~~~~~~~~e~------------~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~  102 (315)
T d2h6fa1          35 QIIYSDKFRDVYDYFRAVLQRDER------------SERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYIT  102 (315)
T ss_dssp             EECCCHHHHHHHHHHHHHHHHTCC------------CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHHHHHHhCCc------------hHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            356789999999999999988754            79999999999999999999999999999987557999999999


Q ss_pred             HHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHH
Q 005381          131 KFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFV  210 (699)
Q Consensus       131 k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~  210 (699)
                      ++++++|+++.+|.+|++++..+|.+ ++++++++++|+.+|.|+.+|.+|++++..++.            +++|++++
T Consensus       103 ~al~~~p~~~~a~~~~~~~~~~l~~~-~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~------------~~~Al~~~  169 (315)
T d2h6fa1         103 AIIEEQPKNYQVWHHRRVLVEWLRDP-SQELEFIADILNQDAKNYHAWQHRQWVIQEFKL------------WDNELQYV  169 (315)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHTCC-TTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------CTTHHHHH
T ss_pred             HHHHHHHhhhhHHHHHhHHHHhhccH-HHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHh------------hHHHHHHH
Confidence            99999999999999999999999999 689999999999999999999999999998854            78999999


Q ss_pred             HHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          211 HQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       211 ~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      ++||.++|.+.++|+++.+++....
T Consensus       170 ~~al~~~p~n~~a~~~r~~~l~~~~  194 (315)
T d2h6fa1         170 DQLLKEDVRNNSVWNQRYFVISNTT  194 (315)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCccHHHHHHHHHHHHHcc
Confidence            9999999999999999999987654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.65  E-value=8.4e-16  Score=160.63  Aligned_cols=180  Identities=16%  Similarity=0.270  Sum_probs=142.2

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      ++|+.+++++|..+|+++.+|++|++++..++.          ..+.+++..+++++..+|+++.+|.++.|........
T Consensus        90 ~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~----------~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~  159 (334)
T d1dcea1          90 KAELGFLESCLRVNPKSYGTWHHRCWLLSRLPE----------PNWARELELCARFLEADERNFHCWDYRRFVAAQAAVA  159 (334)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSS----------CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhcc----------ccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccc
Confidence            689999999999999999999999999998864          3589999999999999999999999988877766678


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCCh-------------HHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSE-------------EDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~-------------e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      +++|++++++++++||+|+.+|++++.++..++.+.             ...+++...++..++.+.++|.|...+....
T Consensus       160 ~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~~  239 (334)
T d1dcea1         160 PAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRA  239 (334)
T ss_dssp             HHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCC
T ss_pred             cHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCc
Confidence            999999999999999999999999999999987642             2345555556666666666666555433210


Q ss_pred             ----------------hhhhc--------c-C-------------ccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005381          189 ----------------LKRKV--------E-G-------------FVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWL  230 (699)
Q Consensus       189 ----------------~~~~~--------~-~-------------~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~L  230 (699)
                                      +....        . .             .....+.++++++.+++|+++||.+...|.++++.
T Consensus       240 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~  319 (334)
T d1dcea1         240 EPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSK  319 (334)
T ss_dssp             CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHH
Confidence                            00000        0 0             00123458999999999999999999999998665


Q ss_pred             H
Q 005381          231 L  231 (699)
Q Consensus       231 l  231 (699)
                      +
T Consensus       320 ~  320 (334)
T d1dcea1         320 F  320 (334)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=99.58  E-value=7.9e-16  Score=145.18  Aligned_cols=127  Identities=22%  Similarity=0.293  Sum_probs=107.0

Q ss_pred             CeEEccCCCCCcccC-CCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          536 MCLQLKNLSLSRLGS-FDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~~-l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      +.|+|++|.|+.++. +..+++|+.||||+|.|+.+++|..+++|+.|++++|+|+.++ +..+..+++|+.|++++|+|
T Consensus        21 r~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~-~~~~~~l~~L~~L~L~~N~i   99 (162)
T d1a9na_          21 RELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIG-EGLDQALPDLTELILTNNSL   99 (162)
T ss_dssp             EEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEEC-SCHHHHCTTCCEEECCSCCC
T ss_pred             cEEECCCCCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCCC-ccccccccccccceeccccc
Confidence            449999999999874 4678999999999999999988999999999999999998873 23456789999999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCcccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~  692 (699)
                      +.++.                                    ...+..+ +|+.|++++|++ ..+.++..++..+|+|++
T Consensus       100 ~~~~~------------------------------------l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~  143 (162)
T d1a9na_         100 VELGD------------------------------------LDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRV  143 (162)
T ss_dssp             CCGGG------------------------------------GGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSE
T ss_pred             ccccc------------------------------------ccccccccccchhhcCCCccccccchHHHHHHHCCCcCe
Confidence            88641                                    1245566 899999999999 666788888899999999


Q ss_pred             ccCccCC
Q 005381          693 LDGEQLH  699 (699)
Q Consensus       693 LD~~~i~  699 (699)
                      |||.+|+
T Consensus       144 LD~~~i~  150 (162)
T d1a9na_         144 LDFQKVK  150 (162)
T ss_dssp             ETTEECC
T ss_pred             eCCCCCC
Confidence            9999885

>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=99.57  E-value=2.3e-15  Score=135.47  Aligned_cols=120  Identities=29%  Similarity=0.415  Sum_probs=105.4

Q ss_pred             CeEEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          536 MCLQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       536 ~~L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      |.|+|++|.++.++.+..+++|++||+++|+|+.+|+ +..+++|+.|++++|.|+++   +.+..+++|+.|++++|+|
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 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV---DGVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCC---GGGTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCccCcchhhhhhhhccccccccccccccc---CccccccccCeEECCCCcc
Confidence            4599999999999999999999999999999999988 99999999999999999987   4689999999999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCcccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKW  692 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~  692 (699)
                      +.++.                                    +..+..+ +|+.|++++|+| ..+.++..+...+|+|+.
T Consensus        78 ~~~~~------------------------------------~~~l~~~~~L~~L~l~~N~i~~~~~~~~~l~~~lp~L~~  121 (124)
T d1dcea3          78 QQSAA------------------------------------IQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSS  121 (124)
T ss_dssp             CSSST------------------------------------TGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSE
T ss_pred             CCCCC------------------------------------chhhcCCCCCCEEECCCCcCCcCccHHHHHHHHCcCcce
Confidence            98751                                    1234556 899999999999 566777788888999987


Q ss_pred             cc
Q 005381          693 LD  694 (699)
Q Consensus       693 LD  694 (699)
                      |.
T Consensus       122 Ll  123 (124)
T d1dcea3         122 IL  123 (124)
T ss_dssp             EE
T ss_pred             Ee
Confidence            63

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=3e-12  Score=131.44  Aligned_cols=180  Identities=10%  Similarity=0.009  Sum_probs=152.6

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHH
Q 005381           30 QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWH  109 (699)
Q Consensus        30 ~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~  109 (699)
                      ........|.+ ++|+.+++++|+.+|++..+|...+.+....++            +++++..+++++..+|++..+|.
T Consensus        25 ~g~~~~~~g~~-~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~------------~~~A~~~~~~al~~~p~~~~~~~   91 (323)
T d1fcha_          25 EGLRRLQEGDL-PNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQ------------ELLAISALRRCLELKPDNQTALM   91 (323)
T ss_dssp             HHHHHHHTTCH-HHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------hHHHHHHHHhhhccccccccccc
Confidence            44556778888 899999999999999999999999999998865            89999999999999999999999


Q ss_pred             HHHHHHHhCCCCh-------------------------------------------------HHHHHHHHHHHHhCCCCh
Q 005381          110 HRKWILSKGHSSI-------------------------------------------------DNELRLLDKFQKADSRNF  140 (699)
Q Consensus       110 hR~w~L~~~~~~~-------------------------------------------------~~EL~~~~k~L~~dprN~  140 (699)
                      ..+.++.... .+                                                 .++++.+.++++++|.+.
T Consensus        92 ~la~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~  170 (323)
T d1fcha_          92 ALAVSFTNES-LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSI  170 (323)
T ss_dssp             HHHHHHHHTT-CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSC
T ss_pred             cccccccccc-cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhccc
Confidence            9998887542 22                                                 245566677777777655


Q ss_pred             --hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCC
Q 005381          141 --HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDP  218 (699)
Q Consensus       141 --haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP  218 (699)
                        .+|...+.+....|.+ +++++++++++..+|.+..+|..++.++..++.            ++++++++.+++..+|
T Consensus       171 ~~~~~~~l~~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p  237 (323)
T d1fcha_         171 DPDVQCGLGVLFNLSGEY-DKAVDCFTAALSVRPNDYLLWNKLGATLANGNQ------------SEEAVAAYRRALELQP  237 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCT
T ss_pred             ccccchhhHHHHHHHHHH-hhhhcccccccccccccccchhhhhhccccccc------------chhHHHHHHHHHHHhh
Confidence              3455667777778887 689999999999999999999999999887754            7999999999999999


Q ss_pred             CCchhHHHHHHHHcCcCC
Q 005381          219 DDQSGWFYHLWLLDQTVR  236 (699)
Q Consensus       219 ~d~SaW~Y~~~Ll~~~~~  236 (699)
                      ++..+|+.+..++....+
T Consensus       238 ~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         238 GYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             TCHHHHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHHCCC
Confidence            999999999988876544

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=2.7e-12  Score=132.74  Aligned_cols=165  Identities=12%  Similarity=0.040  Sum_probs=135.5

Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCCh
Q 005381           43 EAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSI  122 (699)
Q Consensus        43 eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~  122 (699)
                      +|+..+.+++..+|....+|...+.+....            +.+++++..++++++.+|++..+|...+.++... +.+
T Consensus       221 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~------------~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~-~~~  287 (388)
T d1w3ba_         221 RAVAAYLRALSLSPNHAVVHGNLACVYYEQ------------GLIDLAIDTYRRAIELQPHFPDAYCNLANALKEK-GSV  287 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHT------------TCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHH-SCH
T ss_pred             HHHHHHHHhHHHhhhHHHHHHHHHHHHHHC------------CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCH
Confidence            444444444444444444444444444433            3488999999999999999999999999999877 589


Q ss_pred             HHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhch
Q 005381          123 DNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKV  202 (699)
Q Consensus       123 ~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~  202 (699)
                      +++++.+++++..+|.+..+|..++.+....|.+ ++++++++++++.+|.+..+|..++.++..+++            
T Consensus       288 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~------------  354 (388)
T d1w3ba_         288 AEAEDCYNTALRLCPTHADSLNNLANIKREQGNI-EEAVRLYRKALEVFPEFAAAHSNLASVLQQQGK------------  354 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH-HHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTC------------
T ss_pred             HHHHHHHHhhhccCCccchhhhHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC------------
Confidence            9999999999999999999999999999999988 678999999999999999999999999887755            


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHcC
Q 005381          203 LPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQ  233 (699)
Q Consensus       203 ~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~  233 (699)
                      ++++++.+.+|+.++|++..+|+.+..++..
T Consensus       355 ~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~  385 (388)
T d1w3ba_         355 LQEALMHYKEAIRISPTFADAYSNMGNTLKE  385 (388)
T ss_dssp             CHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            7999999999999999999999998888754

>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=99.42  E-value=3.8e-15  Score=145.10  Aligned_cols=123  Identities=28%  Similarity=0.391  Sum_probs=93.9

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      |+|++|.|+.++.+..+++|+.|+|++|.|+.+++ +..+++|+.|++++|+|+.+   +.+..+++|+.|+|++|+|+.
T Consensus        53 L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l---~~~~~l~~L~~L~L~~N~i~~  129 (198)
T d1m9la_          53 LALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASL---SGIEKLVNLRVLYMSNNKITN  129 (198)
T ss_dssp             EECSEEEESCCCCHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCH---HHHHHHHHSSEEEESEEECCC
T ss_pred             eECcccCCCCcccccCCccccChhhccccccccccccccccccccccccccccccc---ccccccccccccccccchhcc
Confidence            78888888877777778888888888888888777 55556788888888888765   456777888888888888776


Q ss_pred             CCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC----C----CccchHHHhhcC
Q 005381          617 HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI----V----NEKFKSFLIKVL  687 (699)
Q Consensus       617 lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l----~----~~~~~~~~~~~l  687 (699)
                      ++                                    ....+..+ +|+.|+|++|++    .    .+.++..++..+
T Consensus       130 ~~------------------------------------~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~l  173 (198)
T d1m9la_         130 WG------------------------------------EIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRL  173 (198)
T ss_dssp             HH------------------------------------HHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHC
T ss_pred             cc------------------------------------ccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHC
Confidence            53                                    01356777 999999999998    1    123445667889


Q ss_pred             CccccccCccCC
Q 005381          688 PGLKWLDGEQLH  699 (699)
Q Consensus       688 ~~L~~LD~~~i~  699 (699)
                      |+|+.|||.+|+
T Consensus       174 p~L~~LD~~~I~  185 (198)
T d1m9la_         174 PNLKKLDGMPVD  185 (198)
T ss_dssp             SSCCEESSGGGT
T ss_pred             CCcCEeCCccCC
Confidence            999999999985

>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=99.37  E-value=1.1e-12  Score=126.99  Aligned_cols=161  Identities=20%  Similarity=0.246  Sum_probs=122.9

Q ss_pred             HhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEc
Q 005381          483 ELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDL  562 (699)
Q Consensus       483 ~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdL  562 (699)
                      ..+.+|++|++++++.. +             +    .++..+.+++.       |++++|.++.++.+..+++|+.|++
T Consensus        37 ~~l~~l~~L~l~~~~i~-~-------------l----~~l~~l~nL~~-------L~Ls~N~l~~~~~l~~l~~L~~L~l   91 (199)
T d2omxa2          37 TDLDQVTTLQADRLGIK-S-------------I----DGVEYLNNLTQ-------INFSNNQLTDITPLKNLTKLVDILM   91 (199)
T ss_dssp             HHHTTCCEEECTTSCCC-C-------------C----TTGGGCTTCCE-------EECCSSCCCCCGGGTTCTTCCEEEC
T ss_pred             HHhcCCCEEECCCCCCC-C-------------c----cccccCCCcCc-------CccccccccCcccccCCcccccccc
Confidence            45778999999988721 1             1    12233445444       9999999999888999999999999


Q ss_pred             cCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccc
Q 005381          563 SHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQ  642 (699)
Q Consensus       563 S~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~  642 (699)
                      ++|.+..++++.+++.|+.|++++|.+..+   ..+..+++|+.|++++|++..++     .+...+.+..+.+.+|.+.
T Consensus        92 ~~n~~~~~~~l~~l~~L~~L~l~~~~~~~~---~~~~~l~~L~~L~l~~n~l~~~~-----~l~~~~~L~~L~l~~n~l~  163 (199)
T d2omxa2          92 NNNQIADITPLANLTNLTGLTLFNNQITDI---DPLKNLTNLNRLELSSNTISDIS-----ALSGLTSLQQLNFSSNQVT  163 (199)
T ss_dssp             CSSCCCCCGGGTTCTTCSEEECCSSCCCCC---GGGTTCTTCSEEECCSSCCCCCG-----GGTTCTTCSEEECCSSCCC
T ss_pred             cccccccccccccccccccccccccccccc---cccchhhhhHHhhhhhhhhcccc-----ccccccccccccccccccc
Confidence            999999998899999999999999998876   56788999999999999998875     2333334444566666653


Q ss_pred             eeecCCcchhhhhhccCCCC-CccEEEecCCCCC-CccchHHHhhcCCccccc
Q 005381          643 TVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV-NEKFKSFLIKVLPGLKWL  693 (699)
Q Consensus       643 ~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~-~~~~~~~~~~~l~~L~~L  693 (699)
                      .+            ..++++ +|+.|+|++|+|. .+.     +..+++|+.|
T Consensus       164 ~l------------~~l~~l~~L~~L~ls~N~i~~i~~-----l~~L~~L~~L  199 (199)
T d2omxa2         164 DL------------KPLANLTTLERLDISSNKVSDISV-----LAKLTNLESL  199 (199)
T ss_dssp             CC------------GGGTTCTTCCEEECCSSCCCCCGG-----GGGCTTCSEE
T ss_pred             CC------------ccccCCCCCCEEECCCCCCCCCcc-----ccCCCCCCcC
Confidence            32            247888 9999999999993 222     3568888765

>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=99.37  E-value=9.3e-13  Score=133.47  Aligned_cols=80  Identities=34%  Similarity=0.400  Sum_probs=46.0

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      |+|++|.|+.++.+..+++|++|+|++|+++.++. +..+++|+.|++++|.+..+. +..+..+.+++.|++++|.++.
T Consensus        60 L~L~~N~l~~l~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~l~~L~l~~n~l~~  138 (266)
T d1p9ag_          60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLP-LGALRGLGELQELYLKGNELKT  138 (266)
T ss_dssp             EECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCC-SSTTTTCTTCCEEECTTSCCCC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccceee-ccccccccccccccccccccce
Confidence            66666666666555566666666666666655555 556666666666666655542 2334445555555555555555


Q ss_pred             CC
Q 005381          617 HS  618 (699)
Q Consensus       617 lp  618 (699)
                      +|
T Consensus       139 l~  140 (266)
T d1p9ag_         139 LP  140 (266)
T ss_dssp             CC
T ss_pred             ec
Confidence            54

>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=99.33  E-value=1.7e-12  Score=126.96  Aligned_cols=162  Identities=19%  Similarity=0.228  Sum_probs=121.4

Q ss_pred             hcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEcc
Q 005381          484 LYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLS  563 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdLS  563 (699)
                      .+..|+.|+++.+.+. ++                 .++..+.+++.       |++++|.++.++.+..+++|+.|+++
T Consensus        44 ~L~~L~~L~l~~~~i~-~l-----------------~~l~~l~~L~~-------L~L~~n~i~~l~~~~~l~~L~~L~l~   98 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIK-SV-----------------QGIQYLPNVTK-------LFLNGNKLTDIKPLANLKNLGWLFLD   98 (210)
T ss_dssp             HHHTCCEEECTTSCCC-CC-----------------TTGGGCTTCCE-------EECCSSCCCCCGGGTTCTTCCEEECC
T ss_pred             HhcCccEEECcCCCCC-Cc-----------------hhHhhCCCCCE-------EeCCCccccCccccccCccccccccc
Confidence            4678888999887721 11                 11223344444       99999999998888999999999999


Q ss_pred             CCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCccce
Q 005381          564 HNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHGQT  643 (699)
Q Consensus       564 ~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~  643 (699)
                      +|+|+.++.+..+++|+.|++++|.+..+   ..+..++.|+.+++++|.++..+  ..   ..++-+..+.+.+|.+..
T Consensus        99 ~n~i~~l~~l~~l~~L~~L~l~~~~~~~~---~~l~~l~~l~~l~~~~n~l~~~~--~~---~~l~~L~~l~l~~n~l~~  170 (210)
T d1h6ta2          99 ENKVKDLSSLKDLKKLKSLSLEHNGISDI---NGLVHLPQLESLYLGNNKITDIT--VL---SRLTKLDTLSLEDNQISD  170 (210)
T ss_dssp             SSCCCCGGGGTTCTTCCEEECTTSCCCCC---GGGGGCTTCCEEECCSSCCCCCG--GG---GGCTTCSEEECCSSCCCC
T ss_pred             ccccccccccccccccccccccccccccc---ccccccccccccccccccccccc--cc---cccccccccccccccccc
Confidence            99999998899999999999999998775   56888999999999999998764  22   223333444666665532


Q ss_pred             eecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          644 VIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       644 ~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +            ..+.++ +|+.|+|++|.|.  .+.  .+..+++|++||
T Consensus       171 i------------~~l~~l~~L~~L~Ls~N~i~--~l~--~l~~l~~L~~L~  206 (210)
T d1h6ta2         171 I------------VPLAGLTKLQNLYLSKNHIS--DLR--ALAGLKNLDVLE  206 (210)
T ss_dssp             C------------GGGTTCTTCCEEECCSSCCC--BCG--GGTTCTTCSEEE
T ss_pred             c------------ccccCCCCCCEEECCCCCCC--CCh--hhcCCCCCCEEE
Confidence            1            247888 9999999999993  222  146789999886

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.33  E-value=2.3e-11  Score=120.53  Aligned_cols=175  Identities=13%  Similarity=0.033  Sum_probs=139.1

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHH
Q 005381           32 LHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHR  111 (699)
Q Consensus        32 ~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR  111 (699)
                      ......|.+ ++|++.+.++|.++|++..+|+.++.+...+++            +++++..+++++..+|++..+|.++
T Consensus        45 ~~y~~~g~~-~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~a~~~l  111 (259)
T d1xnfa_          45 VLYDSLGLR-ALARNDFSQALAIRPDMPEVFNYLGIYLTQAGN------------FDAAYEAFDSVLELDPTYNYAHLNR  111 (259)
T ss_dssp             HHHHHTTCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCTHHHHHH
T ss_pred             HHHHHCCCH-HHHHHHHHHhhccCCCCHHHHhhhchHHHHHHH------------HHHhhhhhhHHHHHHhhhhhhHHHH
Confidence            344567777 899999999999999999999999999998876            9999999999999999999999999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCC------------------------------h----
Q 005381          112 KWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRS------------------------------E----  157 (699)
Q Consensus       112 ~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~------------------------------~----  157 (699)
                      +.++... +.++++++.++++++++|.+..++.+.+.....++..                              .    
T Consensus       112 g~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         112 GIALYYG-GRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHH
T ss_pred             HHHHHHH-hhHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHHHHHHH
Confidence            9999887 6999999999999999999998877766555444310                              0    


Q ss_pred             -HHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          158 -EDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       158 -e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                       +.........+...|....+|++.+.++...+.            ++++++++++|+..+|++.-.+.|-+.-|.
T Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~------------~~~A~~~~~~al~~~p~~~~~~~~a~~~L~  254 (259)
T d1xnfa_         191 MERLKADATDNTSLAEHLSETNFYLGKYYLSLGD------------LDSATALFKLAVANNVHNFVEHRYALLELS  254 (259)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHTTCCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence             112222233444556666777777777766544            799999999999999999766666554443

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=4.7e-11  Score=122.30  Aligned_cols=174  Identities=14%  Similarity=0.082  Sum_probs=144.6

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCC----------CCch-----------------------
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTEND----------SDPD-----------------------   81 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~----------~~~~-----------------------   81 (699)
                      ...|.+ ++|+..+.+++.++|++..+|...+.++...+...+          ..|+                       
T Consensus        64 ~~~~~~-~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (323)
T d1fcha_          64 AENEQE-LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRI  142 (323)
T ss_dssp             HHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CT
T ss_pred             HHcCCh-HHHHHHHHhhhccccccccccccccccccccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhh
Confidence            445666 799999999999999999999999888776543110          0000                       


Q ss_pred             ----hhhhhHHHHHHHHHHHHHhCCCCh--HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCC
Q 005381           82 ----SLKSILDEELRVVESALRQNFKSY--GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNR  155 (699)
Q Consensus        82 ----~~~~~~~eEL~~~~~~L~~nPKsy--~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~  155 (699)
                          .....+.+++..+.+++..+|.+.  .+|...+.++... +.+++++..+++++..+|.+..+|..++.++...|.
T Consensus       143 ~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~  221 (323)
T d1fcha_         143 LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLS-GEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQ  221 (323)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH-HHHhhhhcccccccccccccccchhhhhhccccccc
Confidence                112457788889999999999875  4566677888776 699999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchh
Q 005381          156 SEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSG  223 (699)
Q Consensus       156 ~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~Sa  223 (699)
                      + +++++++.++++.+|.+..+|..++.++..+++            ++++++.+.+|+.++|++..+
T Consensus       222 ~-~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~al~l~p~~~~~  276 (323)
T d1fcha_         222 S-EEAVAAYRRALELQPGYIRSRYNLGISCINLGA------------HREAVEHFLEALNMQRKSRGP  276 (323)
T ss_dssp             H-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHTC---
T ss_pred             c-hhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCcChhh
Confidence            8 789999999999999999999999999998865            899999999999999987664

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=4.7e-11  Score=123.12  Aligned_cols=176  Identities=9%  Similarity=-0.012  Sum_probs=158.9

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWIL  115 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L  115 (699)
                      ..+.+ ++|+..+.+++..+|++..+|...+.++...+.            +++++..+++++..+|....+|...+.+.
T Consensus       181 ~~~~~-~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  247 (388)
T d1w3ba_         181 AQGEI-WLAIHHFEKAVTLDPNFLDAYINLGNVLKEARI------------FDRAVAAYLRALSLSPNHAVVHGNLACVY  247 (388)
T ss_dssp             TTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC------------TTHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             ccCcH-HHHHHHHHHHHHhCcccHHHHHHHhhhhhcccc------------HHHHHHHHHHhHHHhhhHHHHHHHHHHHH
Confidence            34444 899999999999999999999999999887754            78999999999999999999999999999


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccC
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEG  195 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~  195 (699)
                      .+. +.++++++.++++++++|.+..+|...+.++...+.+ ++.++++.+++...|.+..+|..++.++...+.     
T Consensus       248 ~~~-~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----  320 (388)
T d1w3ba_         248 YEQ-GLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSV-AEAEDCYNTALRLCPTHADSLNNLANIKREQGN-----  320 (388)
T ss_dssp             HHT-TCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC-----
T ss_pred             HHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHhhhccCCccchhhhHHHHHHHHCCC-----
Confidence            877 6999999999999999999999999999999999988 678999999999999999999999998877644     


Q ss_pred             ccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcCCCC
Q 005381          196 FVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTVRVD  238 (699)
Q Consensus       196 ~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~~~~  238 (699)
                             ++++++.+.+++..+|++..+|+.+..++....+.+
T Consensus       321 -------~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~  356 (388)
T d1w3ba_         321 -------IEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQ  356 (388)
T ss_dssp             -------HHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCH
T ss_pred             -------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence                   899999999999999999999999999887765543

>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=99.25  E-value=1.2e-11  Score=125.05  Aligned_cols=159  Identities=21%  Similarity=0.096  Sum_probs=121.7

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc-CCCCC
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG-SFDKL  554 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~-~l~~L  554 (699)
                      +.....+..+++|++|++++|.+.                 .++ ....+.+++       .|+|++|.++.++ .+..+
T Consensus        45 ~l~~~~f~~l~~L~~L~L~~N~l~-----------------~l~-~~~~l~~L~-------~L~Ls~N~l~~~~~~~~~l   99 (266)
T d1p9ag_          45 TFSLATLMPYTRLTQLNLDRAELT-----------------KLQ-VDGTLPVLG-------TLDLSHNQLQSLPLLGQTL   99 (266)
T ss_dssp             EEEGGGGTTCTTCCEEECTTSCCC-----------------EEE-CCSCCTTCC-------EEECCSSCCSSCCCCTTTC
T ss_pred             CcCHHHhhcccccccccccccccc-----------------ccc-ccccccccc-------ccccccccccccccccccc
Confidence            344456788999999999998721                 111 111223333       3999999999776 78899


Q ss_pred             cccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcc
Q 005381          555 LWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSH  632 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~  632 (699)
                      ++|+.|++++|.+..++.  +..+.++..|++++|.++.++ +..+..+++|+.|++++|+|+.++.+.+   ..++-+.
T Consensus       100 ~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~-~~~~~~l~~l~~l~l~~N~l~~~~~~~~---~~l~~L~  175 (266)
T d1p9ag_         100 PALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP-PGLLTPTPKLEKLSLANNNLTELPAGLL---NGLENLD  175 (266)
T ss_dssp             TTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCC-TTTTTTCTTCCEEECTTSCCSCCCTTTT---TTCTTCC
T ss_pred             cccccccccccccceeeccccccccccccccccccccceec-cccccccccchhcccccccccccCcccc---ccccccc
Confidence            999999999999988877  889999999999999999884 4667889999999999999999875433   3344444


Q ss_pred             cccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          633 SVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       633 ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .+++++|.++.+           |..+..+ +|+.|+|++|++
T Consensus       176 ~L~Ls~N~L~~l-----------p~~~~~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         176 TLLLQENSLYTI-----------PKGFFGSHLLPFAFLHGNPW  207 (266)
T ss_dssp             EEECCSSCCCCC-----------CTTTTTTCCCSEEECCSCCB
T ss_pred             eeecccCCCccc-----------ChhHCCCCCCCEEEecCCCC
Confidence            457788877543           4456677 999999999999

>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=99.22  E-value=4.1e-12  Score=113.73  Aligned_cols=81  Identities=28%  Similarity=0.373  Sum_probs=75.8

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      |++++|.|+.+| .+..+++|+.|++++|.|+.+|++..+++|+.|++++|+|+.++.+..+..+++|+.|++++|+|+.
T Consensus        25 L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          25 LDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             EECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             EECCCCccCcchhhhhhhhcccccccccccccccCccccccccCeEECCCCccCCCCCchhhcCCCCCCEEECCCCcCCc
Confidence            999999999997 7999999999999999999998899999999999999999988666778999999999999999987


Q ss_pred             CC
Q 005381          617 HS  618 (699)
Q Consensus       617 lp  618 (699)
                      .+
T Consensus       105 ~~  106 (124)
T d1dcea3         105 EE  106 (124)
T ss_dssp             SS
T ss_pred             Cc
Confidence            65

>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=99.20  E-value=2e-11  Score=124.46  Aligned_cols=124  Identities=23%  Similarity=0.197  Sum_probs=90.0

Q ss_pred             eEEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          537 CLQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       537 ~L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      .|++++|.+..++  .+..+.+|+.+++++|.|+.++.  |..+++|+.|++++|.|+.++ +..|..+++|+.+++++|
T Consensus       109 ~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~-~~~f~~l~~L~~l~l~~N  187 (284)
T d1ozna_         109 TLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVP-ERAFRGLHSLDRLLLHQN  187 (284)
T ss_dssp             EEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEEC-TTTTTTCTTCCEEECCSS
T ss_pred             EEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccc-hhhhccccccchhhhhhc
Confidence            3888888887655  66677888888888888888765  778888888888888887763 366778888888888888


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      +++.++.+.   +..++-+..+++++|.+..+.          +..|..+ +|+.|+|++|++
T Consensus       188 ~l~~i~~~~---f~~l~~L~~L~l~~N~i~~~~----------~~~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         188 RVAHVHPHA---FRDLGRLMTLYLFANNLSALP----------TEALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             CCCEECTTT---TTTCTTCCEEECCSSCCSCCC----------HHHHTTCTTCCEEECCSSCE
T ss_pred             cccccChhH---hhhhhhccccccccccccccc----------ccccccccccCEEEecCCCC
Confidence            888774323   333333444566666664432          3467777 888888888888

>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=99.20  E-value=2.6e-11  Score=116.53  Aligned_cols=121  Identities=19%  Similarity=0.170  Sum_probs=80.2

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCCCCCC-CcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHNELRS-IEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N~L~~-l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      ++.++++++.|| .+  .+++++|+|++|.|+. ++.  |..+++|+.|+|++|.+..+. +..+..+++|+.|+|++|+
T Consensus        13 v~Cs~~~L~~iP~~l--p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~-~~~~~~~~~L~~L~Ls~N~   89 (192)
T d1w8aa_          13 VDCTGRGLKEIPRDI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIE-PNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             EECTTSCCSSCCSCC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBC-TTTTTTCTTCCEEECCSCC
T ss_pred             EEEeCCCcCccCCCC--CCCCCEEEeCCCCCcccccccccCCCceEeeeecccccccccc-ccccccccccceeeecccc
Confidence            667777777766 23  2567777777777754 333  677777777777777776653 3566667777777777777


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      |+.+|.+.   +..++.+..+++++|.++.+.          +..|..+ +|++|+|++|++
T Consensus        90 l~~l~~~~---F~~l~~L~~L~L~~N~l~~i~----------~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          90 IKEISNKM---FLGLHQLKTLNLYDNQISCVM----------PGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CCEECSSS---STTCTTCCEEECCSSCCCEEC----------TTSSTTCTTCCEEECTTCCB
T ss_pred             ccccCHHH---HhCCCcccccccCCccccccC----------HHHhcCCccccccccccccc
Confidence            77765333   333444444566666665543          3467788 899999999988

>d1dcea2 b.7.4.1 (A:242-350) Rab geranylgeranyltransferase alpha-subunit, insert domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: C2 domain-like
superfamily: Rab geranylgeranyltransferase alpha-subunit, insert domain
family: Rab geranylgeranyltransferase alpha-subunit, insert domain
domain: Rab geranylgeranyltransferase alpha-subunit, insert domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.19  E-value=6.8e-12  Score=103.47  Aligned_cols=97  Identities=16%  Similarity=0.312  Sum_probs=73.9

Q ss_pred             ccccCCCCCCCccccCCCCccceEEeecccccccc-ccceEEecccCC-CccceeeeCCCCCCccceeEEEeccCCCCCC
Q 005381          259 RCLDGCASSPFTRFHLDSRTFPLVLYFNQAVEGVN-SSTITVDSELNT-NKDLVWKPLSSCNSKAAQVWVTQLNLPDGNT  336 (699)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~w~~~~~~~~~~~~~w~~~~~~~~~~~  336 (699)
                      .|+|+         +.+.+.  +.++|++||.+.. .+  ++...+++ ++.|+|+.++. +.++++||+++|+...   
T Consensus         5 ~CvhV---------sR~e~~--l~v~FSrpv~v~~~~~--~L~L~~Dg~p~~veWRtp~g-r~r~s~vwlcdlP~~s---   67 (109)
T d1dcea2           5 CCVHV---------SREEAC--LSVCFSRPLTVGSRMG--TLLLMVDEAPLSVEWRTPDG-RNRPSHVWLCDLPAAS---   67 (109)
T ss_dssp             EEEEE---------ETTTTE--EEEEEEEEECTTBTTB--CEEEEESSSEECCCCBCTTS-SCCSEEEEEEECCGGG---
T ss_pred             EEEEE---------ecccCe--EEEEeccceecccccc--eEEEEeCCCcEEEEEeCCCC-ccCcCcEEEEeCChhh---
Confidence            57787         566766  8999999998742 23  34444555 89999999884 4599999999999843   


Q ss_pred             CCCCccceEEecCcccccccCCCCccCCCccceEEEEEeeccc--ccccccccceeec-cCCCc
Q 005381          337 HSSKVFPVEVSLGHSQGIISSSGFHYSNPFCFAFRVSLQFVET--QPVEALGKEIISW-RDESF  397 (699)
Q Consensus       337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~  397 (699)
                                        +++     ..|+| +|+|+|.++++  +|+++ .|..++| ||+++
T Consensus        68 ------------------l~d-----~~~qH-~~~v~w~~g~~~keCvL~-~Gr~E~wcRDsat  106 (109)
T d1dcea2          68 ------------------LND-----QLPQH-TFRVIWTGSDSQKECVLL-KDRPECWCRDSAT  106 (109)
T ss_dssp             ------------------TST-----TSSEE-EEEEEETTTTEEEEEEEE-TTCSEEEEECCST
T ss_pred             ------------------cCc-----cccCc-eEEEEeeCCcccceeEEe-CCCcccccccccc
Confidence                              233     35667 89999998888  99888 8999999 45443

>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=99.15  E-value=7e-11  Score=114.07  Aligned_cols=133  Identities=23%  Similarity=0.287  Sum_probs=108.2

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++++|.++.+..++.+++|++|++++|+++.++++.++++|+.|++++|.+..+   ..+..++.|+.|++++|.+..+
T Consensus        45 L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~~~~~l~~l~~L~~L~l~~n~~~~~---~~l~~l~~L~~L~l~~~~~~~~  121 (199)
T d2omxa2          45 LQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADI---TPLANLTNLTGLTLFNNQITDI  121 (199)
T ss_dssp             EECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCC---GGGTTCTTCSEEECCSSCCCCC
T ss_pred             EECCCCCCCCccccccCCCcCcCccccccccCcccccCCcccccccccccccccc---cccccccccccccccccccccc
Confidence            9999999999999999999999999999999998899999999999999999886   4588999999999999999886


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccccccC
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLDG  695 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD~  695 (699)
                      +  .   +..++-+..+.+++|.+..            +..+..+ +|+.|++++|.+ ..+.     +..+++|+.||-
T Consensus       122 ~--~---~~~l~~L~~L~l~~n~l~~------------~~~l~~~~~L~~L~l~~n~l~~l~~-----l~~l~~L~~L~l  179 (199)
T d2omxa2         122 D--P---LKNLTNLNRLELSSNTISD------------ISALSGLTSLQQLNFSSNQVTDLKP-----LANLTTLERLDI  179 (199)
T ss_dssp             G--G---GTTCTTCSEEECCSSCCCC------------CGGGTTCTTCSEEECCSSCCCCCGG-----GTTCTTCCEEEC
T ss_pred             c--c---cchhhhhHHhhhhhhhhcc------------cccccccccccccccccccccCCcc-----ccCCCCCCEEEC
Confidence            4  2   3334444455666766532            2357778 999999999999 3322     457888888763

>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=99.14  E-value=5.1e-11  Score=116.17  Aligned_cols=145  Identities=23%  Similarity=0.261  Sum_probs=114.2

Q ss_pred             HHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEE
Q 005381          482 LELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLD  561 (699)
Q Consensus       482 l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~Ld  561 (699)
                      ++.+++|++|++++|.+. ++                . .+..+.+++.       |++++|.++.++.+..+++|+.|+
T Consensus        64 l~~l~~L~~L~L~~n~i~-~l----------------~-~~~~l~~L~~-------L~l~~n~i~~l~~l~~l~~L~~L~  118 (210)
T d1h6ta2          64 IQYLPNVTKLFLNGNKLT-DI----------------K-PLANLKNLGW-------LFLDENKVKDLSSLKDLKKLKSLS  118 (210)
T ss_dssp             GGGCTTCCEEECCSSCCC-CC----------------G-GGTTCTTCCE-------EECCSSCCCCGGGGTTCTTCCEEE
T ss_pred             HhhCCCCCEEeCCCcccc-Cc----------------c-ccccCccccc-------cccccccccccccccccccccccc
Confidence            678999999999999721 11                1 1222333333       999999999999999999999999


Q ss_pred             ccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccccccCCCCCcccccCCCCcc
Q 005381          562 LSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTTKYLCSSPLSHSVGSEWNHG  641 (699)
Q Consensus       562 LS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll~ll~l~~N~l  641 (699)
                      +++|.+..++.+..++.|+.+++++|.++..   ..+..+++|+.+++++|+++.++     .+..++-+..+++++|.+
T Consensus       119 l~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~---~~~~~l~~L~~l~l~~n~l~~i~-----~l~~l~~L~~L~Ls~N~i  190 (210)
T d1h6ta2         119 LEHNGISDINGLVHLPQLESLYLGNNKITDI---TVLSRLTKLDTLSLEDNQISDIV-----PLAGLTKLQNLYLSKNHI  190 (210)
T ss_dssp             CTTSCCCCCGGGGGCTTCCEEECCSSCCCCC---GGGGGCTTCSEEECCSSCCCCCG-----GGTTCTTCCEEECCSSCC
T ss_pred             ccccccccccccccccccccccccccccccc---ccccccccccccccccccccccc-----cccCCCCCCEEECCCCCC
Confidence            9999999988899999999999999999875   56788999999999999998874     244455455567788876


Q ss_pred             ceeecCCcchhhhhhccCCCC-CccEEEecC
Q 005381          642 QTVIDDDIKSYWEAYFILKGL-NLTQFDIVG  671 (699)
Q Consensus       642 ~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~  671 (699)
                      +.+            ..+.++ +|+.|+|++
T Consensus       191 ~~l------------~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         191 SDL------------RALAGLKNLDVLELFS  209 (210)
T ss_dssp             CBC------------GGGTTCTTCSEEEEEE
T ss_pred             CCC------------hhhcCCCCCCEEEccC
Confidence            432            258889 999999974

>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=99.14  E-value=8.8e-11  Score=115.52  Aligned_cols=133  Identities=20%  Similarity=0.276  Sum_probs=75.3

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      +++++|.++.++.+..+++|+.++++++....++++...+.+..+.++++.+...   ..+..+++|+.|++++|.+...
T Consensus        90 l~~~~n~~~~i~~l~~l~~L~~l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~L~~L~l~~n~~~~~  166 (227)
T d1h6ua2          90 LELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNI---SPLAGLTNLQYLSIGNAQVSDL  166 (227)
T ss_dssp             EECCSCCCSCCGGGTTCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCC---GGGGGCTTCCEEECCSSCCCCC
T ss_pred             cccccccccccccccccccccccccccccccccchhccccchhhhhchhhhhchh---hhhccccccccccccccccccc
Confidence            4444444444444444444444444444444433344444444444444444332   3456677788888888887765


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +     .+..++-+..+++++|.+..+            ..++++ +|+.|+|++|+|.  .+..  ++.+++|+.||
T Consensus       167 ~-----~l~~l~~L~~L~Ls~n~l~~l------------~~l~~l~~L~~L~Ls~N~lt--~i~~--l~~l~~L~~L~  223 (227)
T d1h6ua2         167 T-----PLANLSKLTTLKADDNKISDI------------SPLASLPNLIEVHLKNNQIS--DVSP--LANTSNLFIVT  223 (227)
T ss_dssp             G-----GGTTCTTCCEEECCSSCCCCC------------GGGGGCTTCCEEECTTSCCC--BCGG--GTTCTTCCEEE
T ss_pred             h-----hhcccccceecccCCCccCCC------------hhhcCCCCCCEEECcCCcCC--CCcc--cccCCCCCEEE
Confidence            3     133344444556666665332            246778 9999999999983  2221  46788888886

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=8.7e-12  Score=116.92  Aligned_cols=111  Identities=23%  Similarity=0.206  Sum_probs=90.6

Q ss_pred             hcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCcccCCCCCcccCEEEcc
Q 005381          484 LYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLGSFDKLLWVQMLDLS  563 (699)
Q Consensus       484 ~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~~l~~L~~L~~LdLS  563 (699)
                      +..+|++||+++|++                 ..+......+.+++.       |+|++|.|+.++.+..+++|+.|+++
T Consensus        16 n~~~lr~L~L~~n~I-----------------~~i~~~~~~l~~L~~-------L~Ls~N~i~~l~~~~~l~~L~~L~ls   71 (162)
T d1a9na_          16 NAVRDRELDLRGYKI-----------------PVIENLGATLDQFDA-------IDFSDNEIRKLDGFPLLRRLKTLLVN   71 (162)
T ss_dssp             CTTSCEEEECTTSCC-----------------CSCCCGGGGTTCCSE-------EECCSSCCCEECCCCCCSSCCEEECC
T ss_pred             CcCcCcEEECCCCCC-----------------CccCccccccccCCE-------EECCCCCCCccCCcccCcchhhhhcc
Confidence            455789999999982                 111111122334333       99999999999999999999999999


Q ss_pred             CCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCC
Q 005381          564 HNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHS  618 (699)
Q Consensus       564 ~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp  618 (699)
                      +|+++.+++  +..+++|+.|++++|+|+.++....+..+++|+.|++++|+++..|
T Consensus        72 ~N~i~~l~~~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~  128 (162)
T d1a9na_          72 NNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKK  128 (162)
T ss_dssp             SSCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGST
T ss_pred             cccccCCCccccccccccccceeccccccccccccccccccccchhhcCCCcccccc
Confidence            999999987  6789999999999999998755567889999999999999998875

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=3.7e-10  Score=99.32  Aligned_cols=108  Identities=9%  Similarity=-0.013  Sum_probs=73.8

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      ++..........|.| ++|+.++.++|.++|++..+|+.++.++..+++            +++++..++++++.+|++.
T Consensus         5 ~l~~~g~~~~~~g~~-~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~al~~~p~~~   71 (117)
T d1elwa_           5 ELKEKGNKALSVGNI-DDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGD------------YQKAYEDGCKTVDLKPDWG   71 (117)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcCCH-HHHHHHHHHHHhcCCcchhhhhccccccccccc------------ccccchhhhhHHHhccchh
Confidence            334444455556666 577777777777777777777777777776654            6777777777777777777


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRR  147 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~  147 (699)
                      .+|+.++-++..+ +.+++++.+++++++++|.|..+|...+
T Consensus        72 ~~~~~~g~~~~~~-~~~~~A~~~~~~a~~~~p~~~~~~~~l~  112 (117)
T d1elwa_          72 KGYSRKAAALEFL-NRFEEAKRTYEEGLKHEANNPQLKEGLQ  112 (117)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            7777777777666 4777777777777777777776665544

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.07  E-value=2.5e-09  Score=105.34  Aligned_cols=132  Identities=11%  Similarity=-0.070  Sum_probs=112.9

Q ss_pred             HHHHHHHHHHHh----CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 005381           43 EAVELSTKLLET----NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        43 eaL~~~~~~L~~----nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~  118 (699)
                      .+|...++++..    +|+...+|+.||.+....++            +++++..++++|..+|++..+|+.++.++.+.
T Consensus        17 ~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~------------~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~   84 (259)
T d1xnfa_          17 VILARMEQILASRALTDDERAQLLYERGVLYDSLGL------------RALARNDFSQALAIRPDMPEVFNYLGIYLTQA   84 (259)
T ss_dssp             HHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCC------------HHHHHHHHHHhhccCCCCHHHHhhhchHHHHH
Confidence            444444555543    33455788999999999876            99999999999999999999999999999988


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHh
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                       +.++++++.++++++++|.+..+|..++.+...+|.+ ++.++++.++++.+|.+..++.+.+.....+
T Consensus        85 -g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  152 (259)
T d1xnfa_          85 -GNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRD-KLAQDDLLAFYQDDPNDPFRSLWLYLAEQKL  152 (259)
T ss_dssp             -TCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             -HHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhH-HHHHHHHHHHHhhccccHHHHHHHHHHHHHh
Confidence             6999999999999999999999999999999999998 6789999999999999988877666554443

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=1.2e-09  Score=95.90  Aligned_cols=97  Identities=11%  Similarity=0.043  Sum_probs=92.0

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHH
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTE  165 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~  165 (699)
                      .+++++.+++++|+.+|.++.+|..++.++.+. +.+++++..++++++++|.|..+|.+++-+...++.+ ++++.++.
T Consensus        18 ~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~-~~A~~~~~   95 (117)
T d1elwa_          18 NIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKK-GDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF-EEAKRTYE   95 (117)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCCcchhhhhccccccccc-ccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH-HHHHHHHH
Confidence            399999999999999999999999999999987 6999999999999999999999999999999999999 78999999


Q ss_pred             HHHHhccCchHHHHHHHHH
Q 005381          166 DMICNNFSNYSAWHNRSLL  184 (699)
Q Consensus       166 ~~I~~n~sN~SAW~~R~~l  184 (699)
                      ++|+.+|+|..+|..++.+
T Consensus        96 ~a~~~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          96 EGLKHEANNPQLKEGLQNM  114 (117)
T ss_dssp             HHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHHHHH
Confidence            9999999999999887654

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=2.2e-09  Score=99.13  Aligned_cols=110  Identities=16%  Similarity=0.094  Sum_probs=96.0

Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH
Q 005381           27 LQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG  106 (699)
Q Consensus        27 ~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~  106 (699)
                      +..+.......|.| ++|+..+.++|.++|++..+|+.++.++..++.            +++++..++++|+.+|++..
T Consensus        13 l~~~gn~~~~~~~y-~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~------------~~~A~~~~~kal~~~p~~~~   79 (159)
T d1a17a_          13 LKTQANDYFKAKDY-ENAIKFYSQAIELNPSNAIYYGNRSLAYLRTEC------------YGYALGDATRAIELDKKYIK   79 (159)
T ss_dssp             HHHHHHHHHHTTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcCCH-HHHHHHhhhccccchhhhhhhhhhHHHHHhccc------------cchHHHHHHHHHHHcccchH
Confidence            33455556688888 789999999999999999999999999999876            89999999999999999999


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA  150 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl  150 (699)
                      +|+.++.++..+ +.+++++++++++++++|.|..++.+...+.
T Consensus        80 a~~~~g~~~~~~-g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~  122 (159)
T d1a17a_          80 GYYRRAASNMAL-GKFRAALRDYETVVKVKPHDKDAKMKYQECN  122 (159)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            999999999987 6999999999999999999998887765553

>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=99.02  E-value=1.4e-10  Score=111.21  Aligned_cols=102  Identities=25%  Similarity=0.255  Sum_probs=79.3

Q ss_pred             EEccCCCCCc-cc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNLSLSR-LG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n~l~~-l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |+|++|.|+. ++  .|..+++|+.|+|++|.+..++.  |..+++|+.|+|++|+|+.++ +..|.++++|+.|+|++|
T Consensus        34 L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~-~~~F~~l~~L~~L~L~~N  112 (192)
T d1w8aa_          34 LLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEIS-NKMFLGLHQLKTLNLYDN  112 (192)
T ss_dssp             EECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEEC-SSSSTTCTTCCEEECCSS
T ss_pred             EEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccC-HHHHhCCCcccccccCCc
Confidence            8999999974 43  67888999999999999977766  888899999999999998873 467888999999999999


Q ss_pred             cCCCCCcccccccCCCCCcccccCCCCccce
Q 005381          613 EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQT  643 (699)
Q Consensus       613 ~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~  643 (699)
                      +|+.+|.+.+..+   +-+..+.+.+|.+.+
T Consensus       113 ~l~~i~~~~f~~l---~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_         113 QISCVMPGSFEHL---NSLTSLNLASNPFNC  140 (192)
T ss_dssp             CCCEECTTSSTTC---TTCCEEECTTCCBCC
T ss_pred             cccccCHHHhcCC---ccccccccccccccc
Confidence            9998875444333   333445677777654

>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=99.01  E-value=3.6e-10  Score=118.80  Aligned_cols=133  Identities=27%  Similarity=0.316  Sum_probs=101.1

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      +++++|.++.++.+..+++|+.|++++|.++.++++..++.++.+.+++|.++++   ..+..+++++.|++++|+|+.+
T Consensus       246 L~l~~n~l~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~---~~~~~~~~l~~L~ls~n~l~~l  322 (384)
T d2omza2         246 LDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDI---SPISNLKNLTYLTLYFNNISDI  322 (384)
T ss_dssp             EECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCC---GGGGGCTTCSEEECCSSCCSCC
T ss_pred             hccccCccCCCCcccccccCCEeeccCcccCCCCccccccccccccccccccccc---cccchhcccCeEECCCCCCCCC
Confidence            8888888888878888888888888888888887788888888888888888775   5577788899999999999887


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      +  .   +..++-+..+.+++|.++.+            ..+.++ +|+.|+|++|+|.  ++.+  +..+++|+.||
T Consensus       323 ~--~---l~~l~~L~~L~L~~n~l~~l------------~~l~~l~~L~~L~l~~N~l~--~l~~--l~~l~~L~~L~  379 (384)
T d2omza2         323 S--P---VSSLTKLQRLFFANNKVSDV------------SSLANLTNINWLSAGHNQIS--DLTP--LANLTRITQLG  379 (384)
T ss_dssp             G--G---GGGCTTCCEEECCSSCCCCC------------GGGGGCTTCCEEECCSSCCC--BCGG--GTTCTTCSEEE
T ss_pred             c--c---cccCCCCCEEECCCCCCCCC------------hhHcCCCCCCEEECCCCcCC--CChh--hccCCCCCEee
Confidence            4  2   23334444456677766432            257778 9999999999993  2222  46788888876

>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=99.01  E-value=5.1e-10  Score=113.73  Aligned_cols=138  Identities=20%  Similarity=0.222  Sum_probs=102.8

Q ss_pred             cCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccccCCC
Q 005381          541 KNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGA  616 (699)
Q Consensus       541 s~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~  616 (699)
                      ..+.++.++  .+.++++|+.|++++|.+..++.  +..+.+|+.+++++|.|+.++ +..|..+++|+.|++++|+|+.
T Consensus        89 ~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~-~~~f~~~~~L~~L~l~~N~l~~  167 (284)
T d1ozna_          89 DNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP-DDTFRDLGNLTHLFLHGNRISS  167 (284)
T ss_dssp             SCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSCCCE
T ss_pred             cccccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccC-hhHhccccchhhcccccCcccc
Confidence            455666654  68888999999999999877765  777888999999999998873 3567888899999999999988


Q ss_pred             CCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchHHHhhcCCcccccc
Q 005381          617 HSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLD  694 (699)
Q Consensus       617 lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD  694 (699)
                      ++...+   ..++.+..+.+.+|.+..+          .|..|.++ +|+.|++++|.+.  ......+..+++|+.|+
T Consensus       168 l~~~~f---~~l~~L~~l~l~~N~l~~i----------~~~~f~~l~~L~~L~l~~N~i~--~~~~~~~~~~~~L~~L~  231 (284)
T d1ozna_         168 VPERAF---RGLHSLDRLLLHQNRVAHV----------HPHAFRDLGRLMTLYLFANNLS--ALPTEALAPLRALQYLR  231 (284)
T ss_dssp             ECTTTT---TTCTTCCEEECCSSCCCEE----------CTTTTTTCTTCCEEECCSSCCS--CCCHHHHTTCTTCCEEE
T ss_pred             cchhhh---ccccccchhhhhhcccccc----------ChhHhhhhhhcccccccccccc--cccccccccccccCEEE
Confidence            864333   3334444456666666443          25688999 9999999999993  23345567788888776

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=1.2e-08  Score=93.99  Aligned_cols=101  Identities=9%  Similarity=0.024  Sum_probs=93.8

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHH
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTE  165 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~  165 (699)
                      .|++++..++++++.+|++..+|.+++.++..+ +.+++++.+++++++++|.+..||..++.+...+|.+ ++.++++.
T Consensus        25 ~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~-~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~-~eA~~~~~  102 (159)
T d1a17a_          25 DYENAIKFYSQAIELNPSNAIYYGNRSLAYLRT-ECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-RAALRDYE  102 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHH
T ss_pred             CHHHHHHHhhhccccchhhhhhhhhhHHHHHhc-cccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH-HHHHHHHH
Confidence            499999999999999999999999999999988 6999999999999999999999999999999999998 68999999


Q ss_pred             HHHHhccCchHHHHHHHHHHHHh
Q 005381          166 DMICNNFSNYSAWHNRSLLLSNL  188 (699)
Q Consensus       166 ~~I~~n~sN~SAW~~R~~ll~~l  188 (699)
                      ++++.+|.|..++.....+...+
T Consensus       103 ~a~~~~p~~~~~~~~l~~~~~~~  125 (159)
T d1a17a_         103 TVVKVKPHDKDAKMKYQECNKIV  125 (159)
T ss_dssp             HHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHH
Confidence            99999999999988876664433

>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=98.94  E-value=4.9e-10  Score=114.85  Aligned_cols=105  Identities=19%  Similarity=0.206  Sum_probs=81.8

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      |++++|.++...  .+..++.++.|++++|.+..++.  +.++++|+.|+|++|+|+.+  |..+..+++|++|+|++|+
T Consensus       176 L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~~l--p~~l~~l~~L~~L~Ls~N~  253 (305)
T d1xkua_         176 LHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKV--PGGLADHKYIQVVYLHNNN  253 (305)
T ss_dssp             EECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSSC--CTTTTTCSSCCEEECCSSC
T ss_pred             EECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeeccccccccc--ccccccccCCCEEECCCCc
Confidence            888888887553  77888889999999999988766  88888999999999998877  4678888899999999999


Q ss_pred             CCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCC
Q 005381          614 IGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIV  675 (699)
Q Consensus       614 I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~  675 (699)
                      |+.++...+.   .                            +..+..+ +|+.|+|++|++.
T Consensus       254 i~~i~~~~f~---~----------------------------~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         254 ISAIGSNDFC---P----------------------------PGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             CCCCCTTSSS---C----------------------------SSCCTTSCCCSEEECCSSSSC
T ss_pred             cCccChhhcc---C----------------------------cchhcccCCCCEEECCCCcCc
Confidence            9887532211   0                            1234445 8999999999983

>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=98.94  E-value=1.4e-09  Score=106.63  Aligned_cols=144  Identities=19%  Similarity=0.180  Sum_probs=95.2

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |++.+|.|+.++.+..+++|++|++++|.++.++++..+++|+.+++++|.++.+   ..+..+++|+.++++++.+..+
T Consensus        46 L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~i---~~l~~l~~L~~l~l~~~~~~~~  122 (227)
T d1h6ua2          46 LSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNV---SAIAGLQSIKTLDLTSTQITDV  122 (227)
T ss_dssp             EECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCC---GGGTTCTTCCEEECTTSCCCCC
T ss_pred             EECCCCCCCcchhHhcCCCCcEeecCCceeecccccccccccccccccccccccc---cccccccccccccccccccccc
Confidence            8888888888888888888888888888888887788888888888888888776   5577788888888888877665


Q ss_pred             CcccccccCCCCCcccccCCCCcc----------ceeecC-CcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHh
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHG----------QTVIDD-DIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLI  684 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l----------~~~~~~-~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~  684 (699)
                      +  .......   ...+.+..+.+          .+..++ ..+.... ...+.++ +|+.|+|++|.+ ..+.     +
T Consensus       123 ~--~~~~~~~---~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-~~~l~~l~~L~~L~Ls~n~l~~l~~-----l  191 (227)
T d1h6ua2         123 T--PLAGLSN---LQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSD-LTPLANLSKLTTLKADDNKISDISP-----L  191 (227)
T ss_dssp             G--GGTTCTT---CCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCC-CGGGTTCTTCCEEECCSSCCCCCGG-----G
T ss_pred             c--hhccccc---hhhhhchhhhhchhhhhcccccccccccccccccc-chhhcccccceecccCCCccCCChh-----h
Confidence            3  1111111   11111111111          111111 1111111 2347888 999999999999 3332     3


Q ss_pred             hcCCccccccC
Q 005381          685 KVLPGLKWLDG  695 (699)
Q Consensus       685 ~~l~~L~~LD~  695 (699)
                      ..+++|++||=
T Consensus       192 ~~l~~L~~L~L  202 (227)
T d1h6ua2         192 ASLPNLIEVHL  202 (227)
T ss_dssp             GGCTTCCEEEC
T ss_pred             cCCCCCCEEEC
Confidence            57888888763

>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=98.94  E-value=1.1e-09  Score=101.45  Aligned_cols=80  Identities=19%  Similarity=0.144  Sum_probs=71.2

Q ss_pred             EEccCCCCCccc-CCCCCcccCEEEccCC-CCCCCcC--CccccccceeecccCCCCCCCCCcccccccccccccccccc
Q 005381          538 LQLKNLSLSRLG-SFDKLLWVQMLDLSHN-ELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNE  613 (699)
Q Consensus       538 L~Ls~n~l~~l~-~l~~L~~L~~LdLS~N-~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~  613 (699)
                      ++.+++.+..++ .+..+++|+.|++++| .|+.++.  |.++++|+.|+|++|+|+.++ +..|..+++|+.|+|++|+
T Consensus        13 l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~-~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          13 LRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVA-PDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEEC-TTGGGSCSCCCEEECCSSC
T ss_pred             EEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcc-cccccccccccceeccCCC
Confidence            888888888766 8888999999999766 5898886  999999999999999999984 4778999999999999999


Q ss_pred             CCCCC
Q 005381          614 IGAHS  618 (699)
Q Consensus       614 I~~lp  618 (699)
                      |+.+|
T Consensus        92 l~~l~   96 (156)
T d2ifga3          92 LESLS   96 (156)
T ss_dssp             CSCCC
T ss_pred             CcccC
Confidence            99986

>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=98.94  E-value=1e-10  Score=120.58  Aligned_cols=116  Identities=15%  Similarity=0.104  Sum_probs=68.0

Q ss_pred             cHHHHHhcccccccCCCC-CccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc--CCCCC
Q 005381          478 SEEVLELYNDLMRLDPTH-VQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG--SFDKL  554 (699)
Q Consensus       478 ~~~~l~~l~~L~~LDls~-n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~--~l~~L  554 (699)
                      ++..++.++.|++||++. |.+.+.                ++..+.++.+++.       |+|++|.+..+.  .+..+
T Consensus        68 lp~~l~~L~~L~~L~Ls~~N~l~g~----------------iP~~i~~L~~L~~-------L~Ls~N~l~~~~~~~~~~~  124 (313)
T d1ogqa_          68 IPSSLANLPYLNFLYIGGINNLVGP----------------IPPAIAKLTQLHY-------LYITHTNVSGAIPDFLSQI  124 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEETTEESC----------------CCGGGGGCTTCSE-------EEEEEECCEEECCGGGGGC
T ss_pred             CChHHhcCccccccccccccccccc----------------cccccccccccch-------hhhccccccccccccccch
Confidence            345566777777777775 442211                2233334444444       777777776543  46666


Q ss_pred             cccCEEEccCCCC-CCCcC-CccccccceeecccCCCCCCCCCccccccccc-cccccccccCCCC
Q 005381          555 LWVQMLDLSHNEL-RSIEG-LEALQLLSCLNLSNNILGSFTALEPIRQLKSL-RALNISYNEIGAH  617 (699)
Q Consensus       555 ~~L~~LdLS~N~L-~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L-~~L~Ls~N~I~~l  617 (699)
                      ..|+.+++++|.+ ..+|. +..++.|+.+++++|.+++. .|..+..+..+ +.+++++|+++..
T Consensus       125 ~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~-ip~~~~~l~~l~~~l~~~~n~l~~~  189 (313)
T d1ogqa_         125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGA-IPDSYGSFSKLFTSMTISRNRLTGK  189 (313)
T ss_dssp             TTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEE-CCGGGGCCCTTCCEEECCSSEEEEE
T ss_pred             hhhcccccccccccccCchhhccCcccceeeccccccccc-ccccccccccccccccccccccccc
Confidence            7777777777766 44555 77777777777777776542 24445555544 5566666666543

>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=98.87  E-value=1.6e-09  Score=113.57  Aligned_cols=116  Identities=23%  Similarity=0.311  Sum_probs=87.0

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      ++++++.++.++.+..++.++.++++.|.+..++.+..+++++.|++++|+|+++   ..+..+++|+.|++++|+|+.+
T Consensus       268 L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~l---~~l~~l~~L~~L~L~~n~l~~l  344 (384)
T d2omza2         268 LKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDI---SPVSSLTKLQRLFFANNKVSDV  344 (384)
T ss_dssp             EECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSCC---GGGGGCTTCCEEECCSSCCCCC
T ss_pred             eeccCcccCCCCccccccccccccccccccccccccchhcccCeEECCCCCCCCC---cccccCCCCCEEECCCCCCCCC
Confidence            8888888887777788888888888888887776678888888888888888776   3477788888888888888876


Q ss_pred             CcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCC
Q 005381          618 SIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNA  673 (699)
Q Consensus       618 p~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~  673 (699)
                      +  .   +..++-+..+++++|.++.+           + .++++ +|+.|+|++|.
T Consensus       345 ~--~---l~~l~~L~~L~l~~N~l~~l-----------~-~l~~l~~L~~L~L~~Na  384 (384)
T d2omza2         345 S--S---LANLTNINWLSAGHNQISDL-----------T-PLANLTRITQLGLNDQA  384 (384)
T ss_dssp             G--G---GGGCTTCCEEECCSSCCCBC-----------G-GGTTCTTCSEEECCCEE
T ss_pred             h--h---HcCCCCCCEEECCCCcCCCC-----------h-hhccCCCCCEeeCCCCc
Confidence            4  2   33344444456667766432           1 37888 99999999983

>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=98.85  E-value=3.7e-09  Score=108.13  Aligned_cols=21  Identities=14%  Similarity=-0.058  Sum_probs=16.4

Q ss_pred             hhhccCCCC-CccEEEecCCCC
Q 005381          654 EAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       654 ~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      .+|..|..+ +|+.|+|++|+|
T Consensus       233 ~lp~~l~~l~~L~~L~Ls~N~i  254 (305)
T d1xkua_         233 KVPGGLADHKYIQVVYLHNNNI  254 (305)
T ss_dssp             SCCTTTTTCSSCCEEECCSSCC
T ss_pred             ccccccccccCCCEEECCCCcc
Confidence            445677788 888888888888

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=2.8e-08  Score=94.84  Aligned_cols=137  Identities=9%  Similarity=0.033  Sum_probs=114.3

Q ss_pred             hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCC
Q 005381           59 YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSR  138 (699)
Q Consensus        59 ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dpr  138 (699)
                      ...|+ ++......+            .++++++.++.   +.|.+..+|+.++-+.... +.++++++.|++++++||.
T Consensus         6 ~~l~~-~g~~~~~~~------------d~~~Al~~~~~---i~~~~~~~~~nlG~~~~~~-g~~~~A~~~~~kAl~ldp~   68 (192)
T d1hh8a_           6 ISLWN-EGVLAADKK------------DWKGALDAFSA---VQDPHSRICFNIGCMYTIL-KNMTEAEKAFTRSINRDKH   68 (192)
T ss_dssp             HHHHH-HHHHHHHTT------------CHHHHHHHHHT---SSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHH-HHHHHHHCC------------CHHHHHHHHHh---cCCCCHHHHHHHHHHHHHc-CCchhHHHHHHHHHHHhhh
Confidence            45675 576666654            39999999986   4677889999999999988 6999999999999999999


Q ss_pred             ChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch----------------HHHHHHHHHHHHhhhhhccCccchhch
Q 005381          139 NFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY----------------SAWHNRSLLLSNLLKRKVEGFVSKEKV  202 (699)
Q Consensus       139 N~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~----------------SAW~~R~~ll~~l~~~~~~~~~~~~~~  202 (699)
                      +..+|..|+.+..++|.+ +++++.+++++...+.|.                .+|++++.+...++.            
T Consensus        69 ~~~a~~~~g~~~~~~g~~-~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~------------  135 (192)
T d1hh8a_          69 LAVAYFQRGMLYYQTEKY-DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEE------------  135 (192)
T ss_dssp             CHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTC------------
T ss_pred             hhhhHHHHHHHHHhhccH-HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCC------------
Confidence            999999999999999999 789999999998766543                457777877776644            


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHH
Q 005381          203 LPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       203 ~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      ++++++.+..|+...|+......
T Consensus       136 ~~~A~~~l~~A~~~~~~~~~~~~  158 (192)
T d1hh8a_         136 WKKAEEQLALATSMKSEPRHSKI  158 (192)
T ss_dssp             HHHHHHHHHHHHTTCCSGGGGHH
T ss_pred             HHHHHHHHHHHHhcCCCcchHHH
Confidence            79999999999999998655554

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.84  E-value=1.1e-10  Score=112.94  Aligned_cols=114  Identities=25%  Similarity=0.338  Sum_probs=89.3

Q ss_pred             EEccCC--CCCccc-CCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccC
Q 005381          538 LQLKNL--SLSRLG-SFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       538 L~Ls~n--~l~~l~-~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      +.++++  .++.++ .+..+++|++|+|++|+|+.++++..+++|+.|+|++|.|+.++  .....+++|+.|++++|.|
T Consensus        28 ~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~i~--~~~~~~~~L~~L~l~~N~i  105 (198)
T d1m9la_          28 VELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIE--NLDAVADTLEELWISYNQI  105 (198)
T ss_dssp             EECCBCCTTCCCCHHHHHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECSCS--SHHHHHHHCCEEECSEEEC
T ss_pred             eeeecccCchhhhhhHHhcccccceeECcccCCCCcccccCCccccChhhccccccccc--ccccccccccccccccccc
Confidence            677655  355555 78889999999999999999988999999999999999999872  3344567899999999999


Q ss_pred             CCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCCCCccchH-HHhhcCCcccc
Q 005381          615 GAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAIVNEKFKS-FLIKVLPGLKW  692 (699)
Q Consensus       615 ~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l~~~~~~~-~~~~~l~~L~~  692 (699)
                      +.++                                       .+..+ +|+.|+|++|.|.  .+.. ..+..+++|+.
T Consensus       106 ~~l~---------------------------------------~~~~l~~L~~L~L~~N~i~--~~~~~~~l~~l~~L~~  144 (198)
T d1m9la_         106 ASLS---------------------------------------GIEKLVNLRVLYMSNNKIT--NWGEIDKLAALDKLED  144 (198)
T ss_dssp             CCHH---------------------------------------HHHHHHHSSEEEESEEECC--CHHHHHHHTTTTTCSE
T ss_pred             cccc---------------------------------------cccccccccccccccchhc--cccccccccCCCccce
Confidence            8763                                       13344 7999999999994  2221 23567888887


Q ss_pred             cc
Q 005381          693 LD  694 (699)
Q Consensus       693 LD  694 (699)
                      |+
T Consensus       145 L~  146 (198)
T d1m9la_         145 LL  146 (198)
T ss_dssp             EE
T ss_pred             ee
Confidence            75

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.84  E-value=5.1e-09  Score=99.19  Aligned_cols=107  Identities=16%  Similarity=0.059  Sum_probs=94.3

Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH
Q 005381           27 LQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG  106 (699)
Q Consensus        27 ~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~  106 (699)
                      +....-.....|.| ++|+..+.++|.++|++..+|+.++.++..++.            +++++..+++++.++|++..
T Consensus         7 l~~~Gn~~~~~g~~-~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~------------~~~Ai~~~~~al~l~p~~~~   73 (201)
T d2c2la1           7 LKEQGNRLFVGRKY-PEAAACYGRAITRNPLVAVYYTNRALCYLKMQQ------------PEQALADCRRALELDGQSVK   73 (201)
T ss_dssp             HHHHHHHHHHTTCH-HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHTTSCTTCHH
T ss_pred             HHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhh------------hhhhhHHHHHHHHhCCCcHH
Confidence            33445556678888 899999999999999999999999999999875            99999999999999999999


Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHH
Q 005381          107 AWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRR  147 (699)
Q Consensus       107 aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~  147 (699)
                      +|.+++-++..+ +.+++++..+.++++++|.+...|....
T Consensus        74 a~~~lg~~~~~l-~~~~~A~~~~~~al~l~p~~~~~~~~~~  113 (201)
T d2c2la1          74 AHFFLGQCQLEM-ESYDEAIANLQRAYSLAKEQRLNFGDDI  113 (201)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCCCCSHH
T ss_pred             HHHHHHHHHHHC-CCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence            999999999988 6999999999999999987776665443

>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=98.80  E-value=1.3e-09  Score=107.48  Aligned_cols=179  Identities=13%  Similarity=0.102  Sum_probs=109.1

Q ss_pred             HHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEcc-CCCCCccc--CCCCCc
Q 005381          479 EEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLK-NLSLSRLG--SFDKLL  555 (699)
Q Consensus       479 ~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls-~n~l~~l~--~l~~L~  555 (699)
                      ...|..+++|++||+++|.+...+.               ...+..+..+..       +.+. .|.+..++  .|.+++
T Consensus        46 ~~~f~~l~~L~~L~ls~n~~~~~i~---------------~~~f~~l~~l~~-------l~~~~~n~l~~~~~~~~~~l~  103 (242)
T d1xwdc1          46 KGAFSGFGDLEKIEISQNDVLEVIE---------------ADVFSNLPKLHE-------IRIEKANNLLYINPEAFQNLP  103 (242)
T ss_dssp             TTTTTTCTTCCEEEEESCTTCCEEC---------------SSSEESCTTCCE-------EEEECCTTCCEECTTSEECCT
T ss_pred             hhHhhccchhhhhhhccccccceee---------------cccccccccccc-------ccccccccccccccccccccc
Confidence            3356777888888888876211110               011122333333       4443 45666544  678888


Q ss_pred             ccCEEEccCCCCCCCcC---CccccccceeecccCCCCCCCCCccccccc-cccccccccccCCCCCcccccccCCCCCc
Q 005381          556 WVQMLDLSHNELRSIEG---LEALQLLSCLNLSNNILGSFTALEPIRQLK-SLRALNISYNEIGAHSIDTTKYLCSSPLS  631 (699)
Q Consensus       556 ~L~~LdLS~N~L~~l~~---l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~-~L~~L~Ls~N~I~~lp~~~~~~l~~l~ll  631 (699)
                      +|+.|++++|.+..++.   +..+..+..+..+++.+..++. ..+.+++ .++.|++++|+|+.++...   +....+.
T Consensus       104 ~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~-~~~~~~~~~l~~L~l~~n~l~~i~~~~---~~~~~l~  179 (242)
T d1xwdc1         104 NLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIER-NSFVGLSFESVILWLNKNGIQEIHNCA---FNGTQLD  179 (242)
T ss_dssp             TCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECT-TSSTTSBSSCEEEECCSSCCCEECTTT---TTTCCEE
T ss_pred             cccccccchhhhcccccccccccccccccccccccccccccc-cccccccccceeeeccccccccccccc---ccchhhh
Confidence            88888888888876665   4455566666667777776632 4444443 6788888888888875322   2223334


Q ss_pred             ccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC-CCccchHHHhhcCCccccccCc
Q 005381          632 HSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI-VNEKFKSFLIKVLPGLKWLDGE  696 (699)
Q Consensus       632 ~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l-~~~~~~~~~~~~l~~L~~LD~~  696 (699)
                      ..+.+.+|.++.+.          +..|.++ +|+.|+|++|+| ..+.   ..+..++.|+.||-.
T Consensus       180 ~~~~l~~n~l~~l~----------~~~f~~l~~L~~L~Ls~N~l~~l~~---~~~~~l~~L~~l~~~  233 (242)
T d1xwdc1         180 ELNLSDNNNLEELP----------NDVFHGASGPVILDISRTRIHSLPS---YGLENLKKLRARSTY  233 (242)
T ss_dssp             EEECTTCTTCCCCC----------TTTTTTSCCCSEEECTTSCCCCCCS---SSCTTCCEEESSSEE
T ss_pred             cccccccccccccc----------HHHhcCCCCCCEEECCCCcCCccCH---HHHcCCcccccCcCC
Confidence            44444555443221          2368889 999999999999 3222   234678888877643

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.80  E-value=5.9e-08  Score=90.34  Aligned_cols=129  Identities=16%  Similarity=-0.014  Sum_probs=67.4

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      .+..........|.| ++|+..|.++|.+.|..+....-                      ...+....         ..
T Consensus        17 ~~~e~G~~~~~~~~~-~~A~~~Y~~al~~~~~~~~~~~~----------------------~~~~~~~~---------~~   64 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKY-VQAVIQYGKIVSWLEMEYGLSEK----------------------ESKASESF---------LL   64 (168)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHHTTCCSCCHH----------------------HHHHHHHH---------HH
T ss_pred             HHHHHHHHHHHcCCH-HHHHHHHHHHHHHHHHhhccchh----------------------hhhhcchh---------HH
Confidence            444555666678888 89999999999876553311000                      00000000         01


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      .++..|+-++.++ +.+++++.+|++++++||.|..||..|+.+...+|.+ ++.++++.+++..+|.|-.++..++.+.
T Consensus        65 ~~~~Nla~~~~~l-~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~-~~A~~~~~~al~l~P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          65 AAFLNLAMCYLKL-REYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEF-ESAKGDFEKVLEVNPQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHh-hhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            2334455555444 3555555555555555555555555555555555554 4455555555555555555555555444


Q ss_pred             HHh
Q 005381          186 SNL  188 (699)
Q Consensus       186 ~~l  188 (699)
                      ..+
T Consensus       143 ~~~  145 (168)
T d1kt1a1         143 KKA  145 (168)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.79  E-value=1.6e-10  Score=108.11  Aligned_cols=124  Identities=27%  Similarity=0.298  Sum_probs=88.6

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcC-CccccccceeecccCCCCCCCCC-ccccccccccccccccccCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEG-LEALQLLSCLNLSNNILGSFTAL-EPIRQLKSLRALNISYNEIG  615 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~-l~~L~~L~~L~Ls~N~l~~l~~~-~~l~~l~~L~~L~Ls~N~I~  615 (699)
                      |+++++.  ..+.+..+..+..+++++|.+..++. +..+++|+.|+|++|+|+.++.. ..+..+++|+.|+|++|.|+
T Consensus        27 Ldls~l~--~~~~l~~~~~~~~l~~~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~  104 (162)
T d1koha1          27 LDLKGLR--SDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELK  104 (162)
T ss_dssp             BCCCCCS--SCTTTTTTTCCCCTTSHHHHHHHHHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCC
T ss_pred             eecccCC--CCchhhhccchhhcchhhhHhhhhHHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccc
Confidence            5555433  22344455555555666665555555 67889999999999999987432 34567899999999999999


Q ss_pred             CCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCCCccEEEecCCCCC-----CccchHHHhhcCCcc
Q 005381          616 AHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGLNLTQFDIVGNAIV-----NEKFKSFLIKVLPGL  690 (699)
Q Consensus       616 ~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L~L~~LdLs~N~l~-----~~~~~~~~~~~l~~L  690 (699)
                      .++.  .                                  ..++.++|+.|++++|+|.     ...|+..++..+|+|
T Consensus       105 ~l~~--l----------------------------------~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~~~~P~L  148 (162)
T d1koha1         105 SERE--L----------------------------------DKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRERFPKL  148 (162)
T ss_dssp             CGGG--H----------------------------------HHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHHTTSTTC
T ss_pred             cchh--h----------------------------------hhhhccccceeecCCCCcCcCcccchhHHHHHHHHCCCC
Confidence            9751  1                                  1122227889999999992     235777889999999


Q ss_pred             ccccCccCC
Q 005381          691 KWLDGEQLH  699 (699)
Q Consensus       691 ~~LD~~~i~  699 (699)
                      +.|||.+|.
T Consensus       149 ~~LDg~~v~  157 (162)
T d1koha1         149 LRLDGHELP  157 (162)
T ss_dssp             CEETTEECC
T ss_pred             CEECcCCCc
Confidence            999998873

>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=98.78  E-value=7.3e-10  Score=114.03  Aligned_cols=176  Identities=15%  Similarity=0.081  Sum_probs=89.6

Q ss_pred             CCcHHHHHhcccccccCCCCCccccchhhhHH----hhhhcc----chHHHhhhhccCCCCCCCCCCCCeEEccCCCCC-
Q 005381          476 SHSEEVLELYNDLMRLDPTHVQYYKDQHSLVL----LQQVTS----NWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLS-  546 (699)
Q Consensus       476 ~~~~~~l~~l~~L~~LDls~n~~~~~l~sl~~----l~~l~~----~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~-  546 (699)
                      +.++..++.+++|++||+++|.+.......+.    +..+..    ....++..+..+..+..       +++++|.++ 
T Consensus        91 g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~-------l~l~~n~l~~  163 (313)
T d1ogqa_          91 GPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVG-------ITFDGNRISG  163 (313)
T ss_dssp             SCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCE-------EECCSSCCEE
T ss_pred             cccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCcccce-------eecccccccc
Confidence            45556678888999999988875432221110    000000    00001111112222221       455555544 


Q ss_pred             ccc-CCCCCccc-CEEEccCCCCCCCc-C-CccccccceeecccCCCCCCCCCccccccccccccccccccCCCCCcccc
Q 005381          547 RLG-SFDKLLWV-QMLDLSHNELRSIE-G-LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAHSIDTT  622 (699)
Q Consensus       547 ~l~-~l~~L~~L-~~LdLS~N~L~~l~-~-l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~lp~~~~  622 (699)
                      .++ .+..+..+ +.+++++|+++... . +..+.. ..+++++|.+.+. .+..+..+++|+.+++++|.+...+    
T Consensus       164 ~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~-~~l~l~~~~~~~~-~~~~~~~~~~l~~l~~~~~~l~~~~----  237 (313)
T d1ogqa_         164 AIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNL-AFVDLSRNMLEGD-ASVLFGSDKNTQKIHLAKNSLAFDL----  237 (313)
T ss_dssp             ECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCC-SEEECCSSEEEEC-CGGGCCTTSCCSEEECCSSEECCBG----
T ss_pred             cccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccccccccccccccccccccccc----
Confidence            222 33333332 44555555553222 2 333322 2345555444432 3345566777888888888776543    


Q ss_pred             cccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCCCC
Q 005381          623 KYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGNAI  674 (699)
Q Consensus       623 ~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N~l  674 (699)
                      ..+...+.+..+++++|.+..          .+|..|+++ +|+.|+|++|.|
T Consensus       238 ~~~~~~~~L~~L~Ls~N~l~g----------~iP~~l~~L~~L~~L~Ls~N~l  280 (313)
T d1ogqa_         238 GKVGLSKNLNGLDLRNNRIYG----------TLPQGLTQLKFLHSLNVSFNNL  280 (313)
T ss_dssp             GGCCCCTTCCEEECCSSCCEE----------CCCGGGGGCTTCCEEECCSSEE
T ss_pred             cccccccccccccCccCeecc----------cCChHHhCCCCCCEEECcCCcc
Confidence            123333444445666666642          346788889 999999999988

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.76  E-value=7.4e-08  Score=91.84  Aligned_cols=128  Identities=8%  Similarity=-0.046  Sum_probs=110.9

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHH
Q 005381           29 SQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAW  108 (699)
Q Consensus        29 ~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW  108 (699)
                      +........+++ ++|++.+.+   +.|.+..+|+.+|.+...++.            +++++..++++|+.+|+++.+|
T Consensus        10 ~~g~~~~~~~d~-~~Al~~~~~---i~~~~~~~~~nlG~~~~~~g~------------~~~A~~~~~kAl~ldp~~~~a~   73 (192)
T d1hh8a_          10 NEGVLAADKKDW-KGALDAFSA---VQDPHSRICFNIGCMYTILKN------------MTEAEKAFTRSINRDKHLAVAY   73 (192)
T ss_dssp             HHHHHHHHTTCH-HHHHHHHHT---SSSCCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHCCCH-HHHHHHHHh---cCCCCHHHHHHHHHHHHHcCC------------chhHHHHHHHHHHHhhhhhhhH
Confidence            445556778888 789999986   467788999999999998865            9999999999999999999999


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh----------------hhhhHHHHHHHhcCCChHHHHHHHHHHHHhcc
Q 005381          109 HHRKWILSKGHSSIDNELRLLDKFQKADSRNF----------------HAWNYRRFVAASMNRSEEDELKYTEDMICNNF  172 (699)
Q Consensus       109 ~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~----------------haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~  172 (699)
                      +.|+.+..++ +.++++++.|++++...+.|.                .+|+.++.+...++.+ ++.++.+.++++.+|
T Consensus        74 ~~~g~~~~~~-g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~-~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          74 FQRGMLYYQT-EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEW-KKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHT-TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhh-ccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhcCC
Confidence            9999999988 699999999999999877663                4567889988999988 678888899999888


Q ss_pred             Cc
Q 005381          173 SN  174 (699)
Q Consensus       173 sN  174 (699)
                      ..
T Consensus       152 ~~  153 (192)
T d1hh8a_         152 EP  153 (192)
T ss_dssp             SG
T ss_pred             Cc
Confidence            64

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.76  E-value=9.6e-09  Score=97.23  Aligned_cols=91  Identities=10%  Similarity=-0.004  Sum_probs=57.6

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      +.|++++..++++|..+|++..+|.+|+-++.+. +.+++++.+|+++++++|.|..||.+++-+...++.+ +++++++
T Consensus        18 g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~-~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~-~~A~~~~   95 (201)
T d2c2la1          18 RKYPEAAACYGRAITRNPLVAVYYTNRALCYLKM-QQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESY-DEAIANL   95 (201)
T ss_dssp             TCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCH-HHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhh-hhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH-HHHHHHH
Confidence            4566666666666666666666666666666655 4666666666666666666666666666666666666 4566666


Q ss_pred             HHHHHhccCchHH
Q 005381          165 EDMICNNFSNYSA  177 (699)
Q Consensus       165 ~~~I~~n~sN~SA  177 (699)
                      .++++++|.+...
T Consensus        96 ~~al~l~p~~~~~  108 (201)
T d2c2la1          96 QRAYSLAKEQRLN  108 (201)
T ss_dssp             HHHHHHHHHTTCC
T ss_pred             HHHHHhCcccHHH
Confidence            6666666554433

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=1.2e-07  Score=88.50  Aligned_cols=128  Identities=13%  Similarity=-0.039  Sum_probs=69.6

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh
Q 005381           26 VLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY  105 (699)
Q Consensus        26 ~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy  105 (699)
                      .+..........+.| ++|+..|.++|.+.|.....+......+..+.                               .
T Consensus        15 ~l~~~G~~~~~~~~~-~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~-------------------------------~   62 (170)
T d1p5qa1          15 IVKERGTVYFKEGKY-KQALLQYKKIVSWLEYESSFSNEEAQKAQALR-------------------------------L   62 (170)
T ss_dssp             HHHHHHHHHHHHTCH-HHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHH-------------------------------H
T ss_pred             HHHHHHHHHHHcCCH-HHHHHHHHHHHHHhhhccccchHHHhhhchhH-------------------------------H
Confidence            444455556677888 79999999999998876443322211111110                               0


Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      .++..++-+..+. +.+++++.+++++|+++|.|..||.+++.+...+|.+ +++++++.++++.+|+|..+......+.
T Consensus        63 ~~~~nla~~y~k~-~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~-~~A~~~~~~al~l~P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKL-QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDF-ELARADFQKVLQLYPNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh-hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhH-HHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            1333444444444 3555555555555555555555555555555555555 4455555555555555555554444443


Q ss_pred             HH
Q 005381          186 SN  187 (699)
Q Consensus       186 ~~  187 (699)
                      ..
T Consensus       141 ~~  142 (170)
T d1p5qa1         141 QR  142 (170)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.72  E-value=1.4e-07  Score=86.33  Aligned_cols=128  Identities=12%  Similarity=-0.016  Sum_probs=95.3

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHH
Q 005381           30 QFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWH  109 (699)
Q Consensus        30 ~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~  109 (699)
                      ..-.....|.| ++|+..|.++|.+-|....                 . .+........++.            ..++.
T Consensus        23 ~G~~~f~~~~y-~~A~~~Y~~al~~~~~~~~-----------------~-~~~~~~~~~~~~~------------~~~~~   71 (153)
T d2fbna1          23 EGNEFFKKNEI-NEAIVKYKEALDFFIHTEE-----------------W-DDQILLDKKKNIE------------ISCNL   71 (153)
T ss_dssp             HHHHHHHTTCH-HHHHHHHHHHHHTTTTCTT-----------------C-CCHHHHHHHHHHH------------HHHHH
T ss_pred             HHHHHHHcCCH-HHHHHHHHHHHhhCcchhh-----------------h-hhHHHHHhhhhHH------------HHHHh
Confidence            33344467888 7999999999987654321                 0 0000001111111            13677


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      .++.++.++ +.+++++++|+++|+++|.|.-||..++.+...+|.+ ++++.++.++++++|+|-.++.....+..++.
T Consensus        72 Nla~~~~~l-~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~-~~A~~~~~~al~l~P~n~~~~~~l~~~~~kl~  149 (153)
T d2fbna1          72 NLATCYNKN-KDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFL-EEAKENLYKAASLNPNNLDIRNSYELCVNKLK  149 (153)
T ss_dssp             HHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHh-cccchhhhhhhccccccchhhhhhHHhHHHHHHcCCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            889998888 5899999999999999999999999999999999988 67889999999999999999988888877764


Q ss_pred             h
Q 005381          190 K  190 (699)
Q Consensus       190 ~  190 (699)
                      .
T Consensus       150 ~  150 (153)
T d2fbna1         150 E  150 (153)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.70  E-value=7.7e-09  Score=95.69  Aligned_cols=76  Identities=29%  Similarity=0.301  Sum_probs=65.8

Q ss_pred             EEccCC-CCCccc--CCCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCCCCCCccccccccccccccccc
Q 005381          538 LQLKNL-SLSRLG--SFDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYN  612 (699)
Q Consensus       538 L~Ls~n-~l~~l~--~l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N  612 (699)
                      |++++| .|+.++  .|.++++|+.|+|++|+|+.+++  |..+++|+.|+|++|+|+.++ +..+.. .+|+.|+|++|
T Consensus        36 L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~-~~~~~~-~~l~~L~L~~N  113 (156)
T d2ifga3          36 LYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLS-WKTVQG-LSLQELVLSGN  113 (156)
T ss_dssp             EECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCC-STTTCS-CCCCEEECCSS
T ss_pred             eecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCcccC-hhhhcc-ccccccccCCC
Confidence            999766 599886  79999999999999999999976  999999999999999999883 244544 47999999999


Q ss_pred             cCC
Q 005381          613 EIG  615 (699)
Q Consensus       613 ~I~  615 (699)
                      ++.
T Consensus       114 p~~  116 (156)
T d2ifga3         114 PLH  116 (156)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            884

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.60  E-value=1.7e-07  Score=87.01  Aligned_cols=123  Identities=9%  Similarity=-0.093  Sum_probs=80.3

Q ss_pred             HhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Q 005381           34 NHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKW  113 (699)
Q Consensus        34 ~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w  113 (699)
                      ....+.| ++|++.+.++|...+..                              ............+|....+|..|+.
T Consensus        37 ~~~~~~y-~~Ai~~y~~al~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~nla~   85 (169)
T d1ihga1          37 FFKSQNW-EMAIKKYTKVLRYVEGS------------------------------RAAAEDADGAKLQPVALSCVLNIGA   85 (169)
T ss_dssp             HHHTTCH-HHHHHHHHHHHHHHHHH------------------------------HHHSCHHHHGGGHHHHHHHHHHHHH
T ss_pred             HHHcCCH-HHHHHHHHHHHHhhhhh------------------------------hhhhhhHHHHHhChhhHHHHHHHHH
Confidence            3456777 78999999988642211                              0111112223345556667777777


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      +..++ +.+++++..|+++++++|.+..||..++.+...++.+ +++++++.++++.+|.|..+......+...+.
T Consensus        86 ~~~~~-~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~-~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~  159 (169)
T d1ihga1          86 CKLKM-SDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEY-DQALADLKKAQEIAPEDKAIQAELLKVKQKIK  159 (169)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhh-cccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            77766 4777777777777777777777777777777777776 56777777777777777777766666655543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.59  E-value=1.1e-07  Score=86.60  Aligned_cols=118  Identities=8%  Similarity=-0.026  Sum_probs=69.2

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..|++++..++++++.+|++..+|+.++.++.... .+....+                        ..+.+ +++++++
T Consensus        11 ~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~-~~~~~~e------------------------~~~~~-~~Ai~~~   64 (145)
T d1zu2a1          11 LLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELS-QFHSISD------------------------AKQMI-QEAITKF   64 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HHSCHHH------------------------HHHHH-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhh-hhhhhhH------------------------HHHHH-HHHHHHH
Confidence            34777777777777777777777777777776431 1110000                        00001 3455555


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLW  229 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~  229 (699)
                      +++|+++|.+..+|++++.++..++... .......+.++++++++++|+.++|++..++.-+.-
T Consensus        65 ~kAl~l~P~~~~a~~~lG~~y~~~g~~~-~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~  128 (145)
T d1zu2a1          65 EEALLIDPKKDEAVWCIGNAYTSFAFLT-PDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEM  128 (145)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHhcchhhHHHhhHHHHHHHcccch-hhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHH
Confidence            5555555555555555555555443311 001112245799999999999999999987765443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.59  E-value=2.6e-07  Score=79.83  Aligned_cols=95  Identities=5%  Similarity=-0.026  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLL  185 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll  185 (699)
                      ..|.+++.++.+. +.+++++.+++++++.+|.+..+|.+++.+....+.+ ++++.++.++|+.+|.+..+|..++.+.
T Consensus        17 ~~~~~~g~~~~~~-g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~-~~A~~~~~~al~~~p~~~~a~~~la~~y   94 (112)
T d1hxia_          17 ENPMEEGLSMLKL-ANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKD-GLAIIALNHARMLDPKDIAVHAALAVSH   94 (112)
T ss_dssp             SCHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-hhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhH-HHhhcccccccccccccccchHHHHHHH
Confidence            5577888888876 6999999999999999999999999999999999998 7889999999999999999999999999


Q ss_pred             HHhhhhhccCccchhchHHHHHHHHHHHH
Q 005381          186 SNLLKRKVEGFVSKEKVLPDEYEFVHQAI  214 (699)
Q Consensus       186 ~~l~~~~~~~~~~~~~~~~eeL~~~~~ai  214 (699)
                      ...+.            +++++++++++|
T Consensus        95 ~~~g~------------~~~A~~~l~~~l  111 (112)
T d1hxia_          95 TNEHN------------ANAALASLRAWL  111 (112)
T ss_dssp             HHHHH------------HHHHHHHHHHHH
T ss_pred             HHCCC------------HHHHHHHHHHHh
Confidence            88865            799999998876

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=9.5e-08  Score=84.40  Aligned_cols=104  Identities=16%  Similarity=0.130  Sum_probs=93.1

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC--CChHHHHHHHHHHHHhCCCChh--hhhHHHHHHHhcCCChHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGH--SSIDNELRLLDKFQKADSRNFH--AWNYRRFVAASMNRSEEDE  160 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~--~~~~~EL~~~~k~L~~dprN~h--aW~yR~~vl~~l~~~~e~E  160 (699)
                      ..++++.+.|+++|..+|++..+....+|+|.+..  +.++++++.+++++..+|.+.+  +|.+.|.+...+|.+ +++
T Consensus        13 ~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~~-~~A   91 (122)
T d1nzna_          13 EDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY-EKA   91 (122)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCH-HHH
T ss_pred             HHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhhh-HHH
Confidence            56899999999999999999999999999996532  3466899999999999998865  999999999999999 789


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          161 LKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       161 L~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      +++++++++++|.|..|...++.+...+.
T Consensus        92 ~~~~~~aL~~~P~~~~A~~l~~~I~~~~~  120 (122)
T d1nzna_          92 LKYVRGLLQTEPQNNQAKELERLIDKAMK  120 (122)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHHc
Confidence            99999999999999999999988877653

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.56  E-value=5.7e-07  Score=82.14  Aligned_cols=86  Identities=9%  Similarity=-0.122  Sum_probs=64.0

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHH
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTE  165 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~  165 (699)
                      .|.+++..|..+|..-|.....              .+.......+.+.     ..++..++.+..+++.+ ++.+++++
T Consensus        32 ~y~~A~~~Y~~al~~~~~~~~~--------------~~~~~~~~~~~~~-----~~~~~Nla~~~~~l~~~-~~Al~~~~   91 (153)
T d2fbna1          32 EINEAIVKYKEALDFFIHTEEW--------------DDQILLDKKKNIE-----ISCNLNLATCYNKNKDY-PKAIDHAS   91 (153)
T ss_dssp             CHHHHHHHHHHHHHTTTTCTTC--------------CCHHHHHHHHHHH-----HHHHHHHHHHHHHTTCH-HHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhCcchhhh--------------hhHHHHHhhhhHH-----HHHHhhHHHHHHHhccc-chhhhhhh
Confidence            4999999999999876543321              1111111112222     24778899999999998 78999999


Q ss_pred             HHHHhccCchHHHHHHHHHHHHhhhh
Q 005381          166 DMICNNFSNYSAWHNRSLLLSNLLKR  191 (699)
Q Consensus       166 ~~I~~n~sN~SAW~~R~~ll~~l~~~  191 (699)
                      ++|+.+|.|.-||+.++.++..++.-
T Consensus        92 ~al~~~p~~~ka~~~~g~~~~~lg~~  117 (153)
T d2fbna1          92 KVLKIDKNNVKALYKLGVANMYFGFL  117 (153)
T ss_dssp             HHHHHSTTCHHHHHHHHHHHHHHTCH
T ss_pred             ccccccchhhhhhHHhHHHHHHcCCH
Confidence            99999999999999999999998763

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.55  E-value=2.1e-07  Score=80.43  Aligned_cols=95  Identities=9%  Similarity=0.052  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      ..|..++.++...++            +.+++.++++++..+|++..+|.+++.++.+. +.+++++.+++++++++|.+
T Consensus        17 ~~~~~~g~~~~~~g~------------~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~-~~~~~A~~~~~~al~~~p~~   83 (112)
T d1hxia_          17 ENPMEEGLSMLKLAN------------LAEAALAFEAVCQKEPEREEAWRSLGLTQAEN-EKDGLAIIALNHARMLDPKD   83 (112)
T ss_dssp             SCHHHHHHHHHHTTC------------HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHHhh------------hHHHHHHHhhhcccccccchhhhhhhhhhhhh-hhHHHhhccccccccccccc
Confidence            345667777777654            99999999999999999999999999999987 69999999999999999999


Q ss_pred             hhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381          140 FHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus       140 ~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      ..+|...+.+....|.+ ++++++.+++|
T Consensus        84 ~~a~~~la~~y~~~g~~-~~A~~~l~~~l  111 (112)
T d1hxia_          84 IAVHAALAVSHTNEHNA-NAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHCCCH-HHHHHHHHHHh
Confidence            99999999999999988 67888888765

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.55  E-value=1.2e-07  Score=86.20  Aligned_cols=105  Identities=11%  Similarity=0.004  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCC--
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGH--  119 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~--  119 (699)
                      ++|++.+++++.++|++..+|+.++.++..+....  ...+....+++++..++++++++|+++.+|+.++.++....  
T Consensus        14 e~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~--~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~   91 (145)
T d1zu2a1          14 EQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFH--SISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFL   91 (145)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHS--CHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhh--hhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccc
Confidence            79999999999999999999999999998765311  11223466899999999999999999999999999986431  


Q ss_pred             --------CChHHHHHHHHHHHHhCCCChhhhhHHHH
Q 005381          120 --------SSIDNELRLLDKFQKADSRNFHAWNYRRF  148 (699)
Q Consensus       120 --------~~~~~EL~~~~k~L~~dprN~haW~yR~~  148 (699)
                              ..+++++++++++++++|.|-.++..-+.
T Consensus        92 ~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~  128 (145)
T d1zu2a1          92 TPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEM  128 (145)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHH
Confidence                    13567888888888888888776554433

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.52  E-value=3e-07  Score=81.09  Aligned_cols=107  Identities=7%  Similarity=-0.048  Sum_probs=93.1

Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH--HHHHHHH
Q 005381           36 HNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG--AWHHRKW  113 (699)
Q Consensus        36 ~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~--aW~hR~w  113 (699)
                      ..+++ ++|-+.|.++|.++|++..+.+..+++|.+...         ..++++++..+++++..+|++..  +|+..+.
T Consensus        11 ~~~~l-~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~---------~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_          11 SVEDL-LKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRY---------NDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHH-HHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSS---------HHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             CHHHH-HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcc---------hHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            34455 788999999999999999999999999865422         14578999999999999988754  8999999


Q ss_pred             HHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhc
Q 005381          114 ILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASM  153 (699)
Q Consensus       114 ~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l  153 (699)
                      +..+. +++++++++++++|+++|.|..|...++.|.+++
T Consensus        81 ~y~~~-g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~~~  119 (122)
T d1nzna_          81 GNYRL-KEYEKALKYVRGLLQTEPQNNQAKELERLIDKAM  119 (122)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHH-hhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHH
Confidence            99988 6999999999999999999999999999887665

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.45  E-value=4.1e-06  Score=77.67  Aligned_cols=98  Identities=5%  Similarity=-0.107  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN  139 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN  139 (699)
                      ..++-+|..+...+.            |++++..|.++|...|.....+......+.              ...      
T Consensus        14 ~~l~~~G~~~~~~~~------------~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~--------------~~~------   61 (170)
T d1p5qa1          14 TIVKERGTVYFKEGK------------YKQALLQYKKIVSWLEYESSFSNEEAQKAQ--------------ALR------   61 (170)
T ss_dssp             HHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHTTTCCCCCSHHHHHHH--------------HHH------
T ss_pred             HHHHHHHHHHHHcCC------------HHHHHHHHHHHHHHhhhccccchHHHhhhc--------------hhH------
Confidence            445566766666644            899999999999988876665433222222              111      


Q ss_pred             hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          140 FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       140 ~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      ..++..++.+..+++.+ ++.+++++++|+.+|.|..||..++.++..++.
T Consensus        62 ~~~~~nla~~y~k~~~~-~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~  111 (170)
T d1p5qa1          62 LASHLNLAMCHLKLQAF-SAAIESCNKALELDSNNEKGLSRRGEAHLAVND  111 (170)
T ss_dssp             HHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhhhhc-ccccchhhhhhhccccchhhhHHHHHHHHHhhh
Confidence            12567788888889988 789999999999999999999999999998865

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.43  E-value=1.4e-06  Score=80.60  Aligned_cols=48  Identities=6%  Similarity=-0.022  Sum_probs=32.3

Q ss_pred             hhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          142 AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       142 aW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      ++.+++.|...++.+ .+.+++++++++.+|.|..+|+.|+.++..++.
T Consensus        66 ~~~Nla~~~~~l~~~-~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~  113 (168)
T d1kt1a1          66 AFLNLAMCYLKLREY-TKAVECCDKALGLDSANEKGLYRRGEAQLLMNE  113 (168)
T ss_dssp             HHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhHHHHHHHhhhc-ccchhhhhhhhhcccchHHHHHHHHHHHHHcCC
Confidence            455566666667666 566777777777777777777777776666654

>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=98.37  E-value=1.5e-07  Score=92.30  Aligned_cols=80  Identities=23%  Similarity=0.262  Sum_probs=47.1

Q ss_pred             EEccCCCCCccc--CCCCCcccCEEEccCCCCCC-CcC--Cccccccceeeccc-CCCCCCCCCcccccccccccccccc
Q 005381          538 LQLKNLSLSRLG--SFDKLLWVQMLDLSHNELRS-IEG--LEALQLLSCLNLSN-NILGSFTALEPIRQLKSLRALNISY  611 (699)
Q Consensus       538 L~Ls~n~l~~l~--~l~~L~~L~~LdLS~N~L~~-l~~--l~~L~~L~~L~Ls~-N~l~~l~~~~~l~~l~~L~~L~Ls~  611 (699)
                      |+|++|.|+.++  .|.++++|++|++++|.+.. ++.  |.+++.++.|.+.. |.+..+ .+..+..+++|+.|++++
T Consensus        34 L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~-~~~~~~~l~~L~~l~l~~  112 (242)
T d1xwdc1          34 LRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYI-NPEAFQNLPNLQYLLISN  112 (242)
T ss_dssp             EEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEE-CTTSEECCTTCCEEEEES
T ss_pred             EECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccccc-ccccccccccccccccch
Confidence            666666666655  45666666666666666633 333  56666666666543 445443 234456666666666666


Q ss_pred             ccCCCCC
Q 005381          612 NEIGAHS  618 (699)
Q Consensus       612 N~I~~lp  618 (699)
                      |.+...+
T Consensus       113 ~~l~~~~  119 (242)
T d1xwdc1         113 TGIKHLP  119 (242)
T ss_dssp             CCCCSCC
T ss_pred             hhhcccc
Confidence            6665543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.36  E-value=9.4e-07  Score=78.10  Aligned_cols=106  Identities=14%  Similarity=0.067  Sum_probs=87.2

Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhh
Q 005381          110 HRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLL  189 (699)
Q Consensus       110 hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~  189 (699)
                      -.|-.+.+. +.|++++++++++++++|.+..+|.+++.+..+++.+ ++.+++++++|+.+|.+..+|...+.++..++
T Consensus         9 ~~G~~~~~~-~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~-~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           9 ELGNDAYKK-KDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDY-NKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHc-CCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCch-HHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            344445444 6899999999999999999999999999999999998 78999999999999999999998888887776


Q ss_pred             hhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          190 KRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       190 ~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                      ...     ...+.++++++++.+++..+|+...
T Consensus        87 ~~~-----~~~~~~~~A~~~~~kal~~~~~~~~  114 (128)
T d1elra_          87 NSY-----FKEEKYKDAIHFYNKSLAEHRTPDV  114 (128)
T ss_dssp             HHH-----HHTTCHHHHHHHHHHHHHHCCCHHH
T ss_pred             HHH-----HHhCCHHHHHHHHHHHHhcCCCHHH
Confidence            521     2234589999999999998886544

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.36  E-value=1.1e-06  Score=81.32  Aligned_cols=86  Identities=10%  Similarity=-0.079  Sum_probs=68.5

Q ss_pred             hHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHH
Q 005381           86 ILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTE  165 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~  165 (699)
                      .|++++..+.++|...+.                   ............++|.+..+|..|+.+..+++.+ ++++.+++
T Consensus        42 ~y~~Ai~~y~~al~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~-~~Ai~~~~  101 (169)
T d1ihga1          42 NWEMAIKKYTKVLRYVEG-------------------SRAAAEDADGAKLQPVALSCVLNIGACKLKMSDW-QGAVDSCL  101 (169)
T ss_dssp             CHHHHHHHHHHHHHHHHH-------------------HHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCH-HHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhhh-------------------hhhhhhhHHHHHhChhhHHHHHHHHHHHHhhccc-chhhhhhh
Confidence            388899999888864221                   1122222344567788899999999999999998 78999999


Q ss_pred             HHHHhccCchHHHHHHHHHHHHhhhh
Q 005381          166 DMICNNFSNYSAWHNRSLLLSNLLKR  191 (699)
Q Consensus       166 ~~I~~n~sN~SAW~~R~~ll~~l~~~  191 (699)
                      ++|+.+|.+..||+.++.++..++.-
T Consensus       102 ~al~~~p~~~~a~~~~g~~~~~l~~~  127 (169)
T d1ihga1         102 EALEIDPSNTKALYRRAQGWQGLKEY  127 (169)
T ss_dssp             HHHTTCTTCHHHHHHHHHHHHHTTCH
T ss_pred             hhhhhhhhhhhHHHhHHHHHHHccCH
Confidence            99999999999999999999998763

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.35  E-value=8.7e-07  Score=78.32  Aligned_cols=95  Identities=9%  Similarity=0.025  Sum_probs=80.5

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHH
Q 005381           31 FLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHH  110 (699)
Q Consensus        31 ~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~h  110 (699)
                      .......|+| ++|+.+++++|.++|++..+|..|+.++..++.            +++++..+++++..+|++..+|..
T Consensus        11 G~~~~~~~~y-~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~------------~~~A~~~~~~al~l~~~~~~~~~~   77 (128)
T d1elra_          11 GNDAYKKKDF-DTALKHYDKAKELDPTNMTYITNQAAVYFEKGD------------YNKCRELCEKAIEVGRENREDYRQ   77 (128)
T ss_dssp             HHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHHSTTCHHH
T ss_pred             HHHHHHcCCH-HHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCc------------hHHHHHHHHHHHHhCcccHHHHHH
Confidence            3344567888 899999999999999999999999999999976            999999999999999999998888


Q ss_pred             HHHHHHhCC------CChHHHHHHHHHHHHhCCC
Q 005381          111 RKWILSKGH------SSIDNELRLLDKFQKADSR  138 (699)
Q Consensus       111 R~w~L~~~~------~~~~~EL~~~~k~L~~dpr  138 (699)
                      .+.++.++.      ..++++++++++++..++.
T Consensus        78 ~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~  111 (128)
T d1elra_          78 IAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHRT  111 (128)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC
Confidence            777665321      5788899999888887764

>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=98.29  E-value=7.8e-07  Score=91.05  Aligned_cols=74  Identities=23%  Similarity=0.315  Sum_probs=61.6

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |+|++|.|+.+|..  +.+|+.|++++|.++.++.+.  +.|+.|++++|.|+.+   +.++.+++|+.|++++|.+...
T Consensus        63 L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l~~l~~lp--~~L~~L~L~~n~l~~l---p~~~~l~~L~~L~l~~~~~~~~  135 (353)
T d1jl5a_          63 LVASCNSLTELPEL--PQSLKSLLVDNNNLKALSDLP--PLLEYLGVSNNQLEKL---PELQNSSFLKIIDVDNNSLKKL  135 (353)
T ss_dssp             EECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCSCC--TTCCEEECCSSCCSSC---CCCTTCTTCCEEECCSSCCSCC
T ss_pred             EECCCCCCcccccc--hhhhhhhhhhhcccchhhhhc--cccccccccccccccc---cchhhhccceeecccccccccc
Confidence            99999999988743  568999999999998887632  3689999999999887   3467889999999999999877


Q ss_pred             C
Q 005381          618 S  618 (699)
Q Consensus       618 p  618 (699)
                      +
T Consensus       136 ~  136 (353)
T d1jl5a_         136 P  136 (353)
T ss_dssp             C
T ss_pred             c
Confidence            5

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=1.2e-06  Score=95.80  Aligned_cols=174  Identities=12%  Similarity=0.027  Sum_probs=106.7

Q ss_pred             HHHHHHHHhCCCchHH-------HHH--H--HHHHHhhhccCCC-Cch-----------hhhhhHHHHHHHHHHHHHhCC
Q 005381           46 ELSTKLLETNPELYTA-------WNY--R--KLAVQHKLTENDS-DPD-----------SLKSILDEELRVVESALRQNF  102 (699)
Q Consensus        46 ~~~~~~L~~nP~~yta-------Wn~--R--~~~l~~l~~~~~~-~~~-----------~~~~~~~eEL~~~~~~L~~nP  102 (699)
                      ++|+++|..+|++..+       |+.  +  ...+....+.... +..           ...+.|+.++..+.+++..+|
T Consensus        38 eaye~~i~~dp~~a~~~~~e~~Lw~~~y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~  117 (497)
T d1ya0a1          38 DLYQKMLVTDLEYALDKKVEQDLWNHAFKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDL  117 (497)
T ss_dssp             HHHHHHHHHCHHHHHHHTHHHHHHHHHTHHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC------
T ss_pred             HHHHHHHHcChhhHHHHhHHHHHHHHHHHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCh
Confidence            4588999999987544       652  2  2223333221111 111           112334444455555556889


Q ss_pred             CChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHH
Q 005381          103 KSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRS  182 (699)
Q Consensus       103 Ksy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~  182 (699)
                      +++.+|...+.+..+. +.+++++..+.+++..++  +.++.+.|.+....+.+ ++++.++.++++.+|.+..+|++.+
T Consensus       118 ~~~~~~~~lg~~~~~~-~~~~~A~~~~~~al~~~~--~~~~~~LG~l~~~~~~~-~~A~~~y~~A~~l~P~~~~~~~~Lg  193 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQ-THTSAIVKPQSSSCSYIC--QHCLVHLGDIARYRNQT-SQAESYYRHAAQLVPSNGQPYNQLA  193 (497)
T ss_dssp             --------------------------CCHHHHHHH--HHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTBSHHHHHHH
T ss_pred             hhHHHHHHhHHHHHhC-CCHHHHHHHHHHHhCCCH--HHHHHHHHHHHHHcccH-HHHHHHHHHHHHHCCCchHHHHHHH
Confidence            9999999999888876 578889999999998886  57999999999999998 7899999999999999999999999


Q ss_pred             HHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHcCcC
Q 005381          183 LLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLDQTV  235 (699)
Q Consensus       183 ~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~~~~  235 (699)
                      .+....++            +.+++.++.+|+.++|....||.-+.-++....
T Consensus       194 ~~~~~~~~------------~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         194 ILASSKGD------------HLTTIFYYCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHTTC------------HHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCC------------HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            99887654            689999999999999999999999888887643

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.28  E-value=1.4e-05  Score=80.95  Aligned_cols=164  Identities=9%  Similarity=0.011  Sum_probs=133.9

Q ss_pred             cHHHHHHHHHHHHh-CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChH-HHHHHHHHHHhC
Q 005381           41 SKEAVELSTKLLET-NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYG-AWHHRKWILSKG  118 (699)
Q Consensus        41 ~~eaL~~~~~~L~~-nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~-aW~hR~w~L~~~  118 (699)
                      .++|.+++++++.. +|+....|..-..+....+.            ++++..+++++|...|+++. +|.....++.+.
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~------------~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~  147 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMK------------YEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRA  147 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhccc------------HHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHc
Confidence            36889999999974 89999999988887777654            78999999999999999865 899988888766


Q ss_pred             CCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCccc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVS  198 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~  198 (699)
                       +.++++.+++.++++..|.+.+.|...+.+........+.....++++++.+|.+...|.....++...+.        
T Consensus       148 -~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~--------  218 (308)
T d2onda1         148 -EGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNE--------  218 (308)
T ss_dssp             -HCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC--------
T ss_pred             -CChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCC--------
Confidence             47899999999999999999999988777665544344678889999999999999999887777665533        


Q ss_pred             hhchHHHHHHHHHHHHHhCCCCc----hhHH-HHHH
Q 005381          199 KEKVLPDEYEFVHQAIFTDPDDQ----SGWF-YHLW  229 (699)
Q Consensus       199 ~~~~~~eeL~~~~~ai~~dP~d~----SaW~-Y~~~  229 (699)
                          ++++-..+.+|+...|.+.    ..|. |.+|
T Consensus       219 ----~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~f  250 (308)
T d2onda1         219 ----DNNTRVLFERVLTSGSLPPEKSGEIWARFLAF  250 (308)
T ss_dssp             ----HHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHH
T ss_pred             ----hHHHHHHHHHHHHhCCCChHHHHHHHHHHHHH
Confidence                6888999999999887653    3574 4444

>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=98.25  E-value=1.2e-06  Score=89.64  Aligned_cols=72  Identities=31%  Similarity=0.322  Sum_probs=61.1

Q ss_pred             EEccCCCCCcccCCCCCcccCEEEccCCCCCCCcCCccccccceeecccCCCCCCCCCccccccccccccccccccCCCC
Q 005381          538 LQLKNLSLSRLGSFDKLLWVQMLDLSHNELRSIEGLEALQLLSCLNLSNNILGSFTALEPIRQLKSLRALNISYNEIGAH  617 (699)
Q Consensus       538 L~Ls~n~l~~l~~l~~L~~L~~LdLS~N~L~~l~~l~~L~~L~~L~Ls~N~l~~l~~~~~l~~l~~L~~L~Ls~N~I~~l  617 (699)
                      |+|+++.++.+|.  .+++|++|+|++|+|+.+|..  +.+|+.|++++|+++.++.   +.  +.|+.|++++|.|..+
T Consensus        43 LdLs~~~L~~lp~--~~~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l~~l~~---lp--~~L~~L~L~~n~l~~l  113 (353)
T d1jl5a_          43 LELNNLGLSSLPE--LPPHLESLVASCNSLTELPEL--PQSLKSLLVDNNNLKALSD---LP--PLLEYLGVSNNQLEKL  113 (353)
T ss_dssp             EECTTSCCSCCCS--CCTTCSEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCS---CC--TTCCEEECCSSCCSSC
T ss_pred             EEeCCCCCCCCCC--CCCCCCEEECCCCCCcccccc--hhhhhhhhhhhcccchhhh---hc--cccccccccccccccc
Confidence            9999999999885  367999999999999999873  3578999999999988732   22  4699999999999998


Q ss_pred             C
Q 005381          618 S  618 (699)
Q Consensus       618 p  618 (699)
                      |
T Consensus       114 p  114 (353)
T d1jl5a_         114 P  114 (353)
T ss_dssp             C
T ss_pred             c
Confidence            7

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.17  E-value=2.9e-05  Score=78.45  Aligned_cols=178  Identities=8%  Similarity=-0.043  Sum_probs=137.4

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhcc--CCCCchhhhhhHHHHHHHHHHHHH-hCCCChHHHHHHHHHHHhC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTE--NDSDPDSLKSILDEELRVVESALR-QNFKSYGAWHHRKWILSKG  118 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~--~~~~~~~~~~~~~eEL~~~~~~L~-~nPKsy~aW~hR~w~L~~~  118 (699)
                      .++..+++++|...|.+..+|..--..+...+..  ...+.......++++..++++++. ..|++...|..-..+....
T Consensus        33 ~Rv~~vyerAl~~~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~  112 (308)
T d2onda1          33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhc
Confidence            4678899999999999999998554444332110  011122333557888999999997 4899999998888877766


Q ss_pred             CCChHHHHHHHHHHHHhCCCChh-hhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhhhhccCcc
Q 005381          119 HSSIDNELRLLDKFQKADSRNFH-AWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFV  197 (699)
Q Consensus       119 ~~~~~~EL~~~~k~L~~dprN~h-aW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~  197 (699)
                       +.++++...++++++..|++.+ +|.....+..+.+.. +...+.+.++++..|.+...|...+.+......       
T Consensus       113 -~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~-~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~-------  183 (308)
T d2onda1         113 -MKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-KSGRMIFKKAREDARTRHHVYVTAALMEYYCSK-------  183 (308)
T ss_dssp             -TCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCH-HHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSC-------
T ss_pred             -ccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCCh-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcc-------
Confidence             5899999999999999999975 798888887777776 678899999999999999999877665443311       


Q ss_pred             chhchHHHHHHHHHHHHHhCCCCchhHHHHHHHHc
Q 005381          198 SKEKVLPDEYEFVHQAIFTDPDDQSGWFYHLWLLD  232 (699)
Q Consensus       198 ~~~~~~~eeL~~~~~ai~~dP~d~SaW~Y~~~Ll~  232 (699)
                          ..+.+...+..++..+|++...|.-+.-++.
T Consensus       184 ----~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~  214 (308)
T d2onda1         184 ----DKSVAFKIFELGLKKYGDIPEYVLAYIDYLS  214 (308)
T ss_dssp             ----CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ----CHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence                2577889999999999999999985554443

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.97  E-value=1e-06  Score=91.20  Aligned_cols=179  Identities=13%  Similarity=0.140  Sum_probs=104.1

Q ss_pred             HHHHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc------CCC
Q 005381          479 EEVLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG------SFD  552 (699)
Q Consensus       479 ~~~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~------~l~  552 (699)
                      .+.+...+.|+.|++++|.+-. .........+.. . ...........++.       +.+++|.++.-.      .+.
T Consensus       114 ~~~l~~~~~L~~L~l~~n~l~~-~~~~~l~~~l~~-~-~~~~~~~~~~~L~~-------l~l~~n~i~~~~~~~l~~~l~  183 (344)
T d2ca6a1         114 IDFLSKHTPLEHLYLHNNGLGP-QAGAKIARALQE-L-AVNKKAKNAPPLRS-------IICGRNRLENGSMKEWAKTFQ  183 (344)
T ss_dssp             HHHHHHCTTCCEEECCSSCCHH-HHHHHHHHHHHH-H-HHHHHHHTCCCCCE-------EECCSSCCTGGGHHHHHHHHH
T ss_pred             hhhhcccccchheecccccccc-cccccccccccc-c-ccccccccCcccce-------eecccccccccccccccchhh
Confidence            4456677889999999887421 111111111100 0 00001111223333       888888887432      456


Q ss_pred             CCcccCEEEccCCCCCC------CcC-CccccccceeecccCCCCCCC---CCccccccccccccccccccCCCCCccc-
Q 005381          553 KLLWVQMLDLSHNELRS------IEG-LEALQLLSCLNLSNNILGSFT---ALEPIRQLKSLRALNISYNEIGAHSIDT-  621 (699)
Q Consensus       553 ~L~~L~~LdLS~N~L~~------l~~-l~~L~~L~~L~Ls~N~l~~l~---~~~~l~~l~~L~~L~Ls~N~I~~lp~~~-  621 (699)
                      .++.|+.|+|++|.|+.      +.. +..+++|+.|+|++|.|+...   ....+..+++|+.|+|++|.|+...... 
T Consensus       184 ~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l  263 (344)
T d2ca6a1         184 SHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAV  263 (344)
T ss_dssp             HCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHH
T ss_pred             hhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHH
Confidence            67899999999999854      223 777889999999999875421   0134667889999999999987643111 


Q ss_pred             cccc---CCCCCcccccCCCCccceeecCCcchhhhhhccCC-CC-CccEEEecCCCC
Q 005381          622 TKYL---CSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILK-GL-NLTQFDIVGNAI  674 (699)
Q Consensus       622 ~~~l---~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~-~L-~L~~LdLs~N~l  674 (699)
                      ...+   ....+ ..+++++|.+...      ....+...+. ++ +|+.|+|++|.+
T Consensus       264 ~~~l~~~~~~~L-~~L~ls~N~i~~~------~~~~l~~~l~~~~~~L~~L~l~~N~~  314 (344)
T d2ca6a1         264 VDAFSKLENIGL-QTLRLQYNEIELD------AVRTLKTVIDEKMPDLLFLELNGNRF  314 (344)
T ss_dssp             HHHHHTCSSCCC-CEEECCSSCCBHH------HHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             HHHhhhccCCCC-CEEECCCCcCChH------HHHHHHHHHHccCCCCCEEECCCCcC
Confidence            1111   12222 2346777765321      1112223332 45 789999999998

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.96  E-value=6.9e-05  Score=74.87  Aligned_cols=175  Identities=8%  Similarity=-0.105  Sum_probs=119.4

Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHh------CCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHh
Q 005381           27 LQSQFLHNHHNHIYSKEAVELSTKLLET------NPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQ  100 (699)
Q Consensus        27 ~~~~~~~~~~~~~~~~eaL~~~~~~L~~------nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~  100 (699)
                      +..+....+..+.+ ++|++++.+++.+      .++..++|+..+.+...++.            +++++..+++++.+
T Consensus        40 y~~aa~~y~~~~~~-~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~------------~~~A~~~~~~a~~~  106 (290)
T d1qqea_          40 CVQAATIYRLRKEL-NLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGN------------SVNAVDSLENAIQI  106 (290)
T ss_dssp             HHHHHHHHHHTTCT-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCH-HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCC------------cHHHHHHHHHhhHH
Confidence            33444445677788 7999999999998      34556889999999988865            88999999999987


Q ss_pred             CCCC------hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHH
Q 005381          101 NFKS------YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMI  168 (699)
Q Consensus       101 nPKs------y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I  168 (699)
                      .++.      ..++..-+-++..-.+.++++++++.+++++.++.      ..++...+.+...+|.+ +++++++.+++
T Consensus       107 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y-~~A~~~~~~~~  185 (290)
T d1qqea_         107 FTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY-IEASDIYSKLI  185 (290)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHH
T ss_pred             hhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChH-HHHHHHHHHHH
Confidence            6665      44555555555443368999999999999875443      34577788889999998 78999999999


Q ss_pred             HhccCchHH-----HHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          169 CNNFSNYSA-----WHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       169 ~~n~sN~SA-----W~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      ...+.+...     +++-...+..+.          .+.+..+...+.+++..+|....++-
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~l~----------~~d~~~A~~~~~~~~~~~~~~~~sre  237 (290)
T d1qqea_         186 KSSMGNRLSQWSLKDYFLKKGLCQLA----------ATDAVAAARTLQEGQSEDPNFADSRE  237 (290)
T ss_dssp             HTTSSCTTTGGGHHHHHHHHHHHHHH----------TTCHHHHHHHHHGGGCC---------
T ss_pred             HhCccchhhhhhHHHHHHHHHHHHHH----------hccHHHHHHHHHHHHHhCCCccchHH
Confidence            988776421     111111111111          12368888999999999998766653

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.90  E-value=1.2e-05  Score=72.97  Aligned_cols=110  Identities=14%  Similarity=0.001  Sum_probs=84.2

Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhCCCc------------hHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHH
Q 005381           28 QSQFLHNHHNHIYSKEAVELSTKLLETNPEL------------YTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVE   95 (699)
Q Consensus        28 ~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~------------ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~   95 (699)
                      ++........|.| ++|+..|.++|.++|+.            ..+|+.++.++..++.            +++++..++
T Consensus        13 l~~g~~~~~~g~y-~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~------------~~~A~~~~~   79 (156)
T d2hr2a1          13 LSDAQRQLVAGEY-DEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRS------------FDEALHSAD   79 (156)
T ss_dssp             HHHHHHHHHHTCH-HHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTC------------HHHHHHHHH
T ss_pred             HHHHHHHHHcCCH-HHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCc------------cchhhHhhh
Confidence            3445555677888 79999999999999885            3678889999998876            788888888


Q ss_pred             HHHHhCCCC-----------hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHH
Q 005381           96 SALRQNFKS-----------YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAA  151 (699)
Q Consensus        96 ~~L~~nPKs-----------y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~  151 (699)
                      .+|..+|+.           ..+++.|+-++..+ ++++++++.++++++++|+....+.-+.-+..
T Consensus        80 ~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~l-g~~eeA~~~~~~Al~l~~~~~~~~~~~~~~~~  145 (156)
T d2hr2a1          80 KALHYFNRRGELNQDEGKLWISAVYSRALALDGL-GRGAEAMPEFKKVVEMIEERKGETPGKERMME  145 (156)
T ss_dssp             HHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHH
T ss_pred             hhhhcccccccccccccchhHHHHhhhHHHHHHH-HHHHHHHHHHHHHHHhhHHhhchHHHHHHHHH
Confidence            888765543           23567778888877 68999999999999988877777655544443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.88  E-value=3.9e-05  Score=83.32  Aligned_cols=133  Identities=11%  Similarity=-0.008  Sum_probs=88.6

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCC
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSS  121 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~  121 (699)
                      +.|+..+.+++.++|++..+|...+.+....+.            +.+++..+..++..+|  +.++.+.|.+.... +.
T Consensus       103 ~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~------------~~~A~~~~~~al~~~~--~~~~~~LG~l~~~~-~~  167 (497)
T d1ya0a1         103 TQLLQELCTVFNVDLPCRVKSSQLGIISNKQTH------------TSAIVKPQSSSCSYIC--QHCLVHLGDIARYR-NQ  167 (497)
T ss_dssp             HHHHHHHTC-------------------------------------------CCHHHHHHH--HHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCC------------HHHHHHHHHHHhCCCH--HHHHHHHHHHHHHc-cc
Confidence            345555555667899999999999988776654            6677778888887765  57899999988877 69


Q ss_pred             hHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHHHhhh
Q 005381          122 IDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLSNLLK  190 (699)
Q Consensus       122 ~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~~l~~  190 (699)
                      +++++.+|.++++++|.+..+|++.|.+....|.. .+++.++.++|..+|....|+.+...++....+
T Consensus       168 ~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~-~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~~  235 (497)
T d1ya0a1         168 TSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDH-LTTIFYYCRSIAVKFPFPAASTNLQKALSKALE  235 (497)
T ss_dssp             HHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCH-HHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCH-HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999988 679999999999999999999999998887654

>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=97.76  E-value=3e-06  Score=78.17  Aligned_cols=54  Identities=35%  Similarity=0.298  Sum_probs=29.8

Q ss_pred             EEccCCCCCcccC----CCCCcccCEEEccCCCCCCCcC--CccccccceeecccCCCCC
Q 005381          538 LQLKNLSLSRLGS----FDKLLWVQMLDLSHNELRSIEG--LEALQLLSCLNLSNNILGS  591 (699)
Q Consensus       538 L~Ls~n~l~~l~~----l~~L~~L~~LdLS~N~L~~l~~--l~~L~~L~~L~Ls~N~l~~  591 (699)
                      |+|++|.|+.++.    +..+++|+.|||++|.|+.++.  +.....|+.|++++|.++.
T Consensus        70 L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~  129 (162)
T d1koha1          70 LNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSD  129 (162)
T ss_dssp             CCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSS
T ss_pred             eeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCc
Confidence            5666666665432    3345666666666666666555  2223345666666666544

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.66  E-value=3.5e-05  Score=69.85  Aligned_cols=99  Identities=13%  Similarity=0.004  Sum_probs=81.5

Q ss_pred             hHHHHHHHHHHHHHhCCCCh------------HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChh-----------h
Q 005381           86 ILDEELRVVESALRQNFKSY------------GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFH-----------A  142 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKsy------------~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~h-----------a  142 (699)
                      .|++++..++++|.++|+.+            .+|+.++.++..+ +.++++++.+++++++.|++..           +
T Consensus        24 ~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~l-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a  102 (156)
T d2hr2a1          24 EYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGL-RSFDEALHSADKALHYFNRRGELNQDEGKLWISA  102 (156)
T ss_dssp             CHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHc-CccchhhHhhhhhhhcccccccccccccchhHHH
Confidence            49999999999999998864            5788889999887 6999999999999998765432           6


Q ss_pred             hhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHHHHHHHH
Q 005381          143 WNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHNRSLLLS  186 (699)
Q Consensus       143 W~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~R~~ll~  186 (699)
                      +..++-++..+|++ +++++++++++++.|.....+-.+..++.
T Consensus       103 ~~~~g~~~~~lg~~-eeA~~~~~~Al~l~~~~~~~~~~~~~~~~  145 (156)
T d2hr2a1         103 VYSRALALDGLGRG-AEAMPEFKKVVEMIEERKGETPGKERMME  145 (156)
T ss_dssp             HHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHCCSCCTTHHHHHH
T ss_pred             HhhhHHHHHHHHHH-HHHHHHHHHHHHhhHHhhchHHHHHHHHH
Confidence            77889999999998 78999999999988877666544444433

>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=97.64  E-value=1.7e-05  Score=79.77  Aligned_cols=37  Identities=19%  Similarity=0.383  Sum_probs=22.6

Q ss_pred             cCCCC-CccEEEecCCCCCCccchHHHhhcCCccccccCcc
Q 005381          658 ILKGL-NLTQFDIVGNAIVNEKFKSFLIKVLPGLKWLDGEQ  697 (699)
Q Consensus       658 ~l~~L-~L~~LdLs~N~l~~~~~~~~~~~~l~~L~~LD~~~  697 (699)
                      .++++ +|+.|+++++ +....+ ..+...+|+|+. ++..
T Consensus       220 ~L~~~~~L~~L~l~~~-~~d~~l-~~l~~~lp~L~i-~~~~  257 (284)
T d2astb2         220 ELGEIPTLKTLQVFGI-VPDGTL-QLLKEALPHLQI-NCSH  257 (284)
T ss_dssp             GGGGCTTCCEEECTTS-SCTTCH-HHHHHHSTTSEE-SCCC
T ss_pred             HHhcCCCCCEEeeeCC-CCHHHH-HHHHHhCccccc-cCcc
Confidence            45566 8888888887 533333 345566888763 4443

>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=97.63  E-value=3.5e-06  Score=84.91  Aligned_cols=145  Identities=19%  Similarity=0.161  Sum_probs=83.7

Q ss_pred             EEccCCCCCc--ccCCCCCcccCEEEccCC-CCCC--CcC-CccccccceeecccC-CCCCCCCCcccc-cccccccccc
Q 005381          538 LQLKNLSLSR--LGSFDKLLWVQMLDLSHN-ELRS--IEG-LEALQLLSCLNLSNN-ILGSFTALEPIR-QLKSLRALNI  609 (699)
Q Consensus       538 L~Ls~n~l~~--l~~l~~L~~L~~LdLS~N-~L~~--l~~-l~~L~~L~~L~Ls~N-~l~~l~~~~~l~-~l~~L~~L~L  609 (699)
                      |+|+++.++.  +..+..+++|+.|+++++ .++.  +.. +..+++|+.|+++++ .++.......+. .+++|+.|++
T Consensus        76 L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l  155 (284)
T d2astb2          76 LSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNL  155 (284)
T ss_dssp             EECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEEC
T ss_pred             ccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccccccccccccccchhhhcccccccchhhh
Confidence            8888887764  336778889999999884 5653  333 567888999999885 343210001122 2467888888


Q ss_pred             ccc--cCCCCCcccccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEecCC-CCCCccchHHHhh
Q 005381          610 SYN--EIGAHSIDTTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIVGN-AIVNEKFKSFLIK  685 (699)
Q Consensus       610 s~N--~I~~lp~~~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs~N-~l~~~~~~~~~~~  685 (699)
                      ++.  .++...+...  ....+-+..++++++..         .....+..+.++ +|++|+|+++ .|....+..  +.
T Consensus       156 ~~~~~~i~~~~l~~l--~~~~~~L~~L~L~~~~~---------itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~--L~  222 (284)
T d2astb2         156 SGYRKNLQKSDLSTL--VRRCPNLVHLDLSDSVM---------LKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLE--LG  222 (284)
T ss_dssp             CSCGGGSCHHHHHHH--HHHCTTCSEEECTTCTT---------CCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGG--GG
T ss_pred             ccccccccccccccc--ccccccccccccccccC---------CCchhhhhhcccCcCCEEECCCCCCCChHHHHH--Hh
Confidence            753  3433211110  11122222234444321         001224466778 9999999995 565444322  46


Q ss_pred             cCCccccccC
Q 005381          686 VLPGLKWLDG  695 (699)
Q Consensus       686 ~l~~L~~LD~  695 (699)
                      .+|+|+.||-
T Consensus       223 ~~~~L~~L~l  232 (284)
T d2astb2         223 EIPTLKTLQV  232 (284)
T ss_dssp             GCTTCCEEEC
T ss_pred             cCCCCCEEee
Confidence            7899998874

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.52  E-value=2.4e-05  Score=77.99  Aligned_cols=127  Identities=9%  Similarity=-0.081  Sum_probs=94.0

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..+++++..++++++.+|++..+|....-++... +.++++++.++++++++|.+..+|...+.++...+.. ++.+...
T Consensus        10 G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~-G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~-~~a~~~~   87 (264)
T d1zbpa1          10 GQLQQALELLIEAIKASPKDASLRSSFIELLCID-GDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQAR-KDFAQGA   87 (264)
T ss_dssp             TCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHH-HHHTTSC
T ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcccc-HHHHHHh
Confidence            4589999999999999999999999999999877 6999999999999999999999998887776544332 1111111


Q ss_pred             HH-HHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCchhHH
Q 005381          165 ED-MICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQSGWF  225 (699)
Q Consensus       165 ~~-~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~SaW~  225 (699)
                      .. .+..+|.+..++..+..+....            +.++++.+.+.++....|+....|.
T Consensus        88 ~~~~~~~~p~~~~~~l~~a~~~~~~------------gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          88 ATAKVLGENEELTKSLVSFNLSMVS------------QDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             CCEECCCSCHHHHHHHHHHHHHHHH------------TCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             hhhhcccCchHHHHHHHHHHHHHhC------------CCHHHHHHHHHHHHhcCCCCCcccc
Confidence            11 1112343334444444443333            2379999999999999999988875

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.51  E-value=7.7e-06  Score=84.26  Aligned_cols=132  Identities=15%  Similarity=0.112  Sum_probs=79.3

Q ss_pred             EEccCCCCCccc------CCCCCcccCEEEccCCCCCCCcC---------------CccccccceeecccCCCCCCCC--
Q 005381          538 LQLKNLSLSRLG------SFDKLLWVQMLDLSHNELRSIEG---------------LEALQLLSCLNLSNNILGSFTA--  594 (699)
Q Consensus       538 L~Ls~n~l~~l~------~l~~L~~L~~LdLS~N~L~~l~~---------------l~~L~~L~~L~Ls~N~l~~l~~--  594 (699)
                      |+|++|.++...      .+..+++|++|++++|.++....               ....+.|+.|.+++|.++....  
T Consensus        98 L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~  177 (344)
T d2ca6a1          98 VRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKE  177 (344)
T ss_dssp             EECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHH
T ss_pred             ccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccccccccccc
Confidence            788888776432      34566788888888887743110               1234567888888887754210  


Q ss_pred             -CccccccccccccccccccCCCCCcc--cccccCCCCCcccccCCCCccceeecCCcchhhhhhccCCCC-CccEEEec
Q 005381          595 -LEPIRQLKSLRALNISYNEIGAHSID--TTKYLCSSPLSHSVGSEWNHGQTVIDDDIKSYWEAYFILKGL-NLTQFDIV  670 (699)
Q Consensus       595 -~~~l~~l~~L~~L~Ls~N~I~~lp~~--~~~~l~~l~ll~ll~l~~N~l~~~~~~~~~~~~~~p~~l~~L-~L~~LdLs  670 (699)
                       ...+..++.|+.|+|++|.|+.....  ....+...+.+..+++++|.+...      ....+...+..+ +|+.|+|+
T Consensus       178 l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~------g~~~L~~~l~~~~~L~~L~Ls  251 (344)
T d2ca6a1         178 WAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHL------GSSALAIALKSWPNLRELGLN  251 (344)
T ss_dssp             HHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHH------HHHHHHHHGGGCTTCCEEECT
T ss_pred             ccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccc------ccccccccccccccchhhhhh
Confidence             01234567899999999988653210  112233334344456666665221      112233466777 89999999


Q ss_pred             CCCCC
Q 005381          671 GNAIV  675 (699)
Q Consensus       671 ~N~l~  675 (699)
                      +|.|.
T Consensus       252 ~n~i~  256 (344)
T d2ca6a1         252 DCLLS  256 (344)
T ss_dssp             TCCCC
T ss_pred             cCccC
Confidence            99994

>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=97.42  E-value=1.8e-05  Score=83.38  Aligned_cols=31  Identities=23%  Similarity=0.063  Sum_probs=21.6

Q ss_pred             CccEEEecCCCCC--CccchHHHhhcCCccccc
Q 005381          663 NLTQFDIVGNAIV--NEKFKSFLIKVLPGLKWL  693 (699)
Q Consensus       663 ~L~~LdLs~N~l~--~~~~~~~~~~~l~~L~~L  693 (699)
                      +|+.|++.+|.+.  .......+....|+|++|
T Consensus       427 ~L~~l~l~~~~~~~~~~~~l~~l~~~~~~l~~~  459 (460)
T d1z7xw1         427 LLEQLVLYDIYWSEEMEDRLQALEKDKPSLRVI  459 (460)
T ss_dssp             CCCEEECTTCCCCHHHHHHHHHHHHHCTTSEEE
T ss_pred             ccCEEECCCCCCCHHHHHHHHHHHHhCCCCEEe
Confidence            7999999999993  222333455677888765

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=0.00041  Score=57.17  Aligned_cols=79  Identities=15%  Similarity=0.052  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC-------hHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           62 WNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS-------YGAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        62 Wn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs-------y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      +...|.+....+.            |.+++.++++++++.|++       ..++++.+++..+. +.++++++.++++|+
T Consensus         8 c~~lG~~~~~~g~------------y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~-g~~~~A~~~y~~aL~   74 (95)
T d1tjca_           8 SFELGKVAYTEAD------------YYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQ-GDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHHTTC------------HHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCC------------HHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhc-CChHHHHHHHHHHHH
Confidence            4455666666644            999999999999987765       45678888888887 689999999999999


Q ss_pred             hCCCChhhhhHHHHHHHhc
Q 005381          135 ADSRNFHAWNYRRFVAASM  153 (699)
Q Consensus       135 ~dprN~haW~yR~~vl~~l  153 (699)
                      ++|.|..|+.+.+++-+.+
T Consensus        75 l~P~~~~a~~Nl~~~~~~l   93 (95)
T d1tjca_          75 LDPEHQRANGNLKYFEYIM   93 (95)
T ss_dssp             HCTTCHHHHHHHHHHHHHH
T ss_pred             hCcCCHHHHHHHHHHHHHh
Confidence            9999999999887765443

>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=97.32  E-value=2.6e-05  Score=81.98  Aligned_cols=80  Identities=23%  Similarity=0.245  Sum_probs=47.7

Q ss_pred             EEccCCCCCccc---CCCCCcccCEEEccCCCCCC-----CcC-CccccccceeecccCCCCCCCC---Ccccc-ccccc
Q 005381          538 LQLKNLSLSRLG---SFDKLLWVQMLDLSHNELRS-----IEG-LEALQLLSCLNLSNNILGSFTA---LEPIR-QLKSL  604 (699)
Q Consensus       538 L~Ls~n~l~~l~---~l~~L~~L~~LdLS~N~L~~-----l~~-l~~L~~L~~L~Ls~N~l~~l~~---~~~l~-~l~~L  604 (699)
                      |++++|.++...   .+..+++++.|+|++|.|+.     +.. +..+++|+.|+|++|.|+....   ...+. ...+|
T Consensus         7 ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L   86 (460)
T d1z7xw1           7 LDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKI   86 (460)
T ss_dssp             EEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCC
T ss_pred             EEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCC
Confidence            777777777533   45556777777777777753     222 5666777777777777642100   01111 12367


Q ss_pred             cccccccccCCCC
Q 005381          605 RALNISYNEIGAH  617 (699)
Q Consensus       605 ~~L~Ls~N~I~~l  617 (699)
                      +.|+|++|.|+..
T Consensus        87 ~~L~L~~n~it~~   99 (460)
T d1z7xw1          87 QKLSLQNCCLTGA   99 (460)
T ss_dssp             CEEECTTSCCBGG
T ss_pred             CEEECCCCCcccc
Confidence            7777777777654

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.29  E-value=0.00067  Score=55.79  Aligned_cols=80  Identities=6%  Similarity=-0.046  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh-------hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHH
Q 005381          106 GAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF-------HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAW  178 (699)
Q Consensus       106 ~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~-------haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW  178 (699)
                      ..++..|.+..+. +.+++++..++++++++|.+.       .++.+.+++..++|.+ +++++++.++|+.+|.+..|+
T Consensus         6 ddc~~lG~~~~~~-g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~-~~A~~~y~~aL~l~P~~~~a~   83 (95)
T d1tjca_           6 EDSFELGKVAYTE-ADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL-DKALLLTKKLLELDPEHQRAN   83 (95)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCCh-HHHHHHHHHHHHhCcCCHHHH
Confidence            4456677777776 699999999999999987664       4577889999999998 789999999999999999999


Q ss_pred             HHHHHHHHH
Q 005381          179 HNRSLLLSN  187 (699)
Q Consensus       179 ~~R~~ll~~  187 (699)
                      +++..+-..
T Consensus        84 ~Nl~~~~~~   92 (95)
T d1tjca_          84 GNLKYFEYI   92 (95)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998775443

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.06  E-value=0.00079  Score=66.82  Aligned_cols=141  Identities=8%  Similarity=-0.076  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCC------CChHHHHHHHHHH
Q 005381           42 KEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNF------KSYGAWHHRKWIL  115 (699)
Q Consensus        42 ~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nP------Ksy~aW~hR~w~L  115 (699)
                      ++|.++|.++              +.++...+            .+++++..+++++..+.      .-..+|...+.+.
T Consensus        34 ~~Aa~~y~~a--------------a~~y~~~~------------~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y   87 (290)
T d1qqea_          34 EEAADLCVQA--------------ATIYRLRK------------ELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCF   87 (290)
T ss_dssp             HHHHHHHHHH--------------HHHHHHTT------------CTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--------------HHHHHHCc------------CHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence            7888888876              34444443            38899999999987632      3346788888888


Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCC------hhhhhHHHHHHH-hcCCChHHHHHHHHHHHHhccCc------hHHHHHHH
Q 005381          116 SKGHSSIDNELRLLDKFQKADSRN------FHAWNYRRFVAA-SMNRSEEDELKYTEDMICNNFSN------YSAWHNRS  182 (699)
Q Consensus       116 ~~~~~~~~~EL~~~~k~L~~dprN------~haW~yR~~vl~-~l~~~~e~EL~~~~~~I~~n~sN------~SAW~~R~  182 (699)
                      .+. +.++++++++++++++.+.+      ..++..-+-++. .++.+ +++++++.++++..+.+      ..++...+
T Consensus        88 ~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la  165 (290)
T d1qqea_          88 KSG-GNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDY-AKAIDCYELAGEWYAQDQSVALSNKCFIKCA  165 (290)
T ss_dssp             HHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHh-CCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHH-HHHHHHHHHHHHHHHhcCchhhhhhHHHHHH
Confidence            877 69999999999999987665      233333343443 35666 78999999999875433      23355666


Q ss_pred             HHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCCCch
Q 005381          183 LLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       183 ~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                      .++..++            .|+++++.+.+++...|.+..
T Consensus       166 ~~~~~~g------------~y~~A~~~~~~~~~~~~~~~~  193 (290)
T d1qqea_         166 DLKALDG------------QYIEASDIYSKLIKSSMGNRL  193 (290)
T ss_dssp             HHHHHTT------------CHHHHHHHHHHHHHTTSSCTT
T ss_pred             HHHHHcC------------hHHHHHHHHHHHHHhCccchh
Confidence            6655553            389999999999999988753

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.03  E-value=0.0075  Score=55.45  Aligned_cols=127  Identities=8%  Similarity=-0.094  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhC
Q 005381           22 EKLRVLQSQFLHNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQN  101 (699)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~n  101 (699)
                      ..+.............|.+ ++|++.+.++|.+.+...-.+.....                  ....+      .....
T Consensus         9 ~~f~~~~~~g~~~~~~g~~-e~A~~~~~~AL~l~rG~~l~~~~~~~------------------w~~~~------r~~l~   63 (179)
T d2ff4a2           9 GRFVAEKTAGVHAAAAGRF-EQASRHLSAALREWRGPVLDDLRDFQ------------------FVEPF------ATALV   63 (179)
T ss_dssp             HHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHTTCCSSTTGGGTTST------------------THHHH------HHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhhCcccccccCcchH------------------HHHHH------HHHHH
Confidence            3556666777777888888 79999999999998876533221100                  01111      11122


Q ss_pred             CCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHH-------HHhccCc
Q 005381          102 FKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDM-------ICNNFSN  174 (699)
Q Consensus       102 PKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~-------I~~n~sN  174 (699)
                      +....+|..+.-++... +.+++++.+++++++.||.+-.+|...+.++..+|++ .+.++.|.++       +...|+.
T Consensus        64 ~~~~~a~~~la~~~~~~-g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~-~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          64 EDKVLAHTAKAEAEIAC-GRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQ-SDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCH-HHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCH-HHHHHHHHHHHHHHHHHhCCCcCH
Confidence            22346788888888776 6888999999999999999999998888888888887 5677777766       4466665


Q ss_pred             h
Q 005381          175 Y  175 (699)
Q Consensus       175 ~  175 (699)
                      .
T Consensus       142 ~  142 (179)
T d2ff4a2         142 T  142 (179)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=96.61  E-value=0.025  Score=54.91  Aligned_cols=158  Identities=11%  Similarity=-0.067  Sum_probs=108.8

Q ss_pred             hcCCCCcHHHHHHHHHHHHhCCCch-----HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCC-----
Q 005381           35 HHNHIYSKEAVELSTKLLETNPELY-----TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKS-----  104 (699)
Q Consensus        35 ~~~~~~~~eaL~~~~~~L~~nP~~y-----taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKs-----  104 (699)
                      ...|++ ++|+.++.++|...|++.     .++...+.+....++            +++++..++.++...|+.     
T Consensus        23 ~~~g~~-~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~------------~~~A~~~~~~a~~~~~~~~~~~~   89 (366)
T d1hz4a_          23 INDGNP-DEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGE------------LTRSLALMQQTEQMARQHDVWHY   89 (366)
T ss_dssp             HHTTCH-HHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHCCCH-HHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHHHHhhcchHH
Confidence            467887 899999999999999974     467777888877765            899999999999865543     


Q ss_pred             -hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCh--------hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCch
Q 005381          105 -YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNF--------HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNY  175 (699)
Q Consensus       105 -y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~--------haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~  175 (699)
                       ..++..++++.... +.+.+++..+.+++.+.++..        .+...++.+....+.+ +....++.+++...+...
T Consensus        90 ~~~~~~~~~~~~~~~-~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~a~~~~~~~~~~~~~~~  167 (366)
T d1hz4a_          90 ALWSLIQQSEILFAQ-GFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARL-DEAEASARSGIEVLSSYQ  167 (366)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcch-hhhHHHHHHHHHHhhhhh
Confidence             34556666777665 689999999999987654322        2334456677777777 567778888888765543


Q ss_pred             HHH-----HHHHHHHHHhhhhhccCccchhchHHHHHHHHHHHHHhCCC
Q 005381          176 SAW-----HNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQAIFTDPD  219 (699)
Q Consensus       176 SAW-----~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~ai~~dP~  219 (699)
                      ..+     ...+......            ..+.++...+.++....+.
T Consensus       168 ~~~~~~~~~~~~~~~~~~------------~~~~~a~~~~~~a~~~~~~  204 (366)
T d1hz4a_         168 PQQQLQCLAMLIQCSLAR------------GDLDNARSQLNRLENLLGN  204 (366)
T ss_dssp             GGGGHHHHHHHHHHHHHH------------TCHHHHHHHHHHHHHHHTT
T ss_pred             hhhHHHHHHHHHHHHHhh------------hhHHHHHHHHHHHHHHHHH
Confidence            322     2222222222            2256777777777765544

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.53  E-value=0.012  Score=54.02  Aligned_cols=118  Identities=9%  Similarity=-0.049  Sum_probs=81.8

Q ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHHHhcCCChHHHHHHH
Q 005381           85 SILDEELRVVESALRQNFKSYGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVAASMNRSEEDELKYT  164 (699)
Q Consensus        85 ~~~~eEL~~~~~~L~~nPKsy~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~  164 (699)
                      ..+++++..+.++|...+..+..+..-        +.|-     ......+.+....+|..++-+....|.+ ++.++++
T Consensus        25 g~~e~A~~~~~~AL~l~rG~~l~~~~~--------~~w~-----~~~r~~l~~~~~~a~~~la~~~~~~g~~-~~Al~~~   90 (179)
T d2ff4a2          25 GRFEQASRHLSAALREWRGPVLDDLRD--------FQFV-----EPFATALVEDKVLAHTAKAEAEIACGRA-SAVIAEL   90 (179)
T ss_dssp             TCHHHHHHHHHHHHTTCCSSTTGGGTT--------STTH-----HHHHHHHHHHHHHHHHHHHHHHHHTTCH-HHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCcccccccCcc--------hHHH-----HHHHHHHHHHHHHHHHHHHHHHHHCCCc-hHHHHHH
Confidence            456677777777777776665443211        1111     1112233344456788888888888988 7899999


Q ss_pred             HHHHHhccCchHHHHHHHHHHHHhhhhhccCccchhchHHHHHHHHHHH-------HHhCCCCchhHHHHH
Q 005381          165 EDMICNNFSNYSAWHNRSLLLSNLLKRKVEGFVSKEKVLPDEYEFVHQA-------IFTDPDDQSGWFYHL  228 (699)
Q Consensus       165 ~~~I~~n~sN~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~eeL~~~~~a-------i~~dP~d~SaW~Y~~  228 (699)
                      +++++.+|.+..+|...+.++..+++            +.+++..|.++       +-++|..+..=.|.+
T Consensus        91 ~~al~~~P~~e~~~~~l~~al~~~Gr------------~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l~~~  149 (179)
T d2ff4a2          91 EALTFEHPYREPLWTQLITAYYLSDR------------QSDALGAYRRVKTTLADDLGIDPGPTLRALNER  149 (179)
T ss_dssp             HHHHHHSTTCHHHHHHHHHHHHTTTC------------HHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHH
T ss_pred             HHHHHhCCccHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHHH
Confidence            99999999999999999999998876            56666666655       668888655444444

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.47  E-value=0.0006  Score=67.39  Aligned_cols=133  Identities=4%  Similarity=-0.098  Sum_probs=97.5

Q ss_pred             HHhcCCCCcHHHHHHHHHHHHhCCCchHHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCChHHHHHHH
Q 005381           33 HNHHNHIYSKEAVELSTKLLETNPELYTAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSYGAWHHRK  112 (699)
Q Consensus        33 ~~~~~~~~~~eaL~~~~~~L~~nP~~ytaWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy~aW~hR~  112 (699)
                      ....+|.+ ++|+..+.++++.+|++..+|.....++...++            +++++..++.+++.+|.+..+|...+
T Consensus         5 ~aL~~G~l-~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~------------~e~A~~~l~~a~~l~P~~~~~~~~l~   71 (264)
T d1zbpa1           5 NALSEGQL-QQALELLIEAIKASPKDASLRSSFIELLCIDGD------------FERADEQLMQSIKLFPEYLPGASQLR   71 (264)
T ss_dssp             HHTTTTCH-HHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTC------------HHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHCCCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            44567777 899999999999999999999999999998876            99999999999999999999999888


Q ss_pred             HHHHhCCCChHHHHHHHHHH-HHhCCCChhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHHH
Q 005381          113 WILSKGHSSIDNELRLLDKF-QKADSRNFHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWHN  180 (699)
Q Consensus       113 w~L~~~~~~~~~EL~~~~k~-L~~dprN~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~~  180 (699)
                      .++.... ..++.+.-..+. +..+|.+..++..+..+....+.+ ++..+.+.++.+..|..-..|+.
T Consensus        72 ~ll~a~~-~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~-~~A~~~~~~a~e~~p~~~~~~~~  138 (264)
T d1zbpa1          72 HLVKAAQ-ARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDY-EQVSELALQIEELRQEKGFLAND  138 (264)
T ss_dssp             HHHHHHH-HHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCCCCCEEETT
T ss_pred             HHHHhcc-ccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCH-HHHHHHHHHHHhcCCCCCccccc
Confidence            7776321 112222211111 112343344444455555556776 67888889999988887776643

>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=95.89  E-value=0.0011  Score=60.59  Aligned_cols=76  Identities=17%  Similarity=0.166  Sum_probs=47.3

Q ss_pred             EEccCCCCCccc------CCCCCcccCEEEccCCCCCCC--c---C-CccccccceeecccCCCCCCCC------Ccccc
Q 005381          538 LQLKNLSLSRLG------SFDKLLWVQMLDLSHNELRSI--E---G-LEALQLLSCLNLSNNILGSFTA------LEPIR  599 (699)
Q Consensus       538 L~Ls~n~l~~l~------~l~~L~~L~~LdLS~N~L~~l--~---~-l~~L~~L~~L~Ls~N~l~~l~~------~~~l~  599 (699)
                      |+|++|.+..-.      .+...+.|+.|+|++|.|+.-  .   . +..-+.|+.|++++|.+..+..      ...+.
T Consensus        49 L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~  128 (167)
T d1pgva_          49 FSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIE  128 (167)
T ss_dssp             EECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHH
T ss_pred             eeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHH
Confidence            888888877321      345567788888888888542  1   1 5666678888888887665421      11233


Q ss_pred             cccccccccccccc
Q 005381          600 QLKSLRALNISYNE  613 (699)
Q Consensus       600 ~l~~L~~L~Ls~N~  613 (699)
                      ..++|+.|+++.+.
T Consensus       129 ~n~sL~~l~l~~~~  142 (167)
T d1pgva_         129 ENESLLRVGISFAS  142 (167)
T ss_dssp             HCSSCCEEECCCCC
T ss_pred             hCCCccEeeCcCCC
Confidence            34566666665543

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=95.56  E-value=0.065  Score=51.73  Aligned_cols=137  Identities=12%  Similarity=-0.007  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHhhhccCCCCchhhhhhHHHHHHHHHHHHHhCCCCh-----HHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 005381           60 TAWNYRKLAVQHKLTENDSDPDSLKSILDEELRVVESALRQNFKSY-----GAWHHRKWILSKGHSSIDNELRLLDKFQK  134 (699)
Q Consensus        60 taWn~R~~~l~~l~~~~~~~~~~~~~~~~eEL~~~~~~L~~nPKsy-----~aW~hR~w~L~~~~~~~~~EL~~~~k~L~  134 (699)
                      .+-..|..+....++            +++++..++++|...|.+.     .++...+.+.... +.+++++..+.++++
T Consensus        13 e~~~lrA~~~~~~g~------------~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~-g~~~~A~~~~~~a~~   79 (366)
T d1hz4a_          13 EFNALRAQVAINDGN------------PDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCK-GELTRSLALMQQTEQ   79 (366)
T ss_dssp             HHHHHHHHHHHHTTC------------HHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCC------------HHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
Confidence            344557777666654            8999999999999999985     3677777777766 699999999999998


Q ss_pred             hCCCC------hhhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCc------hH--HHHHHHHHHHHhhhhhccCccchh
Q 005381          135 ADSRN------FHAWNYRRFVAASMNRSEEDELKYTEDMICNNFSN------YS--AWHNRSLLLSNLLKRKVEGFVSKE  200 (699)
Q Consensus       135 ~dprN------~haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN------~S--AW~~R~~ll~~l~~~~~~~~~~~~  200 (699)
                      +.++.      ..++..++++....+.+ ...++.+.+++...+..      ..  +...++.+....+           
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~-----------  147 (366)
T d1hz4a_          80 MARQHDVWHYALWSLIQQSEILFAQGFL-QTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWA-----------  147 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTT-----------
T ss_pred             HHHhhcchHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhc-----------
Confidence            76554      24455566677777777 56777777777654322      12  2333444444332           


Q ss_pred             chHHHHHHHHHHHHHhCCCCch
Q 005381          201 KVLPDEYEFVHQAIFTDPDDQS  222 (699)
Q Consensus       201 ~~~~eeL~~~~~ai~~dP~d~S  222 (699)
                       .++++...+..++...+....
T Consensus       148 -~~~~a~~~~~~~~~~~~~~~~  168 (366)
T d1hz4a_         148 -RLDEAEASARSGIEVLSSYQP  168 (366)
T ss_dssp             -CHHHHHHHHHHHHHHTTTSCG
T ss_pred             -chhhhHHHHHHHHHHhhhhhh
Confidence             368888888888887776544

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.27  E-value=0.055  Score=46.25  Aligned_cols=64  Identities=8%  Similarity=-0.032  Sum_probs=39.1

Q ss_pred             hHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCCChhhhhHHHHHH
Q 005381           86 ILDEELRVVESALRQNFKS-YGAWHHRKWILSKGHSSIDNELRLLDKFQKADSRNFHAWNYRRFVA  150 (699)
Q Consensus        86 ~~~eEL~~~~~~L~~nPKs-y~aW~hR~w~L~~~~~~~~~EL~~~~k~L~~dprN~haW~yR~~vl  150 (699)
                      ++++.+.+++.+++.+|.. ..+|++-+...-++ +.|++++++++++|+++|.|-.|..-+..|-
T Consensus        53 d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yykl-gdy~~A~~~~~~~L~ieP~n~qA~~L~~~Ie  117 (124)
T d2pqrb1          53 DERLGVKILTDIYKEAESRRRECLYYLTIGCYKL-GEYSMAKRYVDTLFEHERNNKQVGALKSMVE  117 (124)
T ss_dssp             HHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHH-hhHHHHHHHHHHHHccCCCcHHHHHHHHHHH
Confidence            4566666666666666654 35666666665555 4666666666666666666666665555443

>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=95.21  E-value=0.0024  Score=58.19  Aligned_cols=80  Identities=15%  Similarity=0.211  Sum_probs=53.7

Q ss_pred             EEccCC-CCCcc--c----CCCCCcccCEEEccCCCCCC--CcC----CccccccceeecccCCCCCCCC---Ccccccc
Q 005381          538 LQLKNL-SLSRL--G----SFDKLLWVQMLDLSHNELRS--IEG----LEALQLLSCLNLSNNILGSFTA---LEPIRQL  601 (699)
Q Consensus       538 L~Ls~n-~l~~l--~----~l~~L~~L~~LdLS~N~L~~--l~~----l~~L~~L~~L~Ls~N~l~~l~~---~~~l~~l  601 (699)
                      |+|+++ .++.-  .    .+...+.|+.|+|++|.++.  +..    +...+.|+.|+|++|.|+.-..   ...+...
T Consensus        20 L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n   99 (167)
T d1pgva_          20 VNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVT   99 (167)
T ss_dssp             EECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTT
T ss_pred             EEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhC
Confidence            888763 46521  1    56677888999999988853  222    5556778888998888865210   1235556


Q ss_pred             ccccccccccccCCCC
Q 005381          602 KSLRALNISYNEIGAH  617 (699)
Q Consensus       602 ~~L~~L~Ls~N~I~~l  617 (699)
                      ++|+.|+|++|.+..+
T Consensus       100 ~sL~~L~l~~n~~~~~  115 (167)
T d1pgva_         100 QSIVEFKADNQRQSVL  115 (167)
T ss_dssp             CCCSEEECCCCSSCCC
T ss_pred             CcCCEEECCCCcCCCc
Confidence            7788888888877665

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.74  E-value=0.064  Score=45.82  Aligned_cols=85  Identities=11%  Similarity=0.138  Sum_probs=72.5

Q ss_pred             CChHHHHHHHHHHHhCC--CChHHHHHHHHHHHHhCCCCh-hhhhHHHHHHHhcCCChHHHHHHHHHHHHhccCchHHHH
Q 005381          103 KSYGAWHHRKWILSKGH--SSIDNELRLLDKFQKADSRNF-HAWNYRRFVAASMNRSEEDELKYTEDMICNNFSNYSAWH  179 (699)
Q Consensus       103 Ksy~aW~hR~w~L~~~~--~~~~~EL~~~~k~L~~dprN~-haW~yR~~vl~~l~~~~e~EL~~~~~~I~~n~sN~SAW~  179 (699)
                      -+.++...=.|.|-+..  ...++.+.+++.+++.+|.+. .||+|-+...-++|.+ ++++.+++++++++|.|.-|..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy-~~A~~~~~~~L~ieP~n~qA~~  111 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEY-SMAKRYVDTLFEHERNNKQVGA  111 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhH-HHHHHHHHHHHccCCCcHHHHH
Confidence            34678888899998643  246799999999999999775 7999999999999999 7899999999999999999988


Q ss_pred             HHHHHHHHh
Q 005381          180 NRSLLLSNL  188 (699)
Q Consensus       180 ~R~~ll~~l  188 (699)
                      -+..+-..+
T Consensus       112 L~~~Ie~~~  120 (124)
T d2pqrb1         112 LKSMVEDKI  120 (124)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            887765554

>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=92.26  E-value=0.0059  Score=55.16  Aligned_cols=79  Identities=16%  Similarity=0.250  Sum_probs=46.5

Q ss_pred             EEccC-CCCCccc------CCCCCcccCEEEccCCCCCCCc-----C-CccccccceeecccCCCCCCC---CCcccccc
Q 005381          538 LQLKN-LSLSRLG------SFDKLLWVQMLDLSHNELRSIE-----G-LEALQLLSCLNLSNNILGSFT---ALEPIRQL  601 (699)
Q Consensus       538 L~Ls~-n~l~~l~------~l~~L~~L~~LdLS~N~L~~l~-----~-l~~L~~L~~L~Ls~N~l~~l~---~~~~l~~l  601 (699)
                      |+|++ +.++.-.      .+...++|++|+|++|.++.-.     . +...+.++.+++++|.++.-.   ....+...
T Consensus        22 L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~  101 (166)
T d1io0a_          22 VNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSN  101 (166)
T ss_dssp             EECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGC
T ss_pred             EEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHHHHHHhC
Confidence            77776 4565221      5567788888888888875421     1 556677888888888775321   01234445


Q ss_pred             cccccc--ccccccCCC
Q 005381          602 KSLRAL--NISYNEIGA  616 (699)
Q Consensus       602 ~~L~~L--~Ls~N~I~~  616 (699)
                      ++|+.+  ++++|.++.
T Consensus       102 ~~L~~l~L~l~~n~i~~  118 (166)
T d1io0a_         102 TSLIELRIDNQSQPLGN  118 (166)
T ss_dssp             SSCCEEECCCCSSCCCH
T ss_pred             ccccEEeeccCCCcCcH
Confidence            566653  334555543

>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=90.52  E-value=0.026  Score=50.62  Aligned_cols=116  Identities=9%  Similarity=0.019  Sum_probs=69.8

Q ss_pred             HHHhcccccccCCCCCccccchhhhHHhhhhccchHHHhhhhccCCCCCCCCCCCCeEEccCCCCCccc------CCCCC
Q 005381          481 VLELYNDLMRLDPTHVQYYKDQHSLVLLQQVTSNWESLLSRCFHYSNSPSNRGSPMCLQLKNLSLSRLG------SFDKL  554 (699)
Q Consensus       481 ~l~~l~~L~~LDls~n~~~~~l~sl~~l~~l~~~~~~l~~~~~~l~~l~~l~L~~~~L~Ls~n~l~~l~------~l~~L  554 (699)
                      +..+.++|++|+++.+....+-.           +..+...+.....++.       |++++|.++.-.      .+...
T Consensus        12 ~~~~~~~L~~L~L~~~~~i~~~~-----------~~~l~~al~~n~~L~~-------L~Ls~n~l~~~~~~~L~~~l~~~   73 (166)
T d1io0a_          12 IQNNDPDLEEVNLNNIMNIPVPT-----------LKACAEALKTNTYVKK-------FSIVGTRSNDPVAFALAEMLKVN   73 (166)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHH-----------HHHHHHHHTTCCSCCE-------EECTTSCCCHHHHHHHHHHHHHC
T ss_pred             HHhcCCCCcEEEcCCCCCCCHHH-----------HHHHHHHHhcCCccCe-------eeccCCcccHHHHHHHHHHHhhc
Confidence            44556889999988643111110           1222222222233333       999999987432      56677


Q ss_pred             cccCEEEccCCCCCCC-----cC-Ccccccccee--ecccCCCCCCC---CCccccccccccccccccccC
Q 005381          555 LWVQMLDLSHNELRSI-----EG-LEALQLLSCL--NLSNNILGSFT---ALEPIRQLKSLRALNISYNEI  614 (699)
Q Consensus       555 ~~L~~LdLS~N~L~~l-----~~-l~~L~~L~~L--~Ls~N~l~~l~---~~~~l~~l~~L~~L~Ls~N~I  614 (699)
                      +.++.|++++|.++.-     -. +...++|+.+  ++++|.+..-.   ....+...++|+.|+++.|..
T Consensus        74 ~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~~  144 (166)
T d1io0a_          74 NTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  144 (166)
T ss_dssp             SSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             ccchhhhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCCC
Confidence            8999999999998542     12 6677788864  44667774411   112355678888888876654