Citrus Sinensis ID: 039519

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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-------
Protein Sequence
VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTIFIIV
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHcccccEEEEEEccccccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHcccccEEEEEcccccccccccccccccccccccEEEEEcccHHHHHHcccccEEEccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccHHHHccccccccccHHHHHHHHccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccEEEccccEEEEEEEcccccccEEEccccccccccccccccEEEEEEEccccccccccccccccEEEEEcccccccccccccccccccccEEEccccccccccHHHHccccccEEccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccEEEEEEEcccccHHHHHHHHHHHcccEEEEEEEEccccccccccccccccccEEEEEccccccccHHHHccccccEEEEEEccccccccccccccccccccccccccccccEEEEEc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHcccHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHcccccEEEccccccccccccccccccccHHHHHHHHHHHccccEEEEEccccccccccccccEEEEEEEcccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccEEEEEEccccHccHHHHcccccccccccEEEEEEccHHHHHHccccccEEEcccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHcHHHcccccccccHHHEEcHcccccHHHHHHHHEHEcccccccEcHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHEEEccccccccccccccccEEEEEEccccHHHHHHHHccccccEEEEccccccccccccccccccccEEEEccccccccccHHHcccccccEEEEcccccHHHccHccccccHcccEEEEEEcccccccccccccccccHHHHHHHHHHcccccEEEEEccccccHHcccccccccccEEEEEEEcccccccccHccccccccccEEEEEccccHHcccccccccccccccccccEEEEEccccccccHHcccccccEEEEEccccEEcc
Coil and Loop (DISEMBL)
VEAVETKVGELmrdssqevdklcpggccsknckssfEFGKRVAKTLQLVNNLMgegafdavaekvpppavdqrpceptvglestFDKVRRCLREEQVGIIGlygmggllgapndfDVVIWMVVSKDLQLEKIQERIGRRIgfldeswkngsledkASDIFRILSKKKLLLLLDDIWErvdltkvgvpfpdpenksridFTTRFLEICSAMQAHEFLKVedvlknhpnipeLARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRIsasefpgmgkevypllkysydslpdetIRSCLLYcglfpedyrTRKSELIDcwigegfldqydrsgaydegYYIIGILLHACLleeewgdigeeeTCKIEKEKENFLvhagfglteapeiqnwRNVRRMSLMKNKIENLSELQPALTFFLFFNMsnnhllwklplgistlvslehldlsstaithLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDcggskierlksnvlfggHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLrcfndskslDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHnlfinknyihtnqLSILLginrlphftksnpyhptifiiv
Flexible Loop (DISEMBL)
veavetkvgelmrdssqevdklcpggCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPPpavdqrpceptvglestfdkvRRCLREEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGrrigfldeswkngsledKASDIFRILSKKKLLLLLDDIWERVDLtkvgvpfpdpenksriDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHagfglteapeiqnwrNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHftksnpyhptifiiv
Low Complexity Region (SEG)
VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVgiiglygmggllgAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRIlskkklllllDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLeeewgdigeeetckiekekeNFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTIFIIV
Disordered region (IsUnstruct)
********************KLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAE************EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTIFII*
Disordered Region (DISOPRED)
VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQ*******************************VGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGF**************SDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRI*********KEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ************LFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTIFIIV
Disordered Region (DISEMBL)
********GELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTIFIIV
Disordered Region (DISPRO)
VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAE******VDQR*CEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTIFIIV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTIFIIV
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	647	2.2.26 [Sep-21-2011]
Q8RXS5	888	Probable disease resistan	yes	no	0.874	0.637	0.393	1e-111
P60838	894	Probable disease resistan	no	no	0.908	0.657	0.397	1e-110
Q8L3R3	885	Disease resistance protei	no	no	0.885	0.647	0.380	1e-105
O82484	892	Putative disease resistan	no	no	0.846	0.614	0.384	1e-105
O64973	889	Disease resistance protei	no	no	0.882	0.642	0.375	1e-102
Q940K0	889	Probable disease resistan	no	no	0.731	0.532	0.400	1e-102
O64789	925	Probable disease resistan	no	no	0.874	0.611	0.374	1e-100
O22727	967	Probable disease resistan	no	no	0.737	0.493	0.401	8e-99
P60839	884	Probable disease resistan	no	no	0.942	0.690	0.366	7e-97
Q9C8K0	854	Probable disease resistan	no	no	0.873	0.661	0.369	2e-96

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  404 bits (1038), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 258/655 (39%), Positives = 364/655 (55%), Gaps = 89/655 (13%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VEA+  +V EL+R  S +V +LC  G CSKN  SS+ +GKRV K ++ V  L  +G F  
Sbjct: 78  VEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAV 137

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPN-- 113
           VAE+V    V++RP  P V ++   +     L E+++GI+GL+GMGG     LL   N  
Sbjct: 138 VAERVDAARVEERPTRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNR 197

Query: 114 ------DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
                 +FD+VIW+VVSK+LQ+++IQ+ I  ++   +E WK  + + KAS+I+ +L  K+
Sbjct: 198 FSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKR 257

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV--------- 218
            +LLLDDIW +VDLT+VGVPFP  EN  +I FTTR  EIC  M     ++V         
Sbjct: 258 FVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAW 317

Query: 219 --------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                   E  L +HP IP +AR+VA++C GLPLAL  IG  MA K+T QEW  AI VL 
Sbjct: 318 DLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLT 377

Query: 271 ISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            SA+EF GM  E+ P+LKYSYD+L  E ++ C  YC LFPED+   K++L+D WIGEGF+
Sbjct: 378 SSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFI 437

Query: 331 DQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIE---------------KEKE 375
           D+ ++  A ++GY IIGIL+ +CLL EE      +ET K+                K+KE
Sbjct: 438 DR-NKGKAENQGYEIIGILVRSCLLMEE-----NQETVKMHDVVREMALWIASDFGKQKE 491

Query: 376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL--QPAL---------------T 418
           NF+V AG      PEI+ W+  RR+SLM N IE++ +    P L               +
Sbjct: 492 NFIVQAGLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISSS 551

Query: 419 FF------LFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNL 472
           FF      +  ++S N  L  LP  IS  VSL++L LS T I   P  L +L  L  LNL
Sbjct: 552 FFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVELRKLLYLNL 611

Query: 473 QYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA 532
           +Y   +       IS  + L+VLR+F  G            F     ++ EL  ++ L  
Sbjct: 612 EYTRMVESI--CGISGLTSLKVLRLFVSG------------FPEDPCVLNELQLLENLQT 657

Query: 533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVA 587
           +TITL     L++ L +Q L  CT+ L +   N   S+  F +A + +L +L+ A
Sbjct: 658 LTITLGLASILEQFLSNQRLASCTRALRIENLNPQSSVISF-VATMDSLQELHFA 711

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

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  399 bits (1025), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 269/677 (39%), Positives = 370/677 (54%), Gaps = 89/677 (13%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           V  VE K  EL+  +  E+ +LC  G CSKN K S+ +GKRV   L+ + +L  +G FD 
Sbjct: 79  VSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDT 138

Query: 61  VAEKVPPPAVDQRPCEPT-VGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPND 114
           V    P   +++ P +PT VG E+  ++V   L E+   I+GLYGMGG     LL   N+
Sbjct: 139 VTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINN 198

Query: 115 --------FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
                   F VVIW+VVSK   + +IQ  IG+R+    E W N +   +A DI+ +L K+
Sbjct: 199 KFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQ 258

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV-------- 218
           K +LLLDDIWE+V+L  +GVP+P  +N  ++ FTTR  ++C  M+  + ++V        
Sbjct: 259 KFVLLLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEA 318

Query: 219 ---------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVL 269
                    E+ LK HP+IPELAR VA +C GLPLAL  IG  MACK+  QEW  AI VL
Sbjct: 319 WELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVL 378

Query: 270 RISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGF 329
              A+EFPGM +++ P+LKYSYD+L  E ++ C LYC LFPEDYR  K  LID WI EGF
Sbjct: 379 SSYAAEFPGM-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGF 437

Query: 330 LDQYD-RSGAYDEGYYIIGILLHACLLEEE--------WGDIGEEETCKIEKE----KEN 376
           +D+ + R  A  +GY IIGIL+ ACLL EE          D+  E    I  +    KE 
Sbjct: 438 IDENESRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIASDLGEHKER 497

Query: 377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS---ELQPALTFFL------------ 421
            +V  G GL E P+++NW +VRRMSLM+N+IE LS   E     T FL            
Sbjct: 498 CIVQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLLHISDE 557

Query: 422 FF---------NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNL 472
           FF         ++S N  L KLP  IS LVSL +LDLS T I  LP+ LQ+L  L+ L L
Sbjct: 558 FFRCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTYIKRLPVGLQELKKLRYLRL 617

Query: 473 QYMYNLN-QFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM 531
            YM  L        IS+  KLQ+L+      SK+    S V              +++L 
Sbjct: 618 DYMKRLKSISGISNISSLRKLQLLQ------SKMSLDMSLVEELQL---------LEHLE 662

Query: 532 AVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKH 591
            + I++K    +++LL +  L +C Q L LR   +  S  +  L  + NLNK+ +  C  
Sbjct: 663 VLNISIKSSLVVEKLLNAPRLVKCLQILVLRGVQEESS-GVLTLPDMDNLNKVIIRKCGM 721

Query: 592 LEDFQMIIQRSSLSVHN 608
            E   + I+R +LS+ +
Sbjct: 722 CE---IKIERKTLSLSS 735

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  382 bits (980), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 251/659 (38%), Positives = 361/659 (54%), Gaps = 86/659 (13%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           ++ +E +  +L+   + E+ +LC  G CSKN K S+ +GKRV   L+ V  L  +G FD 
Sbjct: 79  IQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDI 138

Query: 61  VAEKVPPPAVDQRPCEPT-VGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPND 114
           V E  P   V++ P + T VG +S  DKV  CL E++V I+GLYGMGG     LL   N+
Sbjct: 139 VTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINN 198

Query: 115 --------FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
                   FDVVIW+VVSK+  + KIQ+ IG ++G + ++W   +   +A DI  +L +K
Sbjct: 199 KFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRK 258

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAM--------------QA 212
           K +LLLDDIWE+V+L  +GVP+P  EN  ++ FTT   E+C  M               A
Sbjct: 259 KFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNA 318

Query: 213 HEFLKV---EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVL 269
            + LK    E+ L +HP+IP+LAR V+++C GLPLAL  IG  M+ K+T QEW +A +VL
Sbjct: 319 WDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL 378

Query: 270 RISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGF 329
             SA++F GM  E+ P+LKYSYDSL  E  +SC LYC LFPED+  RK  LI+ WI EGF
Sbjct: 379 -TSATDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGF 437

Query: 330 L-DQYDRSGAYDEGYYIIGILLHACLLEEEWGD---IGEEETCK---------IEKEKEN 376
           + ++  R  A+++GY I+G L+ + LL E   D   +   +  +         + K KE 
Sbjct: 438 IKEKQGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMVREMALWIFSDLGKHKER 497

Query: 377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL---SELQPALTFFL------------ 421
            +V AG GL E PE++NWR V+RMSLM N  E +    E    +T FL            
Sbjct: 498 CIVQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDISME 557

Query: 422 FF---------NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNL 472
           FF         ++S NH L +LP  IS LVSL++LDLS T I  LP  L +L  L  L L
Sbjct: 558 FFRCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKL 617

Query: 473 QYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA 532
           +    L       IS  S L+ LR+ D         K+ +  G    L++EL  +++L  
Sbjct: 618 ERTRRLESISG--ISYLSSLRTLRLRDS--------KTTLDTG----LMKELQLLEHLEL 663

Query: 533 VTITLKRLQALQELLISQELQRCTQFLFLRCFND--SKSLDIFCLACLHNLNKLYVAGC 589
           +T  +     + EL     + RC Q +++R   +   +S+ +  L  +HNL  + +  C
Sbjct: 664 ITTDISS-GLVGELFCYPRVGRCIQHIYIRDHWERPEESVGVLVLPAIHNLCYISIWNC 721

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  381 bits (979), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 243/632 (38%), Positives = 343/632 (54%), Gaps = 84/632 (13%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VE +  +  +L+   + E+ +LC    CS N  SS+ +G+RV   ++ V NL   G F+ 
Sbjct: 78  VEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEI 137

Query: 61  VAEKVPPPAVDQRPCEPTV-GLESTFDKVRRCLREEQVGIIGLYGMGG------------ 107
           VA   P P ++ RP +PT+ G E+ F +    L ++ VG +GLYGMGG            
Sbjct: 138 VA--APAPKLEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHN 195

Query: 108 -LLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
            L    N  D+VIW+VVS DLQ+ KIQE IG ++GF+ + W       KA DI   LSKK
Sbjct: 196 TLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKK 255

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDV----- 221
           + +LLLDDIW++VDLTK+G+P    ENK ++ FTTR L++C+ M  H+ ++V+ +     
Sbjct: 256 RFVLLLDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDA 315

Query: 222 ------------LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVL 269
                       L +HP+I ELA+ VA +C GLPLAL  IG  MA K+  QEWH+A+ VL
Sbjct: 316 WELFQEKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVL 375

Query: 270 RISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGF 329
              A+EF GM   +  +LKYSYD+L D+ +RSC  YC L+PEDY  +K  LID WI EGF
Sbjct: 376 TSYAAEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGF 435

Query: 330 LD-QYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKE------------KEN 376
           +D    +  A ++GY I+G L+ ACLL EE  +  E +   + +E            KE 
Sbjct: 436 IDGNIGKERAVNQGYEILGTLVRACLLSEEGKNKLEVKMHDVVREMALWTLSDLGKNKER 495

Query: 377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS---ELQPALTFFL------------ 421
            +V AG GL + P++++W  VRR+SLM N IE +S   E     T FL            
Sbjct: 496 CIVQAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENKSLVHISGE 555

Query: 422 FF---------NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNL 472
           FF         ++S NH L  LP  IS LV+L +LDLS T I  LP  LQ L  L  LNL
Sbjct: 556 FFRHMRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNIEGLPACLQDLKTLIHLNL 615

Query: 473 QYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA 532
           + M  L       I+  SKL  LR             SN++     + V+EL  +++L  
Sbjct: 616 ECMRRLGS-----IAGISKLSSLRTLGLRN-------SNIMLD--VMSVKELHLLEHLEI 661

Query: 533 VTITLKRLQALQELLISQELQRCTQFLFLRCF 564
           +TI +     L++++ +  L  C Q + +RC 
Sbjct: 662 LTIDIVSTMVLEQMIDAGTLMNCMQEVSIRCL 693

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  373 bits (957), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 245/653 (37%), Positives = 349/653 (53%), Gaps = 82/653 (12%)

Query: 4   VETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAE 63
           ++ +  +L+R +  E+ +LC  G CSK+ K S+ +GKRV   L+ V +L  +G FD V+E
Sbjct: 82  IQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSE 141

Query: 64  KVPPPAVDQRPCEPT-VGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPND--- 114
             P   VD+ P +PT VG E   +K    L E+  GI+GLYGMGG     LL   N+   
Sbjct: 142 ATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFS 201

Query: 115 -----FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLL 169
                FDVVIW+VVS+   + KIQ  I  ++G     W   +    A DI  +L ++K +
Sbjct: 202 KIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFV 261

Query: 170 LLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV----------- 218
           LLLDDIWE+V+L  VGVP+P  +N  ++ FTTR  ++C  M   + ++V           
Sbjct: 262 LLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDL 321

Query: 219 ------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRIS 272
                 ++ L +HP+IP LAR VA++C GLPLAL  IG  MACK+T  EW +AI VL  S
Sbjct: 322 FQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSS 381

Query: 273 ASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQ 332
           A +F GM  E+  +LKYSYD+L  E ++SC LYC LFPEDY   K  L+D WI EGF+++
Sbjct: 382 AIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINE 441

Query: 333 YD-RSGAYDEGYYIIGILLHACLLEEE--------WGDIGEEETCKIE----KEKENFLV 379
            + R    ++GY IIG L+ ACLL EE          D+  E    I     K+KE  +V
Sbjct: 442 KEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIV 501

Query: 380 HAGFGLTEAPEIQNWRNVRRMSLMKNKIENL---SELQPALTFFL-----------FF-- 423
            AG GL E P++++W  VR++SLM N+IE +    E     T FL           FF  
Sbjct: 502 RAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFRC 561

Query: 424 -------NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMY 476
                  ++S N  L +LP  IS L SL + +LS T I  LP+ L  L  L  LNL++M 
Sbjct: 562 MPHLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEHMS 621

Query: 477 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT 536
           +L     L IS    L+ L + D          S +L      LV+EL  +++L  +T+ 
Sbjct: 622 SLGSI--LGISNLWNLRTLGLRD----------SRLLL--DMSLVKELQLLEHLEVITLD 667

Query: 537 LKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGC 589
           +      + LL SQ L  C + +  +   + +S+ +  L  + NL KL +  C
Sbjct: 668 ISSSLVAEPLLCSQRLVECIKEVDFKYLKE-ESVRVLTLPTMGNLRKLGIKRC 719

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  372 bits (955), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 216/539 (40%), Positives = 304/539 (56%), Gaps = 66/539 (12%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           V +V+ +  +L+  +  E+ KLC  G CSK   SS+++GK+V   L+ V  L  EG FD 
Sbjct: 76  VNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDE 135

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAP-------- 112
           V++  P   V++RP +PT+G E   +K    L E+ VGI+GL+GMGG+            
Sbjct: 136 VSQPPPRSEVEERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNK 195

Query: 113 -----NDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
                  FD+VIW+VVSK + + K+QE I  ++   D+ WKN +  DKA+DI R+L  K+
Sbjct: 196 FAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKR 255

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV--------- 218
            +L+LDDIWE+VDL  +G+P+P   NK ++ FTTR  E+C  M  H+ ++V         
Sbjct: 256 FVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAW 315

Query: 219 --------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                   ++ L + P I ELAR VAQ+C GLPLAL  IG  M+ K   QEW +AI V  
Sbjct: 316 ELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFN 375

Query: 271 ISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            SA+EF  M  ++ P+LKYSYDSL DE I+SC LYC LFPED      +LID WI EGF+
Sbjct: 376 TSAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFI 435

Query: 331 --DQYDRSGAYDEGYYIIGILLHA----------CLLEEEWGDIGEEETCKIEKEKENFL 378
             DQ  +  A ++GY ++G L  A          C++ +   ++         K+KENF+
Sbjct: 436 GEDQVIKR-ARNKGYAMLGTLTRANLLTKVGTYYCVMHDVVREMALWIASDFGKQKENFV 494

Query: 379 VHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL---SELQPALTFFL-------------- 421
           V AG GL E P++++W  VR+MSLM N IE +   S+     T FL              
Sbjct: 495 VQAGVGLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSNKLKNLPGAFIR 554

Query: 422 ------FFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQY 474
                   ++S N    KLP  IS LVSL+ LDLS+T+I H+PI L++L  L  L+L Y
Sbjct: 555 YMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKKLTFLDLTY 613

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  365 bits (936), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 248/662 (37%), Positives = 354/662 (53%), Gaps = 96/662 (14%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           V +++ +  +L+  S  E+ KLC  G C+K   SS+++GK+V   L+ V  L  EG FD 
Sbjct: 78  VNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDE 137

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGAP-------- 112
           V++  P   V++RP +PT+G E   +K    L E+ VGI+GL+GMGG+            
Sbjct: 138 VSQPPPRSEVEERPTQPTIGQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNK 197

Query: 113 -----NDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
                  FD+VIW+VVS+  +L K+QE I  ++   D+ WKN +  DKA+DI R+L  K+
Sbjct: 198 FAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKR 257

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV--------- 218
            +L+LDDIWE+VDL  +G+P+P   NK ++ FTTR  E+C  M  H+ ++V         
Sbjct: 258 FVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAW 317

Query: 219 --------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                   ++ L + P I  LAR VAQ+C GLPLAL  IG  MA K   QEW YAI VL 
Sbjct: 318 ELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLT 377

Query: 271 ISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            SA+EF GM  ++ P+LKYSYDSL DE I+SC LYC LFPED +     LID  I EGF+
Sbjct: 378 RSAAEFSGMENKILPILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLIDKLICEGFI 437

Query: 331 --DQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEET------CKIE----------- 371
             DQ  +  A ++GY ++G L  A LL +   ++    T      C +            
Sbjct: 438 GEDQVIKR-ARNKGYAMLGTLTRANLLTKVGTELANLLTKVSIYHCVMHDVVREMALWIA 496

Query: 372 ----KEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL---SELQPALTFFL--- 421
               K+KENF+V A  GL E PE+++W  VRRMSLM+N+IE +   S+     T FL   
Sbjct: 497 SDFGKQKENFVVQASAGLHEIPEVKDWGAVRRMSLMRNEIEEITCESKCSELTTLFLQSN 556

Query: 422 -----------------FFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKL 464
                              ++S+N    +LP  IS LVSL++LDLS T I  LP+ L++L
Sbjct: 557 QLKNLSGEFIRYMQKLVVLDLSDNRDFNELPEQISGLVSLQYLDLSFTRIEQLPVGLKEL 616

Query: 465 VNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL 524
             L  L+L Y   L       IS  S+L  LR+    GSK+          G   +++EL
Sbjct: 617 KKLTFLDLAYTARLCS-----ISGISRLLSLRVLSLLGSKVH---------GDASVLKEL 662

Query: 525 IGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKL 584
             ++ L  + ITL    + + + + Q L +    L +  F   K  D+  LA + NL+ L
Sbjct: 663 QQLENLQDLAITL----SAELISLDQRLAKVISILGIEGFL-QKPFDLSFLASMENLSSL 717

Query: 585 YV 586
           +V
Sbjct: 718 WV 719

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  361 bits (927), Expect = 8e-99,   Method: Compositional matrix adjust.
 Identities = 219/546 (40%), Positives = 307/546 (56%), Gaps = 69/546 (12%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           V +++ +  +L+  S  E+ KLC  G CSK   SS+++GKRV   L+ V  L  EG FD 
Sbjct: 77  VNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDE 136

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGL------------ 108
           V++  P   V++RP +PT+G E    K    L E+ VGI+GL+GMGG+            
Sbjct: 137 VSQPPPRSEVEERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNK 196

Query: 109 -LGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
                  FD+VIW+VVS+  +L K+QE I  ++   D+ WKN +  DKA+DI R+L  K+
Sbjct: 197 FAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKR 256

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV--------- 218
            +L+LDDIWE+VDL  +G+P+P   NK ++ FTTR  ++C  M  H+ ++V         
Sbjct: 257 FVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAW 316

Query: 219 --------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                   ++ L++ P I  LAR VAQ+C GLPLAL  IG  MA K   QEW +AI VL 
Sbjct: 317 ELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLT 376

Query: 271 ISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            SA+EF  M  ++ P+LKYSYDSL DE I+SC LYC LFPED +     LI+ WI EGF+
Sbjct: 377 RSAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGFI 436

Query: 331 --DQYDRSGAYDEGYYIIGILLHACLLEEEWG---------DIGEEETCKIE----KEKE 375
             DQ  +  A ++GY ++G L+ A LL  + G         D+  E    I     K+KE
Sbjct: 437 GEDQVIKR-ARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDVVREMALWIASDFGKQKE 495

Query: 376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL---SELQPALTFFL----------- 421
           N++V A  GL E P++++W  VRRMSLM N+IE +   S+     T FL           
Sbjct: 496 NYVVRARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSNQLKNLSGE 555

Query: 422 ---------FFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNL 472
                      ++S+N    +LP  IS LVSL++LDLS T I  LP+ L++L  L  LNL
Sbjct: 556 FIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWTRIEQLPVGLKELKKLIFLNL 615

Query: 473 QYMYNL 478
            +   L
Sbjct: 616 CFTERL 621

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score =  355 bits (910), Expect = 7e-97,   Method: Compositional matrix adjust.
 Identities = 258/704 (36%), Positives = 378/704 (53%), Gaps = 94/704 (13%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           V+ +E++  +L    + E+ +LC  G  S+N + S+++G+RV   L +V +L  +G F+ 
Sbjct: 78  VKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDLKSKGIFEE 137

Query: 61  VAEKVPPPAVDQRPCEPT-VGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPND 114
           VA        ++RP +PT VG E+  +K    L ++   I+GLYGMGG     LL   N+
Sbjct: 138 VAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGLYGMGGVGKTTLLTQINN 197

Query: 115 --------FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
                    ++VIW+VVS DLQ+ KIQ+ IG +IGF+   W   S   KA DI   LSKK
Sbjct: 198 RFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKK 257

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFL---------- 216
           + +LLLDDIW+RV+LT++G+P P  EN  +I FTTR   +C++M  H+ +          
Sbjct: 258 RFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHDPMEVRCLGADDA 317

Query: 217 ------KVEDV-LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVL 269
                 KV D+ L +HP+IPE+AR VAQ C GLPLAL  IG  MACKKT QEW  A+ V 
Sbjct: 318 WDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVS 377

Query: 270 RISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGF 329
              A+ F  + + + P+LKYSYD+L  E++++C LYC LFPED    K  LID WI EGF
Sbjct: 378 TTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGF 437

Query: 330 LD-QYDRSGAYDEGYYIIGILLHACLLEE----------EWGDIGEEETCKI----EKEK 374
           +D   ++ GA  EGY I+G L+ A LL E          +  D+  E    I     K K
Sbjct: 438 IDGDENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREMALWIASDLRKHK 497

Query: 375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL--SELQPALT-------------- 418
           +N +V AGF L E P++++W+ V RMSL+ N+I+ +  S   P LT              
Sbjct: 498 DNCIVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQDNRHLVNIS 557

Query: 419 --FF------LFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCL 470
             FF      +  ++S N  L  LP  IS LVSL +LDLS ++I  LP+ L KL  L  L
Sbjct: 558 GEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSIGRLPVGLLKLKKLMHL 617

Query: 471 NLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYL 530
           NL+ M  L       I   S L+ +R+             N+       L+EEL  ++ L
Sbjct: 618 NLESMLCLESVSG--IDHLSNLKTVRLL------------NLRMWLTISLLEELERLENL 663

Query: 531 MAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCK 590
             +TI +    AL++LL S  L RC Q + ++ + D +S+ I  L  + +L ++++ GC 
Sbjct: 664 EVLTIEIISSSALEQLLCSHRLVRCLQKVSVK-YLDEESVRILTLPSIGDLREVFIGGCG 722

Query: 591 HLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFT 634
             +   +II+R++      F N + +      ++ G N L   T
Sbjct: 723 MRD---IIIERNTSLTSPCFPNLSKV------LITGCNGLKDLT 757

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8K0|DRL5_ARATH Probable disease resistance protein At1g51480 OS=Arabidopsis thaliana GN=At1g51480 PE=2 SV=2

 Score =  353 bits (906), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 245/663 (36%), Positives = 353/663 (53%), Gaps = 98/663 (14%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VE VE++  +L+ D S E  +LC  G CS+NC SS+ +G++V K L+ V  L+ +  F+ 
Sbjct: 77  VEIVESRFKDLLEDKSTETGRLCLFGFCSENCISSYNYGEKVMKNLEEVKELLSKKHFEV 136

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPN-- 113
           VA K+P P V+++    TVGL +  +   + L  +++  + L+GMGG     LL   N  
Sbjct: 137 VAHKIPVPKVEEKNIHTTVGLYAMVEMAWKSLMNDEIRTLCLHGMGGVGKTTLLACINNK 196

Query: 114 ------DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
                 +FDVVIW+VVSKD QLE IQ++I  R+  LD+ W+  +   KAS I   L +KK
Sbjct: 197 FVELESEFDVVIWVVVSKDFQLEGIQDQILGRLR-LDKEWERETENKKASLINNNLKRKK 255

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV--------- 218
            +LLLDD+W  VDL K+GVP P  EN ++I FT R  E+   M+A   +KV         
Sbjct: 256 FVLLLDDLWSEVDLNKIGVPPPTRENGAKIVFTKRSKEVSKYMKADMQIKVSCLSPDEAW 315

Query: 219 --------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                   + +L +H +IP LAR VA +C GLPLALI IG  MACK+T QEWH+AI VL 
Sbjct: 316 ELFRITVDDVILSSHEDIPALARIVAAKCHGLPLALIVIGEAMACKETIQEWHHAINVLN 375

Query: 271 ISAS-EFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGF 329
             A  +FPGM + +  +LK+SYDSL +  I+ C LYC LFPED+   K +LI+ WI EG+
Sbjct: 376 SPAGHKFPGMEERILLVLKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKEKLIEYWICEGY 435

Query: 330 L--DQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIE---------------- 371
           +  ++Y+  G  ++GY IIG+L+ A LL      I  E T K++                
Sbjct: 436 INPNRYE-DGGTNQGYDIIGLLVRAHLL------IECELTTKVKMHYVIREMALWINSDF 488

Query: 372 -KEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIE---------NLSEL-------- 413
            K++E   V +G  +   P   NW  VR++SL+  +IE         NLS L        
Sbjct: 489 GKQQETICVKSGAHVRMIPNDINWEIVRQVSLISTQIEKISCSSKCSNLSTLLLPYNKLV 548

Query: 414 QPALTFFLF------FNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNL 467
             ++ FFLF       ++S N  L +LP  IS L SL++L+LSST I  LP  ++KL  L
Sbjct: 549 NISVGFFLFMPKLVVLDLSTNMSLIELPEEISNLCSLQYLNLSSTGIKSLPGGMKKLRKL 608

Query: 468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGM 527
             LNL++ Y L      + +    LQVL++F           SNV      +L+EEL  M
Sbjct: 609 IYLNLEFSYKLESLVG-ISATLPNLQVLKLF----------YSNVCVD--DILMEELQHM 655

Query: 528 KYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCF-NDSKSLDIFCLACLHNLNKLYV 586
            +L  +T+T+     L+ +   Q + R    +   C  N S    +     L  L +L +
Sbjct: 656 DHLKILTVTIDDAMILERI---QGIDRLASSIRGLCLTNMSAPRVVLSTTALGGLQQLAI 712

Query: 587 AGC 589
             C
Sbjct: 713 LSC 715

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	647
24461866	890	NBS-LRR type disease resistance protein	0.922	0.670	0.521	0.0
24461865	892	NBS-LRR type disease resistance protein	0.918	0.665	0.517	1e-169
24461861	890	NBS-LRR type disease resistance protein	0.908	0.660	0.493	1e-168
24461864	899	NBS-LRR type disease resistance protein	0.925	0.666	0.474	1e-159
225443158	903	PREDICTED: probable disease resistance p	0.965	0.692	0.448	1e-159
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.919	0.676	0.465	1e-154
24461863	889	NBS-LRR type disease resistance protein	0.907	0.660	0.461	1e-149
359482672	905	PREDICTED: probable disease resistance p	0.964	0.689	0.447	1e-144
359482674	991	PREDICTED: probable disease resistance p	0.955	0.623	0.429	1e-140
408683737	580	NBS-LRR disease resistance protein NBS39	0.686	0.765	0.532	1e-140

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  659 bits (1699), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 349/669 (52%), Positives = 456/669 (68%), Gaps = 72/669 (10%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VEAV+ +  +L+R  SQE+++LC  G CSKNCKSS++FGK+V K LQLV  LMGEG F+ 
Sbjct: 78  VEAVKAEADQLIRVGSQEIERLCLWGYCSKNCKSSYDFGKKVTKKLQLVETLMGEGIFEV 137

Query: 61  VAEKVPPPAVDQRPCEPTV-GLESTFDKVRRCLREEQVGIIGLYGMGGL----------- 108
           VAEKVP  A  +RP EPTV GL+S  ++V RCL EE  GI+GLYGMGG+           
Sbjct: 138 VAEKVPGAAATERPTEPTVIGLQSQLEQVWRCLVEEPAGIVGLYGMGGVGKTTLLTHINN 197

Query: 109 --LGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
             L +  +F+ VIW+VVSKDL+LE IQE IG +IG L+++WKN  +E KA DIF+IL +K
Sbjct: 198 KFLESTTNFNYVIWVVVSKDLRLENIQETIGEKIGLLNDTWKNRRIEQKALDIFKILKEK 257

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENK-SRIDFTTRFLEICSAMQAHEFLKV------- 218
           K +LLLDD+W+RVDL +VGVP P P++  S++ FT+R  E+C  M+AH+  KV       
Sbjct: 258 KFVLLLDDLWQRVDLVEVGVPLPGPQSSTSKVVFTSRSEEVCGLMEAHKKFKVACLSDID 317

Query: 219 ----------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQV 268
                     E+ LK+ P+I +LA++ A+EC GLPLALITIGR MACKKTP+EW YAI+V
Sbjct: 318 AWELFQQKVGEETLKS-PDIRQLAQTAAKECGGLPLALITIGRAMACKKTPEEWTYAIEV 376

Query: 269 LRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEG 328
           LR S+S+FPG+G EVYPLLK+SYDSLP +TIRSCLLYC L+PEDY   K  LIDCWIGEG
Sbjct: 377 LRTSSSQFPGLGNEVYPLLKFSYDSLPSDTIRSCLLYCCLYPEDYCISKEILIDCWIGEG 436

Query: 329 FLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEE------------TCKIEKEKEN 376
           FL + DR G  ++GY+I+GILLHACLLEE  G  GE +             C IEKEK+N
Sbjct: 437 FLTERDRFGEQNQGYHILGILLHACLLEE--GGDGEVKMHDVVRDMALWIACAIEKEKDN 494

Query: 377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPA---LTFFL-----------F 422
           FLV+AG GL EAP++  W   RR+SLM N+I NLSE+      LT FL           F
Sbjct: 495 FLVYAGVGLIEAPDVSGWEKARRLSLMHNQITNLSEVATCPHLLTLFLNENELQMIHNDF 554

Query: 423 F---------NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ 473
           F         N++++ L   LP GIS LVSL+HLDLS ++I  LP++L+ LVNLKCLNL+
Sbjct: 555 FRFMPSLKVLNLADSSLT-NLPEGISKLVSLQHLDLSKSSIEELPLELKALVNLKCLNLE 613

Query: 474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL-KSNVLFGGHQVLVEELIGMKYLMA 532
           Y ++L   PR +IS  S+L VLRMF    S  +R  + ++LFGG +++VEEL+G+KYL  
Sbjct: 614 YTWSLTTIPRQLISNLSRLHVLRMFAASHSAFDRASEDSILFGGGELIVEELLGLKYLEV 673

Query: 533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHL 592
           ++ TL+    LQ  L S +L+ CT+ L L+CFNDS SL++  LA L  LN+L++  CK L
Sbjct: 674 ISFTLRSSHGLQSFLSSHKLRSCTRALLLQCFNDSTSLEVSALADLKQLNRLWITECKKL 733

Query: 593 EDFQMIIQR 601
           E+ +M   R
Sbjct: 734 EELKMDYTR 742

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461865|gb|AAN62352.1|AF506028_19 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  601 bits (1550), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 344/665 (51%), Positives = 442/665 (66%), Gaps = 71/665 (10%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VEA ++   +L+   SQE+ KLC GG CSKNCKSS+EFGK+VA+ L  V  LM E AF+A
Sbjct: 78  VEAAKSDGDKLITCGSQEIKKLCLGGYCSKNCKSSYEFGKQVARKLGDVKTLMAEEAFEA 137

Query: 61  VAEKVPPPAVDQRPCEPTV-GLESTFDKVRRCLREEQVGIIGLYGMGGL----------- 108
           VAE+VP PAVD+RP EPTV GL+S F++V  CL EE   I+GLYGMGG+           
Sbjct: 138 VAEEVPQPAVDERPTEPTVVGLQSQFEQVCNCLEEESARIVGLYGMGGVGKTTLLTHIHN 197

Query: 109 --LGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
             + +P +F+ VIW+V SKDL+LE IQE IG +IG L+++WKN  +E KA DIFRIL +K
Sbjct: 198 KFIQSPTNFNYVIWVVASKDLRLENIQETIGEQIGLLNDTWKNKRIEQKAQDIFRILKQK 257

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENK-SRIDFTTRFLEICSAMQAHEFLKV------- 218
           K LLLLDD+W+RVDLTKVGVP P P+N  S++ FTTR  E+C  M AH   KV       
Sbjct: 258 KFLLLLDDLWQRVDLTKVGVPLPGPQNNASKVVFTTRSEEVCGLMGAHTRFKVACLSNID 317

Query: 219 ----------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQV 268
                     E+ + +HP+I +LA++ A+EC GLPLALITIGR MACKKTP+EW YAI+V
Sbjct: 318 AWELFRQNVGEETMNSHPDILQLAQTAARECGGLPLALITIGRAMACKKTPEEWSYAIEV 377

Query: 269 LRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEG 328
           LR S+S+FPG+G EVYPLLK+SYDSLP +TIRSC LYC L+PEDY   K +LIDCWIGE 
Sbjct: 378 LRTSSSQFPGLGNEVYPLLKFSYDSLPSDTIRSCHLYCSLYPEDYCISKEKLIDCWIGER 437

Query: 329 FLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEE------------TCKIEKEKEN 376
            L + DR+G   EGY+I+GILLHACLLEE  G  GE +             C IE+EKEN
Sbjct: 438 LLTERDRTGEQKEGYHILGILLHACLLEE--GGDGEVKMHDVIRDMALWIACDIEREKEN 495

Query: 377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALT-----------------F 419
           F V+AG GL EAP+++ W   RR+SLM+N+I NLSE+                      F
Sbjct: 496 FFVYAGVGLVEAPDVRGWEKARRLSLMQNQIRNLSEIPTCPHLLTLLLNENNLRKIQNYF 555

Query: 420 FLF------FNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ 473
           F F       N+S+  L  KLP+GIS LVSL+HLDLS + I   P +L+ LVNLKCL+L+
Sbjct: 556 FQFMPSLKVLNLSHCELT-KLPVGISELVSLQHLDLSESDIEEFPGELKALVNLKCLDLE 614

Query: 474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN-VLFGGHQVLVEELIGMKYLMA 532
           Y  NL   PR +IS  S+L+VLRMF    +  +    N +LFGG +++VEEL+G+K+L  
Sbjct: 615 YTRNLITIPRQLISNLSRLRVLRMFGASHNAFDEASENSILFGGGELIVEELLGLKHLEV 674

Query: 533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHL 592
           +T+TL+    LQ  L S +L+ CTQ L L+ F DS SL++  LA L  LN+L +A    L
Sbjct: 675 ITLTLRSSYGLQSFLNSHKLRSCTQALLLQHFKDSTSLEVSALADLKQLNRLQIANSVIL 734

Query: 593 EDFQM 597
           E+ +M
Sbjct: 735 EELKM 739

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  597 bits (1539), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 332/673 (49%), Positives = 449/673 (66%), Gaps = 85/673 (12%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VE VET+    + D +QE++KLC GG CSKNCKSS++FGK+VA+ L+ +  LMGEG F+ 
Sbjct: 79  VETVETEADAFIGDGTQEIEKLCLGGYCSKNCKSSYKFGKQVARKLRDIKTLMGEGVFEV 138

Query: 61  VAEKVPPPAVDQRPCEPTV-GLESTFDKVRRCLREEQVGIIGLYGMGGL----------- 108
           VA+KVP PAVD+RP EPTV GL+S  ++V RCL EE VGI+GLYGMGG+           
Sbjct: 139 VADKVPEPAVDERPTEPTVVGLQSQLEEVWRCLVEEPVGIVGLYGMGGVGKTTLLTHINN 198

Query: 109 --LGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
             LG+P +FD+VI +VVSKDL+LE IQE IG +IG L+++WK+  +E KA DIFRIL  K
Sbjct: 199 KFLGSPTNFDLVILVVVSKDLRLESIQEVIGEKIGLLNDAWKSRRIEQKALDIFRILRGK 258

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPE-NKSRIDFTTRFLEICSAMQAHEFLKVE------ 219
             ++LLDDIW+RVDL KVG+P P+ + + S++ FTTR  E+C  M+AH+  KVE      
Sbjct: 259 NFVVLLDDIWQRVDLAKVGIPLPNSQTSASKVVFTTRSEEVCGLMEAHKKFKVECLSGND 318

Query: 220 -----------DVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQV 268
                      + L  H +I ELA++V +EC GLPLALITIGR MACKKTP+EW YAIQV
Sbjct: 319 AWELFRQKVGEETLNCHHDILELAQTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQV 378

Query: 269 LRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEG 328
           LR S+S+FPG+G EVYPLLK+SYD+LP++TIRSCLLYC L+PED    K  L+DCWIGEG
Sbjct: 379 LRTSSSQFPGLGNEVYPLLKFSYDNLPNDTIRSCLLYCCLYPEDCCISKENLVDCWIGEG 438

Query: 329 FLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEE--------------TCKIEKEK 374
            L+     G++++GY+++GIL+H+CLLEE    + E+E               C  EKEK
Sbjct: 439 LLNGSVTLGSHEQGYHVVGILVHSCLLEE----VDEDEVKMHDVIRDMALWLACDAEKEK 494

Query: 375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWK- 433
           EN+LV+AG GL EAP++  W  +RR+SLM+N+IENLSE+ P     L   ++++ +LW+ 
Sbjct: 495 ENYLVYAGAGLREAPDVIEWEKLRRLSLMENQIENLSEV-PTCPHLLTLFLNSDDILWRI 553

Query: 434 ------------------------LPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC 469
                                   LPLGIS LVSLE+LDLS++ I+ +P +L+ LVNLKC
Sbjct: 554 NSDFLQSMLRLKVLNLSRYMGLLVLPLGISKLVSLEYLDLSTSLISEIPEELKALVNLKC 613

Query: 470 LNLQYMYNLNQFPRLVISAFSKLQVLRM-----FDCGGSKIERLKSNVLFGGHQVLVEEL 524
           LNL+Y   L + P  +IS FS+L VLRM     F  G   IE    +VLFGG ++LVEEL
Sbjct: 614 LNLEYTGRLLKIPLQLISNFSRLHVLRMFGNAYFSYGNYPIE----SVLFGGGELLVEEL 669

Query: 525 IGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKL 584
           +G+K+L  +++TL   +ALQ  L S  L+ CT+ + L+ F  S S+D+  LA L  L +L
Sbjct: 670 LGLKHLEVLSLTLGSSRALQSFLTSHMLRSCTRAMLLQDFQGSTSVDVSGLADLKRLKRL 729

Query: 585 YVAGCKHLEDFQM 597
            ++ C  L + ++
Sbjct: 730 RISDCYELVELKI 742

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  569 bits (1466), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 320/674 (47%), Positives = 415/674 (61%), Gaps = 75/674 (11%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           V+AV     EL+R  SQE++KLC GG CSKNCKSS +FGK+V K L  V  L+ EG+F  
Sbjct: 80  VDAVTAGADELIRIGSQEIEKLCLGGYCSKNCKSSKKFGKQVDKKLSDVKILLAEGSFAV 139

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPND- 114
           VA++ P    D+RP EP VG++S  ++V RCL EE VGI+GLYGMGG     LL   N+ 
Sbjct: 140 VAQRAPESVADERPIEPAVGIQSQLEQVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNK 199

Query: 115 --------FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
                   FD +IW+VVSKDLQ+EKIQE IG+++G  ++SW   +L ++A DI+ +L +K
Sbjct: 200 FLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGLFNDSWMKKNLAERAVDIYNVLKEK 259

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENKS--RIDFTTRFLEICSAMQAHEFLKVE----- 219
           K +LLLDD+W+RVD   VGVP P P +KS  ++ FTTR  E+C  M AH+ ++VE     
Sbjct: 260 KFVLLLDDVWQRVDFATVGVPIP-PRDKSASKVVFTTRSTEVCGRMGAHKKIEVECLSAN 318

Query: 220 ------------DVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQ 267
                       + L   P I ELA  VA+EC  LPLALI  GR MACKKTP EW  AI+
Sbjct: 319 DAWELFRQNVGEETLNGQPKILELAERVAKECGCLPLALIVTGRAMACKKTPAEWRDAIK 378

Query: 268 VLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGE 327
           VL+ SASEFPG+   V  +LK+SYDSLPD+T RSCLLYC LFPEDYR  K  LIDCWIGE
Sbjct: 379 VLQTSASEFPGLENNVLRVLKFSYDSLPDDTTRSCLLYCCLFPEDYRIYKENLIDCWIGE 438

Query: 328 GFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDI----------------GEEETCKIE 371
           GFL    +    D G+ I+G ++HACLLEEE  D+                  E+T   E
Sbjct: 439 GFLKVTGKYELQDRGHTILGNIVHACLLEEEGDDVVKMHDVIRDMTLWIACDTEKTEDTE 498

Query: 372 KEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPA---LTFFLFF----- 423
           K+KEN+LV+ G GLTEAP ++ W N +R+SLM+ +I NLSE+      LT FL F     
Sbjct: 499 KKKENYLVYEGAGLTEAPNVREWENAKRLSLMETQIRNLSEVPTCLHLLTLFLVFNEELE 558

Query: 424 ----------------NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNL 467
                           N+S    +   PLG+S LVSL+HLDLS TAI  LP +L  L NL
Sbjct: 559 MITGDFFKSMPCLKVLNLSGARRMSSFPLGVSVLVSLQHLDLSGTAIQELPKELNALENL 618

Query: 468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG-SKIERLKSNVLFGGHQVLVEELIG 526
           K LNL   + L   PR +IS FS L VLRMF  G  S   +   + LF G  +LVE L G
Sbjct: 619 KSLNLDQTHYLITIPRQLISRFSCLVVLRMFGVGDWSPNGKRNDSDLFSGGDLLVEALRG 678

Query: 527 MKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYV 586
           +K+L  +++TL   Q LQ +L S++L+ CTQ L+L  F  S+ LD+  LA L +LN+L++
Sbjct: 679 LKHLEVLSLTLNNSQDLQCVLNSEKLRSCTQALYLHSFKRSEPLDVSALAGLEHLNRLWI 738

Query: 587 AGCKHLEDFQMIIQ 600
             C+ LE+ +M  Q
Sbjct: 739 HECEELEELKMARQ 752

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225443158|ref|XP_002263674.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  568 bits (1463), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 311/693 (44%), Positives = 421/693 (60%), Gaps = 68/693 (9%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
            EA+E +V +L+RD ++E  K C GGCCSKNC SS++ G+++ K    V  L     FD 
Sbjct: 78  AEAMELEVDQLIRDGTRETQKFCLGGCCSKNCLSSYKLGRKLVKKADDVATLRSTRLFDG 137

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGL------------ 108
           +A+++PPPAVD+RP EPTVG EST D+V  CLREEQV IIGLYGMGG+            
Sbjct: 138 LADRLPPPAVDERPSEPTVGFESTIDEVWSCLREEQVQIIGLYGMGGVGKTTLMTQVNNE 197

Query: 109 -LGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
            L   + FD+VIW+VVS+D   EK+Q+ I +++GF D+ WK+ S ++KA  IFRIL KKK
Sbjct: 198 FLKTIHQFDIVIWVVVSRDPNPEKVQDEIWKKVGFCDDKWKSKSQDEKAISIFRILGKKK 257

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVE-------- 219
            +L LDD+WER DL KVG+P P+ +N S++ FTTR  E+C  M AH  +KVE        
Sbjct: 258 FVLFLDDVWERFDLLKVGIPLPNQQNNSKLVFTTRSEEVCGRMGAHRRIKVECLAWKQAW 317

Query: 220 ---------DVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                    D L +HP IP+LA ++ +EC GLPLAL+T GR MACKK PQEW +AI++L+
Sbjct: 318 DLFQNMVGEDTLNSHPEIPQLAETIVKECLGLPLALVTTGRTMACKKAPQEWKFAIKMLQ 377

Query: 271 ISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            S+S FPGM  EV+ LLK+SYD+LP +T RSC LYC L+PED    K +LIDCWI EGFL
Sbjct: 378 SSSSSFPGMRDEVFSLLKFSYDNLPSDTARSCFLYCSLYPEDNDIFKEDLIDCWICEGFL 437

Query: 331 DQY-DRSGAYDEGYYIIGILLHACLLEEEW----------GDIGEEETCKIEKEKENFLV 379
           D++ DR GA ++G+ IIG L+ ACLLEE             D+     C+  + K+ FLV
Sbjct: 438 DEFDDRDGARNQGFDIIGSLIRACLLEESREYFVKMHDVIRDMALWIACECGRVKDKFLV 497

Query: 380 HAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALT------------------FFL 421
            AG GLTE PEI  W+ V RMSLM N IE L+++                       F L
Sbjct: 498 QAGAGLTELPEIGKWKGVERMSLMSNHIEKLTQVPTCPNLLTLFLNNNSLEVITDGFFQL 557

Query: 422 FFNMSNNHLLW----KLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYN 477
              +   +L W    +LP  I  LVSL +LDLS T I+HLP + + LVNLK LNL Y   
Sbjct: 558 MPRLQVLNLSWSRVSELPTEIFRLVSLRYLDLSWTCISHLPNEFKNLVNLKYLNLDYTQQ 617

Query: 478 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITL 537
           L   PR V+S+ S+LQVL+MF CG   +   + NVL  G++ LV EL  +  L  + IT+
Sbjct: 618 LGIIPRHVVSSMSRLQVLKMFHCGFYGVG--EDNVLSDGNEALVNELECLNNLCDLNITI 675

Query: 538 KRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM 597
           +   ALQ  L S++++ CTQ LFL+ FN   SLDI  L  +  L+ L+++ C  L D  +
Sbjct: 676 RSASALQRCLCSEKIEGCTQDLFLQFFNGLNSLDISFLENMKRLDTLHISDCATLADLNI 735

Query: 598 IIQRSSLSVHNLFINKNYIHTNQLSILLGINRL 630
                +     +  + NY+  ++++ L   + L
Sbjct: 736 ---NGTDEGQEILTSDNYLDNSKITSLKNFHSL 765

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055915|ref|XP_002298700.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222845958|gb|EEE83505.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  552 bits (1422), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 308/661 (46%), Positives = 410/661 (62%), Gaps = 66/661 (9%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
            +A   K  EL+R+ SQE+++LC  G CSKN KSS+ F K V K L+ V +L   G F  
Sbjct: 78  AKAAIDKANELLREDSQEIERLCLRGYCSKNYKSSYRFAKEVDKRLRDVADLKANGDFKV 137

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREE-QVGIIGLYGMGGL----------- 108
           VAEKVP  +   RP EPTVGLESTF++V  CLREE QVGI+GLYGMGG+           
Sbjct: 138 VAEKVPAASGVPRPSEPTVGLESTFNQVWTCLREEKQVGIVGLYGMGGVGKTTLLTQINN 197

Query: 109 --LGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
             L  P+DFD+VIW+VVSKDL+L  +QE IGR IG  D+ WKN SL++KA DIF  L  K
Sbjct: 198 ESLKTPDDFDIVIWVVVSKDLKLNTVQESIGRNIGCSDDLWKNKSLDEKAVDIFNALRHK 257

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVE------- 219
           + ++LLDDIWERVDL K+GVP PD  N S++ FTTR  EIC  M AH+ +KV+       
Sbjct: 258 RFVMLLDDIWERVDLKKLGVPLPDMNNGSKVVFTTRSEEICGLMDAHKTMKVDCLAWDDA 317

Query: 220 ----------DVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVL 269
                       L  H +IP+LAR+VA+EC GLPLALITIGR MACKKTPQEW +AI+VL
Sbjct: 318 WDLFQKKVGDQTLCVHTDIPKLARNVAKECGGLPLALITIGRAMACKKTPQEWRHAIEVL 377

Query: 270 RISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGF 329
           R SASEF GMG EV+PLLK+SYD+L  + IR+C LYC LFPED+   K++LID WIGEG 
Sbjct: 378 RKSASEFSGMGDEVFPLLKFSYDNLSKQKIRTCFLYCSLFPEDFLINKNDLIDYWIGEGI 437

Query: 330 LDQYD-RSGAYDEGYYIIGILLHACLLEEE---------WGDIGEEETCKIEKEKENFLV 379
            D  D R    + GY++IG LLHACLLE++           D+       IE++++NF V
Sbjct: 438 FDGSDGREVVENWGYHVIGCLLHACLLEDKDDCVRMHDVIRDMALWIASDIERDQQNFFV 497

Query: 380 HAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-----------------QPALTFFLF 422
             G   ++A E+  W  VR++SLM N I +LS                   + +  FF F
Sbjct: 498 QTGAQSSKALEVGKWEGVRKVSLMANHIVHLSGTPNCSNLRTLFLGSIHLNKISRGFFQF 557

Query: 423 ------FNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMY 476
                  ++SNN+ L  LP  +  LVSL++L+LS T I  LP +L +LV L+ LNL+Y +
Sbjct: 558 MPNLTVLDLSNNNSLLGLPRDVWKLVSLQYLNLSRTGIKELPTELNELVKLRYLNLEYTH 617

Query: 477 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT 536
           +L   P  VIS F  +++LRMF CG S  E+   + +    + LVEEL  ++ L  +T+T
Sbjct: 618 SLYLLPHGVISGFPMMRILRMFRCGSS--EQAAEDCILSRDESLVEELQCLEELNMLTVT 675

Query: 537 LKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ 596
           ++   AL+ L   Q +Q  T+ L+L  F+DSK ++   LA + NL+ L++  C  LE+ Q
Sbjct: 676 IRSAAALERLSSFQGMQSSTRVLYLELFHDSKLVNFSSLANMKNLDTLHICHCGSLEELQ 735

Query: 597 M 597
           +
Sbjct: 736 I 736

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  534 bits (1375), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 308/667 (46%), Positives = 414/667 (62%), Gaps = 80/667 (11%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           V+AV+ +  EL+R  SQE++KLC GG CSKN KSS++FGK+VAK L+    LM EG F+ 
Sbjct: 78  VDAVKAEADELIRHGSQEIEKLCLGGYCSKNWKSSYKFGKQVAKKLRDAGTLMAEGVFEV 137

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGG-----LLGAPND- 114
           VAE+ P  A         VG++S  + V RCL EE VGI+GLYGMGG     LL   N+ 
Sbjct: 138 VAERAPESA--------AVGMQSRLEPVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNK 189

Query: 115 --------FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKK 166
                   FD +IW+VVSKDLQ+EKIQE IG+++GF ++SW   +L ++A DI+ +L +K
Sbjct: 190 FLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGFFNDSWMKKNLAERAVDIYNVLKEK 249

Query: 167 KLLLLLDDIWERVDLTKVGVPFPDPENKS--RIDFTTRFLEICSAMQAHEFLKV------ 218
           K +LLLDD+W+RVD   VGVP P P +KS  ++ FTTR  E+C  M AH+   V      
Sbjct: 250 KFVLLLDDVWQRVDFATVGVPIP-PRDKSASKVVFTTRSAEVCVWMGAHKKFGVGCLSAN 308

Query: 219 -----------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQ 267
                      E+ L +  +I ELA+ VA+EC GLPLALITIG+ MA KKT +EW +AI+
Sbjct: 309 DAWELFRQNVGEETLTSDHDIAELAQIVAEECGGLPLALITIGQAMAYKKTVEEWRHAIE 368

Query: 268 VLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGE 327
           VLR SASEFPG    V  + K+SYDSLPD+T RSC LYC L+P+DY   K +LIDCWIGE
Sbjct: 369 VLRRSASEFPGF-DNVLRVFKFSYDSLPDDTTRSCFLYCCLYPKDYGILKWDLIDCWIGE 427

Query: 328 GFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGD----------IGEEETCKIEKEKENF 377
           GFL++  R  A ++GY I+G L+ ACLLEE   D          +     C+IE+EK NF
Sbjct: 428 GFLEESARFVAENQGYCIVGTLVDACLLEEIEDDKVKMHDVVRYMALWIVCEIEEEKRNF 487

Query: 378 LVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHL------- 430
           LV AG GL +AP ++ W NVRR+SLM+N I+ LSE+         F  SNN+L       
Sbjct: 488 LVRAGAGLEQAPAVKEWENVRRLSLMQNDIKILSEVPTCPDLHTLFLASNNNLQRITDGF 547

Query: 431 -------------------LWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLN 471
                              + KLPLG+S L SLE LD+S T+I  LP +L+ LVNLKCLN
Sbjct: 548 FKFMPSLKVLKMSHCGDLKVLKLPLGMSMLGSLELLDISQTSIGELPEELKLLVNLKCLN 607

Query: 472 LQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM 531
           L++   L++ PR +IS  S+L VLRMF  G S  E  + +VLFGG +VL++EL+G+KYL 
Sbjct: 608 LRWATWLSKIPRQLISNSSRLHVLRMFATGCSHSEASEDSVLFGGGEVLIQELLGLKYLE 667

Query: 532 AVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKS-LDIFCLACLHNLNKLYVAGCK 590
            + +TL+   ALQ    S +L+ C + L L     +KS +D    A L++LN+L +    
Sbjct: 668 VLELTLRSSHALQLFFSSNKLKSCIRSLLLDEVRGTKSIIDATAFADLNHLNELRIDSVA 727

Query: 591 HLEDFQM 597
            +E+ ++
Sbjct: 728 EVEELKI 734

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482672|ref|XP_003632805.1| PREDICTED: probable disease resistance protein At1g12280-like [Vitis vinifera]

 Score =  518 bits (1333), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 313/699 (44%), Positives = 427/699 (61%), Gaps = 75/699 (10%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VE +ET+V +L+ D ++EV+K C GGCC + C++ ++ GKRVA+ L+ V+ LM +   D 
Sbjct: 78  VETLETQVTQLIGDGTEEVEKKCLGGCCPRRCRTRYKLGKRVARKLKEVDILMSQRPSDV 137

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGL-----YGMGGLLGAPN-- 113
           +AE++P P + +RP + TVG+ S   KV   L +EQVGIIGL      G   LL   N  
Sbjct: 138 MAERLPSPRLSERPSQATVGMNSRIGKVWSSLHQEQVGIIGLYGLGGVGKTTLLTQINNA 197

Query: 114 ------DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
                 DFD VIW  VSK++ LE IQ+ I ++IGF D+ WKN S ++KA+ I+R+LS+K+
Sbjct: 198 FTKRTHDFDFVIWATVSKNVNLENIQDDIWKKIGFCDDKWKNKSRDEKATSIWRVLSEKR 257

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVE-------- 219
            +LLLDD+WER+DL+ VGVPF + +NK  I FTTR  E+C+ M+A + +KVE        
Sbjct: 258 FVLLLDDLWERLDLSDVGVPFQNKKNK--IVFTTRSEEVCAQMEADKKIKVECLTWTESW 315

Query: 220 ---------DVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                    D L  HP IPELA++VAQEC GLPL L T+GR MACKKTP+EW YAI+VLR
Sbjct: 316 ELFRMKLGEDTLDFHPEIPELAQAVAQECCGLPLVLTTMGRAMACKKTPEEWKYAIKVLR 375

Query: 271 ISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            SAS+FPGMG  V+PLLKYSYD LP E  RSC LYC L+PEDY+  K  LI+ WI EGFL
Sbjct: 376 SSASKFPGMGDRVFPLLKYSYDCLPTEVSRSCFLYCSLYPEDYQMPKLSLINRWICEGFL 435

Query: 331 DQYDR-SGAYDEGYYIIGILLHACLLEEEWGDIGEEET-------------CKIEKEKEN 376
           D++D   GA ++GY IIG L+HACLLEE  GD+  +               C+  KE++ 
Sbjct: 436 DEFDDMEGAKNQGYNIIGTLIHACLLEE--GDVDYKVKLHDVIRDMALWIGCETGKEQDK 493

Query: 377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIE---------NLSEL--------QPALTF 419
           FLV AG  LTEAPE+  W   +R+SLM N+IE         NLS L          + TF
Sbjct: 494 FLVKAGSTLTEAPEVAEWMGPKRISLMDNQIEELTGSPKCPNLSTLFLADNSLKMISDTF 553

Query: 420 FLF------FNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ 473
           F F       ++S N +  +LP GIS LVSL++L+LS T I  LPI+L+ L  LKCL L 
Sbjct: 554 FQFMPSLRVLDLSKNSIT-ELPRGISNLVSLQYLNLSQTNIKELPIELKNLDKLKCLVLV 612

Query: 474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAV 533
            M  L+  P  +IS+ S LQV+ MF+ G S+   LK  +L   ++ LV+EL  +KYL  +
Sbjct: 613 DMPQLSSIPEQLISSLSMLQVIDMFNSGISERTVLKDGILSDDNEALVQELESLKYLHGL 672

Query: 534 TITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE 593
            +++K   A + LL S +L+ C   L L+ FN S SL++  L+    L+ LY++ C  LE
Sbjct: 673 GVSVKSASAFKRLLSSYKLRICISGLCLKNFNGSSSLNLTSLSNAKCLSSLYISKCGSLE 732

Query: 594 DFQM-IIQRSSLSVHNLFINKNYIHTNQLS--ILLGINR 629
           D ++        +V + ++N      N     + LGI R
Sbjct: 733 DLEIDWAGEGKETVESNYLNSKVSSHNSFHSLVWLGIER 771

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482674|ref|XP_002281708.2| PREDICTED: probable disease resistance protein At1g12280-like [Vitis vinifera]

 Score =  506 bits (1303), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 304/707 (42%), Positives = 423/707 (59%), Gaps = 89/707 (12%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VE +ET+V  L+ D ++E++K C GGCC + C + ++ GKRVA+ L+ V+NLM +G+FD 
Sbjct: 78  VENLETQVSRLIEDGTEEIEKKCLGGCCPRRCSTRYKLGKRVARKLKEVDNLMSQGSFDL 137

Query: 61  VAEKVPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGL-----YGMGGLLGAPN-- 113
           VAE++P P V +RP E TVG++S  DKVR  + EE+VGIIGL      G   LL   N  
Sbjct: 138 VAERLPSPRVGERPSEATVGMDSRLDKVRSSMDEERVGIIGLYGLGGVGKTTLLTQINNA 197

Query: 114 ------DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK 167
                 DFD VIW  VSK++ L KIQ+ I ++IG  D+ WK+   ++KA+ I+ +L+ K+
Sbjct: 198 FTKRTHDFDFVIWSTVSKNVNLGKIQDDIWKKIGCCDDRWKSKDRDEKATSIWNVLTGKR 257

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV--------- 218
            +LLLDD+WER+ L  VGVP  + +NK  I FTTR  E+C+ M+A + +KV         
Sbjct: 258 FVLLLDDVWERLTLLDVGVPLQNKKNK--IVFTTRSEEVCAQMEADKRIKVDCLTRTESW 315

Query: 219 --------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR 270
                   ED LK HP IP+LA+ VAQEC GLPL L T+G+ MACKKTPQEW +AI+V +
Sbjct: 316 DLFRKNLGEDALKFHPEIPKLAQVVAQECCGLPLVLTTMGKAMACKKTPQEWKHAIRVFQ 375

Query: 271 ISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            SAS+ PG+G  V+PLLKYSYDSLP E  RSC LYC L+PED    KS LI+ WI EGFL
Sbjct: 376 SSASKLPGIGDRVFPLLKYSYDSLPTEVARSCFLYCSLYPEDDEMSKSSLINRWICEGFL 435

Query: 331 DQYDR-SGAYDEGYYIIGILLHACLLEEEWGDIGEEETC-------------KIEKEKEN 376
           D++D   GA ++GY IIG L+HACLLEE  GD+  +                +  KE++ 
Sbjct: 436 DEFDDWEGAENQGYNIIGTLIHACLLEE--GDVDYQVKLHDVIRDMALWIARETGKEQDK 493

Query: 377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL--SELQPAL---------------TF 419
           FLV AG  LTEAPE+  W   +R+SLM N+IE L  S + P L               +F
Sbjct: 494 FLVKAGSTLTEAPEVAEWMGPKRISLMNNQIEKLTGSPICPNLSTLFLRENSLKMITDSF 553

Query: 420 FLF------FNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ 473
           F F       ++S+N +  +LP GIS LVSL +LDLS T I  LPI+L+ L NLKCL L 
Sbjct: 554 FQFMPNLRVLDLSDNSIT-ELPQGISNLVSLRYLDLSLTEIKELPIELKNLGNLKCLLLS 612

Query: 474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAV 533
            M  L+  P  +IS+   LQV+ M +CG           +  G + LVEEL  +KYL  +
Sbjct: 613 DMPQLSSIPEQLISSLLMLQVIDMSNCG-----------ICDGDEALVEELESLKYLHDL 661

Query: 534 TITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE 593
            +T+    A + LL S +L+ C   + LR FN S SL++  L  + NL +L ++ C  LE
Sbjct: 662 GVTITSTSAFKRLLSSDKLRSCISSVCLRNFNGSSSLNLTSLCNVKNLCELSISNCGSLE 721

Query: 594 ----DFQMIIQRSSLS--VHNLFINKNYIHTNQLSILLGINRLPHFT 634
               D+    ++++ S  +++   + N  H+ ++ ++   +RL   T
Sbjct: 722 NLVIDWAWEGKKTTESNYLNSKVSSHNSFHSLEVVVIESCSRLKDLT 768

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|408683737|gb|AFM77964.2| NBS-LRR disease resistance protein NBS39 [Dimocarpus longan]

 Score =  504 bits (1299), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 283/531 (53%), Positives = 344/531 (64%), Gaps = 87/531 (16%)

Query: 1   VEAVETKVGELMRDSSQEVDKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDA 60
           VEA ET+V +L++DS+QE++KLC GG CS N KSS+++GK++A+ LQ+V+ L  EG F  
Sbjct: 14  VEAEETEVDKLIKDSAQEIEKLCLGGYCSWNIKSSYKYGKKIAQKLQVVSKLKEEGCFPT 73

Query: 61  VAEK----------------VPPPAVDQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYG 104
           VAE                 +P   VD+RPCEPTVGLE+TFD V R L E+QVG+IGLYG
Sbjct: 74  VAEIWSREDPMDEPITGERILPQIVVDERPCEPTVGLETTFDAVWRYLGEKQVGVIGLYG 133

Query: 105 MGGL-------------LGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGS 151
           MGG+             +   NDFD+V+W+VVSKDLQLEKIQE IGR+IG  DESW++ S
Sbjct: 134 MGGVGKTTLLTQINNKFVDVSNDFDIVMWVVVSKDLQLEKIQENIGRKIGLSDESWRSKS 193

Query: 152 LEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPEN-----KSRIDFTTRFLEI 206
           LE+KA DIF+IL +K+ +LLLDDIWERVDL KVGVP            S++ FTTRF+E+
Sbjct: 194 LEEKAMDIFKILRRKRFVLLLDDIWERVDLVKVGVPPLSSPPLSSSFTSKVVFTTRFVEV 253

Query: 207 CSAMQAHEFLKVE-----------------DVLKNHPNIPELARSVAQECAGLPLALITI 249
           C  M+AH  LKVE                 D L NHP IPELA++ A+EC GLPLALITI
Sbjct: 254 CGHMEAHRKLKVECLADEEAWKLFRSKVGGDALDNHPEIPELAQTAAKECGGLPLALITI 313

Query: 250 GRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLF 309
           GR MACKKTP EW YAI+VLR SA EFPG+GKEVYPLLK+SYDSLP  T+R+CLLYC LF
Sbjct: 314 GRAMACKKTPAEWRYAIEVLRRSAHEFPGLGKEVYPLLKFSYDSLPSCTLRACLLYCSLF 373

Query: 310 PEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEE--- 366
           PEDY   K  LIDCWIGEGFL   D  G   +G + +G+LLHACLLEEE  D  +     
Sbjct: 374 PEDYNIPKKHLIDCWIGEGFLGDDDVGGTQYQGQHHVGVLLHACLLEEEDDDFVKMHDVI 433

Query: 367 -------TCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPA--- 416
                   C+ +KEKENFLV AG G+TE P +  W  VRR+SLM+N+I +LS   P    
Sbjct: 434 RDMTLWLACEFDKEKENFLVRAGTGMTE-PGVGRWEGVRRISLMENQINSLSG-SPTCPH 491

Query: 417 -LTFFL-----------FF---------NMSNNHLLWKLPLGISTLVSLEH 446
            LT FL           FF         N+SNN  L +LP  IS LVSL  
Sbjct: 492 LLTLFLNRNDLSSITDGFFAYMSSLRVLNLSNNDSLRELPAEISKLVSLHQ 542

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

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	647
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.554	0.399	0.375	3.3e-79
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.409	0.299	0.385	1e-74
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.409	0.298	0.382	2.2e-74
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.404	0.293	0.394	3e-74
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.383	0.291	0.406	4.3e-73
TAIR|locus:2031356	884	AT1G63360 [Arabidopsis thalian	0.296	0.217	0.449	1e-71
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.296	0.215	0.444	8.9e-70
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.446	0.298	0.389	1.4e-69
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.554	0.471	0.378	7.4e-69
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.511	0.368	0.350	3e-65

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 462 (167.7 bits), Expect = 3.3e-79, Sum P(2) = 3.3e-79
 Identities = 149/397 (37%), Positives = 198/397 (49%)

Query:   217 KVED-VLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASE 275
             KV D  L + P I ELAR VAQ+C GLPLAL  IG  M+ K   QEW +AI V   SA+E
Sbjct:   321 KVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAE 380

Query:   276 FPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL--DQY 333
             F  M  ++ P+LKYSYDSL DE I+SC LYC LFPED      +LID WI EGF+  DQ 
Sbjct:   381 FSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIGEDQV 440

Query:   334 DRSGAYDEGYYIIGILLHA----------CLLXXXXXXXXXXXXXXXXXXXXNFLVHAGF 383
              +  A ++GY ++G L  A          C++                    NF+V AG 
Sbjct:   441 IKR-ARNKGYAMLGTLTRANLLTKVGTYYCVMHDVVREMALWIASDFGKQKENFVVQAGV 499

Query:   384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLG-ISTLV 442
             GL E P++++W  VR+MSLM N IE ++           F  SN   L  LP   I  + 
Sbjct:   500 GLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSNK--LKNLPGAFIRYMQ 557

Query:   443 SLEHLDLS-STAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF--D 499
              L  LDLS +     LP  +  LV+L+ L+L    ++   P + +    KL  L +   D
Sbjct:   558 KLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNT-SIEHMP-IGLKELKKLTFLDLTYTD 615

Query:   500 --CGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLI--SQEL--- 552
               C  S I RL S  L    ++L  ++ G     +V   L++LQ LQEL I  S EL   
Sbjct:   616 RLCSISGISRLLSLRLL---RLLGSKVHGDA---SVLKELQQLQNLQELAITVSAELISL 669

Query:   553 -QRCTQFLFLRCFND--SKSLDIFCLACLHNLNKLYV 586
              QR  + +   C      K  D+  LA + NL+ L V
Sbjct:   670 DQRLAKLISNLCIEGFLQKPFDLSFLASMENLSSLRV 706

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 460 (167.0 bits), Expect = 1.0e-74, Sum P(2) = 1.0e-74
 Identities = 109/283 (38%), Positives = 153/283 (54%)

Query:   217 KVEDV-LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASE 275
             KV D+ L +HP+IPE+AR VAQ C GLPLAL  IG  MACKKT QEW  A+ V    A+ 
Sbjct:   324 KVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAAN 383

Query:   276 FPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLD-QYD 334
             F  + + + P+LKYSYD+L  E++++C LYC LFPED    K  LID WI EGF+D   +
Sbjct:   384 FGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFIDGDEN 443

Query:   335 RSGAYDEGYYIIGILLHACLLXXXXXXXXXXX--------------XXXXXXXXXNFLVH 380
             + GA  EGY I+G L+ A LL                                  N +V 
Sbjct:   444 KKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREMALWIASDLRKHKDNCIVR 503

Query:   381 AGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGIST 440
             AGF L E P++++W+ V RMSL+ N+I+ +            F   N HL+        +
Sbjct:   504 AGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQDNRHLVNISGEFFRS 563

Query:   441 LVSLEHLDLS-STAITHLPIDLQKLVNLKCLNLQYMYNLNQFP 482
             +  L  LDLS +  ++ LP  + +LV+L+ L+L Y  ++ + P
Sbjct:   564 MPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYS-SIGRLP 605

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

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

 Score = 463 (168.0 bits), Expect = 2.2e-74, Sum P(3) = 2.2e-74
 Identities = 108/282 (38%), Positives = 153/282 (54%)

Query:   216 LKV-EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISAS 274
             +KV ++ L +HP+IP LAR VA++C GLPLAL  IG  MACK+T  EW +AI VL  SA 
Sbjct:   324 MKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAI 383

Query:   275 EFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYD 334
             +F GM  E+  +LKYSYD+L  E ++SC LYC LFPEDY   K  L+D WI EGF+++ +
Sbjct:   384 DFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKE 443

Query:   335 -RSGAYDEGYYIIGILLHACLLXXXXXXXXXXX------------XXXXXXXXXNFLVHA 381
              R    ++GY IIG L+ ACLL                                  +V A
Sbjct:   444 GRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIVRA 503

Query:   382 GFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTL 441
             G GL E P++++W  VR++SLM N+IE + +          F   N+ +          +
Sbjct:   504 GVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEF-FRCM 562

Query:   442 VSLEHLDLSST-AITHLPIDLQKLVNLKCLNLQYMYNLNQFP 482
               L  LDLS   ++  LP ++ +L +L+  NL Y   ++Q P
Sbjct:   563 PHLVVLDLSENQSLNELPEEISELASLRYFNLSYTC-IHQLP 603

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 442 (160.7 bits), Expect = 3.0e-74, Sum P(2) = 3.0e-74
 Identities = 112/284 (39%), Positives = 152/284 (53%)

Query:   217 KVEDV-LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASE 275
             KV  + L +HP+I ELA+ VA +C GLPLAL  IG  MA K+  QEWH+A+ VL   A+E
Sbjct:   322 KVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAE 381

Query:   276 FPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLD-QYD 334
             F GM   +  +LKYSYD+L D+ +RSC  YC L+PEDY  +K  LID WI EGF+D    
Sbjct:   382 FSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDGNIG 441

Query:   335 RSGAYDEGYYIIGILLHACLLXXXXXXXXXX------------XXXXXXXXXXNFLVHAG 382
             +  A ++GY I+G L+ ACLL                                  +V AG
Sbjct:   442 KERAVNQGYEILGTLVRACLLSEEGKNKLEVKMHDVVREMALWTLSDLGKNKERCIVQAG 501

Query:   383 FGLTEAPEIQNWRNVRRMSLMKNKIENLS---ELQPALTFFLFFNMSNNHLLWKLPLGIS 439
              GL + P++++W  VRR+SLM N IE +S   E     T FL  N S  H+  +    + 
Sbjct:   502 SGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENKSLVHISGEFFRHMR 561

Query:   440 TLVSLEHLDLSST-AITHLPIDLQKLVNLKCLNLQYMYNLNQFP 482
              LV L   DLS    +  LP  + +LV L+ L+L +  N+   P
Sbjct:   562 KLVVL---DLSENHQLDGLPEQISELVALRYLDLSHT-NIEGLP 601

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 444 (161.4 bits), Expect = 4.3e-73, Sum P(2) = 4.3e-73
 Identities = 108/266 (40%), Positives = 151/266 (56%)

Query:   222 LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGK 281
             L++H +IP LAR VA++C GLPLAL  IG+ MA ++T QEW + I VL  S+ EFP M +
Sbjct:   328 LQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVLNSSSHEFPSMEE 387

Query:   282 EVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLD-QYDRSGAYD 340
             ++ P+LK+SYD L DE ++ C LYC LFPEDY  RK ELI+ W+ EGF+D   D  GA +
Sbjct:   388 KILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANN 447

Query:   341 EGYYIIGILLHACLLXXXXXXXXXXXXXXXXXXX----XNF-------LVHAGFGLTEAP 389
             +G+ IIG L+ A LL                        NF        V  G  L   P
Sbjct:   448 KGHDIIGSLVRAHLLMDGELTTKVKMHDVIREMALWIASNFGKQKETLCVKPGVQLCHIP 507

Query:   390 EIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHL 447
             +  NW ++RRMSLM N+I N+S     P L+  L   + NN L+         + +L  L
Sbjct:   508 KDINWESLRRMSLMCNQIANISSSSNSPNLSTLL---LQNNKLVHISCDFFRFMPALVVL 564

Query:   448 DLS-STAITHLPIDLQKLVNLKCLNL 472
             DLS +++++ LP  + KL +L+ +NL
Sbjct:   565 DLSRNSSLSSLPEAISKLGSLQYINL 590

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2031356 AT1G63360 [Arabidopsis thaliana (taxid:3702)]

 Score = 405 (147.6 bits), Expect = 1.0e-71, Sum P(3) = 1.0e-71
 Identities = 93/207 (44%), Positives = 120/207 (57%)

Query:   219 EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPG 278
             +  L + P IP+LAR VA++C GLPLAL  IG  M+CK+T QEW +AI VL   A+EF G
Sbjct:   324 QTTLGSDPGIPQLARIVAKKCCGLPLALNVIGETMSCKRTIQEWRHAIHVLNSYAAEFIG 383

Query:   279 MGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDR-SG 337
             M  +V PLLKYSYD+L  E ++S LLYC L+PED +  K +LI+ WI E  +D  +    
Sbjct:   384 MEDKVLPLLKYSYDNLKGEQVKSSLLYCALYPEDAKILKEDLIEHWICEEIIDGSEGIEK 443

Query:   338 AYDEGYYIIGILLHACLLXXXXXXXXXXX--------------XXXXXXXXXNFLVHAGF 383
             A D+GY IIG L+ A LL                                   F+V AG 
Sbjct:   444 AEDKGYEIIGCLVRASLLMEWDDGDGRRAVCMHDVVREMALWIASELGIQKEAFIVRAGV 503

Query:   384 GLTEAPEIQNWRNVRRMSLMKNKIENL 410
             G+ E P+I+NW  VRRMSLM+NKI +L
Sbjct:   504 GVREIPKIKNWNVVRRMSLMENKIHHL 530

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2203881 AT1G62630 [Arabidopsis thaliana (taxid:3702)]

 Score = 401 (146.2 bits), Expect = 8.9e-70, Sum P(3) = 8.9e-70
 Identities = 92/207 (44%), Positives = 119/207 (57%)

Query:   219 EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPG 278
             +  L + P IP+LAR VA++C GLPLAL  IG  M+CK+T QEW  AI VL   A+EF G
Sbjct:   324 QKTLGSDPGIPQLARIVAKKCCGLPLALNVIGETMSCKRTIQEWRNAIHVLNSYAAEFIG 383

Query:   279 MGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDR-SG 337
             M  ++ PLLKYSYD+L  E ++S LLYC L+PED + RK +LI+ WI E  +D  +    
Sbjct:   384 MEDKILPLLKYSYDNLKGEHVKSSLLYCALYPEDAKIRKEDLIEHWICEEIIDGSEGIEK 443

Query:   338 AYDEGYYIIGILLHACLLXXXXXXXXXXX--------------XXXXXXXXXNFLVHAGF 383
             A D+GY IIG L+ A LL                                   F+V AG 
Sbjct:   444 AEDKGYDIIGSLVRASLLMECVDLKGKSSVIMHDVVREMALWIASELGIQKEAFIVRAGV 503

Query:   384 GLTEAPEIQNWRNVRRMSLMKNKIENL 410
             G+ E P+++NW  VRRMSLM NKI +L
Sbjct:   504 GVREIPKVKNWNVVRRMSLMGNKIHHL 530

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 409 (149.0 bits), Expect = 1.4e-69, Sum P(2) = 1.4e-69
 Identities = 123/316 (38%), Positives = 164/316 (51%)

Query:   217 KVED-VLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASE 275
             KV D  L++ P I  LAR VAQ+C GLPLAL  IG  MA K   QEW +AI VL  SA+E
Sbjct:   322 KVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAE 381

Query:   276 FPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL--DQY 333
             F  M  ++ P+LKYSYDSL DE I+SC LYC LFPED +     LI+ WI EGF+  DQ 
Sbjct:   382 FSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGFIGEDQV 441

Query:   334 DRSGAYDEGYYIIGILLHACLLXXXXXXX-------------XXXXXXXXXXXXXNFLVH 380
              +  A ++GY ++G L+ A LL                                 N++V 
Sbjct:   442 IKR-ARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDVVREMALWIASDFGKQKENYVVR 500

Query:   381 AGFGLTEAPEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLGIS 439
             A  GL E P++++W  VRRMSLM N+IE ++ E + +    LF  + +N L       I 
Sbjct:   501 ARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLF--LQSNQLKNLSGEFIR 558

Query:   440 TLVSLEHLDLSSTA-ITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM- 497
              +  L  LDLS       LP  +  LV+L+ L+L +   + Q P + +    KL  L + 
Sbjct:   559 YMQKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWT-RIEQLP-VGLKELKKLIFLNLC 616

Query:   498 FD---CGGSKIERLKS 510
             F    C  S I RL S
Sbjct:   617 FTERLCSISGISRLLS 632

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 464 (168.4 bits), Expect = 7.4e-69, Sum P(2) = 7.4e-69
 Identities = 150/396 (37%), Positives = 197/396 (49%)

Query:   217 KVED-VLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASE 275
             KV D  L++ P I ELAR VAQ+C GLPLAL  IG  MA K   QEW +AI VL  SA+E
Sbjct:   210 KVGDNTLRSDPVIVELAREVAQKCRGLPLALSVIGETMASKTMVQEWEHAIDVLTRSAAE 269

Query:   276 FPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL--DQY 333
             F  MG ++ P+LKYSYDSL DE I+SC LYC LFPED      +LID WI EGF+  DQ 
Sbjct:   270 FSNMGNKILPILKYSYDSLGDEHIKSCFLYCALFPEDDEIYNEKLIDYWICEGFIGEDQV 329

Query:   334 DRSGAYDEGYYIIGILLHACLLXXXXXXXXXXX----------XXXXXXXXXNFLVHAGF 383
              +  A ++GY ++G L  A LL                              NF+V A  
Sbjct:   330 IKR-ARNKGYEMLGTLTLANLLTKVGTEHVVMHDVVREMALWIASDFGKQKENFVVRARV 388

Query:   384 GLTEAPEIQNWRNVRRMSLMKNKIENL---SELQPALTFFLFFNMSNNHLLWKLPLGIST 440
             GL E PE ++W  VRRMSLM N IE +   S+     T FL  N   N L  +    I  
Sbjct:   389 GLHERPEAKDWGAVRRMSLMDNHIEEITCESKCSELTTLFLQSNQLKN-LSGEF---IRY 444

Query:   441 LVSLEHLDLS-STAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD 499
             +  L  LDLS +     LP  +  LV+L+ L+L    ++ Q P + +    KL  L +  
Sbjct:   445 MQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNT-SIKQLP-VGLKKLKKLTFLNLAY 502

Query:   500 ----CGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQ-----ELLISQ 550
                 C  S I RL S  L    ++L  ++ G   ++     L+ LQ L      EL ++Q
Sbjct:   503 TVRLCSISGISRLLSLRLL---RLLGSKVHGDASVLKELQKLQNLQHLAITLSAELSLNQ 559

Query:   551 ELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYV 586
              L      L +  F   K  D+  LA + NL+ L+V
Sbjct:   560 RLANLISILGIEGFLQ-KPFDLSFLASMENLSSLWV 594

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2031366 AT1G63350 "AT1G63350" [Arabidopsis thaliana (taxid:3702)]

 Score = 433 (157.5 bits), Expect = 3.0e-65, Sum P(2) = 3.0e-65
 Identities = 126/359 (35%), Positives = 181/359 (50%)

Query:   217 KVEDV-LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASE 275
             KV  + L + P I EL+R VA++C GLPLAL  +   M+CK+T QEW +AI VL   A++
Sbjct:   321 KVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRHAIYVLNSYAAK 380

Query:   276 FPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDR 335
             F GM  ++ PLLKYSYDSL  E ++ CLLYC LFPED + RK  LI+ WI E  +D  + 
Sbjct:   381 FSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEYWICEEIIDGSEG 440

Query:   336 -SGAYDEGYYIIGILLHACLLXXXXXXXXXXXX------------XXXXXXXXN--FLVH 380
                A ++GY IIG L+ A LL                                N  F+V 
Sbjct:   441 IDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIASDLGKQNEAFIVR 500

Query:   381 AGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGIST 440
             A  GL E  +++NW  VRRMSLMKN I +L      +       + + HL        ++
Sbjct:   501 ASVGLREILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLL-LQSTHLEKISSEFFNS 559

Query:   441 LVSLEHLDLSSTA-ITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD 499
             +  L  LDLS    ++ LP  + +LV+L+ LNL     +   P+  +    KL  L +  
Sbjct:   560 MPKLAVLDLSGNYYLSELPNGISELVSLQYLNLSST-GIRHLPK-GLQELKKLIHLYL-- 615

Query:   500 CGGSKIERLKSNVLFGG-HQVLVEELIGMKYLMAVTITLKRLQALQEL-LISQELQRCT 556
                 +  +L S V     H + V +L G  Y   +  T+K L+AL+ L +++  +  CT
Sbjct:   616 ---ERTSQLGSMVGISCLHNLKVLKLSGSSYAWDLD-TVKELEALEHLEVLTTTIDDCT 670

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	647
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	9e-70
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.001

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

 Score =  227 bits (582), Expect = 9e-70
 Identities = 97/268 (36%), Positives = 143/268 (53%), Gaps = 34/268 (12%)

Query: 94  EEQVGIIGLYGMGGLLG-------APND------FDVVIWMVVSKDLQLEKIQERIGRRI 140
            + +G++G+ GMGG+ G         ND      FD V W+VVSK     ++Q+ I + +
Sbjct: 16  SDNLGVVGIVGMGGV-GKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKDILQEL 74

Query: 141 GFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFT 200
           G  D  W   +  + A  I   L +K+ LL+LDD+WE+ D  K+GVPFPD EN SR+  T
Sbjct: 75  GLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVT 134

Query: 201 TRFLEICSAMQA-HEFLKVE--------DVLKNH---------PNIPELARSVAQECAGL 242
           TR   +   M    +  +VE        ++  N          P + E+A+ + ++C GL
Sbjct: 135 TRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGL 194

Query: 243 PLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSC 302
           PLAL  +G ++A K T QEW + ++ L    +   G+  EV  +L  SYD+LP   ++ C
Sbjct: 195 PLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGL-NEVLSILSLSYDNLPMH-LKRC 252

Query: 303 LLYCGLFPEDYRTRKSELIDCWIGEGFL 330
            LY  LFPEDY  RK +LI  WI EGF+
Sbjct: 253 FLYLALFPEDYNIRKEQLIKLWIAEGFV 280

Length = 285

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

 Score = 37.1 bits (87), Expect = 0.001
 Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 5/64 (7%)

Query: 443 SLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCG 501
           +L+ LDLS+  +T +P    + L NLK L+L      N    +   AFS L  LR  D  
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSG----NNLTSISPEAFSGLPSLRSLDLS 56

Query: 502 GSKI 505
           G+ +
Sbjct: 57  GNNL 60

Length = 60

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	647
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.71
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.68
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.65
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.59
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.58
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.58
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.57
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.52
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.5
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.47
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.44
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.4
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.35
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.34
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.26
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.26
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.14
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.14
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.1
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.01
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.01
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.96
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.91
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.8
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.77
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.75
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.72
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.64
PRK04841	903	transcriptional regulator MalT; Provisional	98.61
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.54
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.53
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.53
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.51
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.46
PLN03150	623	hypothetical protein; Provisional	98.38
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.33
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.28
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.27
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.2
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.2
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.2
PLN03150	623	hypothetical protein; Provisional	98.17
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.11
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.04
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.04
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.03
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.02
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.93
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.91
PRK15386	426	type III secretion protein GogB; Provisional	97.91
PF05729	166	NACHT: NACHT domain	97.88
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.8
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.78
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.72
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.7
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.67
PTZ00202	550	tuzin; Provisional	97.66
PRK15386	426	type III secretion protein GogB; Provisional	97.66
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.62
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.61
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.6
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.57
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.53
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.53
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.49
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.47
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.46
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.26
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.22
cd01128	249	rho_factor Transcription termination factor rho is	97.13
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.08
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.08
PF13173	128	AAA_14: AAA domain	96.96
PRK04195	482	replication factor C large subunit; Provisional	96.93
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.91
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.91
TIGR00767	415	rho transcription termination factor Rho. Members	96.87
PRK09376	416	rho transcription termination factor Rho; Provisio	96.83
PHA02544	316	44 clamp loader, small subunit; Provisional	96.77
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.75
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.66
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.61
COG3903	414	Predicted ATPase [General function prediction only	96.58
PRK13342	413	recombination factor protein RarA; Reviewed	96.43
PRK06893	229	DNA replication initiation factor; Validated	96.36
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.26
COG3899	849	Predicted ATPase [General function prediction only	96.17
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.09
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.03
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.02
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	95.99
PRK12402	337	replication factor C small subunit 2; Reviewed	95.93
PRK08727	233	hypothetical protein; Validated	95.92
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.88
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	95.85
KOG4341	483	consensus F-box protein containing LRR [General fu	95.8
PLN03025	319	replication factor C subunit; Provisional	95.76
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.56
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	95.51
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	95.42
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.38
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.31
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.3
PRK00440	319	rfc replication factor C small subunit; Reviewed	95.25
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	95.19
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	95.17
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	95.14
CHL00095	821	clpC Clp protease ATP binding subunit	95.14
PRK07471	365	DNA polymerase III subunit delta'; Validated	95.13
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	95.07
PRK10536	262	hypothetical protein; Provisional	95.06
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	95.03
PRK13341	725	recombination factor protein RarA/unknown domain f	94.97
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	94.96
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	94.96
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	94.88
PRK07940	394	DNA polymerase III subunit delta'; Validated	94.87
COG2256	436	MGS1 ATPase related to the helicase subunit of the	94.86
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	94.85
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	94.83
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	94.83
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	94.79
KOG0473	326	consensus Leucine-rich repeat protein [Function un	94.78
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	94.66
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	94.63
PRK08084	235	DNA replication initiation factor; Provisional	94.61
smart00382	148	AAA ATPases associated with a variety of cellular	94.54
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	94.52
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.45
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	94.44
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	94.42
PRK10865	857	protein disaggregation chaperone; Provisional	94.39
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	94.36
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.33
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	94.18
KOG2028	554	consensus ATPase related to the helicase subunit o	94.03
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.01
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	93.99
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	93.99
PRK09087	226	hypothetical protein; Validated	93.96
PRK08181	269	transposase; Validated	93.9
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	93.9
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	93.88
KOG1514	767	consensus Origin recognition complex, subunit 1, a	93.86
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	93.69
KOG4341	483	consensus F-box protein containing LRR [General fu	93.68
PRK09112	351	DNA polymerase III subunit delta'; Validated	93.6
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	93.43
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	93.41
PRK08116	268	hypothetical protein; Validated	93.35
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	93.14
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	93.09
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	93.06
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	93.03
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	93.02
PRK08903	227	DnaA regulatory inactivator Hda; Validated	93.01
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	92.97
PF00004	132	AAA: ATPase family associated with various cellula	92.85
PF14516	331	AAA_35: AAA-like domain	92.83
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	92.68
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	92.55
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	92.47
PHA00729	226	NTP-binding motif containing protein	92.42
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	92.4
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	92.38
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	92.26
PRK12608	380	transcription termination factor Rho; Provisional	92.15
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	92.14
PF11868	192	DUF3388: Protein of unknown function (DUF3388); In	92.07
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	91.9
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	91.89
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	91.82
PRK03992	389	proteasome-activating nucleotidase; Provisional	91.8
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	91.69
PRK06526	254	transposase; Provisional	91.64
PRK12377	248	putative replication protein; Provisional	91.64
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	91.61
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	91.45
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	91.45
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	91.37
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	91.28
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	91.27
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	91.03
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	91.0
TIGR02237	209	recomb_radB DNA repair and recombination protein R	90.86
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	90.85
PRK06620	214	hypothetical protein; Validated	90.83
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	90.8
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	90.57
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	90.54
smart00370	26	LRR Leucine-rich repeats, outliers.	90.51
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	90.51
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	90.46
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	90.44
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	90.44
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	90.21
CHL00181	287	cbbX CbbX; Provisional	90.16
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	90.16
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	90.11
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	89.74
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	89.62
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	89.52
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	89.26
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	88.77
PRK05642	234	DNA replication initiation factor; Validated	88.74
PRK04301	317	radA DNA repair and recombination protein RadA; Va	88.67
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	88.63
CHL00176	638	ftsH cell division protein; Validated	88.5
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	88.4
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	88.39
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	88.33
PRK09183	259	transposase/IS protein; Provisional	88.07
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	88.07
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	87.96
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	87.94
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	87.86
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	87.85
PRK07261	171	topology modulation protein; Provisional	87.82
PRK04296	190	thymidine kinase; Provisional	87.79
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	87.69
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	87.65
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	87.41
PRK00409	782	recombination and DNA strand exchange inhibitor pr	87.41
CHL00095	821	clpC Clp protease ATP binding subunit	87.28
smart00370	26	LRR Leucine-rich repeats, outliers.	87.2
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	87.2
PRK10865	857	protein disaggregation chaperone; Provisional	87.11
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	87.04
PRK07399	314	DNA polymerase III subunit delta'; Validated	86.98
PRK08118	167	topology modulation protein; Reviewed	86.87
PRK09354	349	recA recombinase A; Provisional	86.86
PRK06835	329	DNA replication protein DnaC; Validated	86.81
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	86.78
PRK07952	244	DNA replication protein DnaC; Validated	86.51
cd01394	218	radB RadB. The archaeal protein radB shares simila	86.49
cd00983	325	recA RecA is a bacterial enzyme which has roles in	86.48
PRK00771	437	signal recognition particle protein Srp54; Provisi	86.13
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	85.94
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	85.8
PRK06921	266	hypothetical protein; Provisional	85.77
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	85.63
KOG0473	326	consensus Leucine-rich repeat protein [Function un	85.49
COG1484	254	DnaC DNA replication protein [DNA replication, rec	85.23
PRK08769	319	DNA polymerase III subunit delta'; Validated	85.19
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	85.06
cd03115	173	SRP The signal recognition particle (SRP) mediates	84.69
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	84.48
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	84.42
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	84.24
KOG3864	221	consensus Uncharacterized conserved protein [Funct	83.96
PRK14086	617	dnaA chromosomal replication initiation protein; P	83.66
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	83.27
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	83.25
PRK06696	223	uridine kinase; Validated	83.18
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	83.14
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	83.14
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	83.07
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	83.02
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	82.99
KOG3864	221	consensus Uncharacterized conserved protein [Funct	82.98
PRK15455	644	PrkA family serine protein kinase; Provisional	82.95
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	82.46
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	82.45
PRK10867	433	signal recognition particle protein; Provisional	82.26
TIGR00959	428	ffh signal recognition particle protein. This mode	82.17
TIGR02236	310	recomb_radA DNA repair and recombination protein R	82.16
PTZ00035	337	Rad51 protein; Provisional	81.94
PF00154	322	RecA: recA bacterial DNA recombination protein; In	81.47
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	81.31
PRK05707	328	DNA polymerase III subunit delta'; Validated	80.93
KOG2859	293	consensus DNA repair protein, member of the recA/R	80.84
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	80.74
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	80.64
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	80.59
PRK08058	329	DNA polymerase III subunit delta'; Validated	80.34
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	80.3
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	80.24

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=3.3e-73  Score=635.56  Aligned_cols=599  Identities=40%  Similarity=0.692  Sum_probs=476.9

Q ss_pred             ChhHHHHHHHHHHhhHHhh----------------ccccCCCcCCCCchhhchhHHHHHHHHHHHHHHHhcCCCccccc-
Q 039519            1 VEAVETKVGELMRDSSQEV----------------DKLCPGGCCSKNCKSSFEFGKRVAKTLQLVNNLMGEGAFDAVAE-   63 (647)
Q Consensus         1 v~~~~~~~ed~~d~~~~~~----------------~~~~~~~~~~~~~~~r~~~~~~~~~~~~~v~~~~~~~~~~~~~~-   63 (647)
                      |++++|++||+++.+.++.                ++-|+.++|...+..-+.+++++-++.++++.+..++.++.++. 
T Consensus        64 ~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~  143 (889)
T KOG4658|consen   64 VGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGES  143 (889)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceeccccc
Confidence            4678999999999775553                33466666767777778889999999999999998887776654 


Q ss_pred             cCCCCCCCCCCCCCc--ccchHHHHHHHHHhhhCCceEEEEEccCccCCC-------------CCCcceEEEEEEcCccC
Q 039519           64 KVPPPAVDQRPCEPT--VGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA-------------PNDFDVVIWMVVSKDLQ  128 (647)
Q Consensus        64 ~~~~~~~~~~~~~~~--vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT-------------~~~F~~~~wv~~s~~~~  128 (647)
                      ..+......++....  ||.++.++++.+.|.+++..++||+||||+|||             +.+|+.++||+||+.|+
T Consensus       144 ~~~~~~~e~~~~~~~~~VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~  223 (889)
T KOG4658|consen  144 LDPREKVETRPIQSESDVGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFT  223 (889)
T ss_pred             ccchhhcccCCCCccccccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEccccc
Confidence            222222222222222  999999999999999988899999999999999             78999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhh
Q 039519          129 LEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICS  208 (647)
Q Consensus       129 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~  208 (647)
                      ...++++|+..++..+..+...+.++.+..|.+.|+++||||||||||+..+|+.++.++|...+||+|++|||++.||.
T Consensus       224 ~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~  303 (889)
T KOG4658|consen  224 TRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCG  303 (889)
T ss_pred             HHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhh
Confidence            99999999999988666566666689999999999999999999999999999999999999989999999999999999


Q ss_pred             h-cccceeEec-----------------cccccCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHh
Q 039519          209 A-MQAHEFLKV-----------------EDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLR  270 (647)
Q Consensus       209 ~-~~~~~~~~~-----------------~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~  270 (647)
                      . +++...+++                 .......+.++++|++|+++|+|+|||+.++|+.++.+.+..+|+++.+.+.
T Consensus       304 ~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~  383 (889)
T KOG4658|consen  304 RAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLK  383 (889)
T ss_pred             ccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHcccc
Confidence            8 888777777                 1112333558999999999999999999999999999999999999999998


Q ss_pred             hc-ccCCCCCCcchhhHHHHhhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCccccC-ccchHHHHHHHHHH
Q 039519          271 IS-ASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYD-RSGAYDEGYYIIGI  348 (647)
Q Consensus       271 ~~-~~~~~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~-~~~~~~~~~~~~~~  348 (647)
                      +. ..+.+++.+.|+.++++|||.||+ ++|.||+|||+||+||.|+++.|+.+|+||||+.+.. +..+++.|+.|+++
T Consensus       384 s~~~~~~~~~~~~i~~iLklSyd~L~~-~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~  462 (889)
T KOG4658|consen  384 SSLAADFSGMEESILPILKLSYDNLPE-ELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEE  462 (889)
T ss_pred             ccccCCCCchhhhhHHhhhccHhhhhH-HHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHH
Confidence            87 555667778999999999999996 9999999999999999999999999999999999855 88999999999999


Q ss_pred             HHHhccccccC----CCeeEEe----------eeeccccccceEEecCCCcccCccccccccEEEEEeecccccccccC-
Q 039519          349 LLHACLLEEEW----GDIGEEE----------TCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-  413 (647)
Q Consensus       349 L~~~~ll~~~~----~~~~~mh----------~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-  413 (647)
                      |+.++|+....    ..+|+||          +.++...+++.++..+.+....|...++..++++++.+|.+..++.. 
T Consensus       463 LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~  542 (889)
T KOG4658|consen  463 LVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSS  542 (889)
T ss_pred             HHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECCcCccccccccchhheeEEEEeccchhhccCCC
Confidence            99999999863    3689999          44555556667777766777777777777777777777655432221 


Q ss_pred             ------------------------CCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcE
Q 039519          414 ------------------------QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC  469 (647)
Q Consensus       414 ------------------------~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~  469 (647)
                                              +..++.|++|||++|..+.++|.+|+.|.+|+||+++++.++.+|.++++|..|.+
T Consensus       543 ~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~  622 (889)
T KOG4658|consen  543 ENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIY  622 (889)
T ss_pred             CCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhhe
Confidence                                    23467899999999988999999999999999999999999999999999999999


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhh
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS  549 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~  549 (647)
                      |++..+..+..+|.. ...+++|++|.+..... .           .......++.+|.+|+.+..+..+...++.+...
T Consensus       623 Lnl~~~~~l~~~~~i-~~~L~~Lr~L~l~~s~~-~-----------~~~~~l~el~~Le~L~~ls~~~~s~~~~e~l~~~  689 (889)
T KOG4658|consen  623 LNLEVTGRLESIPGI-LLELQSLRVLRLPRSAL-S-----------NDKLLLKELENLEHLENLSITISSVLLLEDLLGM  689 (889)
T ss_pred             eccccccccccccch-hhhcccccEEEeecccc-c-----------cchhhHHhhhcccchhhheeecchhHhHhhhhhh
Confidence            999998776677653 66699999998886441 1           2567778888899999888875554223333222


Q ss_pred             hhhhhccceee------------eeccCCCceEEEeccc----------------ccCCccEEEEcCCCCCCCChhhccc
Q 039519          550 QELQRCTQFLF------------LRCFNDSKSLDIFCLA----------------CLHNLNKLYVAGCKHLEDFQMIIQR  601 (647)
Q Consensus       550 ~~~~~~l~~l~------------L~~~~~L~~L~l~~~~----------------~l~~L~~L~L~~~~~~~~~~~~~~l  601 (647)
                      ....+..+.+.            +..+.+|++|.+....                .+++|..+.+.+|.....+.|.-..
T Consensus       690 ~~L~~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~f~  769 (889)
T KOG4658|consen  690 TRLRSLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLLFA  769 (889)
T ss_pred             HHHHHHhHhhhhcccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhhcc
Confidence            22222222222            2233455555542211                1345555555666656666666667


Q ss_pred             cCCceEEeeccc
Q 039519          602 SSLSVHNLFINK  613 (647)
Q Consensus       602 ~~L~~L~L~~~~  613 (647)
                      |+|+.|.+..|.
T Consensus       770 ~~L~~l~l~~~~  781 (889)
T KOG4658|consen  770 PHLTSLSLVSCR  781 (889)
T ss_pred             CcccEEEEeccc
Confidence            889999998875

>PLN03210 Resistant to P

Probab=100.00  E-value=3.2e-55  Score=517.26  Aligned_cols=461  Identities=21%  Similarity=0.254  Sum_probs=341.1

Q ss_pred             HHhhHHhhccccCCCcCCCCchh-hchhHHHHHHHHHHHHHHHhcC--CCc-------cccccCCC--CCCCCCCCCCcc
Q 039519           12 MRDSSQEVDKLCPGGCCSKNCKS-SFEFGKRVAKTLQLVNNLMGEG--AFD-------AVAEKVPP--PAVDQRPCEPTV   79 (647)
Q Consensus        12 ~d~~~~~~~~~~~~~~~~~~~~~-r~~~~~~~~~~~~~v~~~~~~~--~~~-------~~~~~~~~--~~~~~~~~~~~v   79 (647)
                      +|+.+++.|++.|+..|.++... ..+..++|++++++|+++.+..  .+.       .++..+..  ...+....+.+|
T Consensus       108 v~p~~v~~~~g~f~~~f~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~~~~~E~~~i~~Iv~~v~~~l~~~~~~~~~~~v  187 (1153)
T PLN03210        108 LDPSHVRKQTGDFGEAFEKTCQNKTEDEKIQWKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFV  187 (1153)
T ss_pred             ccHHHHhhccchHHHHHHHHhcccchhHHHHHHHHHHHHhCcCceecCCCCCHHHHHHHHHHHHHHhhccccCccccccc
Confidence            35678888999888776433221 2346799999999999998865  222       11111100  111222336789


Q ss_pred             cchHHHHHHHHHhh--hCCceEEEEEccCccCCC----------CCCcceEEEEEE---cCc-----------cC-HHHH
Q 039519           80 GLESTFDKVRRCLR--EEQVGIIGLYGMGGLLGA----------PNDFDVVIWMVV---SKD-----------LQ-LEKI  132 (647)
Q Consensus        80 Gr~~~~~~i~~~L~--~~~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~---s~~-----------~~-~~~~  132 (647)
                      ||+++++++.++|.  .+++++||||||||+|||          ..+|++.+|+..   +..           ++ ...+
T Consensus       188 G~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l  267 (1153)
T PLN03210        188 GIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHL  267 (1153)
T ss_pred             chHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcccccccccchhHHH
Confidence            99999999999875  357899999999999999          678998888742   111           11 1235


Q ss_pred             HHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhccc
Q 039519          133 QERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQA  212 (647)
Q Consensus       133 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~~~  212 (647)
                      ++.++.++....+ .....    ...+++.++++|+||||||||+.++|+.+.....+.+.||+||||||+++++..++.
T Consensus       268 ~~~~l~~il~~~~-~~~~~----~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~  342 (1153)
T PLN03210        268 QRAFLSEILDKKD-IKIYH----LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGI  342 (1153)
T ss_pred             HHHHHHHHhCCCC-cccCC----HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCC
Confidence            5555555432211 11111    246788899999999999999999999998777788899999999999999988877


Q ss_pred             ceeEec-------------ccccc---CCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhcccCC
Q 039519          213 HEFLKV-------------EDVLK---NHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEF  276 (647)
Q Consensus       213 ~~~~~~-------------~~~~~---~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~~~  276 (647)
                      ...|.+             ..++.   ...++++++++|+++|+|+|||++++|++|++ ++.++|+.+++.++....  
T Consensus       343 ~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l~~L~~~~~--  419 (1153)
T PLN03210        343 DHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDMLPRLRNGLD--  419 (1153)
T ss_pred             CeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHHHHHHhCcc--
Confidence            888887             11222   22357889999999999999999999999998 689999999999876443  


Q ss_pred             CCCCcchhhHHHHhhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHHHHHHhcccc
Q 039519          277 PGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHACLLE  356 (647)
Q Consensus       277 ~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~~L~~~~ll~  356 (647)
                          ..|..++++||+.|+++..|.||+++|+|+.+..++   .+..|++.+....          +..++.|+++||++
T Consensus       420 ----~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~----------~~~l~~L~~ksLi~  482 (1153)
T PLN03210        420 ----GKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV----------NIGLKNLVDKSLIH  482 (1153)
T ss_pred             ----HHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc----------hhChHHHHhcCCEE
Confidence                389999999999998745899999999999887653   4667777654432          12378899999998


Q ss_pred             ccCCCeeEEe------eeec------c-----------------------------------------------------
Q 039519          357 EEWGDIGEEE------TCKI------E-----------------------------------------------------  371 (647)
Q Consensus       357 ~~~~~~~~mh------~~~~------~-----------------------------------------------------  371 (647)
                      .. .+.++||      +...      .                                                     
T Consensus       483 ~~-~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~  561 (1153)
T PLN03210        483 VR-EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLL  561 (1153)
T ss_pred             Ec-CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCcccc
Confidence            75 4578888      0000      0                                                     


Q ss_pred             --------------------------ccccceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEec
Q 039519          372 --------------------------KEKENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNM  425 (647)
Q Consensus       372 --------------------------~~~~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l  425 (647)
                                                ..+.+++.+.++.++.+|....+.+|+.|++.+|.+..+|..+..+++|++|++
T Consensus       562 ~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~L  641 (1153)
T PLN03210        562 FLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDL  641 (1153)
T ss_pred             EEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCccccccccccccCCCCCEEEC
Confidence                                      001222333344444555555667888888888888888887788889999999


Q ss_pred             cCccccccCccccccccCCCeeeecCC-CCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccC
Q 039519          426 SNNHLLWKLPLGISTLVSLEHLDLSST-AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCG  501 (647)
Q Consensus       426 ~~~~~~~~lp~~~~~L~~L~~L~L~~~-~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~  501 (647)
                      +++..++.+| .++.+++|++|+|++| .+.++|.+++++++|+.|++++|..+..+|.+ + .+++|+.|++.+|+
T Consensus       642 s~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-i-~l~sL~~L~Lsgc~  715 (1153)
T PLN03210        642 RGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-I-NLKSLYRLNLSGCS  715 (1153)
T ss_pred             CCCCCcCcCC-ccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc-C-CCCCCCEEeCCCCC
Confidence            9876777787 5888999999999987 57799999999999999999998888899985 3 78888888888764

syringae 6; Provisional

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

Probab=100.00  E-value=1e-39  Score=331.51  Aligned_cols=252  Identities=33%  Similarity=0.615  Sum_probs=205.6

Q ss_pred             chHHHHHHHHHhhh--CCceEEEEEccCccCCC------------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC
Q 039519           81 LESTFDKVRRCLRE--EQVGIIGLYGMGGLLGA------------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES  146 (647)
Q Consensus        81 r~~~~~~i~~~L~~--~~~~vi~I~G~gGiGKT------------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~  146 (647)
                      ||.++++|.+.|.+  ++.++|+|+||||+|||            +.+|+.++|+.+++..+...+++.|+.+++.....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            78999999999998  78999999999999999            78999999999999999999999999999877543


Q ss_pred             C-CCCCHHHHHHHHHHHhccCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhccc-ceeEecc-----
Q 039519          147 W-KNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQA-HEFLKVE-----  219 (647)
Q Consensus       147 ~-~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~~~-~~~~~~~-----  219 (647)
                      . ...+.++....+++.|+++++||||||||+...|+.+...++....||+||||||+..++..++. ...+++.     
T Consensus        81 ~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~  160 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEE  160 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HH
T ss_pred             cccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3 56688889999999999999999999999999999998888877789999999999999877665 5567771     


Q ss_pred             --------ccc----cCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhcccCCCCCCcchhhHH
Q 039519          220 --------DVL----KNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLL  287 (647)
Q Consensus       220 --------~~~----~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l  287 (647)
                              .+.    ......++.+++|+++|+|+|||++++|++++.+.+..+|+.+++.+.............++.++
T Consensus       161 ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l  240 (287)
T PF00931_consen  161 EALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSAL  240 (287)
T ss_dssp             HHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence                    111    12355678999999999999999999999996655789999999888877654443456899999


Q ss_pred             HHhhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCcccc
Q 039519          288 KYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQY  333 (647)
Q Consensus       288 ~~sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~  333 (647)
                      .+||+.||+ +.|.||+|||+||+++.|+++.|+++|+++|++++.
T Consensus       241 ~~s~~~L~~-~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  241 ELSYDSLPD-ELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHSSHT-CCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             eechhcCCc-cHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            999999999 999999999999999999999999999999999864

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

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

Probab=99.71  E-value=3.2e-17  Score=194.42  Aligned_cols=227  Identities=19%  Similarity=0.202  Sum_probs=123.2

Q ss_pred             cccccEEEEEeecccccc-cccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcCccCcE
Q 039519          392 QNWRNVRRMSLMKNKIEN-LSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKC  469 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~-l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~  469 (647)
                      ..+++|++|++++|.+.. +|..+.++++|++|++++|.....+|..++++++|++|++++|.+. .+|..++++++|++
T Consensus       137 ~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  216 (968)
T PLN00113        137 GSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKW  216 (968)
T ss_pred             cccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccE
Confidence            345566666666666653 5555566666666666666444556666666666666666666655 55666666666666


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhh
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS  549 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~  549 (647)
                      |++++|.....+|.. ++.+++|++|++.++.   +           .+..+..++.+++|+.|+++.|.+...  ++..
T Consensus       217 L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~---l-----------~~~~p~~l~~l~~L~~L~L~~n~l~~~--~p~~  279 (968)
T PLN00113        217 IYLGYNNLSGEIPYE-IGGLTSLNHLDLVYNN---L-----------TGPIPSSLGNLKNLQYLFLYQNKLSGP--IPPS  279 (968)
T ss_pred             EECcCCccCCcCChh-HhcCCCCCEEECcCce---e-----------ccccChhHhCCCCCCEEECcCCeeecc--Cchh
Confidence            666666433455655 5666666666555432   2           223334455555555555554433221  1111


Q ss_pred             hhhhhccceeeeecc-------------CCCceEEE----------ecccccCCccEEEEcCCCCCCCCh-hhccccCCc
Q 039519          550 QELQRCTQFLFLRCF-------------NDSKSLDI----------FCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLS  605 (647)
Q Consensus       550 ~~~~~~l~~l~L~~~-------------~~L~~L~l----------~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~  605 (647)
                      ...+.+|+.|+++++             ++|+.|++          ..+..+++|+.|+|++|...+.+| +++.+++|+
T Consensus       280 l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~  359 (968)
T PLN00113        280 IFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLT  359 (968)
T ss_pred             HhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCc
Confidence            122233444444331             12222222          125556677777777766655555 366667777


Q ss_pred             eEEeecccccccccchhhhhhhcCCCCcccCC
Q 039519          606 VHNLFINKNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       606 ~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                      .|+|++|  .+.......+..+++|+.|....
T Consensus       360 ~L~Ls~n--~l~~~~p~~~~~~~~L~~L~l~~  389 (968)
T PLN00113        360 VLDLSTN--NLTGEIPEGLCSSGNLFKLILFS  389 (968)
T ss_pred             EEECCCC--eeEeeCChhHhCcCCCCEEECcC
Confidence            7777664  23333344555566666655443

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

Probab=99.68  E-value=1.3e-16  Score=189.19  Aligned_cols=224  Identities=21%  Similarity=0.239  Sum_probs=124.2

Q ss_pred             ccccEEEEEeecccccc-cccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcCccCcEE
Q 039519          393 NWRNVRRMSLMKNKIEN-LSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCL  470 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~-l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L  470 (647)
                      .+++|++|++++|.+.+ +|.  ..+++|++|++++|.....+|..++.+++|++|++++|.+. .+|..++++++|++|
T Consensus       116 ~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L  193 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFL  193 (968)
T ss_pred             cCCCCCEEECcCCccccccCc--cccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCee
Confidence            44555555555555543 221  33455666666666333455656666666666666666654 556666666666666


Q ss_pred             eecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhh
Q 039519          471 NLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ  550 (647)
Q Consensus       471 ~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~  550 (647)
                      ++++|.....+|.. ++.+++|++|++.++.   +           .+..+..++.+++|+.|+++.|.+.+.  ++...
T Consensus       194 ~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~---l-----------~~~~p~~l~~l~~L~~L~L~~n~l~~~--~p~~l  256 (968)
T PLN00113        194 TLASNQLVGQIPRE-LGQMKSLKWIYLGYNN---L-----------SGEIPYEIGGLTSLNHLDLVYNNLTGP--IPSSL  256 (968)
T ss_pred             eccCCCCcCcCChH-HcCcCCccEEECcCCc---c-----------CCcCChhHhcCCCCCEEECcCceeccc--cChhH
Confidence            66666434455554 5666666666554432   2           345566778888888888887765431  22233


Q ss_pred             hhhhccceeeeecc-------------CCCceEEEec----------ccccCCccEEEEcCCCCCCCCh-hhccccCCce
Q 039519          551 ELQRCTQFLFLRCF-------------NDSKSLDIFC----------LACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSV  606 (647)
Q Consensus       551 ~~~~~l~~l~L~~~-------------~~L~~L~l~~----------~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~  606 (647)
                      ..+++|+.|.++++             .+|++|++..          +..+++|++|+|++|...+.+| +++.+++|+.
T Consensus       257 ~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~  336 (968)
T PLN00113        257 GNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQV  336 (968)
T ss_pred             hCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCE
Confidence            34456666666542             2444444422          3445556666665555544444 3555666666


Q ss_pred             EEeecccccccccchhhhhhhcCCCCcccCC
Q 039519          607 HNLFINKNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       607 L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                      |+|++|  .+.......++.+++|+.|+..+
T Consensus       337 L~L~~n--~l~~~~p~~l~~~~~L~~L~Ls~  365 (968)
T PLN00113        337 LQLWSN--KFSGEIPKNLGKHNNLTVLDLST  365 (968)
T ss_pred             EECcCC--CCcCcCChHHhCCCCCcEEECCC
Confidence            666553  23333334455556666555443

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

Probab=99.65  E-value=6.4e-18  Score=173.29  Aligned_cols=215  Identities=20%  Similarity=0.227  Sum_probs=121.6

Q ss_pred             ccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCcccc-ccccCCCeeeecCCCCCccccchhcCccC
Q 039519          389 PEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTAITHLPIDLQKLVNL  467 (647)
Q Consensus       389 ~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~-~~L~~L~~L~L~~~~l~~lp~~~~~l~~L  467 (647)
                      +++..+..|+.|+|++|++.++|..+..-+++-+|+||+| .+.++|..+ -+|+-|-+||||+|++..||+-+..|.+|
T Consensus        97 ~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N-~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~L  175 (1255)
T KOG0444|consen   97 TDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYN-NIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSML  175 (1255)
T ss_pred             chhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccC-ccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhh
Confidence            4555666666666666666666666655566666666666 566666553 35666666666666666666666666666


Q ss_pred             cEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccc-----------cccCCccccHHHhhCCCCCcEEEEE
Q 039519          468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN-----------VLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       468 ~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~-----------~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      ++|.|++|+ +..+.-.-+..+++|+.|++++... .+.++|..           +........++.+..+.+|+.|+++
T Consensus       176 qtL~Ls~NP-L~hfQLrQLPsmtsL~vLhms~TqR-Tl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS  253 (1255)
T KOG0444|consen  176 QTLKLSNNP-LNHFQLRQLPSMTSLSVLHMSNTQR-TLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLS  253 (1255)
T ss_pred             hhhhcCCCh-hhHHHHhcCccchhhhhhhcccccc-hhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccC
Confidence            666666652 2221110022244444554444332 22233331           1112245667778888899999998


Q ss_pred             ecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCC--CCCChhhccccCCceEEeec
Q 039519          537 LKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKH--LEDFQMIIQRSSLSVHNLFI  611 (647)
Q Consensus       537 ~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~--~~~~~~~~~l~~L~~L~L~~  611 (647)
                      .|.++.+   ......+.+++.|+|+. ++|..|+ .++..++.|+.|++.+|..  -+.|..+++|.+|+.+..++
T Consensus       254 ~N~iteL---~~~~~~W~~lEtLNlSr-NQLt~LP-~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aan  325 (1255)
T KOG0444|consen  254 GNKITEL---NMTEGEWENLETLNLSR-NQLTVLP-DAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAAN  325 (1255)
T ss_pred             cCceeee---eccHHHHhhhhhhcccc-chhccch-HHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhc
Confidence            7776653   34455666788888876 5666665 3445555555555554432  12222355555555554444

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

Probab=99.59  E-value=6.6e-16  Score=157.83  Aligned_cols=246  Identities=20%  Similarity=0.215  Sum_probs=107.2

Q ss_pred             CCCcccCccccccc-cEEEEEeecccccccccC-CCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCccc
Q 039519          382 GFGLTEAPEIQNWR-NVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHLP  458 (647)
Q Consensus       382 ~~~~~~~~~~~~~~-~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~lp  458 (647)
                      .+.++.+|.++... +++.|+|.+|.|..+... +..++-|+.||||.| .+..+|. +|..=.++++|+|++|.|+.+-
T Consensus       111 ~N~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN-~is~i~~~sfp~~~ni~~L~La~N~It~l~  189 (873)
T KOG4194|consen  111 KNELTRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRN-LISEIPKPSFPAKVNIKKLNLASNRITTLE  189 (873)
T ss_pred             cchhhhcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhc-hhhcccCCCCCCCCCceEEeeccccccccc
Confidence            33444455544433 255555555555544322 244445555555555 4444432 2333345555555555555443


Q ss_pred             -cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccC-------------CccccHHHh
Q 039519          459 -IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFG-------------GHQVLVEEL  524 (647)
Q Consensus       459 -~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~-------------~~~~~~~~l  524 (647)
                       ..|..+.+|.+|.|+.| .+.++|...|.+++.|+.|++.   .|.+..+..-.|.+             -....-..+
T Consensus       190 ~~~F~~lnsL~tlkLsrN-rittLp~r~Fk~L~~L~~LdLn---rN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~F  265 (873)
T KOG4194|consen  190 TGHFDSLNSLLTLKLSRN-RITTLPQRSFKRLPKLESLDLN---RNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAF  265 (873)
T ss_pred             cccccccchheeeecccC-cccccCHHHhhhcchhhhhhcc---ccceeeehhhhhcCchhhhhhhhhhcCcccccCcce
Confidence             23445555555555555 4555555545555555555333   23331110000000             000000112


Q ss_pred             hCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccC
Q 039519          525 IGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSS  603 (647)
Q Consensus       525 ~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~  603 (647)
                      ..|.++++|++..|.+..+.+  .....++.|+.|+|++ +.++.+.++..+-.++|+.|+|++|......+. |.-|..
T Consensus       266 y~l~kme~l~L~~N~l~~vn~--g~lfgLt~L~~L~lS~-NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~  342 (873)
T KOG4194|consen  266 YGLEKMEHLNLETNRLQAVNE--GWLFGLTSLEQLDLSY-NAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQ  342 (873)
T ss_pred             eeecccceeecccchhhhhhc--ccccccchhhhhccch-hhhheeecchhhhcccceeEeccccccccCChhHHHHHHH
Confidence            223333334433333322211  0111223344444443 344444444444455555666655544333332 555555


Q ss_pred             CceEEeecccccccccchhhhhhhcCCCCcccCC
Q 039519          604 LSVHNLFINKNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       604 L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                      |+.|+|+.  |.+....-..+.++++|..|+...
T Consensus       343 Le~LnLs~--Nsi~~l~e~af~~lssL~~LdLr~  374 (873)
T KOG4194|consen  343 LEELNLSH--NSIDHLAEGAFVGLSSLHKLDLRS  374 (873)
T ss_pred             hhhhcccc--cchHHHHhhHHHHhhhhhhhcCcC
Confidence            66666655  334444444555556666555443

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

Probab=99.58  E-value=1.2e-16  Score=164.11  Aligned_cols=252  Identities=21%  Similarity=0.240  Sum_probs=143.6

Q ss_pred             cceEEecCCCcccCcc-ccccccEEEEEeecccccccccCCCCcceeeEEeccCccc-cccCccccccccCCCeeeecCC
Q 039519          375 ENFLVHAGFGLTEAPE-IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHL-LWKLPLGISTLVSLEHLDLSST  452 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~-~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~-~~~lp~~~~~L~~L~~L~L~~~  452 (647)
                      ..|+..+..++..+|. ++.+.+|..|++.+|++..+-..++.|+.||.+.+..|+. -..+|+.+..|.-|..||||+|
T Consensus        34 ~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShN  113 (1255)
T KOG0444|consen   34 MTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHN  113 (1255)
T ss_pred             eeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhcccccceeeecchh
Confidence            3456655555555553 5666777777777777776666667777777777776622 1236777777777777777777


Q ss_pred             CCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccc---------cCCccccHHH
Q 039519          453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVL---------FGGHQVLVEE  523 (647)
Q Consensus       453 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~---------~~~~~~~~~~  523 (647)
                      .+.+.|..+...+++..|+|++| ++.+||..++-+++.|-.|   +++.|.+..+|+.+.         ....+.....
T Consensus       114 qL~EvP~~LE~AKn~iVLNLS~N-~IetIPn~lfinLtDLLfL---DLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQ  189 (1255)
T KOG0444|consen  114 QLREVPTNLEYAKNSIVLNLSYN-NIETIPNSLFINLTDLLFL---DLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQ  189 (1255)
T ss_pred             hhhhcchhhhhhcCcEEEEcccC-ccccCCchHHHhhHhHhhh---ccccchhhhcCHHHHHHhhhhhhhcCCChhhHHH
Confidence            77777777777777777777776 6777777666566655555   334466655554321         0001111122


Q ss_pred             hh---CCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhcc
Q 039519          524 LI---GMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQ  600 (647)
Q Consensus       524 l~---~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~  600 (647)
                      |.   .|++|++|.++...- .+..++.+...+.+|..++|+. ++|..++ .|+-++.+|+.|+|++|.+...--..+.
T Consensus       190 LrQLPsmtsL~vLhms~TqR-Tl~N~Ptsld~l~NL~dvDlS~-N~Lp~vP-ecly~l~~LrrLNLS~N~iteL~~~~~~  266 (1255)
T KOG0444|consen  190 LRQLPSMTSLSVLHMSNTQR-TLDNIPTSLDDLHNLRDVDLSE-NNLPIVP-ECLYKLRNLRRLNLSGNKITELNMTEGE  266 (1255)
T ss_pred             HhcCccchhhhhhhcccccc-hhhcCCCchhhhhhhhhccccc-cCCCcch-HHHhhhhhhheeccCcCceeeeeccHHH
Confidence            22   233444444443221 1223333333444455555543 4554444 4566677777777777744332223555


Q ss_pred             ccCCceEEeecccccccccchhhhhhhcCCCCcccC
Q 039519          601 RSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKS  636 (647)
Q Consensus       601 l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~  636 (647)
                      ..+|+.|+||.|  .+... +..+.+|+.|+.|...
T Consensus       267 W~~lEtLNlSrN--QLt~L-P~avcKL~kL~kLy~n  299 (1255)
T KOG0444|consen  267 WENLETLNLSRN--QLTVL-PDAVCKLTKLTKLYAN  299 (1255)
T ss_pred             Hhhhhhhccccc--hhccc-hHHHhhhHHHHHHHhc
Confidence            677777777774  23311 2245566666665443

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

Probab=99.58  E-value=3.3e-16  Score=153.36  Aligned_cols=226  Identities=23%  Similarity=0.213  Sum_probs=151.1

Q ss_pred             CCCcccCccccccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccc
Q 039519          382 GFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID  460 (647)
Q Consensus       382 ~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~  460 (647)
                      ...+..+|+|.+++.+..+.+..|+|+.+|... .+|.++.+||+..| .++..|+.++.|.+|.+||+++|.|+.+|.+
T Consensus       215 ~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdN-klke~Pde~clLrsL~rLDlSNN~is~Lp~s  293 (565)
T KOG0472|consen  215 RNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDN-KLKEVPDEICLLRSLERLDLSNNDISSLPYS  293 (565)
T ss_pred             hcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeecccc-ccccCchHHHHhhhhhhhcccCCccccCCcc
Confidence            445677888888888999999999998888776 58888999999999 8889999999999999999999999999999


Q ss_pred             hhcCccCcEEeecccccCCcCchhhh-----------------------------------------cCCCCCcEEecc-
Q 039519          461 LQKLVNLKCLNLQYMYNLNQFPRLVI-----------------------------------------SAFSKLQVLRMF-  498 (647)
Q Consensus       461 ~~~l~~L~~L~l~~~~~l~~lp~~~i-----------------------------------------~~l~~L~~L~l~-  498 (647)
                      +|++ .|+.|-+.+| .+.++-.+++                                         ..+.+.+.|+++ 
T Consensus       294 Lgnl-hL~~L~leGN-PlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~  371 (565)
T KOG0472|consen  294 LGNL-HLKFLALEGN-PLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSD  371 (565)
T ss_pred             cccc-eeeehhhcCC-chHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccc
Confidence            9988 8888888776 3343322211                                         112222333222 


Q ss_pred             ----------------------ccCCCccccccccc------------ccCCccccHHHhhCCCCCcEEEEEecchhhHH
Q 039519          499 ----------------------DCGGSKIERLKSNV------------LFGGHQVLVEELIGMKYLMAVTITLKRLQALQ  544 (647)
Q Consensus       499 ----------------------~~~~n~~~~~~~~~------------~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~  544 (647)
                                            +.+.|++.++|.+.            ........+..++.+++|..|+++.|.+..++
T Consensus       372 ~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~Ln~LP  451 (565)
T KOG0472|consen  372 KQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNLLNDLP  451 (565)
T ss_pred             cccccCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccchhhhcc
Confidence                                  33445555555431            11122333344555555555555544433321


Q ss_pred             HHhhhhhhhhccceeeeec----------------------cCCCceEEEecccccCCccEEEEcCCCCCCCChhhcccc
Q 039519          545 ELLISQELQRCTQFLFLRC----------------------FNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRS  602 (647)
Q Consensus       545 ~l~~~~~~~~~l~~l~L~~----------------------~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~  602 (647)
                         .....+..|+.++++.                      -+++.+++.+.+.++.+|..|+|.+|.....||.++++.
T Consensus       452 ---~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~nNdlq~IPp~Lgnmt  528 (565)
T KOG0472|consen  452 ---EEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQNNDLQQIPPILGNMT  528 (565)
T ss_pred             ---hhhhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCCCchhhCChhhcccc
Confidence               1222222344444332                      135555555558899999999999997777777899999


Q ss_pred             CCceEEeeccc
Q 039519          603 SLSVHNLFINK  613 (647)
Q Consensus       603 ~L~~L~L~~~~  613 (647)
                      +|++|.|.||+
T Consensus       529 nL~hLeL~gNp  539 (565)
T KOG0472|consen  529 NLRHLELDGNP  539 (565)
T ss_pred             ceeEEEecCCc
Confidence            99999999965

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

Probab=99.57  E-value=2.4e-16  Score=160.99  Aligned_cols=99  Identities=26%  Similarity=0.384  Sum_probs=45.2

Q ss_pred             cEEEEEeecccccccccC-CCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCCCCcc-ccchhcCccCcEEee
Q 039519          396 NVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNL  472 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l  472 (647)
                      +++.|+|.+|.|+.+... +..|.+|..|.|+.| .++.+|.. |..|++|+.|+|..|.|... ...|..|++|+.|.|
T Consensus       174 ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrN-rittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlkl  252 (873)
T KOG4194|consen  174 NIKKLNLASNRITTLETGHFDSLNSLLTLKLSRN-RITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKL  252 (873)
T ss_pred             CceEEeeccccccccccccccccchheeeecccC-cccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhh
Confidence            445555555555443322 244444445555555 44444432 23355555555555544433 234444444444444


Q ss_pred             cccccCCcCchhhhcCCCCCcEEe
Q 039519          473 QYMYNLNQFPRLVISAFSKLQVLR  496 (647)
Q Consensus       473 ~~~~~l~~lp~~~i~~l~~L~~L~  496 (647)
                      ..| .+..+.+|.|..+.++++|+
T Consensus       253 qrN-~I~kL~DG~Fy~l~kme~l~  275 (873)
T KOG4194|consen  253 QRN-DISKLDDGAFYGLEKMEHLN  275 (873)
T ss_pred             hhc-CcccccCcceeeecccceee
Confidence            444 44444444444444444443

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

Probab=99.52  E-value=3.7e-17  Score=159.98  Aligned_cols=207  Identities=25%  Similarity=0.305  Sum_probs=137.8

Q ss_pred             ccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCc
Q 039519          386 TEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLV  465 (647)
Q Consensus       386 ~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~  465 (647)
                      +-+|+.+.+..+..+..++|++.++|.....+..++.|+.++| ....+|++++.+..|..|+..+|+++.+|.+++++.
T Consensus        82 ~lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n-~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~  160 (565)
T KOG0472|consen   82 QLPAAIGELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSN-ELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLS  160 (565)
T ss_pred             hCCHHHHHHHHHHHhhcccchHhhccHHHhhhhhhhhhhcccc-ceeecCchHHHHhhhhhhhccccccccCchHHHHHH
Confidence            3445677777888888888888888888777777888888888 677788888888888888888888888888888888


Q ss_pred             cCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecch-----
Q 039519          466 NLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRL-----  540 (647)
Q Consensus       466 ~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-----  540 (647)
                      +|..|++.+| .++.+|+..+. ++.|++|   +|..|.+.++|++            ++.|.+|..|++..|.+     
T Consensus       161 ~l~~l~~~~n-~l~~l~~~~i~-m~~L~~l---d~~~N~L~tlP~~------------lg~l~~L~~LyL~~Nki~~lPe  223 (565)
T KOG0472|consen  161 KLSKLDLEGN-KLKALPENHIA-MKRLKHL---DCNSNLLETLPPE------------LGGLESLELLYLRRNKIRFLPE  223 (565)
T ss_pred             HHHHhhcccc-chhhCCHHHHH-HHHHHhc---ccchhhhhcCChh------------hcchhhhHHHHhhhcccccCCC
Confidence            8888888887 67788877444 7777777   6666666555543            44444444444443332     


Q ss_pred             ----hhHHHHhhhhhhh-----------hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCc
Q 039519          541 ----QALQELLISQELQ-----------RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLS  605 (647)
Q Consensus       541 ----~~l~~l~~~~~~~-----------~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~  605 (647)
                          +.+.++....+..           .++..|+|.. ++|++++ ..+..+.+|.+|++++|....-++.+++| .|+
T Consensus       224 f~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRd-Nklke~P-de~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~  300 (565)
T KOG0472|consen  224 FPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRD-NKLKEVP-DEICLLRSLERLDLSNNDISSLPYSLGNL-HLK  300 (565)
T ss_pred             CCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccc-cccccCc-hHHHHhhhhhhhcccCCccccCCcccccc-eee
Confidence                2333333322222           2333334433 3444433 22556777888888877655555557887 788


Q ss_pred             eEEeeccc
Q 039519          606 VHNLFINK  613 (647)
Q Consensus       606 ~L~L~~~~  613 (647)
                      +|.+.|||
T Consensus       301 ~L~leGNP  308 (565)
T KOG0472|consen  301 FLALEGNP  308 (565)
T ss_pred             ehhhcCCc
Confidence            88888865

>PLN03210 Resistant to P

Probab=99.50  E-value=6.1e-14  Score=167.03  Aligned_cols=79  Identities=30%  Similarity=0.450  Sum_probs=37.3

Q ss_pred             eeeEEeccCccccccCccccccccCCCeeeecCC-CCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEec
Q 039519          419 FFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST-AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM  497 (647)
Q Consensus       419 ~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~-~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l  497 (647)
                      +|+.|++++| .+..+|.++..+++|++|+|++| .+..+| .++.+++|++|++++|..+..+|.. ++.+++|+.|++
T Consensus       612 ~L~~L~L~~s-~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~s-i~~L~~L~~L~L  688 (1153)
T PLN03210        612 NLVKLQMQGS-KLEKLWDGVHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSS-IQYLNKLEDLDM  688 (1153)
T ss_pred             CCcEEECcCc-cccccccccccCCCCCEEECCCCCCcCcCC-ccccCCcccEEEecCCCCccccchh-hhccCCCCEEeC
Confidence            3444444444 34444444444555555555443 234444 2444455555555554444455544 445555555544


Q ss_pred             ccc
Q 039519          498 FDC  500 (647)
Q Consensus       498 ~~~  500 (647)
                      .+|
T Consensus       689 ~~c  691 (1153)
T PLN03210        689 SRC  691 (1153)
T ss_pred             CCC
Confidence            443

syringae 6; Provisional

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

Probab=99.47  E-value=1.9e-15  Score=131.39  Aligned_cols=137  Identities=26%  Similarity=0.393  Sum_probs=112.5

Q ss_pred             ccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCc
Q 039519          386 TEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLV  465 (647)
Q Consensus       386 ~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~  465 (647)
                      ..+|.+..++++++|.+++|+++.+|+.+..|.+|+.|++++| .++.+|.+++.|+.|+.|++.-|++..+|..||.++
T Consensus        24 ~~~~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nn-qie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p  102 (264)
T KOG0617|consen   24 EELPGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNN-QIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFP  102 (264)
T ss_pred             hhcccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccc-hhhhcChhhhhchhhhheecchhhhhcCccccCCCc
Confidence            3457778889999999999999999999999999999999999 899999999999999999999999999999999999


Q ss_pred             cCcEEeecccccCC--cCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecch
Q 039519          466 NLKCLNLQYMYNLN--QFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRL  540 (647)
Q Consensus       466 ~L~~L~l~~~~~l~--~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  540 (647)
                      -|+.||+++| ++.  .+|.. +-.++.|+.|   +++.|.+            ...+.+.+.+++|+.|.+..|++
T Consensus       103 ~levldltyn-nl~e~~lpgn-ff~m~tlral---yl~dndf------------e~lp~dvg~lt~lqil~lrdndl  162 (264)
T KOG0617|consen  103 ALEVLDLTYN-NLNENSLPGN-FFYMTTLRAL---YLGDNDF------------EILPPDVGKLTNLQILSLRDNDL  162 (264)
T ss_pred             hhhhhhcccc-ccccccCCcc-hhHHHHHHHH---HhcCCCc------------ccCChhhhhhcceeEEeeccCch
Confidence            9999999987 443  46665 3345555555   5555665            34455678899999988885544

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

Probab=99.44  E-value=1.2e-14  Score=156.48  Aligned_cols=231  Identities=23%  Similarity=0.172  Sum_probs=158.1

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+...+..++....-..+.++++++++.|++..+|.++..+.+|..++..+| .+..+|..+....+|++|.+..|.+
T Consensus       221 l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N-~l~~lp~ri~~~~~L~~l~~~~nel  299 (1081)
T KOG0618|consen  221 LTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLPEWIGACANLEALNANHN-RLVALPLRISRITSLVSLSAAYNEL  299 (1081)
T ss_pred             hheeeeccCcceeeccccccccceeeecchhhhhcchHHHHhcccceEecccch-hHHhhHHHHhhhhhHHHHHhhhhhh
Confidence            445555555555443344567999999999999999977799999999999999 7789999999999999999999999


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccc-------------cccCCccccH
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN-------------VLFGGHQVLV  521 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~-------------~~~~~~~~~~  521 (647)
                      +.+|+...+++.|++|+|..| .+..+|+.++..+..  .|+..+.+.|.+...|..             +.+......+
T Consensus       300 ~yip~~le~~~sL~tLdL~~N-~L~~lp~~~l~v~~~--~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~  376 (1081)
T KOG0618|consen  300 EYIPPFLEGLKSLRTLDLQSN-NLPSLPDNFLAVLNA--SLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCF  376 (1081)
T ss_pred             hhCCCcccccceeeeeeehhc-cccccchHHHhhhhH--HHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccch
Confidence            999999999999999999998 889999864433222  133334455555444421             1122355666


Q ss_pred             HHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEec----------------------ccccC
Q 039519          522 EELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFC----------------------LACLH  579 (647)
Q Consensus       522 ~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~----------------------~~~l~  579 (647)
                      +-|.+..+|+.|+++.|.+..++.  +....+..|+.|.|++ +.|+.|+ .+                      +..++
T Consensus       377 p~l~~~~hLKVLhLsyNrL~~fpa--s~~~kle~LeeL~LSG-NkL~~Lp-~tva~~~~L~tL~ahsN~l~~fPe~~~l~  452 (1081)
T KOG0618|consen  377 PVLVNFKHLKVLHLSYNRLNSFPA--SKLRKLEELEELNLSG-NKLTTLP-DTVANLGRLHTLRAHSNQLLSFPELAQLP  452 (1081)
T ss_pred             hhhccccceeeeeecccccccCCH--HHHhchHHhHHHhccc-chhhhhh-HHHHhhhhhHHHhhcCCceeechhhhhcC
Confidence            778888999999999886654432  2234455677777777 6666665 22                      44555


Q ss_pred             CccEEEEcCCCCCCCChhhccc-cCCceEEeeccc
Q 039519          580 NLNKLYVAGCKHLEDFQMIIQR-SSLSVHNLFINK  613 (647)
Q Consensus       580 ~L~~L~L~~~~~~~~~~~~~~l-~~L~~L~L~~~~  613 (647)
                      .|+.++|+.|......-...-. ++|++|||+||.
T Consensus       453 qL~~lDlS~N~L~~~~l~~~~p~p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  453 QLKVLDLSCNNLSEVTLPEALPSPNLKYLDLSGNT  487 (1081)
T ss_pred             cceEEecccchhhhhhhhhhCCCcccceeeccCCc
Confidence            5666666554332221111111 556666666643

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

Probab=99.40  E-value=6.4e-15  Score=128.16  Aligned_cols=148  Identities=27%  Similarity=0.382  Sum_probs=126.7

Q ss_pred             EEecCCCccc-CccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-
Q 039519          378 LVHAGFGLTE-APEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-  455 (647)
Q Consensus       378 l~~~~~~~~~-~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-  455 (647)
                      ++.++..++. +|++..+.+++.|.+++|+|+++|..++.|+.|+.|+++-| .+..+|.+|+.++.|+.|||.+|++. 
T Consensus        38 LtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmn-rl~~lprgfgs~p~levldltynnl~e  116 (264)
T KOG0617|consen   38 LTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMN-RLNILPRGFGSFPALEVLDLTYNNLNE  116 (264)
T ss_pred             hhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchh-hhhcCccccCCCchhhhhhcccccccc
Confidence            3334444444 47788999999999999999999999999999999999999 78899999999999999999999887 


Q ss_pred             -ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          456 -HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       456 -~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                       .+|..|..|+.|+.|++++| ....+|+. ++++++|+.|.+.+   |.+            -..+.+++.++.|+.|+
T Consensus       117 ~~lpgnff~m~tlralyl~dn-dfe~lp~d-vg~lt~lqil~lrd---ndl------------l~lpkeig~lt~lrelh  179 (264)
T KOG0617|consen  117 NSLPGNFFYMTTLRALYLGDN-DFEILPPD-VGKLTNLQILSLRD---NDL------------LSLPKEIGDLTRLRELH  179 (264)
T ss_pred             ccCCcchhHHHHHHHHHhcCC-CcccCChh-hhhhcceeEEeecc---Cch------------hhCcHHHHHHHHHHHHh
Confidence             79999999999999999998 67889998 99999999996654   443            45667888999999999


Q ss_pred             EEecchhhH
Q 039519          535 ITLKRLQAL  543 (647)
Q Consensus       535 l~~~~~~~l  543 (647)
                      +.+|.++-+
T Consensus       180 iqgnrl~vl  188 (264)
T KOG0617|consen  180 IQGNRLTVL  188 (264)
T ss_pred             cccceeeec
Confidence            987766543

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

Probab=99.35  E-value=1.7e-13  Score=134.40  Aligned_cols=238  Identities=21%  Similarity=0.178  Sum_probs=158.5

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCccccccccCCCeeeecC-C
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSS-T  452 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~-~  452 (647)
                      ...+.+.+.+++.+|.- -+.....+.|..|+|+.+|+.. ..++.||.||||+|.....-|..|.+|..|..|-+-+ |
T Consensus        48 g~~VdCr~~GL~eVP~~-LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~N  126 (498)
T KOG4237|consen   48 GGIVDCRGKGLTEVPAN-LPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNN  126 (498)
T ss_pred             CceEEccCCCcccCccc-CCCcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCC
Confidence            45677888888888753 2457888999999999988764 8888999999999843344577788888887777655 7


Q ss_pred             CCCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcc--------------------------
Q 039519          453 AITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKI--------------------------  505 (647)
Q Consensus       453 ~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~--------------------------  505 (647)
                      +|+.+|+ .|++|..|+.|.+.-| .+.-++.+.+..+++|..|.+.+...+.+                          
T Consensus       127 kI~~l~k~~F~gL~slqrLllNan-~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCn  205 (498)
T KOG4237|consen  127 KITDLPKGAFGGLSSLQRLLLNAN-HINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCN  205 (498)
T ss_pred             chhhhhhhHhhhHHHHHHHhcChh-hhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccc
Confidence            8888884 4566666666666655 44555555555566555555544221111                          


Q ss_pred             -------------------------------c------------cccccc---ccCCccccHHHhhCCCCCcEEEEEecc
Q 039519          506 -------------------------------E------------RLKSNV---LFGGHQVLVEELIGMKYLMAVTITLKR  539 (647)
Q Consensus       506 -------------------------------~------------~~~~~~---~~~~~~~~~~~l~~l~~L~~L~l~~~~  539 (647)
                                                     .            .+++..   +..........++.|++|++|+++.|.
T Consensus       206 L~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~  285 (498)
T KOG4237|consen  206 LPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNK  285 (498)
T ss_pred             cchhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCc
Confidence                                           0            000000   011122233457788899999999888


Q ss_pred             hhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEEeeccccccc
Q 039519          540 LQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINKNYIH  617 (647)
Q Consensus       540 ~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~~~~~  617 (647)
                      ++.++.-  ......+++.|.|.. ++|+.+.=..|.+++.|+.|+|.+|++...-|. |..+.+|..|+|-.|+....
T Consensus       286 i~~i~~~--aFe~~a~l~eL~L~~-N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~~Cn  361 (498)
T KOG4237|consen  286 ITRIEDG--AFEGAAELQELYLTR-NKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPFNCN  361 (498)
T ss_pred             cchhhhh--hhcchhhhhhhhcCc-chHHHHHHHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCcccCc
Confidence            8877542  233345677777765 566655544488899999999999876665553 88888999999988774443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.34  E-value=2.1e-12  Score=143.33  Aligned_cols=219  Identities=23%  Similarity=0.150  Sum_probs=104.4

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      ..+...++.++.+|..  +++|++|++++|+++.+|..+   ++|+.|++++| .+..+|...   ..|+.|++++|+++
T Consensus       225 ~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~LtsLP~lp---~sL~~L~Ls~N-~L~~Lp~lp---~~L~~L~Ls~N~Lt  295 (788)
T PRK15387        225 TTLVIPDNNLTSLPAL--PPELRTLEVSGNQLTSLPVLP---PGLLELSIFSN-PLTHLPALP---SGLCKLWIFGNQLT  295 (788)
T ss_pred             CEEEccCCcCCCCCCC--CCCCcEEEecCCccCcccCcc---cccceeeccCC-chhhhhhch---hhcCEEECcCCccc
Confidence            3444555566666643  467777777777777766432   34445555555 344443211   23334444444444


Q ss_pred             ccccchhcCccCcEEeecccccCCcCchhhhcC-----------------CCCCcEEeccccCCCccccccccccc----
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISA-----------------FSKLQVLRMFDCGGSKIERLKSNVLF----  514 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~-----------------l~~L~~L~l~~~~~n~~~~~~~~~~~----  514 (647)
                      .+|..   +++|+.|++++| .+..+|.. +..                 ..+|+.|+++   .|++..+|.....    
T Consensus       296 ~LP~~---p~~L~~LdLS~N-~L~~Lp~l-p~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS---~N~Ls~LP~lp~~L~~L  367 (788)
T PRK15387        296 SLPVL---PPGLQELSVSDN-QLASLPAL-PSELCKLWAYNNQLTSLPTLPSGLQELSVS---DNQLASLPTLPSELYKL  367 (788)
T ss_pred             ccccc---ccccceeECCCC-ccccCCCC-cccccccccccCccccccccccccceEecC---CCccCCCCCCCccccee
Confidence            44431   234444444444 33333321 111                 1244555433   3444443321000    


Q ss_pred             CCccccHHHhh-CCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCC
Q 039519          515 GGHQVLVEELI-GMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE  593 (647)
Q Consensus       515 ~~~~~~~~~l~-~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~  593 (647)
                      ......+..+. ...+|+.|+++.|.++.++.      ...+|+.|++++ +.|.+++    ..+.+|+.|+|++|.+..
T Consensus       368 ~Ls~N~L~~LP~l~~~L~~LdLs~N~Lt~LP~------l~s~L~~LdLS~-N~LssIP----~l~~~L~~L~Ls~NqLt~  436 (788)
T PRK15387        368 WAYNNRLTSLPALPSGLKELIVSGNRLTSLPV------LPSELKELMVSG-NRLTSLP----MLPSGLLSLSVYRNQLTR  436 (788)
T ss_pred             hhhccccccCcccccccceEEecCCcccCCCC------cccCCCEEEccC-CcCCCCC----cchhhhhhhhhccCcccc
Confidence            00000000000 11345666666555543322      123455666665 4455443    124567888888876554


Q ss_pred             CChhhccccCCceEEeecccccccccchhhh
Q 039519          594 DFQMIIQRSSLSVHNLFINKNYIHTNQLSIL  624 (647)
Q Consensus       594 ~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l  624 (647)
                      .|..+.++++|+.|+|++|+  ++...+..+
T Consensus       437 LP~sl~~L~~L~~LdLs~N~--Ls~~~~~~L  465 (788)
T PRK15387        437 LPESLIHLSSETTVNLEGNP--LSERTLQAL  465 (788)
T ss_pred             cChHHhhccCCCeEECCCCC--CCchHHHHH
Confidence            44457888888999998854  554444434

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.26  E-value=1.2e-11  Score=138.30  Aligned_cols=207  Identities=20%  Similarity=0.197  Sum_probs=118.7

Q ss_pred             EEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCcc
Q 039519          378 LVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHL  457 (647)
Q Consensus       378 l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~l  457 (647)
                      +...+.+++.+|... +++++.|++++|.++.+|..+.  ++|+.|++++| .+..+|..+.  .+|+.|+|++|.+..+
T Consensus       183 L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls~N~L~~L  256 (754)
T PRK15370        183 LRLKILGLTTIPACI-PEQITTLILDNNELKSLPENLQ--GNIKTLYANSN-QLTSIPATLP--DTIQEMELSINRITEL  256 (754)
T ss_pred             EEeCCCCcCcCCccc-ccCCcEEEecCCCCCcCChhhc--cCCCEEECCCC-ccccCChhhh--ccccEEECcCCccCcC
Confidence            444445556665421 3567778888887777776443  46777777777 5667776543  4677777777777777


Q ss_pred             ccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCccccccccccc---------CCccccHHHhhCCC
Q 039519          458 PIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLF---------GGHQVLVEELIGMK  528 (647)
Q Consensus       458 p~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~---------~~~~~~~~~l~~l~  528 (647)
                      |..+.  ++|+.|++++| .+..+|.. +.  .+|+.|++++   |++..+|..+..         ......+..  ..+
T Consensus       257 P~~l~--s~L~~L~Ls~N-~L~~LP~~-l~--~sL~~L~Ls~---N~Lt~LP~~lp~sL~~L~Ls~N~Lt~LP~~--l~~  325 (754)
T PRK15370        257 PERLP--SALQSLDLFHN-KISCLPEN-LP--EELRYLSVYD---NSIRTLPAHLPSGITHLNVQSNSLTALPET--LPP  325 (754)
T ss_pred             ChhHh--CCCCEEECcCC-ccCccccc-cC--CCCcEEECCC---CccccCcccchhhHHHHHhcCCccccCCcc--ccc
Confidence            76554  46777777766 66677765 32  4677775543   455444432110         000000000  124


Q ss_pred             CCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEE
Q 039519          529 YLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHN  608 (647)
Q Consensus       529 ~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~  608 (647)
                      +|+.|.++.|.++.++.     ...++|+.|++++ +++..++-   .-+++|++|+|++|.+...|+.+.  ++|+.|+
T Consensus       326 sL~~L~Ls~N~Lt~LP~-----~l~~sL~~L~Ls~-N~L~~LP~---~lp~~L~~LdLs~N~Lt~LP~~l~--~sL~~Ld  394 (754)
T PRK15370        326 GLKTLEAGENALTSLPA-----SLPPELQVLDVSK-NQITVLPE---TLPPTITTLDVSRNALTNLPENLP--AALQIMQ  394 (754)
T ss_pred             cceeccccCCccccCCh-----hhcCcccEEECCC-CCCCcCCh---hhcCCcCEEECCCCcCCCCCHhHH--HHHHHHh
Confidence            56666666665554321     1124566777766 35554431   123577888888776554444442  3577777


Q ss_pred             eecc
Q 039519          609 LFIN  612 (647)
Q Consensus       609 L~~~  612 (647)
                      +++|
T Consensus       395 Ls~N  398 (754)
T PRK15370        395 ASRN  398 (754)
T ss_pred             hccC
Confidence            7775

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.26  E-value=6e-12  Score=140.67  Aligned_cols=212  Identities=17%  Similarity=0.170  Sum_probs=129.8

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      ..+...++.++.+|... ..+|+.|++++|.++.+|..++  .+|+.|++++| .+..+|..+.  .+|++|++++|+++
T Consensus       202 ~~L~Ls~N~LtsLP~~l-~~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls~N-~L~~LP~~l~--s~L~~L~Ls~N~L~  275 (754)
T PRK15370        202 TTLILDNNELKSLPENL-QGNIKTLYANSNQLTSIPATLP--DTIQEMELSIN-RITELPERLP--SALQSLDLFHNKIS  275 (754)
T ss_pred             cEEEecCCCCCcCChhh-ccCCCEEECCCCccccCChhhh--ccccEEECcCC-ccCcCChhHh--CCCCEEECcCCccC
Confidence            34555556666666432 3578888888888777765443  35777777777 5667776554  46777777777777


Q ss_pred             ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccC---------CccccHHHhhC
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFG---------GHQVLVEELIG  526 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~---------~~~~~~~~l~~  526 (647)
                      .+|..+.  ++|+.|++++| .+..+|.. +.  .+|+.|++.   .|++..+|......         .....+..+  
T Consensus       276 ~LP~~l~--~sL~~L~Ls~N-~Lt~LP~~-lp--~sL~~L~Ls---~N~Lt~LP~~l~~sL~~L~Ls~N~Lt~LP~~l--  344 (754)
T PRK15370        276 CLPENLP--EELRYLSVYDN-SIRTLPAH-LP--SGITHLNVQ---SNSLTALPETLPPGLKTLEAGENALTSLPASL--  344 (754)
T ss_pred             ccccccC--CCCcEEECCCC-ccccCccc-ch--hhHHHHHhc---CCccccCCccccccceeccccCCccccCChhh--
Confidence            7776553  46777777776 56666654 21  244444333   24443333211100         000111112  


Q ss_pred             CCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh----hcccc
Q 039519          527 MKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM----IIQRS  602 (647)
Q Consensus       527 l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~----~~~l~  602 (647)
                      .++|+.|+++.|.++.++.     .....|+.|++++ ++|..++-   .-..+|+.|++++|.+...+..    ++.++
T Consensus       345 ~~sL~~L~Ls~N~L~~LP~-----~lp~~L~~LdLs~-N~Lt~LP~---~l~~sL~~LdLs~N~L~~LP~sl~~~~~~~~  415 (754)
T PRK15370        345 PPELQVLDVSKNQITVLPE-----TLPPTITTLDVSR-NALTNLPE---NLPAALQIMQASRNNLVRLPESLPHFRGEGP  415 (754)
T ss_pred             cCcccEEECCCCCCCcCCh-----hhcCCcCEEECCC-CcCCCCCH---hHHHHHHHHhhccCCcccCchhHHHHhhcCC
Confidence            2589999999888775432     1235788999988 46776652   1234799999999976544333    34568


Q ss_pred             CCceEEeeccc
Q 039519          603 SLSVHNLFINK  613 (647)
Q Consensus       603 ~L~~L~L~~~~  613 (647)
                      ++..|+|.+|+
T Consensus       416 ~l~~L~L~~Np  426 (754)
T PRK15370        416 QPTRIIVEYNP  426 (754)
T ss_pred             CccEEEeeCCC
Confidence            89999999954

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.14  E-value=6.6e-11  Score=131.66  Aligned_cols=233  Identities=21%  Similarity=0.180  Sum_probs=142.4

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      ...+...+.+++.+|... .++++.|++.+|+++.+|..   +++|++|++++| .+..+|..   .++|+.|++++|.+
T Consensus       203 ~~~LdLs~~~LtsLP~~l-~~~L~~L~L~~N~Lt~LP~l---p~~Lk~LdLs~N-~LtsLP~l---p~sL~~L~Ls~N~L  274 (788)
T PRK15387        203 NAVLNVGESGLTTLPDCL-PAHITTLVIPDNNLTSLPAL---PPELRTLEVSGN-QLTSLPVL---PPGLLELSIFSNPL  274 (788)
T ss_pred             CcEEEcCCCCCCcCCcch-hcCCCEEEccCCcCCCCCCC---CCCCcEEEecCC-ccCcccCc---ccccceeeccCCch
Confidence            456777777888887632 35899999999999998864   467899999999 78788853   46899999999999


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccc---ccc-CCccccHHHhhCC-CC
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN---VLF-GGHQVLVEELIGM-KY  529 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~---~~~-~~~~~~~~~l~~l-~~  529 (647)
                      +.+|..   .++|+.|++++| .+..+|..    +++|+.|+++   .|++..+|..   +.. ......+..+..+ .+
T Consensus       275 ~~Lp~l---p~~L~~L~Ls~N-~Lt~LP~~----p~~L~~LdLS---~N~L~~Lp~lp~~L~~L~Ls~N~L~~LP~lp~~  343 (788)
T PRK15387        275 THLPAL---PSGLCKLWIFGN-QLTSLPVL----PPGLQELSVS---DNQLASLPALPSELCKLWAYNNQLTSLPTLPSG  343 (788)
T ss_pred             hhhhhc---hhhcCEEECcCC-cccccccc----ccccceeECC---CCccccCCCCcccccccccccCccccccccccc
Confidence            998863   357889999998 78888863    4678888665   4666665531   100 0001111111111 36


Q ss_pred             CcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCC----------CceEEEec--c----cccCCccEEEEcCCCCCC
Q 039519          530 LMAVTITLKRLQALQELLISQELQRCTQFLFLRCFND----------SKSLDIFC--L----ACLHNLNKLYVAGCKHLE  593 (647)
Q Consensus       530 L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~----------L~~L~l~~--~----~~l~~L~~L~L~~~~~~~  593 (647)
                      |+.|+++.|.++.++.++      .+|..|.+++ +.          |+.|+++.  +    ..+++|+.|++++|.+..
T Consensus       344 Lq~LdLS~N~Ls~LP~lp------~~L~~L~Ls~-N~L~~LP~l~~~L~~LdLs~N~Lt~LP~l~s~L~~LdLS~N~Lss  416 (788)
T PRK15387        344 LQELSVSDNQLASLPTLP------SELYKLWAYN-NRLTSLPALPSGLKELIVSGNRLTSLPVLPSELKELMVSGNRLTS  416 (788)
T ss_pred             cceEecCCCccCCCCCCC------cccceehhhc-cccccCcccccccceEEecCCcccCCCCcccCCCEEEccCCcCCC
Confidence            888888887776644321      2334444433 22          22222211  0    113456666666664333


Q ss_pred             CChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCCC
Q 039519          594 DFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       594 ~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                       +|.+  +.+|+.|++++|  .+.. .+..+.++++|..|+..++.
T Consensus       417 -IP~l--~~~L~~L~Ls~N--qLt~-LP~sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        417 -LPML--PSGLLSLSVYRN--QLTR-LPESLIHLSSETTVNLEGNP  456 (788)
T ss_pred             -CCcc--hhhhhhhhhccC--cccc-cChHHhhccCCCeEECCCCC
Confidence             3321  235666666663  2331 12346667777777665543

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

Probab=99.14  E-value=9.4e-12  Score=134.57  Aligned_cols=210  Identities=18%  Similarity=0.217  Sum_probs=142.2

Q ss_pred             ccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecc
Q 039519          395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQY  474 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~  474 (647)
                      -+|++|++++|++...|..+..+.+|+.|+++.| .+...|.+.+++.+|++|+|.+|.++.+|.++..+.+|++|++++
T Consensus        45 v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n-~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~  123 (1081)
T KOG0618|consen   45 VKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRN-YIRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSF  123 (1081)
T ss_pred             eeeEEeeccccccccCCchhhhHHHHhhcccchh-hHhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccch
Confidence            3599999999999999988888899999999999 899999889999999999999999999999999999999999999


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCC-ccccccc------cc-ccCCccccHHHhhCCCCCcEEEEEecchhhHHH-
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGS-KIERLKS------NV-LFGGHQVLVEELIGMKYLMAVTITLKRLQALQE-  545 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n-~~~~~~~------~~-~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~-  545 (647)
                      | ....+|.- +..++.+..+..++   | ++..++.      .. .....+..+.+...+++  .|++..|.+..+.. 
T Consensus       124 N-~f~~~Pl~-i~~lt~~~~~~~s~---N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~~~dls  196 (1081)
T KOG0618|consen  124 N-HFGPIPLV-IEVLTAEEELAASN---NEKIQRLGQTSIKKLDLRLNVLGGSFLIDIYNLTH--QLDLRYNEMEVLDLS  196 (1081)
T ss_pred             h-ccCCCchh-HHhhhHHHHHhhhc---chhhhhhccccchhhhhhhhhcccchhcchhhhhe--eeecccchhhhhhhh
Confidence            8 66888874 66666666664443   3 1111111      00 11123444444555544  56666665541110 


Q ss_pred             ----HhhhhhhhhccceeeeeccCCCceEEEec--------ccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccc
Q 039519          546 ----LLISQELQRCTQFLFLRCFNDSKSLDIFC--------LACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK  613 (647)
Q Consensus       546 ----l~~~~~~~~~l~~l~L~~~~~L~~L~l~~--------~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~  613 (647)
                          +..-.+....+..+.+++ ++|+.|....        .+...+|++++++.|.+...+.|++.+++|+.|+...|.
T Consensus       197 ~~~~l~~l~c~rn~ls~l~~~g-~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~  275 (1081)
T KOG0618|consen  197 NLANLEVLHCERNQLSELEISG-PSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLPEWIGACANLEALNANHNR  275 (1081)
T ss_pred             hccchhhhhhhhcccceEEecC-cchheeeeccCcceeeccccccccceeeecchhhhhcchHHHHhcccceEecccchh
Confidence                000001111223333333 3444443321        455679999999998777777789999999999988753

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

Probab=99.10  E-value=1.2e-11  Score=121.71  Aligned_cols=233  Identities=18%  Similarity=0.160  Sum_probs=145.6

Q ss_pred             CccccccccEEEE--EeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCcc-ccchhc
Q 039519          388 APEIQNWRNVRRM--SLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHL-PIDLQK  463 (647)
Q Consensus       388 ~~~~~~~~~l~~L--~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~l-p~~~~~  463 (647)
                      .|.-..+++..-.  +-..-.++++|..++.  .-..++|..| .++.+|+ .|+.+++|+.|||++|.|+.+ |.+|..
T Consensus        37 CP~pC~Cs~~~g~~VdCr~~GL~eVP~~LP~--~tveirLdqN-~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~G  113 (498)
T KOG4237|consen   37 CPAPCTCSDVEGGIVDCRGKGLTEVPANLPP--ETVEIRLDQN-QISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKG  113 (498)
T ss_pred             CCCCcccCCCCCceEEccCCCcccCcccCCC--cceEEEeccC-CcccCChhhccchhhhceecccccchhhcChHhhhh
Confidence            3444444443322  2233456666655432  3466889999 7888876 478999999999999999976 788999


Q ss_pred             CccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhH
Q 039519          464 LVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQAL  543 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l  543 (647)
                      +++|..|-+.++++++.+|.+.|+.|.+|+.|.+.-+..+-              .....|..|++|..|.+..|.+..+
T Consensus       114 L~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~C--------------ir~~al~dL~~l~lLslyDn~~q~i  179 (498)
T KOG4237|consen  114 LASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNANHINC--------------IRQDALRDLPSLSLLSLYDNKIQSI  179 (498)
T ss_pred             hHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhcc--------------hhHHHHHHhhhcchhcccchhhhhh
Confidence            99998888888669999999999999999988665443321              1222233444444444432222111


Q ss_pred             HHHhhhhhhhhccceeeeec------c-----------------------------------------CCCceE------
Q 039519          544 QELLISQELQRCTQFLFLRC------F-----------------------------------------NDSKSL------  570 (647)
Q Consensus       544 ~~l~~~~~~~~~l~~l~L~~------~-----------------------------------------~~L~~L------  570 (647)
                      .+-.  ...+..++.+++..      |                                         ..++++      
T Consensus       180 ~~~t--f~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~  257 (498)
T KOG4237|consen  180 CKGT--FQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSS  257 (498)
T ss_pred             cccc--ccchhccchHhhhcCccccccccchhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhcc
Confidence            1000  00000011111000      0                                         001111      


Q ss_pred             --------EEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCCCcc
Q 039519          571 --------DIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHP  641 (647)
Q Consensus       571 --------~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~  641 (647)
                              +..||..+++|+.|+|++|.....-+ ||..+..++.|.|..  |.+....-..+.++..|+.|....+++-
T Consensus       258 ~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~--N~l~~v~~~~f~~ls~L~tL~L~~N~it  335 (498)
T KOG4237|consen  258 EDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTR--NKLEFVSSGMFQGLSGLKTLSLYDNQIT  335 (498)
T ss_pred             ccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCc--chHHHHHHHhhhccccceeeeecCCeeE
Confidence                    11238899999999999997766655 688889999999988  4566666667888888888776666543

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

Probab=99.01  E-value=1.3e-11  Score=126.70  Aligned_cols=193  Identities=21%  Similarity=0.205  Sum_probs=152.9

Q ss_pred             cccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeec
Q 039519          394 WRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ  473 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~  473 (647)
                      +......+++.|.+..+|.....+.+|..+.|+.| .+..+|..+++|..|.+|+|+.|.++.+|..+..|+ |+.|.++
T Consensus        74 ltdt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n-~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~s  151 (722)
T KOG0532|consen   74 LTDTVFADLSRNRFSELPEEACAFVSLESLILYHN-CIRTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVS  151 (722)
T ss_pred             ccchhhhhccccccccCchHHHHHHHHHHHHHHhc-cceecchhhhhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEe
Confidence            44566788999999999988777788899999999 888999999999999999999999999999998885 9999999


Q ss_pred             ccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhh
Q 039519          474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQ  553 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~  553 (647)
                      +| +++.+|.. ++.+..|..|+.   +.|++.+            .+..++++.+|+.|.+..|.+..+   +..... 
T Consensus       152 NN-kl~~lp~~-ig~~~tl~~ld~---s~nei~s------------lpsql~~l~slr~l~vrRn~l~~l---p~El~~-  210 (722)
T KOG0532|consen  152 NN-KLTSLPEE-IGLLPTLAHLDV---SKNEIQS------------LPSQLGYLTSLRDLNVRRNHLEDL---PEELCS-  210 (722)
T ss_pred             cC-ccccCCcc-cccchhHHHhhh---hhhhhhh------------chHHhhhHHHHHHHHHhhhhhhhC---CHHHhC-
Confidence            88 88999998 887777777644   4566544            445578888899888886654443   222221 


Q ss_pred             hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh----hccccCCceEEeecc
Q 039519          554 RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM----IIQRSSLSVHNLFIN  612 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~----~~~l~~L~~L~L~~~  612 (647)
                      -.|..|++++ +++.++++ +|..++.|++|.|.+|+ ++.||.    -|...-.|+|+...|
T Consensus       211 LpLi~lDfSc-Nkis~iPv-~fr~m~~Lq~l~LenNP-LqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  211 LPLIRLDFSC-NKISYLPV-DFRKMRHLQVLQLENNP-LQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             Cceeeeeccc-Cceeecch-hhhhhhhheeeeeccCC-CCCChHHHHhccceeeeeeecchhc
Confidence            1467888874 88888886 59999999999999986 567774    256667899999887

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

Probab=99.01  E-value=2.1e-10  Score=118.32  Aligned_cols=38  Identities=29%  Similarity=0.285  Sum_probs=16.2

Q ss_pred             cccccCCCeeeecCCCCC-ccccchhcCcc---CcEEeeccc
Q 039519          438 ISTLVSLEHLDLSSTAIT-HLPIDLQKLVN---LKCLNLQYM  475 (647)
Q Consensus       438 ~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~---L~~L~l~~~  475 (647)
                      +..+++|++|++++|.+. ..+..+..+.+   |++|++++|
T Consensus        77 l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~  118 (319)
T cd00116          77 LTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNN  118 (319)
T ss_pred             HHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCC
Confidence            334445555555544443 22233333332   555555444

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).

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

Probab=98.96  E-value=4.3e-10  Score=102.81  Aligned_cols=138  Identities=24%  Similarity=0.328  Sum_probs=47.8

Q ss_pred             cccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccch-hc
Q 039519          385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDL-QK  463 (647)
Q Consensus       385 ~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~-~~  463 (647)
                      ++..+...++.+++.|+|.+|.|+.+...-..+++|+.|++++| .+.+++ .+..|++|++|++++|.|+.+++.+ ..
T Consensus         9 i~~~~~~~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N-~I~~l~-~l~~L~~L~~L~L~~N~I~~i~~~l~~~   86 (175)
T PF14580_consen    9 IEQIAQYNNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNN-QITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKN   86 (175)
T ss_dssp             ---------------------------S--TT-TT--EEE-TTS---S--T-T----TT--EEE--SS---S-CHHHHHH
T ss_pred             cccccccccccccccccccccccccccchhhhhcCCCEEECCCC-CCcccc-CccChhhhhhcccCCCCCCccccchHHh
Confidence            44456666677889999999998877543235778899999999 787876 6888899999999999999887555 46


Q ss_pred             CccCcEEeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          464 LVNLKCLNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      +++|++|++++| .+..+.. ..++.+++|+.|++.   +|.+...        ......-+..+++|+.|+-.
T Consensus        87 lp~L~~L~L~~N-~I~~l~~l~~L~~l~~L~~L~L~---~NPv~~~--------~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   87 LPNLQELYLSNN-KISDLNELEPLSSLPKLRVLSLE---GNPVCEK--------KNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             -TT--EEE-TTS----SCCCCGGGGG-TT--EEE-T---T-GGGGS--------TTHHHHHHHH-TT-SEETTE
T ss_pred             CCcCCEEECcCC-cCCChHHhHHHHcCCCcceeecc---CCcccch--------hhHHHHHHHHcChhheeCCE
Confidence            889999999887 5655543 114556666666555   3444221        22233446667777777654

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

Probab=98.91  E-value=1.2e-09  Score=112.65  Aligned_cols=207  Identities=18%  Similarity=0.116  Sum_probs=115.1

Q ss_pred             ccccEEEEEeecccccc-------cccCCCCcceeeEEeccCccccccCccccccccC---CCeeeecCCCCC-----cc
Q 039519          393 NWRNVRRMSLMKNKIEN-------LSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS---LEHLDLSSTAIT-----HL  457 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~-------l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~---L~~L~L~~~~l~-----~l  457 (647)
                      ..++++.+.+.++.+..       ++..+..+++|+.|++++|......+..+..+.+   |++|++++|.+.     .+
T Consensus        49 ~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l  128 (319)
T cd00116          49 PQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLL  128 (319)
T ss_pred             hCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHH
Confidence            44557777777666552       2222345667888888877333344445555544   888888888776     22


Q ss_pred             ccchhcC-ccCcEEeecccccCC-----cCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCc
Q 039519          458 PIDLQKL-VNLKCLNLQYMYNLN-----QFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM  531 (647)
Q Consensus       458 p~~~~~l-~~L~~L~l~~~~~l~-----~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~  531 (647)
                      ...+..+ ++|+.|++++| .+.     .++.. +..+++|++|++.++..   ..       .........+..+++|+
T Consensus       129 ~~~l~~~~~~L~~L~L~~n-~l~~~~~~~~~~~-~~~~~~L~~L~l~~n~l---~~-------~~~~~l~~~l~~~~~L~  196 (319)
T cd00116         129 AKGLKDLPPALEKLVLGRN-RLEGASCEALAKA-LRANRDLKELNLANNGI---GD-------AGIRALAEGLKANCNLE  196 (319)
T ss_pred             HHHHHhCCCCceEEEcCCC-cCCchHHHHHHHH-HHhCCCcCEEECcCCCC---ch-------HHHHHHHHHHHhCCCCC
Confidence            3345566 77888888887 333     22332 45566777776665332   10       00112233455567788


Q ss_pred             EEEEEecchhhH--HHHhhhhhhhhccceeeeeccCCCceEEEecc-----cccCCccEEEEcCCCCCC--C--C-hhhc
Q 039519          532 AVTITLKRLQAL--QELLISQELQRCTQFLFLRCFNDSKSLDIFCL-----ACLHNLNKLYVAGCKHLE--D--F-QMII  599 (647)
Q Consensus       532 ~L~l~~~~~~~l--~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~-----~~l~~L~~L~L~~~~~~~--~--~-~~~~  599 (647)
                      .|+++.+.++..  ..+.......++|+.|+++++ .+....+..+     ...+.|++|++++|....  .  + ..+.
T Consensus       197 ~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n-~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~  275 (319)
T cd00116         197 VLDLNNNGLTDEGASALAETLASLKSLEVLNLGDN-NLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLA  275 (319)
T ss_pred             EEeccCCccChHHHHHHHHHhcccCCCCEEecCCC-cCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHh
Confidence            888876665422  222222223345666666653 2332111111     124789999999886531  1  1 1245


Q ss_pred             cccCCceEEeecc
Q 039519          600 QRSSLSVHNLFIN  612 (647)
Q Consensus       600 ~l~~L~~L~L~~~  612 (647)
                      .+++|++|++++|
T Consensus       276 ~~~~L~~l~l~~N  288 (319)
T cd00116         276 EKESLLELDLRGN  288 (319)
T ss_pred             cCCCccEEECCCC
Confidence            6678999999885

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).

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

Probab=98.80  E-value=4.1e-09  Score=112.09  Aligned_cols=108  Identities=28%  Similarity=0.383  Sum_probs=82.2

Q ss_pred             CccccccccEEEEEeecccccccccCCCCcc-eeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCcc
Q 039519          388 APEIQNWRNVRRMSLMKNKIENLSELQPALT-FFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVN  466 (647)
Q Consensus       388 ~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~-~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~  466 (647)
                      .......+.+..|++.+|.+..++.....++ +|+.|++++| .+..+|..+..+++|+.|++++|.+..+|...+.+++
T Consensus       109 ~~~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~  187 (394)
T COG4886         109 ISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSN  187 (394)
T ss_pred             chhhhcccceeEEecCCcccccCccccccchhhccccccccc-chhhhhhhhhccccccccccCCchhhhhhhhhhhhhh
Confidence            3344445678888888888888887766664 8888888888 7777777788888888888888888888877768888


Q ss_pred             CcEEeecccccCCcCchhhhcCCCCCcEEecc
Q 039519          467 LKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       467 L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~  498 (647)
                      |+.|++++| .+..+|.. ++....|++|.+.
T Consensus       188 L~~L~ls~N-~i~~l~~~-~~~~~~L~~l~~~  217 (394)
T COG4886         188 LNNLDLSGN-KISDLPPE-IELLSALEELDLS  217 (394)
T ss_pred             hhheeccCC-ccccCchh-hhhhhhhhhhhhc
Confidence            888888887 77888874 4555567777554

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

Probab=98.77  E-value=2.4e-09  Score=97.88  Aligned_cols=123  Identities=25%  Similarity=0.283  Sum_probs=43.8

Q ss_pred             eecccccccccCCCCcceeeEEeccCccccccCccccc-cccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCc
Q 039519          402 LMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGIS-TLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQ  480 (647)
Q Consensus       402 l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~-~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~  480 (647)
                      +..+.|+..+.. -+...++.|+|++| .+..+. .++ .+.+|+.|++++|.|+.++ .+..+++|++|++++| .+.+
T Consensus         4 lt~~~i~~~~~~-~n~~~~~~L~L~~n-~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N-~I~~   78 (175)
T PF14580_consen    4 LTANMIEQIAQY-NNPVKLRELNLRGN-QISTIE-NLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNN-RISS   78 (175)
T ss_dssp             -----------------------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--SS----S
T ss_pred             cccccccccccc-cccccccccccccc-cccccc-chhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCC-CCCc
Confidence            344455555443 34456899999999 777764 666 6889999999999999987 6888999999999999 8899


Q ss_pred             CchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          481 FPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       481 lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      ++.++...+++|++|++.+   |++..          ...+..|+.+++|+.|++.+|.+..
T Consensus        79 i~~~l~~~lp~L~~L~L~~---N~I~~----------l~~l~~L~~l~~L~~L~L~~NPv~~  127 (175)
T PF14580_consen   79 ISEGLDKNLPNLQELYLSN---NKISD----------LNELEPLSSLPKLRVLSLEGNPVCE  127 (175)
T ss_dssp             -CHHHHHH-TT--EEE-TT---S---S----------CCCCGGGGG-TT--EEE-TT-GGGG
T ss_pred             cccchHHhCCcCCEEECcC---CcCCC----------hHHhHHHHcCCCcceeeccCCcccc
Confidence            9776335689999997764   55522          2334568889999999999887753

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.75  E-value=7.9e-09  Score=117.72  Aligned_cols=242  Identities=20%  Similarity=0.193  Sum_probs=148.1

Q ss_pred             cccCcc--ccccccEEEEEeecc-cccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCC-CCccccc
Q 039519          385 LTEAPE--IQNWRNVRRMSLMKN-KIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTA-ITHLPID  460 (647)
Q Consensus       385 ~~~~~~--~~~~~~l~~L~l~~n-~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~-l~~lp~~  460 (647)
                      +...+.  |..++.|++|+|++| .+.++|..+++|-+||||+++++ .+..+|.++++|..|.+|++..+. +..+|..
T Consensus       559 l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t-~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i  637 (889)
T KOG4658|consen  559 LLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDT-GISHLPSGLGNLKKLIYLNLEVTGRLESIPGI  637 (889)
T ss_pred             hhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCC-CccccchHHHHHHhhheeccccccccccccch
Confidence            444444  777999999999966 56889999999999999999999 899999999999999999999985 4455655


Q ss_pred             hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcc---cccc---------ccc--ccCCccccHHHhhC
Q 039519          461 LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKI---ERLK---------SNV--LFGGHQVLVEELIG  526 (647)
Q Consensus       461 ~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~---~~~~---------~~~--~~~~~~~~~~~l~~  526 (647)
                      ...|++|++|.+....  ........+.+.+|++|....+.....   ..+-         ...  ........+..+..
T Consensus       638 ~~~L~~Lr~L~l~~s~--~~~~~~~l~el~~Le~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~~~  715 (889)
T KOG4658|consen  638 LLELQSLRVLRLPRSA--LSNDKLLLKELENLEHLENLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCSKRTLISSLGS  715 (889)
T ss_pred             hhhcccccEEEeeccc--cccchhhHHhhhcccchhhheeecchhHhHhhhhhhHHHHHHhHhhhhcccccceeeccccc
Confidence            5669999999997742  222222245555565555444332111   0000         000  11122344455677


Q ss_pred             CCCCcEEEEEecchhhHHH--Hhhhhhh--hhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccc
Q 039519          527 MKYLMAVTITLKRLQALQE--LLISQEL--QRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQR  601 (647)
Q Consensus       527 l~~L~~L~l~~~~~~~l~~--l~~~~~~--~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l  601 (647)
                      +.+|+.|.+..........  .......  ..++..+...+|..++.+..  ..-.++|+.|.+..|.....+.+ ...+
T Consensus       716 l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~--~~f~~~L~~l~l~~~~~~e~~i~~~k~~  793 (889)
T KOG4658|consen  716 LGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTW--LLFAPHLTSLSLVSCRLLEDIIPKLKAL  793 (889)
T ss_pred             ccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccch--hhccCcccEEEEecccccccCCCHHHHh
Confidence            7888888888555432211  0000000  11233334444555555442  24578999999999987776654 5556


Q ss_pred             cCCceEEeeccccccccc-chhhhhhhcCCCCc
Q 039519          602 SSLSVHNLFINKNYIHTN-QLSILLGINRLPHF  633 (647)
Q Consensus       602 ~~L~~L~L~~~~~~~~~~-~~~~l~~l~~L~~L  633 (647)
                      ..++.+-+..+ + +... .+..+++++++..+
T Consensus       794 ~~l~~~i~~f~-~-~~~l~~~~~l~~l~~i~~~  824 (889)
T KOG4658|consen  794 LELKELILPFN-K-LEGLRMLCSLGGLPQLYWL  824 (889)
T ss_pred             hhcccEEeccc-c-cccceeeecCCCCceeEec
Confidence            66665555442 1 2222 34444555544443

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

Probab=98.72  E-value=3.1e-09  Score=106.36  Aligned_cols=105  Identities=26%  Similarity=0.291  Sum_probs=67.7

Q ss_pred             cccccEEEEEeeccccccccc--CCCCcceeeEEeccCccccccCc---cccccccCCCeeeecCCCCCccccch--hcC
Q 039519          392 QNWRNVRRMSLMKNKIENLSE--LQPALTFFLFFNMSNNHLLWKLP---LGISTLVSLEHLDLSSTAITHLPIDL--QKL  464 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~l~~--~~~~l~~L~~L~l~~~~~~~~lp---~~~~~L~~L~~L~L~~~~l~~lp~~~--~~l  464 (647)
                      +++++|+.+.|.++.+...+.  ....+++++.|||+.| .++..-   .-...|++|+.|+|+.|++....++.  .-+
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l  196 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLL  196 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccccccCCccccchhhh
Confidence            456788888898887776553  3477788899999988 555432   22467888999999888776444322  246


Q ss_pred             ccCcEEeecccccCC--cCchhhhcCCCCCcEEeccc
Q 039519          465 VNLKCLNLQYMYNLN--QFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       465 ~~L~~L~l~~~~~l~--~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +.|+.|.|++| .+.  .+-. ....+++|+.|.+..
T Consensus       197 ~~lK~L~l~~C-Gls~k~V~~-~~~~fPsl~~L~L~~  231 (505)
T KOG3207|consen  197 SHLKQLVLNSC-GLSWKDVQW-ILLTFPSLEVLYLEA  231 (505)
T ss_pred             hhhheEEeccC-CCCHHHHHH-HHHhCCcHHHhhhhc
Confidence            67788888887 332  1111 123455666664443

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

Probab=98.64  E-value=9.4e-09  Score=97.90  Aligned_cols=135  Identities=19%  Similarity=0.216  Sum_probs=68.9

Q ss_pred             cccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccc
Q 039519          440 TLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQV  519 (647)
Q Consensus       440 ~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~  519 (647)
                      .++.|+.+||++|.|+++-+++.-+|.++.|++++| .+..+..  +..+.+|++|++++   |.+.++.          
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N-~i~~v~n--La~L~~L~~LDLS~---N~Ls~~~----------  345 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQN-RIRTVQN--LAELPQLQLLDLSG---NLLAECV----------  345 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEecccc-ceeeehh--hhhcccceEeeccc---chhHhhh----------
Confidence            345566666666666666555555566666666665 4444443  44555555554432   3321110          


Q ss_pred             cHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEE-EecccccCCccEEEEcCCCCCCCChh
Q 039519          520 LVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLD-IFCLACLHNLNKLYVAGCKHLEDFQM  597 (647)
Q Consensus       520 ~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~-l~~~~~l~~L~~L~L~~~~~~~~~~~  597 (647)
                        ..-..|.+.++|.+..|.+..+..+.    .+-+|..|++++ ++++.++ ...+++++.|+.|.|.+|+..+.+.+
T Consensus       346 --Gwh~KLGNIKtL~La~N~iE~LSGL~----KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~vdY  417 (490)
T KOG1259|consen  346 --GWHLKLGNIKTLKLAQNKIETLSGLR----KLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRLTGNPLAGSVDY  417 (490)
T ss_pred             --hhHhhhcCEeeeehhhhhHhhhhhhH----hhhhheeccccc-cchhhHHHhcccccccHHHHHhhcCCCccccchH
Confidence              00112344555555544443332221    122344444444 3444433 23477888888888888887666653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.61  E-value=1.2e-06  Score=103.80  Aligned_cols=267  Identities=15%  Similarity=0.157  Sum_probs=149.9

Q ss_pred             CCCCCCCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC------CCCcceEEEEEEcC-ccCHHHHHHHHHHHhCCC
Q 039519           71 DQRPCEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA------PNDFDVVIWMVVSK-DLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        71 ~~~~~~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT------~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~  143 (647)
                      +|+..+.+|-|+.-.+.+.+   ....+++.|+|++|.|||      ...++.++|+++.. ..+...+...++..+...
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~   85 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAGKNNLGWYSLDESDNQPERFASYLIAALQQA   85 (903)
T ss_pred             CCCCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHhCCCeEEEecCcccCCHHHHHHHHHHHHHHh
Confidence            34444667888765554432   135789999999999999      23344799999864 446666777777766421


Q ss_pred             CcC-----------CCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCccc---cccccCCCCCCCCCcEEEEecCchHHh
Q 039519          144 DES-----------WKNGSLEDKASDIFRILS--KKKLLLLLDDIWERVD---LTKVGVPFPDPENKSRIDFTTRFLEIC  207 (647)
Q Consensus       144 ~~~-----------~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~~~---~~~l~~~~~~~~~gs~IivTTR~~~v~  207 (647)
                      ...           ....+.......+-..+.  +.+++|||||+...+.   .+.+...++....+.++|||||...-.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~  165 (903)
T PRK04841         86 TNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPL  165 (903)
T ss_pred             cCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCC
Confidence            110           011122233333333332  6899999999976432   122222223334567888999974211


Q ss_pred             h--hcc-cceeEecc------------cccc---CCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHH
Q 039519          208 S--AMQ-AHEFLKVE------------DVLK---NHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVL  269 (647)
Q Consensus       208 ~--~~~-~~~~~~~~------------~~~~---~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l  269 (647)
                      .  .+. ......+.            ..+.   ...--.+.+.++.+.|+|.|+++..++..+......  -......+
T Consensus       166 ~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~--~~~~~~~~  243 (903)
T PRK04841        166 GIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPIEAAESSRLCDDVEGWATALQLIALSARQNNSS--LHDSARRL  243 (903)
T ss_pred             chHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCCCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc--hhhhhHhh
Confidence            1  110 11112220            0010   112234567889999999999999998877542110  00101111


Q ss_pred             hhcccCCCCC-CcchhhHHHH-hhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHH
Q 039519          270 RISASEFPGM-GKEVYPLLKY-SYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIG  347 (647)
Q Consensus       270 ~~~~~~~~~~-~~~i~~~l~~-sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~  347 (647)
                             ... ...+...+.- -++.||+ ..+.+++..|+++   .++.. +...-     ..       .+.+.+.++
T Consensus       244 -------~~~~~~~~~~~l~~~v~~~l~~-~~~~~l~~~a~~~---~~~~~-l~~~l-----~~-------~~~~~~~L~  299 (903)
T PRK04841        244 -------AGINASHLSDYLVEEVLDNVDL-ETRHFLLRCSVLR---SMNDA-LIVRV-----TG-------EENGQMRLE  299 (903)
T ss_pred             -------cCCCchhHHHHHHHHHHhcCCH-HHHHHHHHhcccc---cCCHH-HHHHH-----cC-------CCcHHHHHH
Confidence                   110 1245554433 4789999 8999999999987   33322 22211     11       122467799


Q ss_pred             HHHHhcccc-cc--CCCeeEEe
Q 039519          348 ILLHACLLE-EE--WGDIGEEE  366 (647)
Q Consensus       348 ~L~~~~ll~-~~--~~~~~~mh  366 (647)
                      +|.+.+++. +.  ....|+.|
T Consensus       300 ~l~~~~l~~~~~~~~~~~yr~H  321 (903)
T PRK04841        300 ELERQGLFIQRMDDSGEWFRYH  321 (903)
T ss_pred             HHHHCCCeeEeecCCCCEEehh
Confidence            999999864 32  23468889

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.54  E-value=5.6e-06  Score=87.98  Aligned_cols=103  Identities=19%  Similarity=0.122  Sum_probs=73.5

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC----------CCC--cceEEEEEEcCccCHHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA----------PND--FDVVIWMVVSKDLQLEKIQERIGRR  139 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT----------~~~--F~~~~wv~~s~~~~~~~~~~~i~~~  139 (647)
                      +.++||++++++|...+..    .....+.|+|.+|+|||          ...  .-..++|......+...++..++.+
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~  109 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQ  109 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHH
Confidence            5689999999999998853    34456789999999999          111  1234555555556778899999999


Q ss_pred             hCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCc
Q 039519          140 IGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWER  178 (647)
Q Consensus       140 l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~  178 (647)
                      +..........+.++....+.+.+.  ++..+||||+++..
T Consensus       110 l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l  150 (394)
T PRK00411        110 LFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYL  150 (394)
T ss_pred             hcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHh
Confidence            8652211123356677777888775  35689999999863

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

Probab=98.53  E-value=6.1e-08  Score=103.10  Aligned_cols=190  Identities=25%  Similarity=0.308  Sum_probs=135.5

Q ss_pred             EEEeecccccccccCCCCcceeeEEeccCccccccCcccccccc-CCCeeeecCCCCCccccchhcCccCcEEeeccccc
Q 039519          399 RMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLV-SLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYN  477 (647)
Q Consensus       399 ~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~-~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~  477 (647)
                      .+.+..+.+..-......++.+..|++.+| .+..+|+..+.+. +|+.|++++|.+..+|..++.+++|+.|++++| .
T Consensus        97 ~l~~~~~~~~~~~~~~~~~~~l~~L~l~~n-~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N-~  174 (394)
T COG4886          97 SLDLNLNRLRSNISELLELTNLTSLDLDNN-NITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFN-D  174 (394)
T ss_pred             eeeccccccccCchhhhcccceeEEecCCc-ccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCc-h
Confidence            567777776443334456678999999999 8889998888885 999999999999999988999999999999999 8


Q ss_pred             CCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecc-hhhHHHHhhhhhhhhcc
Q 039519          478 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKR-LQALQELLISQELQRCT  556 (647)
Q Consensus       478 l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~l~~l~~~~~~~~~l  556 (647)
                      +..+|.. .+.+.+|+.|++.   .|++..+|..            ...+..|.+|.+..|. ...+..    ......+
T Consensus       175 l~~l~~~-~~~~~~L~~L~ls---~N~i~~l~~~------------~~~~~~L~~l~~~~N~~~~~~~~----~~~~~~l  234 (394)
T COG4886         175 LSDLPKL-LSNLSNLNNLDLS---GNKISDLPPE------------IELLSALEELDLSNNSIIELLSS----LSNLKNL  234 (394)
T ss_pred             hhhhhhh-hhhhhhhhheecc---CCccccCchh------------hhhhhhhhhhhhcCCcceecchh----hhhcccc
Confidence            8999985 4578889888665   4666544432            2345567788887663 222221    2222234


Q ss_pred             ceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccc
Q 039519          557 QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK  613 (647)
Q Consensus       557 ~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~  613 (647)
                      ..+.+.+ +.+..+ ...++.+++|++|++++|. +..++.++.+.+|+.|+++++.
T Consensus       235 ~~l~l~~-n~~~~~-~~~~~~l~~l~~L~~s~n~-i~~i~~~~~~~~l~~L~~s~n~  288 (394)
T COG4886         235 SGLELSN-NKLEDL-PESIGNLSNLETLDLSNNQ-ISSISSLGSLTNLRELDLSGNS  288 (394)
T ss_pred             cccccCC-ceeeec-cchhccccccceecccccc-ccccccccccCccCEEeccCcc
Confidence            4444322 222221 2336788899999999985 4555558999999999999853

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

Probab=98.53  E-value=4.6e-09  Score=108.36  Aligned_cols=189  Identities=24%  Similarity=0.232  Sum_probs=142.4

Q ss_pred             EEEeecccccccccCC--CCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccc
Q 039519          399 RMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMY  476 (647)
Q Consensus       399 ~L~l~~n~i~~l~~~~--~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~  476 (647)
                      +|.|++..+..+|..-  ..++--...|++.| ....+|..++.+..|+.|.|..|.+..+|..++++..|.+|+|+.| 
T Consensus        54 ~l~Ls~rrlk~fpr~a~~~~ltdt~~aDlsrN-R~~elp~~~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~N-  131 (722)
T KOG0532|consen   54 RLLLSGRRLKEFPRGAASYDLTDTVFADLSRN-RFSELPEEACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSSN-  131 (722)
T ss_pred             ccccccchhhcCCCccccccccchhhhhcccc-ccccCchHHHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhccc-
Confidence            3556666666666543  45555667899999 7889999999999999999999999999999999999999999998 


Q ss_pred             cCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhcc
Q 039519          477 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCT  556 (647)
Q Consensus       477 ~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l  556 (647)
                      .+..+|.. +..+ -|+.|-++   +|++            ...+.+++.+..|..|+.+.|.+..   ++.....+.+|
T Consensus       132 qlS~lp~~-lC~l-pLkvli~s---NNkl------------~~lp~~ig~~~tl~~ld~s~nei~s---lpsql~~l~sl  191 (722)
T KOG0532|consen  132 QLSHLPDG-LCDL-PLKVLIVS---NNKL------------TSLPEEIGLLPTLAHLDVSKNEIQS---LPSQLGYLTSL  191 (722)
T ss_pred             hhhcCChh-hhcC-cceeEEEe---cCcc------------ccCCcccccchhHHHhhhhhhhhhh---chHHhhhHHHH
Confidence            78999997 5444 46766544   4655            4445556777788888888665544   45666667778


Q ss_pred             ceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeeccc
Q 039519          557 QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINK  613 (647)
Q Consensus       557 ~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~  613 (647)
                      +.|.+.. +++.+|.-. +. --.|..|+++.|+ +..+| .|..|..|++|.|.+|+
T Consensus       192 r~l~vrR-n~l~~lp~E-l~-~LpLi~lDfScNk-is~iPv~fr~m~~Lq~l~LenNP  245 (722)
T KOG0532|consen  192 RDLNVRR-NHLEDLPEE-LC-SLPLIRLDFSCNK-ISYLPVDFRKMRHLQVLQLENNP  245 (722)
T ss_pred             HHHHHhh-hhhhhCCHH-Hh-CCceeeeecccCc-eeecchhhhhhhhheeeeeccCC
Confidence            8777776 666666521 22 3358899998774 55555 69999999999999976

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

Probab=98.51  E-value=8.4e-09  Score=98.25  Aligned_cols=134  Identities=21%  Similarity=0.246  Sum_probs=97.0

Q ss_pred             cccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEe
Q 039519          392 QNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLN  471 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  471 (647)
                      ..|+.|+.++|++|.|..+..+..-++.+++|++|+| .+..+. ++..|++|+.|||++|.++++-..-.++-|.++|.
T Consensus       281 dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N-~i~~v~-nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  281 DTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQN-RIRTVQ-NLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             chHhhhhhccccccchhhhhhhhhhccceeEEecccc-ceeeeh-hhhhcccceEeecccchhHhhhhhHhhhcCEeeee
Confidence            4567788888998888888777555588888999988 565554 47788888888998888887654445677788888


Q ss_pred             ecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhH
Q 039519          472 LQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQAL  543 (647)
Q Consensus       472 l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l  543 (647)
                      |++| .+..+..  ++++-+|..|++.   .|++.++          .....+++|++|+.+.+..|.+..+
T Consensus       359 La~N-~iE~LSG--L~KLYSLvnLDl~---~N~Ie~l----------deV~~IG~LPCLE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  359 LAQN-KIETLSG--LRKLYSLVNLDLS---SNQIEEL----------DEVNHIGNLPCLETLRLTGNPLAGS  414 (490)
T ss_pred             hhhh-hHhhhhh--hHhhhhheecccc---ccchhhH----------HHhcccccccHHHHHhhcCCCcccc
Confidence            8887 6677765  6777777777555   3554222          2334477888888888887776554

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

Probab=98.46  E-value=1.8e-08  Score=101.09  Aligned_cols=187  Identities=16%  Similarity=0.114  Sum_probs=111.9

Q ss_pred             cccccccEEEEEeeccccccccc---CCCCcceeeEEeccCccccccCccc--cccccCCCeeeecCCCCC--ccccchh
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSE---LQPALTFFLFFNMSNNHLLWKLPLG--ISTLVSLEHLDLSSTAIT--HLPIDLQ  462 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~---~~~~l~~L~~L~l~~~~~~~~lp~~--~~~L~~L~~L~L~~~~l~--~lp~~~~  462 (647)
                      ....+++++.|+|+.|-+.++-.   ....|++|+.|+++.| .+.....+  -..+.+|+.|.|+.|+++  .+-....
T Consensus       141 ~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~N-rl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~  219 (505)
T KOG3207|consen  141 YSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSN-RLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILL  219 (505)
T ss_pred             hhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccc-cccCCccccchhhhhhhheEEeccCCCCHHHHHHHHH
Confidence            34567899999999987765322   2377888999999998 44322222  246788999999999888  2323345


Q ss_pred             cCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          463 KLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       463 ~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      .+|+|..|+|.+|..+..-... ..-++.|+.|++.   .|++-.+          ......+.++.|+.|+++.+++..
T Consensus       220 ~fPsl~~L~L~~N~~~~~~~~~-~~i~~~L~~LdLs---~N~li~~----------~~~~~~~~l~~L~~Lnls~tgi~s  285 (505)
T KOG3207|consen  220 TFPSLEVLYLEANEIILIKATS-TKILQTLQELDLS---NNNLIDF----------DQGYKVGTLPGLNQLNLSSTGIAS  285 (505)
T ss_pred             hCCcHHHhhhhcccccceecch-hhhhhHHhhcccc---CCccccc----------ccccccccccchhhhhccccCcch
Confidence            6889999999988422211111 2335556666554   4554222          122335667777777777555544


Q ss_pred             HHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCC--CChhhccccCCceEEeecc
Q 039519          543 LQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE--DFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       543 l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~--~~~~~~~l~~L~~L~L~~~  612 (647)
                      +...+                +..+..     ...+++|++|++..|+...  .+-.+..+++|+.|.+..|
T Consensus       286 i~~~d----------------~~s~~k-----t~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n  336 (505)
T KOG3207|consen  286 IAEPD----------------VESLDK-----THTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLN  336 (505)
T ss_pred             hcCCC----------------ccchhh-----hcccccceeeecccCccccccccchhhccchhhhhhcccc
Confidence            32111                111111     2457788888888876522  2223566677777776653

>PLN03150 hypothetical protein; Provisional

Probab=98.38  E-value=5.8e-07  Score=100.41  Aligned_cols=102  Identities=21%  Similarity=0.296  Sum_probs=77.0

Q ss_pred             cEEEEEeecccccc-cccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcCccCcEEeec
Q 039519          396 NVRRMSLMKNKIEN-LSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQ  473 (647)
Q Consensus       396 ~l~~L~l~~n~i~~-l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l~  473 (647)
                      .++.|+|.+|.+.. +|..+.++++|+.|+|++|...+.+|..++.+++|++|+|++|.++ .+|..++++++|++|+|+
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            47778888888765 6666778888888888888555678888888888888888888887 778888888888888888


Q ss_pred             ccccCCcCchhhhcC-CCCCcEEecc
Q 039519          474 YMYNLNQFPRLVISA-FSKLQVLRMF  498 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~-l~~L~~L~l~  498 (647)
                      +|.....+|.. ++. ..++..+++.
T Consensus       499 ~N~l~g~iP~~-l~~~~~~~~~l~~~  523 (623)
T PLN03150        499 GNSLSGRVPAA-LGGRLLHRASFNFT  523 (623)
T ss_pred             CCcccccCChH-HhhccccCceEEec
Confidence            88655677876 443 3345555444

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.33  E-value=7.5e-05  Score=78.51  Aligned_cols=102  Identities=14%  Similarity=0.157  Sum_probs=72.2

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC----------CCCc------ceEEEEEEcCccCHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA----------PNDF------DVVIWMVVSKDLQLEKIQER  135 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT----------~~~F------~~~~wv~~s~~~~~~~~~~~  135 (647)
                      +.++||++++++|...+..    .....+.|+|++|+|||          ....      -..+|+......+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            5689999999999998874    34567899999999999          1111      13566776666677889999


Q ss_pred             HHHHhC---CCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCc
Q 039519          136 IGRRIG---FLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWER  178 (647)
Q Consensus       136 i~~~l~---~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~  178 (647)
                      |+.++.   .... ....+..+....+.+.+.  +++++||||+++.-
T Consensus        95 i~~~l~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L  141 (365)
T TIGR02928        95 LANQLRGSGEEVP-TTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL  141 (365)
T ss_pred             HHHHHhhcCCCCC-CCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence            999883   2211 122345556666666664  56789999999875

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

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

Probab=98.28  E-value=1.2e-07  Score=90.64  Aligned_cols=179  Identities=18%  Similarity=0.110  Sum_probs=108.0

Q ss_pred             ceeeEEeccCccccc--cCccccccccCCCeeeecCCCCC-ccccchhcCccCcEEeecccccCCcCchh-hhcCCCCCc
Q 039519          418 TFFLFFNMSNNHLLW--KLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNLNQFPRL-VISAFSKLQ  493 (647)
Q Consensus       418 ~~L~~L~l~~~~~~~--~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~-~i~~l~~L~  493 (647)
                      +.|++|||+.. .++  .+-.-++.+.+|+-|.|.++.+. .+-..+.+-.+|+.|+|+.|..+.+..-. +++.++.|.
T Consensus       185 sRlq~lDLS~s-~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~  263 (419)
T KOG2120|consen  185 SRLQHLDLSNS-VITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLD  263 (419)
T ss_pred             hhhHHhhcchh-heeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHh
Confidence            46888999987 332  23334567788888889988887 55566777888999999998655554432 356777888


Q ss_pred             EEeccccCCCcccccccccccCCccccHHHhhC-CCCCcEEEEEecchhhHH--HHhhhhhhhhccceeeeeccCCCceE
Q 039519          494 VLRMFDCGGSKIERLKSNVLFGGHQVLVEELIG-MKYLMAVTITLKRLQALQ--ELLISQELQRCTQFLFLRCFNDSKSL  570 (647)
Q Consensus       494 ~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~-l~~L~~L~l~~~~~~~l~--~l~~~~~~~~~l~~l~L~~~~~L~~L  570 (647)
                      .|+++-|....             ...--...+ -++|..|++++..- ++.  .+......-+++..|+|+.+..|+.-
T Consensus       264 ~LNlsWc~l~~-------------~~Vtv~V~hise~l~~LNlsG~rr-nl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~  329 (419)
T KOG2120|consen  264 ELNLSWCFLFT-------------EKVTVAVAHISETLTQLNLSGYRR-NLQKSHLSTLVRRCPNLVHLDLSDSVMLKND  329 (419)
T ss_pred             hcCchHhhccc-------------hhhhHHHhhhchhhhhhhhhhhHh-hhhhhHHHHHHHhCCceeeeccccccccCch
Confidence            88777664411             010011111 13566666663210 000  11111122234445555544433331


Q ss_pred             EEecccccCCccEEEEcCCCCCCCCh----hhccccCCceEEeeccc
Q 039519          571 DIFCLACLHNLNKLYVAGCKHLEDFQ----MIIQRSSLSVHNLFINK  613 (647)
Q Consensus       571 ~l~~~~~l~~L~~L~L~~~~~~~~~~----~~~~l~~L~~L~L~~~~  613 (647)
                      -+..|-.++.|++|.|+.|+.+  +|    -+...|.|.+|++.+|-
T Consensus       330 ~~~~~~kf~~L~~lSlsRCY~i--~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  330 CFQEFFKFNYLQHLSLSRCYDI--IPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             HHHHHHhcchheeeehhhhcCC--ChHHeeeeccCcceEEEEecccc
Confidence            1122788999999999999753  33    26889999999999973

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

Probab=98.27  E-value=1.7e-07  Score=99.89  Aligned_cols=97  Identities=27%  Similarity=0.347  Sum_probs=45.3

Q ss_pred             cEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeeccc
Q 039519          396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~  475 (647)
                      .+..+.+..|.+...-..+..+++|..|++.+| .+..+...+..+++|++|++++|.|+.+. .+..++.|+.|++++|
T Consensus        73 ~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n-~i~~i~~~l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l~~N  150 (414)
T KOG0531|consen   73 SLKELNLRQNLIAKILNHLSKLKSLEALDLYDN-KIEKIENLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNLSGN  150 (414)
T ss_pred             hHHhhccchhhhhhhhcccccccceeeeecccc-chhhcccchhhhhcchheecccccccccc-chhhccchhhheeccC
Confidence            333333444444443233344455555555555 44444322445555555555555555543 3444455555555555


Q ss_pred             ccCCcCchhhhcCCCCCcEEec
Q 039519          476 YNLNQFPRLVISAFSKLQVLRM  497 (647)
Q Consensus       476 ~~l~~lp~~~i~~l~~L~~L~l  497 (647)
                       .+..++.  +..+.+|+.+++
T Consensus       151 -~i~~~~~--~~~l~~L~~l~l  169 (414)
T KOG0531|consen  151 -LISDISG--LESLKSLKLLDL  169 (414)
T ss_pred             -cchhccC--CccchhhhcccC
Confidence             4444443  333444444433

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

Probab=98.20  E-value=2.2e-07  Score=99.09  Aligned_cols=105  Identities=29%  Similarity=0.430  Sum_probs=82.3

Q ss_pred             ccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEE
Q 039519          391 IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCL  470 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L  470 (647)
                      +..+.++..|++..|.|..+...+..+++|++|++++| .+.++. .+..+..|+.|++++|.|+.++ .+..+++|+.+
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N-~I~~i~-~l~~l~~L~~L~l~~N~i~~~~-~~~~l~~L~~l  167 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFN-KITKLE-GLSTLTLLKELNLSGNLISDIS-GLESLKSLKLL  167 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheecccc-cccccc-chhhccchhhheeccCcchhcc-CCccchhhhcc
Confidence            55667899999999999888775688899999999999 777775 6788888999999999998876 46668899999


Q ss_pred             eecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          471 NLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       471 ~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      ++++| .+..+.......+.+++.+.+.+
T Consensus       168 ~l~~n-~i~~ie~~~~~~~~~l~~l~l~~  195 (414)
T KOG0531|consen  168 DLSYN-RIVDIENDELSELISLEELDLGG  195 (414)
T ss_pred             cCCcc-hhhhhhhhhhhhccchHHHhccC
Confidence            99998 55666651025666777665554

>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=98.20  E-value=1.1e-06  Score=65.88  Aligned_cols=56  Identities=36%  Similarity=0.487  Sum_probs=37.1

Q ss_pred             eeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCccc-cchhcCccCcEEeeccc
Q 039519          419 FFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHLP-IDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       419 ~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~~  475 (647)
                      +|++|++++| .+..+|+ .|.++++|++|++++|.++.+| ..+.++++|++|++++|
T Consensus         2 ~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSS-TESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            4666777777 5556553 4566777777777777777665 35567777777777765

...

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

Probab=98.20  E-value=0.00011  Score=73.66  Aligned_cols=154  Identities=14%  Similarity=0.145  Sum_probs=86.1

Q ss_pred             CCceEEEEEccCccCCC-------C--CCcce-EEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHh-
Q 039519           95 EQVGIIGLYGMGGLLGA-------P--NDFDV-VIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRIL-  163 (647)
Q Consensus        95 ~~~~vi~I~G~gGiGKT-------~--~~F~~-~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-  163 (647)
                      .+..++.|+|.+|+|||       .  ..... .+|+ +....+..+++..|+..++...   ...+.......+.+.+ 
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~-~~~~~~~~~~l~~i~~~lG~~~---~~~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKL-VNTRVDAEDLLRMVAADFGLET---EGRDKAALLRELEDFLI  116 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeee-eCCCCCHHHHHHHHHHHcCCCC---CCCCHHHHHHHHHHHHH
Confidence            44568999999999999       1  11121 2233 3344577889999999887643   2223333333343332 


Q ss_pred             ----ccCCeeEEEecCCCcc--ccccccCCC---CCCCCCcEEEEecCchHHhhhccc----------ceeEec------
Q 039519          164 ----SKKKLLLLLDDIWERV--DLTKVGVPF---PDPENKSRIDFTTRFLEICSAMQA----------HEFLKV------  218 (647)
Q Consensus       164 ----~~~r~LlVlDdv~~~~--~~~~l~~~~---~~~~~gs~IivTTR~~~v~~~~~~----------~~~~~~------  218 (647)
                          .+++.++|+||++...  .++.+....   ........|++|.... ....+..          ...+.+      
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~  195 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDRE  195 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHH
Confidence                5788999999998743  344432211   1122233455555432 2211110          112222      


Q ss_pred             ----------cc-cccCCCCh-HHHHHHHHHHhcCCchhHHHHhhHh
Q 039519          219 ----------ED-VLKNHPNI-PELARSVAQECAGLPLALITIGRVM  253 (647)
Q Consensus       219 ----------~~-~~~~~~~~-~~~~~~i~~~c~glPLai~~~g~~l  253 (647)
                                .. .......+ ++..+.|++.++|.|..|..++..+
T Consensus       196 e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       196 ETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence                      00 00111223 5788999999999999998888776

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PLN03150 hypothetical protein; Provisional

Probab=98.17  E-value=4.6e-06  Score=93.28  Aligned_cols=80  Identities=25%  Similarity=0.403  Sum_probs=65.4

Q ss_pred             eeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEec
Q 039519          419 FFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM  497 (647)
Q Consensus       419 ~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l  497 (647)
                      .+..|+|++|...+.+|..++.|++|++|+|++|.+. .+|..++.+++|+.|+|++|.....+|.. ++.+++|+.|++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~-l~~L~~L~~L~L  497 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES-LGQLTSLRILNL  497 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchH-HhcCCCCCEEEC
Confidence            3677888888666678888888999999999999887 78888889999999999988555577876 788888888876


Q ss_pred             cc
Q 039519          498 FD  499 (647)
Q Consensus       498 ~~  499 (647)
                      .+
T Consensus       498 s~  499 (623)
T PLN03150        498 NG  499 (623)
T ss_pred             cC
Confidence            64

>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=98.11  E-value=3.1e-06  Score=63.36  Aligned_cols=59  Identities=29%  Similarity=0.381  Sum_probs=51.6

Q ss_pred             ccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCC
Q 039519          395 RNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l  454 (647)
                      ++|++|++.+|++..+|.. +.++++|++|++++| .+..+|+ .|.++++|++|++++|+|
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 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            4789999999999999875 488999999999999 6667664 689999999999999975

...

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

Probab=98.04  E-value=5.9e-06  Score=56.75  Aligned_cols=41  Identities=41%  Similarity=0.571  Sum_probs=27.8

Q ss_pred             cCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCch
Q 039519          442 VSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPR  483 (647)
Q Consensus       442 ~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~  483 (647)
                      ++|++|++++|+|+.+|..+++|++|++|++++| .+..++.
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBEGG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCCcC
Confidence            3677777777777777766777777777777777 5555554

...

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.04  E-value=8.5e-06  Score=79.63  Aligned_cols=34  Identities=26%  Similarity=0.303  Sum_probs=28.5

Q ss_pred             cccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      |+||++++++|.+.+..+....+.|+|..|+|||
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKT   34 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKT   34 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHH
Confidence            6899999999999998877889999999999999

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

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.03  E-value=3.6e-05  Score=79.39  Aligned_cols=252  Identities=15%  Similarity=0.121  Sum_probs=119.6

Q ss_pred             CCcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLD  144 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  144 (647)
                      ..|+|+++.++.+...+..     .....+.|+|++|+|||      .......+....+........+..++..+....
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~~  104 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTNLEEGD  104 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHHHHHHHhcccCC
Confidence            5689999999999887753     34567889999999999      111111111111111111122233333332110


Q ss_pred             ----cCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhccc--ceeEec
Q 039519          145 ----ESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQA--HEFLKV  218 (647)
Q Consensus       145 ----~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~~~--~~~~~~  218 (647)
                          +..+... ....+.+...+.+.+..+|+|+..+...+..   .++   ..+-|..||+...+...+..  ...+.+
T Consensus       105 vl~IDEi~~l~-~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~---~l~---~~~li~at~~~~~l~~~L~sRf~~~~~l  177 (328)
T PRK00080        105 VLFIDEIHRLS-PVVEEILYPAMEDFRLDIMIGKGPAARSIRL---DLP---PFTLIGATTRAGLLTSPLRDRFGIVQRL  177 (328)
T ss_pred             EEEEecHhhcc-hHHHHHHHHHHHhcceeeeeccCccccceee---cCC---CceEEeecCCcccCCHHHHHhcCeeeec
Confidence                0001001 1223345555666677777777655433221   111   24567777775444322110  112222


Q ss_pred             c------------cc--ccCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhcccCCC-CCCcch
Q 039519          219 E------------DV--LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFP-GMGKEV  283 (647)
Q Consensus       219 ~------------~~--~~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~~~~-~~~~~i  283 (647)
                      .            ..  .....--++.+..|++.|+|.|-.+..+...+      ..|....     ...... ..-...
T Consensus       178 ~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~------~~~a~~~-----~~~~I~~~~v~~~  246 (328)
T PRK00080        178 EFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRV------RDFAQVK-----GDGVITKEIADKA  246 (328)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHH------HHHHHHc-----CCCCCCHHHHHHH
Confidence            0            00  01112234678899999999994433333221      1221100     000000 000133


Q ss_pred             hhHHHHhhcCCCchhhhhHHh-hhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHH-HHHHhcccccc
Q 039519          284 YPLLKYSYDSLPDETIRSCLL-YCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIG-ILLHACLLEEE  358 (647)
Q Consensus       284 ~~~l~~sy~~L~~~~~k~~fl-~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~-~L~~~~ll~~~  358 (647)
                      ...+...+..|++ ..+..+. ....|..+ ++..+.+....   |        .....+++.++ .|++.+|++..
T Consensus       247 l~~~~~~~~~l~~-~~~~~l~~~~~~~~~~-~~~~~~~a~~l---g--------~~~~~~~~~~e~~Li~~~li~~~  310 (328)
T PRK00080        247 LDMLGVDELGLDE-MDRKYLRTIIEKFGGG-PVGLDTLAAAL---G--------EERDTIEDVYEPYLIQQGFIQRT  310 (328)
T ss_pred             HHHhCCCcCCCCH-HHHHHHHHHHHHcCCC-ceeHHHHHHHH---C--------CCcchHHHHhhHHHHHcCCcccC
Confidence            3445666778887 5555554 44555543 44444432221   1        11234445566 88999998754

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

Probab=98.02  E-value=5.4e-06  Score=81.40  Aligned_cols=92  Identities=18%  Similarity=0.188  Sum_probs=55.5

Q ss_pred             ccccccccEEEEEeecccccc-----cccCCCCcceeeEEeccCcccc----ccCccc-------cccccCCCeeeecCC
Q 039519          389 PEIQNWRNVRRMSLMKNKIEN-----LSELQPALTFFLFFNMSNNHLL----WKLPLG-------ISTLVSLEHLDLSST  452 (647)
Q Consensus       389 ~~~~~~~~l~~L~l~~n~i~~-----l~~~~~~l~~L~~L~l~~~~~~----~~lp~~-------~~~L~~L~~L~L~~~  452 (647)
                      +.......++.++|++|.|..     +...+.+.+.|+..++++- +.    ..+|+.       +-+.++|++|+||.|
T Consensus        24 ~~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~-ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDN  102 (382)
T KOG1909|consen   24 EELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDM-FTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDN  102 (382)
T ss_pred             HHhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhh-hcCCcHHHHHHHHHHHHHHHhcCCceeEeecccc
Confidence            344455678888888887643     2333355567777777764 22    223432       234567888888888


Q ss_pred             CCC-ccc----cchhcCccCcEEeecccccCCcCc
Q 039519          453 AIT-HLP----IDLQKLVNLKCLNLQYMYNLNQFP  482 (647)
Q Consensus       453 ~l~-~lp----~~~~~l~~L~~L~l~~~~~l~~lp  482 (647)
                      -+. .-+    .-+.++..|++|.|.+| .+....
T Consensus       103 A~G~~g~~~l~~ll~s~~~L~eL~L~N~-Glg~~a  136 (382)
T KOG1909|consen  103 AFGPKGIRGLEELLSSCTDLEELYLNNC-GLGPEA  136 (382)
T ss_pred             ccCccchHHHHHHHHhccCHHHHhhhcC-CCChhH
Confidence            554 222    23456778888888877 444433

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.93  E-value=0.00048  Score=70.37  Aligned_cols=251  Identities=17%  Similarity=0.120  Sum_probs=120.7

Q ss_pred             CCcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC------CCCcce-EEEEEEcCccCHHHHHHHHHHHhCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA------PNDFDV-VIWMVVSKDLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT------~~~F~~-~~wv~~s~~~~~~~~~~~i~~~l~~~  143 (647)
                      ..|||++..++++...+..     .....+.++|++|+|||      ...+.. ...+..+.......+ ...+..++..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l-~~~l~~~~~~   82 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDL-AAILTNLEEG   82 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhH-HHHHHhcccC
Confidence            4589999999999888863     34556889999999999      111111 112221111112222 2222333211


Q ss_pred             C----cCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhcc--cceeEe
Q 039519          144 D----ESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQ--AHEFLK  217 (647)
Q Consensus       144 ~----~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~~--~~~~~~  217 (647)
                      .    +..+.-. .+..+.+...+.+.+..+|+|+..+...+..   .++   +.+-|.+||+...+...+.  ....+.
T Consensus        83 ~vl~iDEi~~l~-~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~sR~~~~~~  155 (305)
T TIGR00635        83 DVLFIDEIHRLS-PAVEELLYPAMEDFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRDRFGIILR  155 (305)
T ss_pred             CEEEEehHhhhC-HHHHHHhhHHHhhhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHhhcceEEE
Confidence            1    0001111 1223456666777777788887766554432   122   2566777777654432210  111222


Q ss_pred             cc------------ccc--cCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhcccCCC-CCCcc
Q 039519          218 VE------------DVL--KNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFP-GMGKE  282 (647)
Q Consensus       218 ~~------------~~~--~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~~~~-~~~~~  282 (647)
                      +.            ...  ....--++.+..|++.|+|.|-.+..++..+        |..+. .....  ... ..-..
T Consensus       156 l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~--------~~~a~-~~~~~--~it~~~v~~  224 (305)
T TIGR00635       156 LEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRV--------RDFAQ-VRGQK--IINRDIALK  224 (305)
T ss_pred             eCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHH--------HHHHH-HcCCC--CcCHHHHHH
Confidence            20            000  1111224667889999999995554444322        11100 00000  000 00012


Q ss_pred             hhhHHHHhhcCCCchhhhhHHh-hhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHH-HHHHhcccccc
Q 039519          283 VYPLLKYSYDSLPDETIRSCLL-YCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIG-ILLHACLLEEE  358 (647)
Q Consensus       283 i~~~l~~sy~~L~~~~~k~~fl-~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~-~L~~~~ll~~~  358 (647)
                      ....+..+|..++. +.+..+. ..+.+. +..+....+....   |        .....++..++ .|++++|++..
T Consensus       225 ~l~~l~~~~~~l~~-~~~~~L~al~~~~~-~~~~~~~~ia~~l---g--------~~~~~~~~~~e~~Li~~~li~~~  289 (305)
T TIGR00635       225 ALEMLMIDELGLDE-IDRKLLSVLIEQFQ-GGPVGLKTLAAAL---G--------EDADTIEDVYEPYLLQIGFLQRT  289 (305)
T ss_pred             HHHHhCCCCCCCCH-HHHHHHHHHHHHhC-CCcccHHHHHHHh---C--------CCcchHHHhhhHHHHHcCCcccC
Confidence            22224556777887 5555554 335554 2234333322211   1        11234556677 69999999755

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.91  E-value=0.00098  Score=74.14  Aligned_cols=102  Identities=13%  Similarity=0.003  Sum_probs=66.7

Q ss_pred             CCcccchHHHHHHHHHhhh----C-CceEEEEEccCccCCC---------------CCCcc--eEEEEEEcCccCHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----E-QVGIIGLYGMGGLLGA---------------PNDFD--VVIWMVVSKDLQLEKIQ  133 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~-~~~vi~I~G~gGiGKT---------------~~~F~--~~~wv~~s~~~~~~~~~  133 (647)
                      +.++|||+++++|...|..    . ...++-|+|++|.|||               ....+  .+++|....-.+...+.
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIY  834 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAY  834 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHH
Confidence            4568999999999988864    2 3357789999999999               11222  24555555556788888


Q ss_pred             HHHHHHhCCCCcCCCCCCHHHHHHHHHHHhcc---CCeeEEEecCCCc
Q 039519          134 ERIGRRIGFLDESWKNGSLEDKASDIFRILSK---KKLLLLLDDIWER  178 (647)
Q Consensus       134 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~---~r~LlVlDdv~~~  178 (647)
                      ..|..++..... .......+....+.+.+..   ...+||||+|+.-
T Consensus       835 qvI~qqL~g~~P-~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L  881 (1164)
T PTZ00112        835 QVLYKQLFNKKP-PNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYL  881 (1164)
T ss_pred             HHHHHHHcCCCC-CccccHHHHHHHHHhhhhcccccceEEEeehHhhh
Confidence            888888843321 1222344455555555422   2458999999853

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.91  E-value=2.4e-05  Score=80.57  Aligned_cols=59  Identities=15%  Similarity=0.167  Sum_probs=27.6

Q ss_pred             ceeeEEeccCccccccCccccccccCCCeeeecCC-CCCccccchhcCccCcEEeecccccCCcCc
Q 039519          418 TFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST-AITHLPIDLQKLVNLKCLNLQYMYNLNQFP  482 (647)
Q Consensus       418 ~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~-~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp  482 (647)
                      .+++.|++++| .+..+| .+  ..+|+.|.+++| .++.+|..+.  ++|+.|++++|..+..+|
T Consensus        52 ~~l~~L~Is~c-~L~sLP-~L--P~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         52 RASGRLYIKDC-DIESLP-VL--PNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             cCCCEEEeCCC-CCcccC-CC--CCCCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccc
Confidence            34555555555 455554 11  123555555543 4445554332  355555555554444333

>PF05729 NACHT: NACHT domain

Probab=97.88  E-value=1.9e-05  Score=72.59  Aligned_cols=101  Identities=14%  Similarity=0.178  Sum_probs=59.0

Q ss_pred             eEEEEEccCccCCC-----------CCC-----cceEEEEEEcCccCHH---HHHHHHHHHhCCCCcCCCCCCHHHHHHH
Q 039519           98 GIIGLYGMGGLLGA-----------PND-----FDVVIWMVVSKDLQLE---KIQERIGRRIGFLDESWKNGSLEDKASD  158 (647)
Q Consensus        98 ~vi~I~G~gGiGKT-----------~~~-----F~~~~wv~~s~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~~  158 (647)
                      +++.|+|.+|+|||           ...     +...+|++.+......   .+...|..+.....     .....   .
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~~~~~---~   72 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-----APIEE---L   72 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch-----hhhHH---H
Confidence            58899999999999           111     4567777765544322   44444444443211     11111   2


Q ss_pred             HHHHh-ccCCeeEEEecCCCccc-cc--------c-ccCCCCC-CCCCcEEEEecCchHH
Q 039519          159 IFRIL-SKKKLLLLLDDIWERVD-LT--------K-VGVPFPD-PENKSRIDFTTRFLEI  206 (647)
Q Consensus       159 l~~~l-~~~r~LlVlDdv~~~~~-~~--------~-l~~~~~~-~~~gs~IivTTR~~~v  206 (647)
                      +...+ ..+++++|+|++++... ..        . +...++. ...+++++||+|....
T Consensus        73 ~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~  132 (166)
T PF05729_consen   73 LQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAF  132 (166)
T ss_pred             HHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChH
Confidence            22222 57899999999987533 11        1 2112222 3468999999998766

>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=97.80  E-value=1.9e-05  Score=54.29  Aligned_cols=40  Identities=33%  Similarity=0.458  Sum_probs=32.8

Q ss_pred             ceeeEEeccCccccccCccccccccCCCeeeecCCCCCccc
Q 039519          418 TFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLP  458 (647)
Q Consensus       418 ~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp  458 (647)
                      ++|++|++++| .+..+|+.+++|++|++|++++|.++.+|
T Consensus         1 ~~L~~L~l~~N-~i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCC-CCcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            36888999999 78888877999999999999999988775

...

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.78  E-value=0.00024  Score=78.10  Aligned_cols=269  Identities=16%  Similarity=0.179  Sum_probs=143.7

Q ss_pred             CCCCCCcccchHHHHHHHHHhhhC-CceEEEEEccCccCCC--CCC-------cceEEEEEEcCc-cCHHHHHHHHHHHh
Q 039519           72 QRPCEPTVGLESTFDKVRRCLREE-QVGIIGLYGMGGLLGA--PND-------FDVVIWMVVSKD-LQLEKIQERIGRRI  140 (647)
Q Consensus        72 ~~~~~~~vGr~~~~~~i~~~L~~~-~~~vi~I~G~gGiGKT--~~~-------F~~~~wv~~s~~-~~~~~~~~~i~~~l  140 (647)
                      |.+..+.|-|.    ++.+.|... +.+.+.|.-++|.|||  -..       =..+.|+++..+ -++..+...++..+
T Consensus        15 P~~~~~~v~R~----rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~~~~~~v~Wlslde~dndp~rF~~yLi~al   90 (894)
T COG2909          15 PVRPDNYVVRP----RLLDRLRRANDYRLILISAPAGFGKTTLLAQWRELAADGAAVAWLSLDESDNDPARFLSYLIAAL   90 (894)
T ss_pred             CCCcccccccH----HHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhcCcccceeEeecCCccCCHHHHHHHHHHHH
Confidence            33335556664    456666654 7899999999999999  112       247899998665 46888888888887


Q ss_pred             CCCCcC-----------CCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCccc---cccccCCCCCCCCCcEEEEecCch
Q 039519          141 GFLDES-----------WKNGSLEDKASDIFRILS--KKKLLLLLDDIWERVD---LTKVGVPFPDPENKSRIDFTTRFL  204 (647)
Q Consensus       141 ~~~~~~-----------~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~~~---~~~l~~~~~~~~~gs~IivTTR~~  204 (647)
                      +...+.           .+..+...+...+..-+.  .++..+||||-.-..+   -+.+...+.....+-..|||||+.
T Consensus        91 ~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~r  170 (894)
T COG2909          91 QQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSR  170 (894)
T ss_pred             HHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccC
Confidence            632211           122333444444444443  3689999999864322   122222233344678899999986


Q ss_pred             HHhhhcc---cceeEeccccccCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhccc-------
Q 039519          205 EICSAMQ---AHEFLKVEDVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISAS-------  274 (647)
Q Consensus       205 ~v~~~~~---~~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~-------  274 (647)
                      .-+....   .+...++...  .-.=-.+.+.+..+..+|+|+--..+.....   ..+.|-.++.-..-...       
T Consensus       171 P~l~la~lRlr~~llEi~~~--~Lrf~~eE~~~fl~~~~~l~Ld~~~~~~L~~---~teGW~~al~L~aLa~~~~~~~~q  245 (894)
T COG2909         171 PQLGLARLRLRDELLEIGSE--ELRFDTEEAAAFLNDRGSLPLDAADLKALYD---RTEGWAAALQLIALALRNNTSAEQ  245 (894)
T ss_pred             CCCcccceeehhhHHhcChH--hhcCChHHHHHHHHHcCCCCCChHHHHHHHh---hcccHHHHHHHHHHHccCCCcHHH
Confidence            4422110   0111111000  0000012334444444445544444433332   23444443322111111       


Q ss_pred             ---CCCCCCcchhh-HHHHhhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHHHHH
Q 039519          275 ---EFPGMGKEVYP-LLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILL  350 (647)
Q Consensus       275 ---~~~~~~~~i~~-~l~~sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~~L~  350 (647)
                         .+.+..+.|.+ ...--++.||+ ++|.+++-+|+++.=.    .+|+..-            +.++.+..++++|.
T Consensus       246 ~~~~LsG~~~~l~dYL~eeVld~Lp~-~l~~FLl~~svl~~f~----~eL~~~L------------tg~~ng~amLe~L~  308 (894)
T COG2909         246 SLRGLSGAASHLSDYLVEEVLDRLPP-ELRDFLLQTSVLSRFN----DELCNAL------------TGEENGQAMLEELE  308 (894)
T ss_pred             HhhhccchHHHHHHHHHHHHHhcCCH-HHHHHHHHHHhHHHhh----HHHHHHH------------hcCCcHHHHHHHHH
Confidence               00011111211 22334788999 8999999999986311    2333322            22345677899999


Q ss_pred             Hhcccccc---CCCeeEEe
Q 039519          351 HACLLEEE---WGDIGEEE  366 (647)
Q Consensus       351 ~~~ll~~~---~~~~~~mh  366 (647)
                      .++|+-..   ...-|+.|
T Consensus       309 ~~gLFl~~Ldd~~~WfryH  327 (894)
T COG2909         309 RRGLFLQRLDDEGQWFRYH  327 (894)
T ss_pred             hCCCceeeecCCCceeehh
Confidence            99987532   55679998

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

Probab=97.72  E-value=1.9e-06  Score=82.51  Aligned_cols=197  Identities=16%  Similarity=0.116  Sum_probs=118.4

Q ss_pred             cEEEEEeecccccc--cccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCC-CCCcc--ccchhcCccCcEE
Q 039519          396 NVRRMSLMKNKIEN--LSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST-AITHL--PIDLQKLVNLKCL  470 (647)
Q Consensus       396 ~l~~L~l~~n~i~~--l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~-~l~~l--p~~~~~l~~L~~L  470 (647)
                      .++.|+|++..|+.  +-..++.+..|+.|.+.++..-..+-..+.+=.+|+.|+|+.| .+++.  .--+.+++.|..|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~L  265 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDEL  265 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhc
Confidence            57788888877654  2222355667778888888433334445666678899999887 67633  2345688889999


Q ss_pred             eecccccCCcCchhhhcC-CCCCcEEeccccCCCcccccccccccCCccccHHHh-hCCCCCcEEEEEecc-hhhHHHHh
Q 039519          471 NLQYMYNLNQFPRLVISA-FSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL-IGMKYLMAVTITLKR-LQALQELL  547 (647)
Q Consensus       471 ~l~~~~~l~~lp~~~i~~-l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l-~~l~~L~~L~l~~~~-~~~l~~l~  547 (647)
                      +|+.|......-.-++.. -.+|..|+++++..|-.            ...+..| ..+++|..|+++.+. +++  ...
T Consensus       266 NlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~------------~sh~~tL~~rcp~l~~LDLSD~v~l~~--~~~  331 (419)
T KOG2120|consen  266 NLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQ------------KSHLSTLVRRCPNLVHLDLSDSVMLKN--DCF  331 (419)
T ss_pred             CchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhh------------hhHHHHHHHhCCceeeeccccccccCc--hHH
Confidence            998884333332211222 23677888888776432            2222223 467888888888433 222  122


Q ss_pred             hhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCce
Q 039519          548 ISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSV  606 (647)
Q Consensus       548 ~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~  606 (647)
                      ......+.|+.+.++.|-.+---.+-.+...++|.+|++.||---+...- ...+++|+.
T Consensus       332 ~~~~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~vsdt~mel~~e~~~~lki  391 (419)
T KOG2120|consen  332 QEFFKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGCVSDTTMELLKEMLSHLKI  391 (419)
T ss_pred             HHHHhcchheeeehhhhcCCChHHeeeeccCcceEEEEeccccCchHHHHHHHhCccccc
Confidence            22344556777777776543221122267899999999999843333332 345666643

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

Probab=97.70  E-value=3.6e-06  Score=71.47  Aligned_cols=109  Identities=20%  Similarity=0.322  Sum_probs=64.8

Q ss_pred             cEEEEEeecccccccccCC---CCcceeeEEeccCccccccCccccc-cccCCCeeeecCCCCCccccchhcCccCcEEe
Q 039519          396 NVRRMSLMKNKIENLSELQ---PALTFFLFFNMSNNHLLWKLPLGIS-TLVSLEHLDLSSTAITHLPIDLQKLVNLKCLN  471 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~~~---~~l~~L~~L~l~~~~~~~~lp~~~~-~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  471 (647)
                      .+..++|+++++-.+++..   ....+|...++++| .++++|+.|. +.+.++.|++++|.|+.+|..+..++.|+.|+
T Consensus        28 E~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N-~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lN  106 (177)
T KOG4579|consen   28 ELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDN-GFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLN  106 (177)
T ss_pred             HhhhcccccchhhHHHHHHHHHhCCceEEEEecccc-hhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcc
Confidence            3444556666554444332   44456666777777 6667776665 33467777777777777777777777777777


Q ss_pred             ecccccCCcCchhhhcCCCCCcEEeccccCCCccccccc
Q 039519          472 LQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKS  510 (647)
Q Consensus       472 l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~  510 (647)
                      ++.| .+...|.- +..+.   .|.+.+...|....++.
T Consensus       107 l~~N-~l~~~p~v-i~~L~---~l~~Lds~~na~~eid~  140 (177)
T KOG4579|consen  107 LRFN-PLNAEPRV-IAPLI---KLDMLDSPENARAEIDV  140 (177)
T ss_pred             cccC-ccccchHH-HHHHH---hHHHhcCCCCccccCcH
Confidence            7776 55666653 43333   33344555555544443

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.67  E-value=0.00017  Score=64.50  Aligned_cols=113  Identities=19%  Similarity=0.071  Sum_probs=62.9

Q ss_pred             ccchHHHHHHHHHhhhCCceEEEEEccCccCCC-------CCC---cceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCC
Q 039519           79 VGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA-------PND---FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWK  148 (647)
Q Consensus        79 vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT-------~~~---F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~  148 (647)
                      +|++..++++...+.....+.+.|+|.+|+|||       ...   -..++++...+..........+...         
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~---------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF---------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhh---------
Confidence            478888999998887766778999999999999       111   2345555554432221111111000         


Q ss_pred             CCCHHHHHHHHHHHhccCCeeEEEecCCCc-----cccccccCCCCCC---CCCcEEEEecCchH
Q 039519          149 NGSLEDKASDIFRILSKKKLLLLLDDIWER-----VDLTKVGVPFPDP---ENKSRIDFTTRFLE  205 (647)
Q Consensus       149 ~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~-----~~~~~l~~~~~~~---~~gs~IivTTR~~~  205 (647)
                           ............++.++|+||++..     ..+..........   ..+.+||+||....
T Consensus        72 -----~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 -----LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             -----hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                 0011111222456789999999853     1222221222111   35778888887643

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PTZ00202 tuzin; Provisional

Probab=97.66  E-value=0.001  Score=68.52  Aligned_cols=90  Identities=19%  Similarity=0.149  Sum_probs=61.5

Q ss_pred             CCCcccchHHHHHHHHHhhh---CCceEEEEEccCccCCC--------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCC
Q 039519           75 CEPTVGLESTFDKVRRCLRE---EQVGIIGLYGMGGLLGA--------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        75 ~~~~vGr~~~~~~i~~~L~~---~~~~vi~I~G~gGiGKT--------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  143 (647)
                      .+.|+||+.++.++...|.+   +..+++.|.|++|+|||        ..+  ...++....  +..++++.++.+|+..
T Consensus       261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~--~~qL~vNpr--g~eElLr~LL~ALGV~  336 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG--MPAVFVDVR--GTEDTLRSVVKALGVP  336 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC--ceEEEECCC--CHHHHHHHHHHHcCCC
Confidence            37899999999999999864   23568899999999999        222  222222222  6799999999999974


Q ss_pred             CcCCCCCCHHHHHHHHHHHh-----c-cCCeeEEE
Q 039519          144 DESWKNGSLEDKASDIFRIL-----S-KKKLLLLL  172 (647)
Q Consensus       144 ~~~~~~~~~~~~~~~l~~~l-----~-~~r~LlVl  172 (647)
                      .    ...-.++...|.+.+     . +++.+||+
T Consensus       337 p----~~~k~dLLrqIqeaLl~~~~e~GrtPVLII  367 (550)
T PTZ00202        337 N----VEACGDLLDFISEACRRAKKMNGETPLLVL  367 (550)
T ss_pred             C----cccHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            3    223344555555544     2 45666665

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.66  E-value=7.7e-05  Score=76.90  Aligned_cols=82  Identities=24%  Similarity=0.331  Sum_probs=57.4

Q ss_pred             ccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCC-CCCccccchhcCccCcE
Q 039519          391 IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST-AITHLPIDLQKLVNLKC  469 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~-~l~~lp~~~~~l~~L~~  469 (647)
                      +..+.++++|++++|.+..+|..+   .+|+.|.++++..+..+|..+.  .+|++|++++| .+..+|.+      |+.
T Consensus        48 ~~~~~~l~~L~Is~c~L~sLP~LP---~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~s------Le~  116 (426)
T PRK15386         48 IEEARASGRLYIKDCDIESLPVLP---NELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPES------VRS  116 (426)
T ss_pred             HHHhcCCCEEEeCCCCCcccCCCC---CCCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccccc------cce
Confidence            344578889999999888887322   3578888888767778886553  58999999988 78788864      555


Q ss_pred             Eeeccc--ccCCcCch
Q 039519          470 LNLQYM--YNLNQFPR  483 (647)
Q Consensus       470 L~l~~~--~~l~~lp~  483 (647)
                      |++..+  ..+..+|.
T Consensus       117 L~L~~n~~~~L~~LPs  132 (426)
T PRK15386        117 LEIKGSATDSIKNVPN  132 (426)
T ss_pred             EEeCCCCCcccccCcc
Confidence            666553  22444444

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

Probab=97.62  E-value=3.3e-05  Score=86.26  Aligned_cols=102  Identities=24%  Similarity=0.274  Sum_probs=49.9

Q ss_pred             eeeEEeccCcccc-ccCccccc-cccCCCeeeecCCCCC--ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcE
Q 039519          419 FFLFFNMSNNHLL-WKLPLGIS-TLVSLEHLDLSSTAIT--HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQV  494 (647)
Q Consensus       419 ~L~~L~l~~~~~~-~~lp~~~~-~L~~L~~L~L~~~~l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~  494 (647)
                      +|++|+++|...+ ...|..++ -||+|+.|.+++-.+.  ++-.-..++|||..||++++ ++..+..  ++++++|+.
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~nl~G--IS~LknLq~  199 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGT-NISNLSG--ISRLKNLQV  199 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCC-CccCcHH--HhccccHHH
Confidence            4555555554221 12223333 3555666655554332  22223345566666666665 5555532  566666666


Q ss_pred             EeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          495 LRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       495 L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      |.+.+...             .....+.+|..|++|+.|+++
T Consensus       200 L~mrnLe~-------------e~~~~l~~LF~L~~L~vLDIS  228 (699)
T KOG3665|consen  200 LSMRNLEF-------------ESYQDLIDLFNLKKLRVLDIS  228 (699)
T ss_pred             HhccCCCC-------------CchhhHHHHhcccCCCeeecc
Confidence            65554433             123344455556666666665

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.61  E-value=8.8e-05  Score=65.22  Aligned_cols=103  Identities=14%  Similarity=0.126  Sum_probs=69.3

Q ss_pred             ceEEEEEccCccCCC-------CCC--------cceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHH
Q 039519           97 VGIIGLYGMGGLLGA-------PND--------FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFR  161 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT-------~~~--------F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  161 (647)
                      -+++.|+|.+|+|||       +..        -..++|+.+....+...+.+.|+..++....  ...+..+..+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~--~~~~~~~l~~~~~~   81 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLK--SRQTSDELRSLLID   81 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSS--STS-HHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcccc--ccCCHHHHHHHHHH
Confidence            468899999999999       111        3467799988888999999999999987653  23567888888999


Q ss_pred             HhccCCe-eEEEecCCCc---cccccccCCCCCCCCCcEEEEecCc
Q 039519          162 ILSKKKL-LLLLDDIWER---VDLTKVGVPFPDPENKSRIDFTTRF  203 (647)
Q Consensus       162 ~l~~~r~-LlVlDdv~~~---~~~~~l~~~~~~~~~gs~IivTTR~  203 (647)
                      .+...+. +||+|+++.-   ..++.+.....  ..+.++|+..+.
T Consensus        82 ~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   82 ALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            8877655 9999999764   22333322222  445566665543

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.60  E-value=8.6e-05  Score=69.66  Aligned_cols=35  Identities=23%  Similarity=0.221  Sum_probs=23.2

Q ss_pred             CcccchHHHHHHHHHhh---hCCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLR---EEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~---~~~~~vi~I~G~gGiGKT  111 (647)
                      .||||+++++++...+.   ....+.+.|+|.+|+|||
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT   38 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKT   38 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHH
Confidence            37999999999999993   245789999999999999

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.57  E-value=7.6e-06  Score=78.48  Aligned_cols=227  Identities=14%  Similarity=0.044  Sum_probs=104.8

Q ss_pred             EEEEEeecccccccccC--C-CCcceeeEEeccCccccccCcc---ccccccCCCeeeecCCCCCccccch-hcCccCcE
Q 039519          397 VRRMSLMKNKIENLSEL--Q-PALTFFLFFNMSNNHLLWKLPL---GISTLVSLEHLDLSSTAITHLPIDL-QKLVNLKC  469 (647)
Q Consensus       397 l~~L~l~~n~i~~l~~~--~-~~l~~L~~L~l~~~~~~~~lp~---~~~~L~~L~~L~L~~~~l~~lp~~~-~~l~~L~~  469 (647)
                      +..|.+.++.|......  + ...+.++.+||.+| .+....+   -..+|++|++|+|+.|.+..--.+. ..+.+|+.
T Consensus        47 ~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N-~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~  125 (418)
T KOG2982|consen   47 LELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGN-LISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRV  125 (418)
T ss_pred             hhhheecCCCCCcchhHHHHHHHhhhhhhhhcccc-hhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEE
Confidence            33455555555443222  2 44467788888888 4544322   2357888888888888665222222 24567888


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhh
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS  549 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~  549 (647)
                      |-|.++..-..-..++...++.++.|++++.+.-++ ++..+-.   ..       --+.+++|+...+...........
T Consensus       126 lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~-n~Dd~c~---e~-------~s~~v~tlh~~~c~~~~w~~~~~l  194 (418)
T KOG2982|consen  126 LVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQL-NLDDNCI---ED-------WSTEVLTLHQLPCLEQLWLNKNKL  194 (418)
T ss_pred             EEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhh-ccccccc---cc-------cchhhhhhhcCCcHHHHHHHHHhH
Confidence            888775211111122244555556665554221111 0100000   00       001233333332222222222222


Q ss_pred             hhhhhccceeeeeccCCCceEEE-ecccccCCccEEEEcCCCCCCC--ChhhccccCCceEEeeccccc--ccccc--hh
Q 039519          550 QELQRCTQFLFLRCFNDSKSLDI-FCLACLHNLNKLYVAGCKHLED--FQMIIQRSSLSVHNLFINKNY--IHTNQ--LS  622 (647)
Q Consensus       550 ~~~~~~l~~l~L~~~~~L~~L~l-~~~~~l~~L~~L~L~~~~~~~~--~~~~~~l~~L~~L~L~~~~~~--~~~~~--~~  622 (647)
                      ....+++..+.+..+ -|+++.- ..+..++.+..|+|..++.-..  +..+..++.|..|.++++|-.  +++..  .-
T Consensus       195 ~r~Fpnv~sv~v~e~-PlK~~s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~l  273 (418)
T KOG2982|consen  195 SRIFPNVNSVFVCEG-PLKTESSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFL  273 (418)
T ss_pred             HhhcccchheeeecC-cccchhhcccCCCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCcccccccCCcceEE
Confidence            222334444444432 2333321 1255666666777766543221  223566677777777776511  11111  11


Q ss_pred             hhhhhcCCCCcccC
Q 039519          623 ILLGINRLPHFTKS  636 (647)
Q Consensus       623 ~l~~l~~L~~L~~~  636 (647)
                      .++.+++++.|+.+
T Consensus       274 lIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  274 LIARLTKVQVLNGS  287 (418)
T ss_pred             EEeeccceEEecCc
Confidence            34556666666554

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

Probab=97.53  E-value=1.4e-05  Score=68.07  Aligned_cols=92  Identities=15%  Similarity=0.195  Sum_probs=80.3

Q ss_pred             ccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEe
Q 039519          393 NWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLN  471 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  471 (647)
                      .-..+...+|++|.+..+|..+ .+.+..+.|+|++| .+..+|..+..++.|+.|+++.|.+...|.-+..|.+|-.|+
T Consensus        51 ~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   51 KGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANN-EISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             CCceEEEEecccchhhhCCHHHhhccchhhhhhcchh-hhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhc
Confidence            3357888999999999998877 55578899999999 899999999999999999999999999999898999999999


Q ss_pred             ecccccCCcCchhhh
Q 039519          472 LQYMYNLNQFPRLVI  486 (647)
Q Consensus       472 l~~~~~l~~lp~~~i  486 (647)
                      ..+| ....+|-.++
T Consensus       130 s~~n-a~~eid~dl~  143 (177)
T KOG4579|consen  130 SPEN-ARAEIDVDLF  143 (177)
T ss_pred             CCCC-ccccCcHHHh
Confidence            9887 6677776533

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

Probab=97.53  E-value=1.8e-06  Score=92.04  Aligned_cols=128  Identities=23%  Similarity=0.315  Sum_probs=76.4

Q ss_pred             cccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCcccc-chhcCccCcEEee
Q 039519          394 WRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNL  472 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l  472 (647)
                      |..|...+.++|.+..+..++.-++.|+.|+|++| .+.+.- .+..|++|++|||++|.+..+|. +...+. |+.|++
T Consensus       163 Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshN-k~~~v~-~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~l  239 (1096)
T KOG1859|consen  163 WNKLATASFSYNRLVLMDESLQLLPALESLNLSHN-KFTKVD-NLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNL  239 (1096)
T ss_pred             hhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchh-hhhhhH-HHHhcccccccccccchhccccccchhhhh-heeeee
Confidence            44566666777776666555555566777777777 454543 56667777777777777777663 122333 777777


Q ss_pred             cccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecch
Q 039519          473 QYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRL  540 (647)
Q Consensus       473 ~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  540 (647)
                      ++| -+.++-+  +.++.+|+.|++++   |-+.          .-..+.-|..|..|+.|++.+|.+
T Consensus       240 rnN-~l~tL~g--ie~LksL~~LDlsy---Nll~----------~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  240 RNN-ALTTLRG--IENLKSLYGLDLSY---NLLS----------EHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             ccc-HHHhhhh--HHhhhhhhccchhH---hhhh----------cchhhhHHHHHHHHHHHhhcCCcc
Confidence            776 5566665  66677777765553   3221          112223355556666666666654

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

Probab=97.49  E-value=5.8e-05  Score=74.31  Aligned_cols=184  Identities=17%  Similarity=0.070  Sum_probs=110.0

Q ss_pred             ceeeEEeccCccccccCccc----cccccCCCeeeecCCCCCcc--------------ccchhcCccCcEEeecccccCC
Q 039519          418 TFFLFFNMSNNHLLWKLPLG----ISTLVSLEHLDLSSTAITHL--------------PIDLQKLVNLKCLNLQYMYNLN  479 (647)
Q Consensus       418 ~~L~~L~l~~~~~~~~lp~~----~~~L~~L~~L~L~~~~l~~l--------------p~~~~~l~~L~~L~l~~~~~l~  479 (647)
                      ++|++||||+|-+-..-++.    +.+...|+.|.|.+|.+...              -..+++-++|+++....| .+.
T Consensus        92 ~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rN-rle  170 (382)
T KOG1909|consen   92 PKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRN-RLE  170 (382)
T ss_pred             CceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecc-ccc
Confidence            36777777777322222222    34567777777777766522              112344568888888877 555


Q ss_pred             cCchh----hhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHH--Hhhhhhhh
Q 039519          480 QFPRL----VISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQE--LLISQELQ  553 (647)
Q Consensus       480 ~lp~~----~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~--l~~~~~~~  553 (647)
                      .-+..    .+...+.|+.+.+...+...-          ........+.++++|++|++.-|-++.-..  +....+.+
T Consensus       171 n~ga~~~A~~~~~~~~leevr~~qN~I~~e----------G~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~  240 (382)
T KOG1909|consen  171 NGGATALAEAFQSHPTLEEVRLSQNGIRPE----------GVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSW  240 (382)
T ss_pred             cccHHHHHHHHHhccccceEEEecccccCc----------hhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhccc
Confidence            55432    244556777776665433211          012345678899999999999776654332  23333455


Q ss_pred             hccceeeeeccCCCceEEEec-----ccccCCccEEEEcCCCCCCCCh-----hhccccCCceEEeeccc
Q 039519          554 RCTQFLFLRCFNDSKSLDIFC-----LACLHNLNKLYVAGCKHLEDFQ-----MIIQRSSLSVHNLFINK  613 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~-----~~~l~~L~~L~L~~~~~~~~~~-----~~~~l~~L~~L~L~~~~  613 (647)
                      ++|+.+++++|. |+.=--..     -...++|+.|.+.+|.....--     ++...|.|..|+|++|.
T Consensus       241 ~~L~El~l~dcl-l~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~  309 (382)
T KOG1909|consen  241 PHLRELNLGDCL-LENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNR  309 (382)
T ss_pred             chheeecccccc-cccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCccc
Confidence            677777777762 22211000     3447899999999986543211     35668899999999953

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

Probab=97.47  E-value=7.7e-06  Score=87.32  Aligned_cols=85  Identities=24%  Similarity=0.154  Sum_probs=42.9

Q ss_pred             HhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCC--CChhhcc
Q 039519          523 ELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE--DFQMIIQ  600 (647)
Q Consensus       523 ~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~--~~~~~~~  600 (647)
                      .+..+++|++|++++|.+..+..+....+   .|..|.|++ +-|++|.  ++.++.+|+.|+|++|-+.+  .+.+++.
T Consensus       204 ~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc---~L~~L~lrn-N~l~tL~--gie~LksL~~LDlsyNll~~hseL~pLws  277 (1096)
T KOG1859|consen  204 NLRRLPKLKHLDLSYNCLRHVPQLSMVGC---KLQLLNLRN-NALTTLR--GIENLKSLYGLDLSYNLLSEHSELEPLWS  277 (1096)
T ss_pred             HHHhcccccccccccchhccccccchhhh---hheeeeecc-cHHHhhh--hHHhhhhhhccchhHhhhhcchhhhHHHH
Confidence            45556666666666555554443332222   244444444 3333332  25556666666666553332  2334555


Q ss_pred             ccCCceEEeeccc
Q 039519          601 RSSLSVHNLFINK  613 (647)
Q Consensus       601 l~~L~~L~L~~~~  613 (647)
                      |..|+.|+|.|||
T Consensus       278 Ls~L~~L~LeGNP  290 (1096)
T KOG1859|consen  278 LSSLIVLWLEGNP  290 (1096)
T ss_pred             HHHHHHHhhcCCc
Confidence            6666666666644

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.46  E-value=2.1e-05  Score=75.60  Aligned_cols=198  Identities=21%  Similarity=0.195  Sum_probs=115.1

Q ss_pred             cccEEEEEeecccccccccC---CCCcceeeEEeccCccc---cccCccccccccCCCeeeecCCCCC--ccccchhcCc
Q 039519          394 WRNVRRMSLMKNKIENLSEL---QPALTFFLFFNMSNNHL---LWKLPLGISTLVSLEHLDLSSTAIT--HLPIDLQKLV  465 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~l~~~---~~~l~~L~~L~l~~~~~---~~~lp~~~~~L~~L~~L~L~~~~l~--~lp~~~~~l~  465 (647)
                      .+.++.++|..|.|..+...   ..+|+.|++|+++.|..   ++.+|   -.+.+|++|-|.++.+.  ..-..+..+|
T Consensus        70 ~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~p~~nl~~lVLNgT~L~w~~~~s~l~~lP  146 (418)
T KOG2982|consen   70 VTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---LPLKNLRVLVLNGTGLSWTQSTSSLDDLP  146 (418)
T ss_pred             hhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---ccccceEEEEEcCCCCChhhhhhhhhcch
Confidence            46888999999999875543   38889999999999932   33333   35678999999998665  6667778899


Q ss_pred             cCcEEeecccccCCcC--chhhhcCCC-CCcEEeccccCCCcccccccccccCCccccHHHhh-CCCCCcEEEEEecchh
Q 039519          466 NLKCLNLQYMYNLNQF--PRLVISAFS-KLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELI-GMKYLMAVTITLKRLQ  541 (647)
Q Consensus       466 ~L~~L~l~~~~~l~~l--p~~~i~~l~-~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~-~l~~L~~L~l~~~~~~  541 (647)
                      .++.|.++.| ++..+  .+.-+.... .+.+|+...|...             .......++ ..+++..+-+--+.+.
T Consensus       147 ~vtelHmS~N-~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~-------------~w~~~~~l~r~Fpnv~sv~v~e~PlK  212 (418)
T KOG2982|consen  147 KVTELHMSDN-SLRQLNLDDNCIEDWSTEVLTLHQLPCLEQ-------------LWLNKNKLSRIFPNVNSVFVCEGPLK  212 (418)
T ss_pred             hhhhhhhccc-hhhhhccccccccccchhhhhhhcCCcHHH-------------HHHHHHhHHhhcccchheeeecCccc
Confidence            9999999887 33322  222122222 4555555544320             111111121 2344544444433332


Q ss_pred             hHHHHhhhhhhhhccceeeeeccCCCceEE-EecccccCCccEEEEcCCCCCCCChh-------hccccCCceEEee
Q 039519          542 ALQELLISQELQRCTQFLFLRCFNDSKSLD-IFCLACLHNLNKLYVAGCKHLEDFQM-------IIQRSSLSVHNLF  610 (647)
Q Consensus       542 ~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~-l~~~~~l~~L~~L~L~~~~~~~~~~~-------~~~l~~L~~L~L~  610 (647)
                      ....- ......+.+..|.|+. +++.+.. ++.+..++.|+.|.+.+++.+..+..       ++.|++++.|+=+
T Consensus       213 ~~s~e-k~se~~p~~~~LnL~~-~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  213 TESSE-KGSEPFPSLSCLNLGA-NNIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             chhhc-ccCCCCCcchhhhhcc-cccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence            22110 0011112233333333 3333322 22377889999999999887655431       5788999888744

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

Probab=97.26  E-value=0.00032  Score=63.98  Aligned_cols=126  Identities=25%  Similarity=0.302  Sum_probs=77.9

Q ss_pred             EEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhc-CccCcEEeeccc
Q 039519          397 VRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQK-LVNLKCLNLQYM  475 (647)
Q Consensus       397 l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~-l~~L~~L~l~~~  475 (647)
                      -+.+++.+.++..+...-.-+..+..+||++| .+..++ .+..++.|++|.|.+|+|+.+-+.+.. +++|..|.|.+|
T Consensus        21 e~e~~LR~lkip~ienlg~~~d~~d~iDLtdN-dl~~l~-~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnN   98 (233)
T KOG1644|consen   21 ERELDLRGLKIPVIENLGATLDQFDAIDLTDN-DLRKLD-NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNN   98 (233)
T ss_pred             ccccccccccccchhhccccccccceeccccc-chhhcc-cCCCccccceEEecCCcceeeccchhhhccccceEEecCc
Confidence            44455555544332221011235667888888 666665 677888899999999999888666654 567899999887


Q ss_pred             ccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          476 YNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       476 ~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                       ++.++.+ .-...++.|++|.+.+   |+....        ......-+..+++|+.|+..
T Consensus        99 -si~~l~dl~pLa~~p~L~~Ltll~---Npv~~k--------~~YR~yvl~klp~l~~LDF~  148 (233)
T KOG1644|consen   99 -SIQELGDLDPLASCPKLEYLTLLG---NPVEHK--------KNYRLYVLYKLPSLRTLDFQ  148 (233)
T ss_pred             -chhhhhhcchhccCCccceeeecC---Cchhcc--------cCceeEEEEecCcceEeehh
Confidence             6666543 0135567777776664   332111        11222235677888888876

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=97.22  E-value=0.0025  Score=66.04  Aligned_cols=101  Identities=18%  Similarity=0.221  Sum_probs=76.5

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC----------CCCc-ce-EEEEEEcCccCHHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA----------PNDF-DV-VIWMVVSKDLQLEKIQERIGRR  139 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT----------~~~F-~~-~~wv~~s~~~~~~~~~~~i~~~  139 (647)
                      +.+.+||++++++...|..    ....-+.|+|.+|+|||          .... .. ++.|.+-...+..+++..|+++
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence            4488999999999988764    33334889999999999          1111 11 7888888888999999999999


Q ss_pred             hCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCc
Q 039519          140 IGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWER  178 (647)
Q Consensus       140 l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~  178 (647)
                      ++...  .......+..+.+.+.+.  ++.++||||+++..
T Consensus        97 ~~~~p--~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L  135 (366)
T COG1474          97 LGKVP--LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDAL  135 (366)
T ss_pred             cCCCC--CCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhh
Confidence            97322  134567777888888885  47899999999864

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.13  E-value=0.00051  Score=67.14  Aligned_cols=80  Identities=13%  Similarity=0.069  Sum_probs=53.0

Q ss_pred             CceEEEEEccCccCCC-----------CCCcceEEEEEEcCc--cCHHHHHHHHHHHhCCCCcCCCCCC------HHHHH
Q 039519           96 QVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSKD--LQLEKIQERIGRRIGFLDESWKNGS------LEDKA  156 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~~--~~~~~~~~~i~~~l~~~~~~~~~~~------~~~~~  156 (647)
                      ....++|+|.+|+|||           ..+|+..+|+.+...  +++.++++.+...+-...  .+...      .....
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~--~~~~~~~~~~~~~~~~   92 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIAST--FDEPPERHVQVAEMVL   92 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHhccEEEEec--CCCCHHHHHHHHHHHH
Confidence            4568999999999999           457899999997776  799999999933321111  01111      11122


Q ss_pred             HHHHHH-hccCCeeEEEecCCC
Q 039519          157 SDIFRI-LSKKKLLLLLDDIWE  177 (647)
Q Consensus       157 ~~l~~~-l~~~r~LlVlDdv~~  177 (647)
                      ...... -.++++++++|++..
T Consensus        93 ~~a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          93 EKAKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHHHCCCCEEEEEECHHH
Confidence            222222 247999999999965

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.08  E-value=0.0019  Score=64.80  Aligned_cols=108  Identities=17%  Similarity=0.227  Sum_probs=74.3

Q ss_pred             CCcccchHHHHHHHHHhhhCC---ceEEEEEccCccCCC---CCCc----ceEEEEEEcCccCHHHHHHHHHHHhCCCCc
Q 039519           76 EPTVGLESTFDKVRRCLREEQ---VGIIGLYGMGGLLGA---PNDF----DVVIWMVVSKDLQLEKIQERIGRRIGFLDE  145 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~---~~vi~I~G~gGiGKT---~~~F----~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  145 (647)
                      +.+.+||..+..+..++.+..   .+.|-|+|-+|.|||   ++.|    ...+|+++-+-|..+-+...|+.+....+.
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~d~   85 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLADK   85 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccCCC
Confidence            567899999999999997643   345578999999999   4444    256999999999999999999999852221


Q ss_pred             -CCC-C---CCHHHHHHHHHH--Hhc--cCCeeEEEecCCCcccccc
Q 039519          146 -SWK-N---GSLEDKASDIFR--ILS--KKKLLLLLDDIWERVDLTK  183 (647)
Q Consensus       146 -~~~-~---~~~~~~~~~l~~--~l~--~~r~LlVlDdv~~~~~~~~  183 (647)
                       ... .   ....+....+.+  ...  ++.++||||+++.-.+.+.
T Consensus        86 dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a  132 (438)
T KOG2543|consen   86 DGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDA  132 (438)
T ss_pred             chhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccch
Confidence             111 1   111222222333  111  3589999999987666544

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

Probab=97.08  E-value=0.0006  Score=64.98  Aligned_cols=205  Identities=18%  Similarity=0.156  Sum_probs=118.8

Q ss_pred             cccccEEEEEeecccccc-----cccCCCCcceeeEEeccCcccccc----Cc-------cccccccCCCeeeecCCCCC
Q 039519          392 QNWRNVRRMSLMKNKIEN-----LSELQPALTFFLFFNMSNNHLLWK----LP-------LGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~-----l~~~~~~l~~L~~L~l~~~~~~~~----lp-------~~~~~L~~L~~L~L~~~~l~  455 (647)
                      ..+..+..++|++|.|..     +...+.+-.+|+..+++.- +.+.    +|       +.+-++++|+..+||.|-+.
T Consensus        27 ~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~-ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg  105 (388)
T COG5238          27 EMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDA-FTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFG  105 (388)
T ss_pred             HhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhh-hhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccC
Confidence            345688999999998854     3333455578888888865 3322    23       23467899999999999766


Q ss_pred             -ccccc----hhcCccCcEEeecccccCCcCchhhhc----------CCCCCcEEeccccCCCcccccccccccCCcccc
Q 039519          456 -HLPID----LQKLVNLKCLNLQYMYNLNQFPRLVIS----------AFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVL  520 (647)
Q Consensus       456 -~lp~~----~~~l~~L~~L~l~~~~~l~~lp~~~i~----------~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~  520 (647)
                       +.|+.    +++-+.|.+|.+++| .+..+..+-|+          +..+=..|....|..|.+.+.+.       ...
T Consensus       106 ~~~~e~L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~-------~~~  177 (388)
T COG5238         106 SEFPEELGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSK-------ELS  177 (388)
T ss_pred             cccchHHHHHHhcCCCceeEEeecC-CCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcH-------HHH
Confidence             55543    457789999999988 66666544333          22222333444777777644332       112


Q ss_pred             HHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEec--------------ccccCCccEEEE
Q 039519          521 VEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFC--------------LACLHNLNKLYV  586 (647)
Q Consensus       521 ~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~--------------~~~l~~L~~L~L  586 (647)
                      ...|..-.+|+.+.+..|++..-        ....|-.+.+.+|.+|+.|++..              +..-+.|+.|.+
T Consensus       178 a~~l~sh~~lk~vki~qNgIrpe--------gv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~l  249 (388)
T COG5238         178 AALLESHENLKEVKIQQNGIRPE--------GVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRL  249 (388)
T ss_pred             HHHHHhhcCceeEEeeecCcCcc--------hhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccc
Confidence            22344446788888887765321        11122333444455555555532              344455777777


Q ss_pred             cCCCCCCCCh--h---hc--cccCCceEEeeccc
Q 039519          587 AGCKHLEDFQ--M---II--QRSSLSVHNLFINK  613 (647)
Q Consensus       587 ~~~~~~~~~~--~---~~--~l~~L~~L~L~~~~  613 (647)
                      ..|.....-.  .   |.  .-|+|..|-..+|.
T Consensus       250 nDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne  283 (388)
T COG5238         250 NDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNE  283 (388)
T ss_pred             cchhhccccHHHHHHHhhhhcCCCccccccchhh
Confidence            7774332111  1   21  34667777766643

>PF13173 AAA_14: AAA domain

Probab=96.96  E-value=0.0004  Score=60.77  Aligned_cols=93  Identities=14%  Similarity=0.104  Sum_probs=59.3

Q ss_pred             ceEEEEEccCccCCC-------CCCc--ceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCC
Q 039519           97 VGIIGLYGMGGLLGA-------PNDF--DVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK  167 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT-------~~~F--~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r  167 (647)
                      .+++.|.|+-|+|||       +...  ..++++...+........                  .+ ..+.+.+....++
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~------------------~~-~~~~~~~~~~~~~   62 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLAD------------------PD-LLEYFLELIKPGK   62 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhh------------------hh-hHHHHHHhhccCC
Confidence            368999999999999       2222  445666554432211000                  00 2233344444578


Q ss_pred             eeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhh
Q 039519          168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICS  208 (647)
Q Consensus       168 ~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~  208 (647)
                      .+|+||++....+|......+.+.+...+|++|+.+.....
T Consensus        63 ~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~  103 (128)
T PF13173_consen   63 KYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLS  103 (128)
T ss_pred             cEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHh
Confidence            89999999988888776555555555679999999877753

>PRK04195 replication factor C large subunit; Provisional

Probab=96.93  E-value=0.021  Score=62.14  Aligned_cols=36  Identities=22%  Similarity=0.304  Sum_probs=30.7

Q ss_pred             CCcccchHHHHHHHHHhhh---C-CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE---E-QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~---~-~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++++.+++..   + ..+.+-|+|.+|+|||
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKT   53 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKT   53 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHH
Confidence            4579999999999998874   1 2678999999999999

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

Probab=96.91  E-value=0.00042  Score=65.96  Aligned_cols=105  Identities=24%  Similarity=0.282  Sum_probs=49.3

Q ss_pred             ccEEEEEeecccccccccCCCCcceeeEEeccCc--cccccCccccccccCCCeeeecCCCCCc---cccchhcCccCcE
Q 039519          395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNN--HLLWKLPLGISTLVSLEHLDLSSTAITH---LPIDLQKLVNLKC  469 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~--~~~~~lp~~~~~L~~L~~L~L~~~~l~~---lp~~~~~l~~L~~  469 (647)
                      .++..|++.+..++.+.. ++.|++|+.|.++.|  .....++....++++|++|++++|+++-   ++ .+.++.+|..
T Consensus        43 ~~le~ls~~n~gltt~~~-~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~-pl~~l~nL~~  120 (260)
T KOG2739|consen   43 VELELLSVINVGLTTLTN-FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR-PLKELENLKS  120 (260)
T ss_pred             cchhhhhhhccceeeccc-CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccc-hhhhhcchhh
Confidence            344445554444443322 255555666666665  3333344334444666666666665442   22 2344555555


Q ss_pred             EeecccccCCcCc---hhhhcCCCCCcEEeccccCC
Q 039519          470 LNLQYMYNLNQFP---RLVISAFSKLQVLRMFDCGG  502 (647)
Q Consensus       470 L~l~~~~~l~~lp---~~~i~~l~~L~~L~l~~~~~  502 (647)
                      |++.+|.. ..+.   ...+.-+++|..|+-.++..
T Consensus       121 Ldl~n~~~-~~l~dyre~vf~ll~~L~~LD~~dv~~  155 (260)
T KOG2739|consen  121 LDLFNCSV-TNLDDYREKVFLLLPSLKYLDGCDVDG  155 (260)
T ss_pred             hhcccCCc-cccccHHHHHHHHhhhhccccccccCC
Confidence            55555522 2222   12234455555555444433

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

Probab=96.91  E-value=0.00057  Score=76.57  Aligned_cols=46  Identities=20%  Similarity=0.093  Sum_probs=27.5

Q ss_pred             ccccCCccEEEEcCCCCCCCCh-------hhccccCCceEEeecccccccccchh
Q 039519          575 LACLHNLNKLYVAGCKHLEDFQ-------MIIQRSSLSVHNLFINKNYIHTNQLS  622 (647)
Q Consensus       575 ~~~l~~L~~L~L~~~~~~~~~~-------~~~~l~~L~~L~L~~~~~~~~~~~~~  622 (647)
                      +-+|++|+.||++.-.......       .-..||+|+.||.|+  +.+....+.
T Consensus       216 LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSg--Tdi~~~~le  268 (699)
T KOG3665|consen  216 LFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSG--TDINEEILE  268 (699)
T ss_pred             HhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCC--cchhHHHHH
Confidence            4567788888887654433321       123588888888887  444433333

>TIGR00767 rho transcription termination factor Rho

Probab=96.87  E-value=0.003  Score=65.07  Aligned_cols=82  Identities=12%  Similarity=0.028  Sum_probs=53.4

Q ss_pred             CceEEEEEccCccCCC-----------CCCcceEEEEEEcCc--cCHHHHHHHHHHHhCCCCcCCCCCCHHHH----HHH
Q 039519           96 QVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSKD--LQLEKIQERIGRRIGFLDESWKNGSLEDK----ASD  158 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~----~~~  158 (647)
                      .-..++|+|.+|+|||           ..+|+..+||.+.+.  .++.++++.+...+-...-..........    .+.
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            4457899999999999           446999999999866  78999999995543222100011111111    112


Q ss_pred             HHHH-hccCCeeEEEecCCC
Q 039519          159 IFRI-LSKKKLLLLLDDIWE  177 (647)
Q Consensus       159 l~~~-l~~~r~LlVlDdv~~  177 (647)
                      .... -.+++++|++|.+..
T Consensus       247 Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhH
Confidence            2222 257999999999964

Members of this family differ in the specificity of RNA binding.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.83  E-value=0.0027  Score=65.08  Aligned_cols=80  Identities=11%  Similarity=0.066  Sum_probs=52.8

Q ss_pred             CceEEEEEccCccCCC-----------CCCcceEEEEEEcCcc--CHHHHHHHHHHHhCCCCcCCCCCCHH------HHH
Q 039519           96 QVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSKDL--QLEKIQERIGRRIGFLDESWKNGSLE------DKA  156 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~------~~~  156 (647)
                      .-...+|+|.+|+|||           ..+|+.++||.+.+.+  ++.++++.+...+-..  .++.....      ...
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~s--t~d~~~~~~~~~a~~~i  245 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVAS--TFDEPAERHVQVAEMVI  245 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEE--CCCCCHHHHHHHHHHHH
Confidence            3456789999999999           4589999999998887  7888888887322111  11111111      111


Q ss_pred             HHHHHH-hccCCeeEEEecCCC
Q 039519          157 SDIFRI-LSKKKLLLLLDDIWE  177 (647)
Q Consensus       157 ~~l~~~-l~~~r~LlVlDdv~~  177 (647)
                      +.-+.. -.+++++|++|++..
T Consensus       246 e~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        246 EKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHcCCCEEEEEEChHH
Confidence            111111 257999999999964

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.77  E-value=0.0056  Score=62.88  Aligned_cols=36  Identities=3%  Similarity=0.030  Sum_probs=30.3

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.++..+.+..++..+.. .++-++|.+|+|||
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT   57 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKT   57 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHH
Confidence            5579999999999999887653 56777999999999

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

Probab=96.75  E-value=0.0033  Score=57.56  Aligned_cols=105  Identities=16%  Similarity=0.204  Sum_probs=70.3

Q ss_pred             eEEeccCccccccCccccc-cccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          421 LFFNMSNNHLLWKLPLGIS-TLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       421 ~~L~l~~~~~~~~lp~~~~-~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +.+++.+. .+...- ..+ .+.+...+||++|.+..++ .+..+++|.+|.+++| .+..|.+.+-.-+++|+.|.+.+
T Consensus        22 ~e~~LR~l-kip~ie-nlg~~~d~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nN-rIt~I~p~L~~~~p~l~~L~Ltn   97 (233)
T KOG1644|consen   22 RELDLRGL-KIPVIE-NLGATLDQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNN-RITRIDPDLDTFLPNLKTLILTN   97 (233)
T ss_pred             cccccccc-cccchh-hccccccccceecccccchhhcc-cCCCccccceEEecCC-cceeeccchhhhccccceEEecC
Confidence            45677766 221111 122 3456788999999888776 5778899999999988 78888887445566789887765


Q ss_pred             cCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          500 CGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       500 ~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                         |.+..+          ..+..+..+++|+.|.+-.|..+.
T Consensus        98 ---Nsi~~l----------~dl~pLa~~p~L~~Ltll~Npv~~  127 (233)
T KOG1644|consen   98 ---NSIQEL----------GDLDPLASCPKLEYLTLLGNPVEH  127 (233)
T ss_pred             ---cchhhh----------hhcchhccCCccceeeecCCchhc
Confidence               333221          222336677888888887776554

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

Probab=96.66  E-value=0.0011  Score=63.29  Aligned_cols=83  Identities=24%  Similarity=0.359  Sum_probs=52.4

Q ss_pred             CCcceeeEEeccCccccccCccccccccCCCeeeecCC--CCC-ccccchhcCccCcEEeecccccCC---cCchhhhcC
Q 039519          415 PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST--AIT-HLPIDLQKLVNLKCLNLQYMYNLN---QFPRLVISA  488 (647)
Q Consensus       415 ~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~--~l~-~lp~~~~~l~~L~~L~l~~~~~l~---~lp~~~i~~  488 (647)
                      ..+..|..|++.+. .+.++- .+-.|++|++|.++.|  ++. .++....++++|++|++++| .+.   ++++  ...
T Consensus        40 d~~~~le~ls~~n~-gltt~~-~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~N-ki~~lstl~p--l~~  114 (260)
T KOG2739|consen   40 DEFVELELLSVINV-GLTTLT-NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGN-KIKDLSTLRP--LKE  114 (260)
T ss_pred             ccccchhhhhhhcc-ceeecc-cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCC-ccccccccch--hhh
Confidence            33445566666666 444442 5566778888888888  554 66655666788888888887 333   3333  455


Q ss_pred             CCCCcEEeccccCC
Q 039519          489 FSKLQVLRMFDCGG  502 (647)
Q Consensus       489 l~~L~~L~l~~~~~  502 (647)
                      +.+|..|++++|+.
T Consensus       115 l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen  115 LENLKSLDLFNCSV  128 (260)
T ss_pred             hcchhhhhcccCCc
Confidence            66667777776665

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.61  E-value=0.022  Score=63.32  Aligned_cols=36  Identities=17%  Similarity=0.149  Sum_probs=30.5

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.|.+.+..++ ...+-++|..|+|||
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKT   52 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKT   52 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHH
Confidence            557999999999999988765 345679999999999

>COG3903 Predicted ATPase [General function prediction only]

Probab=96.58  E-value=0.0023  Score=65.11  Aligned_cols=207  Identities=14%  Similarity=0.183  Sum_probs=121.4

Q ss_pred             CceEEEEEccCccCCC---------CCCcc-eEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhcc
Q 039519           96 QVGIIGLYGMGGLLGA---------PNDFD-VVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSK  165 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT---------~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  165 (647)
                      ..+-+.++|.||||||         ...|. .+.++....--|...+.-.+...++...     .+-+.....+..+..+
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~-----~~g~~~~~~~~~~~~~   87 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAHAASEYADGVAFVDLAPITDPALVFPTLAGALGLHV-----QPGDSAVDTLVRRIGD   87 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHhHhhhcccceeeeeccccCchhHhHHHHHhhccccc-----ccchHHHHHHHHHHhh
Confidence            4578999999999999         45565 5556666655566666666666566532     2223334456677778


Q ss_pred             CCeeEEEecCCCccc-cccccCCCCCCCCCcEEEEecCchHHhhhcccceeEec--------------------cccccC
Q 039519          166 KKLLLLLDDIWERVD-LTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKV--------------------EDVLKN  224 (647)
Q Consensus       166 ~r~LlVlDdv~~~~~-~~~l~~~~~~~~~gs~IivTTR~~~v~~~~~~~~~~~~--------------------~~~~~~  224 (647)
                      +|.++|+||..+..+ .......+-.....-+|+.|+|......   .+..+.+                    ...+--
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~---ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l  164 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVA---GEVHRRVPSLSLFDEAIELFVCRAVLVALSFWL  164 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhccc---ccccccCCccccCCchhHHHHHHHHHhccceee
Confidence            999999999865321 1111111112222345777887654321   1111111                    111111


Q ss_pred             CCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHH----HHHHhhcccCCC-CCCcchhhHHHHhhcCCCchhh
Q 039519          225 HPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYA----IQVLRISASEFP-GMGKEVYPLLKYSYDSLPDETI  299 (647)
Q Consensus       225 ~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~----~~~l~~~~~~~~-~~~~~i~~~l~~sy~~L~~~~~  299 (647)
                      ...-...+.+|.++..|.|++|..+++..+. ....+-...    ...+... .... --+......+..||.-|.. -.
T Consensus       165 ~~~~~a~v~~icr~ldg~~laielaaarv~s-l~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtg-we  241 (414)
T COG3903         165 TDDNAAAVAEICRRLDGIPLAIELAAARVRS-LSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTG-WE  241 (414)
T ss_pred             cCCchHHHHHHHHHhhcchHHHHHHHHHHHh-cCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhh-HH
Confidence            2233567788999999999999999998887 443332221    1112211 1111 1112567788999999988 77


Q ss_pred             hhHHhhhcCCCCCC
Q 039519          300 RSCLLYCGLFPEDY  313 (647)
Q Consensus       300 k~~fl~~a~fp~~~  313 (647)
                      +.-|..++.|.-.+
T Consensus       242 ~~~~~rLa~~~g~f  255 (414)
T COG3903         242 RALFGRLAVFVGGF  255 (414)
T ss_pred             HHHhcchhhhhhhh
Confidence            77888887776444

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.43  E-value=0.018  Score=61.32  Aligned_cols=36  Identities=22%  Similarity=0.352  Sum_probs=30.3

Q ss_pred             CCcccchHHHHH---HHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDK---VRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~---i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+||++..+..   +.+.+..+....+.++|.+|+|||
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKT   50 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKT   50 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHH
Confidence            568999888766   778787777778889999999999

>PRK06893 DNA replication initiation factor; Validated

Probab=96.36  E-value=0.036  Score=53.81  Aligned_cols=16  Identities=13%  Similarity=0.011  Sum_probs=13.8

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ..+.+.++|.+|+|||
T Consensus        38 ~~~~l~l~G~~G~GKT   53 (229)
T PRK06893         38 QQPFFYIWGGKSSGKS   53 (229)
T ss_pred             CCCeEEEECCCCCCHH
Confidence            3457899999999999

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.26  E-value=0.03  Score=54.29  Aligned_cols=31  Identities=13%  Similarity=0.114  Sum_probs=24.6

Q ss_pred             chHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           81 LESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        81 r~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .+..++++.+++.......|.|+|.+|+|||
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT   52 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKS   52 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHH
Confidence            4556777777765566678999999999999

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>COG3899 Predicted ATPase [General function prediction only]

Probab=96.17  E-value=0.033  Score=64.58  Aligned_cols=83  Identities=16%  Similarity=0.209  Sum_probs=55.9

Q ss_pred             CCChHHHHHHHHHHhcCCchhHHHHhhHhhcC------CCHhHHHHHHHHHhhcccCCCCCCcchhhHHHHhhcCCCchh
Q 039519          225 HPNIPELARSVAQECAGLPLALITIGRVMACK------KTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDET  298 (647)
Q Consensus       225 ~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~------~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~  298 (647)
                      .....+..+.|+++..|.|+-+..+-..+...      .+...|..-...+    ...... +.+...+..-.+.||. .
T Consensus       236 ~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i----~~~~~~-~~vv~~l~~rl~kL~~-~  309 (849)
T COG3899         236 KLLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASL----GILATT-DAVVEFLAARLQKLPG-T  309 (849)
T ss_pred             ccccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhc----CCchhh-HHHHHHHHHHHhcCCH-H
Confidence            34456789999999999999999888887652      3444554322111    111112 2456668888999999 8


Q ss_pred             hhhHHhhhcCCCCCC
Q 039519          299 IRSCLLYCGLFPEDY  313 (647)
Q Consensus       299 ~k~~fl~~a~fp~~~  313 (647)
                      .+......|++-..+
T Consensus       310 t~~Vl~~AA~iG~~F  324 (849)
T COG3899         310 TREVLKAAACIGNRF  324 (849)
T ss_pred             HHHHHHHHHHhCccC
Confidence            888888888875443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.09  E-value=0.016  Score=59.23  Aligned_cols=111  Identities=12%  Similarity=0.153  Sum_probs=67.4

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC----------------CCCcceEEEEE-EcCccCHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA----------------PNDFDVVIWMV-VSKDLQLEKIQERIG  137 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT----------------~~~F~~~~wv~-~s~~~~~~~~~~~i~  137 (647)
                      ..++|-+..++++.+.+..+.. ..+-++|..|+|||                ..|+|...|.. -+....+.++. ++.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir-~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIR-NII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHH-HHH
Confidence            4578999989999999887654 56689999999999                23444444543 22223333322 222


Q ss_pred             HHhCCCCcCCCCCCHHHHHHHHHHHhccCCeeEEEecCC--CccccccccCCCCCCCCCcEEEEecCchH
Q 039519          138 RRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIW--ERVDLTKVGVPFPDPENKSRIDFTTRFLE  205 (647)
Q Consensus       138 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~--~~~~~~~l~~~~~~~~~gs~IivTTR~~~  205 (647)
                      ..+....                  ..+++-++|+|+++  +...+..+...+.....++.+|++|.+.+
T Consensus        83 ~~~~~~p------------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~  134 (313)
T PRK05564         83 EEVNKKP------------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLE  134 (313)
T ss_pred             HHHhcCc------------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence            2222110                  11344456666664  44556777767776677888888886654

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=96.03  E-value=0.032  Score=58.65  Aligned_cols=96  Identities=17%  Similarity=0.111  Sum_probs=61.7

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC------------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA------------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT------------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  143 (647)
                      ..+++.++..+.+...|...  +.|.++|++|+|||            ...|+.+.||.+++.++..++...+.-. + .
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~-v  250 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-G-V  250 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCC-C-C
Confidence            45688899999999888754  46778999999999            3467788999999988876665432100 0 0


Q ss_pred             CcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCc
Q 039519          144 DESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWER  178 (647)
Q Consensus       144 ~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~  178 (647)
                      .-.....   -..+.+.+.-.  ++++.+|+|+++..
T Consensus       251 gy~~~~G---~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        251 GFRRKDG---IFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             CeEecCc---hHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            0000111   11222223222  46899999999864

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

Probab=96.02  E-value=0.0026  Score=36.29  Aligned_cols=20  Identities=40%  Similarity=0.635  Sum_probs=11.3

Q ss_pred             CCeeeecCCCCCccccchhc
Q 039519          444 LEHLDLSSTAITHLPIDLQK  463 (647)
Q Consensus       444 L~~L~L~~~~l~~lp~~~~~  463 (647)
                      |++|++++|+++.+|+++++
T Consensus         2 L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             ESEEEETSSEESEEGTTTTT
T ss_pred             ccEEECCCCcCEeCChhhcC
Confidence            55666666665555555443

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 ....

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=95.99  E-value=0.063  Score=55.68  Aligned_cols=100  Identities=17%  Similarity=0.143  Sum_probs=65.7

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC------CCCc---c---eEEEEEEcCccCHHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA------PNDF---D---VVIWMVVSKDLQLEKIQERIGRR  139 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT------~~~F---~---~~~wv~~s~~~~~~~~~~~i~~~  139 (647)
                      ...+||+.++..+.+++..    ...+.+-|.|-+|.|||      ..++   .   .++.+....--....+...|...
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~  229 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSS  229 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHH
Confidence            5679999999999998864    46778999999999999      1111   1   22444333323456677777666


Q ss_pred             hCCCCcCCCCCCHHHHHHHHHHHhccC--CeeEEEecCCC
Q 039519          140 IGFLDESWKNGSLEDKASDIFRILSKK--KLLLLLDDIWE  177 (647)
Q Consensus       140 l~~~~~~~~~~~~~~~~~~l~~~l~~~--r~LlVlDdv~~  177 (647)
                      +.....  ......+..+.+.+...+.  -+|+|+|.++.
T Consensus       230 ~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~  267 (529)
T KOG2227|consen  230 LLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDH  267 (529)
T ss_pred             HHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhH
Confidence            622111  2223356667777777654  58999999875

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=95.93  E-value=0.013  Score=60.73  Aligned_cols=36  Identities=14%  Similarity=0.232  Sum_probs=31.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|++..++.+.+++..+..+.+.++|.+|+|||
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT   50 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKT   50 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHH
Confidence            567999999999999888776667889999999999

>PRK08727 hypothetical protein; Validated

Probab=95.92  E-value=0.057  Score=52.57  Aligned_cols=36  Identities=8%  Similarity=0.117  Sum_probs=23.0

Q ss_pred             CCcccc-hHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGL-ESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr-~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      +.||+. ...+..+.....+.....+.|+|.+|+|||
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKT   55 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKT   55 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHH
Confidence            445543 344444444443444457999999999999

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

Probab=95.88  E-value=0.008  Score=57.53  Aligned_cols=204  Identities=18%  Similarity=0.096  Sum_probs=118.9

Q ss_pred             cceeeEEeccCcccccc----CccccccccCCCeeeecCC---CCC-ccccc-------hhcCccCcEEeecccccCCcC
Q 039519          417 LTFFLFFNMSNNHLLWK----LPLGISTLVSLEHLDLSST---AIT-HLPID-------LQKLVNLKCLNLQYMYNLNQF  481 (647)
Q Consensus       417 l~~L~~L~l~~~~~~~~----lp~~~~~L~~L~~L~L~~~---~l~-~lp~~-------~~~l~~L~~L~l~~~~~l~~l  481 (647)
                      +..+..++||+|..-+.    +...|.+-.+|+..+++.-   ... ++|++       +-+||.|+..+|+.|-.-.+.
T Consensus        29 ~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~  108 (388)
T COG5238          29 MDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEF  108 (388)
T ss_pred             hcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCccc
Confidence            46788899999943322    3445666778888888753   222 55544       457899999999998655556


Q ss_pred             ch---hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhh------CCCCCcEEEEEecchhhHHHHhhhhhh
Q 039519          482 PR---LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELI------GMKYLMAVTITLKRLQALQELLISQEL  552 (647)
Q Consensus       482 p~---~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~------~l~~L~~L~l~~~~~~~l~~l~~~~~~  552 (647)
                      |+   .+|++-+.|.+|.+.+|..-++   .    ++..+..+..|+      .-+.|++.....|.+.+........  
T Consensus       109 ~e~L~d~is~~t~l~HL~l~NnGlGp~---a----G~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~--  179 (388)
T COG5238         109 PEELGDLISSSTDLVHLKLNNNGLGPI---A----GGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAA--  179 (388)
T ss_pred             chHHHHHHhcCCCceeEEeecCCCCcc---c----hhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHH--
Confidence            64   3478889999998887654222   0    001121222222      3367777777655543322111111  


Q ss_pred             hhccceeeeeccCCCceEEEe---------------cccccCCccEEEEcCCCCCCCChh-----hccccCCceEEeecc
Q 039519          553 QRCTQFLFLRCFNDSKSLDIF---------------CLACLHNLNKLYVAGCKHLEDFQM-----IIQRSSLSVHNLFIN  612 (647)
Q Consensus       553 ~~~l~~l~L~~~~~L~~L~l~---------------~~~~l~~L~~L~L~~~~~~~~~~~-----~~~l~~L~~L~L~~~  612 (647)
                             .|..-.+|+.+.+.               .+..+.+|+.|+|+.|.++..-..     +...+.|+.|.+.+|
T Consensus       180 -------~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDC  252 (388)
T COG5238         180 -------LLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDC  252 (388)
T ss_pred             -------HHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccch
Confidence                   11111244444431               155678999999999976543331     345577999999987


Q ss_pred             cccccccchh----hhh--hhcCCCCcccCCC
Q 039519          613 KNYIHTNQLS----ILL--GINRLPHFTKSNP  638 (647)
Q Consensus       613 ~~~~~~~~~~----~l~--~l~~L~~L~~~~~  638 (647)
                      -  ++.....    .+.  ..|+|..|.+.++
T Consensus       253 l--ls~~G~~~v~~~f~e~~~p~l~~L~~~Yn  282 (388)
T COG5238         253 L--LSNEGVKSVLRRFNEKFVPNLMPLPGDYN  282 (388)
T ss_pred             h--hccccHHHHHHHhhhhcCCCccccccchh
Confidence            4  3322222    122  2466777766544

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.85  E-value=0.06  Score=56.30  Aligned_cols=36  Identities=14%  Similarity=0.146  Sum_probs=30.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..+++ ..+-++|..|+|||
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKT   52 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKT   52 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHH
Confidence            5679999999999998887654 46789999999999

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

Probab=95.80  E-value=0.00094  Score=67.53  Aligned_cols=225  Identities=16%  Similarity=0.140  Sum_probs=108.1

Q ss_pred             cEEEEEeecccccc---cccCCCCcceeeEEeccCccccccCc-ccc-ccccCCCeeeecCC-CCCcc--ccchhcCccC
Q 039519          396 NVRRMSLMKNKIEN---LSELQPALTFFLFFNMSNNHLLWKLP-LGI-STLVSLEHLDLSST-AITHL--PIDLQKLVNL  467 (647)
Q Consensus       396 ~l~~L~l~~n~i~~---l~~~~~~l~~L~~L~l~~~~~~~~lp-~~~-~~L~~L~~L~L~~~-~l~~l--p~~~~~l~~L  467 (647)
                      -++.|++.++.-..   +-....+.+++..|++.++..++.-. .++ .....|++|+|..| .++..  -.-...+++|
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL  218 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKL  218 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhH
Confidence            56677777654322   21122445566666777774333211 122 34567888888775 55522  1123467788


Q ss_pred             cEEeecccccCCc--CchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHh-hCCCCCcEEEEEe-cchhhH
Q 039519          468 KCLNLQYMYNLNQ--FPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL-IGMKYLMAVTITL-KRLQAL  543 (647)
Q Consensus       468 ~~L~l~~~~~l~~--lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l-~~l~~L~~L~l~~-~~~~~l  543 (647)
                      .+|++++|+.+..  +.. +.....+++.+...+|..-.+             ..+... +++..+-++++.. +.++..
T Consensus       219 ~~lNlSwc~qi~~~gv~~-~~rG~~~l~~~~~kGC~e~~l-------------e~l~~~~~~~~~i~~lnl~~c~~lTD~  284 (483)
T KOG4341|consen  219 KYLNLSWCPQISGNGVQA-LQRGCKELEKLSLKGCLELEL-------------EALLKAAAYCLEILKLNLQHCNQLTDE  284 (483)
T ss_pred             HHhhhccCchhhcCcchH-HhccchhhhhhhhcccccccH-------------HHHHHHhccChHhhccchhhhccccch
Confidence            8888888754433  111 123344444443334332110             001001 1122222333211 112221


Q ss_pred             HHHhhhhhhhhccceeeeeccCCCceEEEec-ccccCCccEEEEcCCCCCCCChh--h-ccccCCceEEeeccccccccc
Q 039519          544 QELLISQELQRCTQFLFLRCFNDSKSLDIFC-LACLHNLNKLYVAGCKHLEDFQM--I-IQRSSLSVHNLFINKNYIHTN  619 (647)
Q Consensus       544 ~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~-~~~l~~L~~L~L~~~~~~~~~~~--~-~~l~~L~~L~L~~~~~~~~~~  619 (647)
                      ..+. -......++.+..++|.++....+.. ..+..+|+.|-|++|...+..-.  + .+.+.|+.+++.+|.......
T Consensus       285 ~~~~-i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~t  363 (483)
T KOG4341|consen  285 DLWL-IACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGT  363 (483)
T ss_pred             HHHH-HhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhh
Confidence            1111 11222345666666666655544433 34567888888888875444332  2 356778888888774333321


Q ss_pred             chhhhhhhcCCCCccc
Q 039519          620 QLSILLGINRLPHFTK  635 (647)
Q Consensus       620 ~~~~l~~l~~L~~L~~  635 (647)
                      -...-.+.+.|+.|..
T Consensus       364 L~sls~~C~~lr~lsl  379 (483)
T KOG4341|consen  364 LASLSRNCPRLRVLSL  379 (483)
T ss_pred             HhhhccCCchhccCCh
Confidence            2222334566666643

>PLN03025 replication factor C subunit; Provisional

Probab=95.76  E-value=0.023  Score=58.33  Aligned_cols=36  Identities=19%  Similarity=0.218  Sum_probs=30.5

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++.|.+++..+...-+-++|.+|+|||
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKT   48 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKT   48 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHH
Confidence            457899998888888887766666779999999999

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.56  E-value=0.00089  Score=64.06  Aligned_cols=100  Identities=19%  Similarity=0.230  Sum_probs=61.6

Q ss_pred             cccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccc--cchhcCccCcEEe
Q 039519          394 WRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLP--IDLQKLVNLKCLN  471 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp--~~~~~l~~L~~L~  471 (647)
                      +.+++.|..+++.+.++.-. .+|+.|.+|.||-| .+.++- .+..+++|+.|+|+.|.|..+-  .-+.++++|+.|-
T Consensus        18 l~~vkKLNcwg~~L~DIsic-~kMp~lEVLsLSvN-kIssL~-pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LW   94 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISIC-EKMPLLEVLSLSVN-KISSLA-PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLW   94 (388)
T ss_pred             HHHhhhhcccCCCccHHHHH-HhcccceeEEeecc-ccccch-hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHh
Confidence            34566666666666654322 56666777777777 555553 4666677777777777666443  2356777777777


Q ss_pred             ecccccCCcCchh----hhcCCCCCcEEe
Q 039519          472 LQYMYNLNQFPRL----VISAFSKLQVLR  496 (647)
Q Consensus       472 l~~~~~l~~lp~~----~i~~l~~L~~L~  496 (647)
                      |..|+....-+..    ++.-|++|+.|+
T Consensus        95 L~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   95 LDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hccCCcccccchhHHHHHHHHcccchhcc
Confidence            7776555554432    345566666664

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=95.51  E-value=0.078  Score=59.29  Aligned_cols=128  Identities=13%  Similarity=0.050  Sum_probs=73.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC------------CCCc---ceEEEEEEcCc---cCHHHHHHHH-
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA------------PNDF---DVVIWMVVSKD---LQLEKIQERI-  136 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT------------~~~F---~~~~wv~~s~~---~~~~~~~~~i-  136 (647)
                      +.++|++..+..+.+.+.......+.|+|.+|+|||            ...+   ...-|+.+...   .+...+...+ 
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~ll  233 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPLL  233 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHHhc
Confidence            567999999999888887666678999999999999            1111   12346655321   1222221111 


Q ss_pred             --------------HHHhCCCC----------------cCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCc--cccccc
Q 039519          137 --------------GRRIGFLD----------------ESWKNGSLEDKASDIFRILSKKKLLLLLDDIWER--VDLTKV  184 (647)
Q Consensus       137 --------------~~~l~~~~----------------~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~--~~~~~l  184 (647)
                                    +...+...                +..... ....+..+.+.++++++.++-|+.|..  ..|+.+
T Consensus       234 g~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~L-d~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~i  312 (615)
T TIGR02903       234 GSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGEL-DPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYI  312 (615)
T ss_pred             CCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccC-CHHHHHHHHHHHhhCeEEeecceeccCCcccchhh
Confidence                          11111100                001111 223466788888888998887776654  346666


Q ss_pred             cCCCCCCCCCcEEEE--ecCch
Q 039519          185 GVPFPDPENKSRIDF--TTRFL  204 (647)
Q Consensus       185 ~~~~~~~~~gs~Iiv--TTR~~  204 (647)
                      ...+........|+|  ||++.
T Consensus       313 k~~~~~~~~~~~VLI~aTt~~~  334 (615)
T TIGR02903       313 KKLFEEGAPADFVLIGATTRDP  334 (615)
T ss_pred             hhhcccCccceEEEEEeccccc
Confidence            655555444444555  56543

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.42  E-value=0.034  Score=60.63  Aligned_cols=36  Identities=14%  Similarity=0.225  Sum_probs=30.4

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||-+..++.+...+..++. ..+-++|..|+|||
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKT   52 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKT   52 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            5579999999999998887654 45778999999999

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.38  E-value=0.035  Score=61.49  Aligned_cols=36  Identities=22%  Similarity=0.254  Sum_probs=31.2

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.|.+.+..+++ ..+-++|..|+|||
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKT   52 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKT   52 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHH
Confidence            5579999999999999987654 46789999999999

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.31  E-value=0.0019  Score=61.94  Aligned_cols=108  Identities=19%  Similarity=0.098  Sum_probs=74.3

Q ss_pred             CcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCch-hhhcCCCCCcE
Q 039519          416 ALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPR-LVISAFSKLQV  494 (647)
Q Consensus       416 ~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~  494 (647)
                      .|.+.+.|+..++ .+..+. -..+++.|++|.|+-|+|+.|- .+..|++|++|+|..| .+..+.. ..+.++++|++
T Consensus        17 dl~~vkKLNcwg~-~L~DIs-ic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN-~I~sldEL~YLknlpsLr~   92 (388)
T KOG2123|consen   17 DLENVKKLNCWGC-GLDDIS-ICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKN-CIESLDELEYLKNLPSLRT   92 (388)
T ss_pred             HHHHhhhhcccCC-CccHHH-HHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhc-ccccHHHHHHHhcCchhhh
Confidence            3456677888888 666653 3458999999999999999986 5889999999999998 6666665 12456777777


Q ss_pred             EeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          495 LRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       495 L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      |.+......         ..+.......-|.-|++|++|+-.
T Consensus        93 LWL~ENPCc---------~~ag~nYR~~VLR~LPnLkKLDnv  125 (388)
T KOG2123|consen   93 LWLDENPCC---------GEAGQNYRRKVLRVLPNLKKLDNV  125 (388)
T ss_pred             HhhccCCcc---------cccchhHHHHHHHHcccchhccCc
Confidence            776653220         001123333456777888877643

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.30  E-value=0.043  Score=59.72  Aligned_cols=36  Identities=11%  Similarity=0.187  Sum_probs=31.0

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..+||-+..++.|.+.+..+.+. .+-++|..|+|||
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKT   52 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKT   52 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHH
Confidence            56799999999999999876554 5688999999999

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=95.25  E-value=0.048  Score=56.00  Aligned_cols=36  Identities=17%  Similarity=0.293  Sum_probs=31.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|+++.++.+.+++.......+.++|.+|+|||
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt   52 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKT   52 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHH
Confidence            457999999999999998776667899999999999

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.19  E-value=0.17  Score=55.12  Aligned_cols=36  Identities=19%  Similarity=0.220  Sum_probs=30.1

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.+...+.|...+..+.. ..+.++|.+|+|||
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKT   50 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKT   50 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            4579999988889888887654 45689999999999

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=95.17  E-value=0.059  Score=51.71  Aligned_cols=112  Identities=12%  Similarity=0.086  Sum_probs=62.4

Q ss_pred             CCcccchHHHHHHHHHh----hhCCceEEEEEccCccCCCCCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCc------
Q 039519           76 EPTVGLESTFDKVRRCL----REEQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDE------  145 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L----~~~~~~vi~I~G~gGiGKT~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~------  145 (647)
                      +.++|.|...+.|.+-.    ......-+-+||..|.|||                   .+++.++.......-      
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKS-------------------SlVkall~~y~~~GLRlIev~   87 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKS-------------------SLVKALLNEYADQGLRLIEVS   87 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHH-------------------HHHHHHHHHHhhcCceEEEEC
Confidence            56799999988876533    3345556778999999999                   233333333322110      


Q ss_pred             CCCCCCHHHHHHHHHHHhccCCeeEEEecCCCc---cccccccCCCCC----CCCCcEEEEecCchHHhh
Q 039519          146 SWKNGSLEDKASDIFRILSKKKLLLLLDDIWER---VDLTKVGVPFPD----PENKSRIDFTTRFLEICS  208 (647)
Q Consensus       146 ~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~---~~~~~l~~~~~~----~~~gs~IivTTR~~~v~~  208 (647)
                      ..+..+..++...++.  +..||+|.+||+.=.   .....++..+..    ......|.+||-.+++..
T Consensus        88 k~~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~  155 (249)
T PF05673_consen   88 KEDLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVP  155 (249)
T ss_pred             HHHhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccc
Confidence            0012233333333332  357999999999632   223333333322    233455666666666644

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.14  E-value=0.044  Score=60.20  Aligned_cols=36  Identities=14%  Similarity=0.108  Sum_probs=30.9

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..+||.+...+.|.+.+..++ ...+.++|..|+|||
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKT   51 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKT   51 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            557999999999999998765 457789999999999

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.14  E-value=0.045  Score=63.65  Aligned_cols=36  Identities=22%  Similarity=0.294  Sum_probs=30.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .+++||+++++++.+.|......-+.++|.+|+|||
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKT  214 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKT  214 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHH
Confidence            567999999999999998654445569999999999

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=95.13  E-value=0.16  Score=52.86  Aligned_cols=39  Identities=15%  Similarity=0.101  Sum_probs=32.5

Q ss_pred             CCCCCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           73 RPCEPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        73 ~~~~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      +....++|.++..+.+.+.+..+.+. .+-++|+.|+||+
T Consensus        16 ~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~   55 (365)
T PRK07471         16 RETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKA   55 (365)
T ss_pred             CchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence            33466899999999999999887644 5889999999999

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=95.07  E-value=0.13  Score=56.32  Aligned_cols=36  Identities=11%  Similarity=0.106  Sum_probs=30.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..+.+ ..+-++|+.|+|||
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKT   52 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKT   52 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence            5679999999999998877544 46889999999999

>PRK10536 hypothetical protein; Provisional

Probab=95.06  E-value=0.047  Score=53.00  Aligned_cols=34  Identities=12%  Similarity=0.139  Sum_probs=28.5

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+.+|......+...+.+.  ..|.+.|.+|.|||
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT   88 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKT   88 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHH
Confidence            45678888888888888664  48999999999999

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.03  E-value=0.047  Score=61.98  Aligned_cols=36  Identities=17%  Similarity=0.242  Sum_probs=30.7

Q ss_pred             CCcccchHHHHHHHHHhhhCCceE-EEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGI-IGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~v-i~I~G~gGiGKT  111 (647)
                      ..+||.+..++.|.+.+..+++.- +.++|..|+|||
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKT   52 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKT   52 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHH
Confidence            567999999999999988776554 579999999999

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=94.97  E-value=0.053  Score=61.39  Aligned_cols=36  Identities=31%  Similarity=0.528  Sum_probs=28.7

Q ss_pred             CCcccchHHHH---HHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFD---KVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~---~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      +.+||.+..+.   .+.+.+..+....+.++|++|+|||
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKT   66 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKT   66 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHH
Confidence            45799988774   4566666677777889999999999

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.96  E-value=0.065  Score=58.83  Aligned_cols=36  Identities=17%  Similarity=0.233  Sum_probs=30.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||-+..++.|.+.+..+++ ..+-++|..|+|||
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKT   52 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKT   52 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHH
Confidence            5579999999999999987754 45688999999999

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.96  E-value=0.077  Score=57.03  Aligned_cols=36  Identities=19%  Similarity=0.246  Sum_probs=30.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.+.+.+..+.+. .+-++|..|+|||
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKT   49 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKT   49 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHH
Confidence            56799999998888888877654 7889999999999

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=94.88  E-value=0.031  Score=53.92  Aligned_cols=25  Identities=16%  Similarity=0.251  Sum_probs=20.6

Q ss_pred             EEEEEccCccCCC----------CCCcceEEEEEE
Q 039519           99 IIGLYGMGGLLGA----------PNDFDVVIWMVV  123 (647)
Q Consensus        99 vi~I~G~gGiGKT----------~~~F~~~~wv~~  123 (647)
                      .++|+|..|+|||          ...|..+++++-
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence            5678999999999          778887777754

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=94.87  E-value=0.13  Score=54.10  Aligned_cols=36  Identities=19%  Similarity=0.194  Sum_probs=29.9

Q ss_pred             CCcccchHHHHHHHHHhhhCC----------ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ----------VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~----------~~vi~I~G~gGiGKT  111 (647)
                      +.++|-+..++.+.+.+..+.          ...+-++|+.|+|||
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt   50 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRS   50 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHH
Confidence            457899999999999888653          456889999999999

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

Probab=94.86  E-value=0.083  Score=53.88  Aligned_cols=103  Identities=17%  Similarity=0.283  Sum_probs=55.1

Q ss_pred             CCcccchHHH---HHHHHHhhhCCceEEEEEccCccCCC------CCCcceEEEEEEcCcc-CHHHHHHHHHHHhCCCCc
Q 039519           76 EPTVGLESTF---DKVRRCLREEQVGIIGLYGMGGLLGA------PNDFDVVIWMVVSKDL-QLEKIQERIGRRIGFLDE  145 (647)
Q Consensus        76 ~~~vGr~~~~---~~i~~~L~~~~~~vi~I~G~gGiGKT------~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~  145 (647)
                      ..+||.+-.+   .-|...+..+.+...-.||++|+|||      .+.++. -|..+|-.. +++++.            
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~-~f~~~sAv~~gvkdlr------------   90 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNA-AFEALSAVTSGVKDLR------------   90 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCC-ceEEeccccccHHHHH------------
Confidence            3456655443   23445555667777778999999999      222221 122332222 122221            


Q ss_pred             CCCCCCHHHHHHHH-HHHhccCCeeEEEecCCC--ccccccccCCCCCCCCCcEEEEecC
Q 039519          146 SWKNGSLEDKASDI-FRILSKKKLLLLLDDIWE--RVDLTKVGVPFPDPENKSRIDFTTR  202 (647)
Q Consensus       146 ~~~~~~~~~~~~~l-~~~l~~~r~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~IivTTR  202 (647)
                              +..+.- +....++|.+|++|.|..  ..+-+.|   +|.-.+|.-|+|-+.
T Consensus        91 --------~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGAT  139 (436)
T COG2256          91 --------EIIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGAT  139 (436)
T ss_pred             --------HHHHHHHHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEecc
Confidence                    112222 122348999999999975  3333433   344456777777444

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=94.85  E-value=0.35  Score=50.47  Aligned_cols=36  Identities=14%  Similarity=0.250  Sum_probs=30.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.+.+.+..+.. ..+-++|.+|+|||
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt   50 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKT   50 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            5679999999999998887654 46788999999999

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.83  E-value=0.093  Score=57.53  Aligned_cols=36  Identities=17%  Similarity=0.228  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..+||-+..++.+.+.+..+... .+-++|..|+|||
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKT   52 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKT   52 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHH
Confidence            56799999999999998876554 5678999999999

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.83  E-value=0.064  Score=57.76  Aligned_cols=36  Identities=14%  Similarity=0.144  Sum_probs=30.0

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+...+.+...+..+.. ..+-++|.+|+|||
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKT   50 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKT   50 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            5679999888888888877665 45789999999999

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=94.79  E-value=0.063  Score=61.62  Aligned_cols=36  Identities=19%  Similarity=0.274  Sum_probs=30.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .+++||+.+++++.+.|......-+.++|.+|+|||
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT  217 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKT  217 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHH
Confidence            567999999999999887655555679999999999

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

Probab=94.78  E-value=0.0015  Score=60.95  Aligned_cols=86  Identities=19%  Similarity=0.157  Sum_probs=77.3

Q ss_pred             cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcE
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC  469 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~  469 (647)
                      ++......+.|+++.|+.-.+...++.++.+..|+++.| .+..+|..++.+..++.+++..|+.+.+|.+++.++.+++
T Consensus        37 ei~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~skn-q~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~  115 (326)
T KOG0473|consen   37 EIASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKN-QIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKK  115 (326)
T ss_pred             hhhccceeeeehhhhhHHHhhccchHHHHHHHHHhccHh-hHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcch
Confidence            345567899999999999888888888889999999999 8889999999999999999999999999999999999999


Q ss_pred             Eeecccc
Q 039519          470 LNLQYMY  476 (647)
Q Consensus       470 L~l~~~~  476 (647)
                      +++.+|+
T Consensus       116 ~e~k~~~  122 (326)
T KOG0473|consen  116 NEQKKTE  122 (326)
T ss_pred             hhhccCc
Confidence            9999874

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=94.66  E-value=0.17  Score=47.47  Aligned_cols=26  Identities=15%  Similarity=0.245  Sum_probs=19.9

Q ss_pred             HHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           86 DKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        86 ~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      +.+.+.+..+.. ..+-++|..|+|||
T Consensus         2 ~~l~~~i~~~~~~~~~L~~G~~G~gkt   28 (188)
T TIGR00678         2 QQLKRALEKGRLAHAYLFAGPEGVGKE   28 (188)
T ss_pred             hHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            345666666655 57889999999999

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.63  E-value=0.14  Score=54.21  Aligned_cols=36  Identities=19%  Similarity=0.212  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.|...+.++.+. .+-++|+.|+|||
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKt   52 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKT   52 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHH
Confidence            56799999999998888877654 4788999999999

>PRK08084 DNA replication initiation factor; Provisional

Probab=94.61  E-value=0.19  Score=49.04  Aligned_cols=33  Identities=24%  Similarity=0.340  Sum_probs=21.6

Q ss_pred             ccchH-HHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           79 VGLES-TFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        79 vGr~~-~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      +|.+. .+..+.++....+...+.|+|..|+|||
T Consensus        26 ~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKT   59 (235)
T PRK08084         26 PGDNDSLLAALQNALRQEHSGYIYLWSREGAGRS   59 (235)
T ss_pred             cCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHH
Confidence            46333 3344444444445568899999999999

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=94.54  E-value=0.082  Score=46.30  Aligned_cols=79  Identities=23%  Similarity=0.040  Sum_probs=41.8

Q ss_pred             eEEEEEccCccCCC-------CCCcc---eEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCC
Q 039519           98 GIIGLYGMGGLLGA-------PNDFD---VVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK  167 (647)
Q Consensus        98 ~vi~I~G~gGiGKT-------~~~F~---~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r  167 (647)
                      ..+.|+|.+|+|||       ...+.   .++.+..+........... .......   ............+.+..+..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLL-LIIVGGK---KASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHH-hhhhhcc---CCCCCHHHHHHHHHHHHHhcC
Confidence            57899999999999       22222   3556655443322222211 0111111   122233334445555555444


Q ss_pred             -eeEEEecCCCccc
Q 039519          168 -LLLLLDDIWERVD  180 (647)
Q Consensus       168 -~LlVlDdv~~~~~  180 (647)
                       .+|++|++.....
T Consensus        79 ~~viiiDei~~~~~   92 (148)
T smart00382       79 PDVLILDEITSLLD   92 (148)
T ss_pred             CCEEEEECCcccCC
Confidence             9999999987543

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=94.52  E-value=0.11  Score=56.17  Aligned_cols=36  Identities=17%  Similarity=0.182  Sum_probs=30.2

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||-+..+..+...+..+.. ..+-++|..|+|||
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKT   57 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKT   57 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence            5579999999999888877653 57788999999999

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

Probab=94.45  E-value=0.014  Score=63.62  Aligned_cols=10  Identities=30%  Similarity=0.747  Sum_probs=5.3

Q ss_pred             ccEEEEcCCC
Q 039519          581 LNKLYVAGCK  590 (647)
Q Consensus       581 L~~L~L~~~~  590 (647)
                      ++.|+++.|.
T Consensus       403 l~~L~l~~~~  412 (482)
T KOG1947|consen  403 LRVLNLSDCR  412 (482)
T ss_pred             cceEecccCc
Confidence            5555555553

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=94.44  E-value=0.08  Score=49.72  Aligned_cols=36  Identities=19%  Similarity=0.209  Sum_probs=32.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+||-|+.++.+.-...+++..-+.|.||+|+|||
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKT   62 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKT   62 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchh
Confidence            456999999999988888888999999999999999

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=94.42  E-value=0.27  Score=48.85  Aligned_cols=100  Identities=12%  Similarity=0.219  Sum_probs=66.3

Q ss_pred             CCcccchH---HHHHHHHHhhh---CCceEEEEEccCccCCC----------CCCc------ceEEEEEEcCccCHHHHH
Q 039519           76 EPTVGLES---TFDKVRRCLRE---EQVGIIGLYGMGGLLGA----------PNDF------DVVIWMVVSKDLQLEKIQ  133 (647)
Q Consensus        76 ~~~vGr~~---~~~~i~~~L~~---~~~~vi~I~G~gGiGKT----------~~~F------~~~~wv~~s~~~~~~~~~  133 (647)
                      +..||-..   .++++.+++..   ....-+.|||-+|.|||          ...+      -.++-|.....++...++
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y  113 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFY  113 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHH
Confidence            34555433   34444555543   35567899999999999          1111      146677788889999999


Q ss_pred             HHHHHHhCCCCcCCCCCCHHHHHHHHHHHhcc-CCeeEEEecCCC
Q 039519          134 ERIGRRIGFLDESWKNGSLEDKASDIFRILSK-KKLLLLLDDIWE  177 (647)
Q Consensus       134 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-~r~LlVlDdv~~  177 (647)
                      ..|+.+++....  ...+.........+.++. +-=+||+|.+.+
T Consensus       114 ~~IL~~lgaP~~--~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~  156 (302)
T PF05621_consen  114 SAILEALGAPYR--PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN  156 (302)
T ss_pred             HHHHHHhCcccC--CCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence            999999997653  233445555555566654 344788899975

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK10865 protein disaggregation chaperone; Provisional

Probab=94.39  E-value=0.098  Score=60.91  Aligned_cols=36  Identities=17%  Similarity=0.272  Sum_probs=31.1

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .++|||+.++.++++.|......-+.++|.+|+|||
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT  213 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKT  213 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHH
Confidence            568999999999999998765556669999999999

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.36  E-value=0.12  Score=57.12  Aligned_cols=36  Identities=17%  Similarity=0.240  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||-+..++.|.+.+..+.+ ..+-++|..|+|||
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKT   52 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKT   52 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            5679998888889998887655 56689999999999

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

Probab=94.33  E-value=0.03  Score=29.60  Aligned_cols=16  Identities=50%  Similarity=0.779  Sum_probs=6.9

Q ss_pred             CCCeeeecCCCCCccc
Q 039519          443 SLEHLDLSSTAITHLP  458 (647)
Q Consensus       443 ~L~~L~L~~~~l~~lp  458 (647)
                      +|+.|++++|+++++|
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            4555666666555554

...

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=94.18  E-value=0.078  Score=58.86  Aligned_cols=36  Identities=17%  Similarity=0.183  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.|...+..+.+ ..+-++|..|+|||
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKT   52 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKT   52 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            5679999999999998887655 34678999999999

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=94.03  E-value=0.13  Score=51.50  Aligned_cols=107  Identities=18%  Similarity=0.182  Sum_probs=60.2

Q ss_pred             cccchHHHHH---HHHHhhhCCceEEEEEccCccCCC--------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC
Q 039519           78 TVGLESTFDK---VRRCLREEQVGIIGLYGMGGLLGA--------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES  146 (647)
Q Consensus        78 ~vGr~~~~~~---i~~~L~~~~~~vi~I~G~gGiGKT--------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~  146 (647)
                      .||.+..+.+   |.+++..+.+..+.+||.+|+|||        ...=....||..|-+-.-..-.+.|.++-..    
T Consensus       140 yvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~----  215 (554)
T KOG2028|consen  140 YVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQN----  215 (554)
T ss_pred             hcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHH----
Confidence            3565544332   445555678888889999999999        2222236677766543322223333322110    


Q ss_pred             CCCCCHHHHHHHHHHHhccCCeeEEEecCCC--ccccccccCCCCCCCCCcEEEE--ecCch
Q 039519          147 WKNGSLEDKASDIFRILSKKKLLLLLDDIWE--RVDLTKVGVPFPDPENKSRIDF--TTRFL  204 (647)
Q Consensus       147 ~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~Iiv--TTR~~  204 (647)
                                   ...+.++|..|.+|.|..  ..+-+.|   +|...+|+-++|  ||.+.
T Consensus       216 -------------~~~l~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENP  261 (554)
T KOG2028|consen  216 -------------EKSLTKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENP  261 (554)
T ss_pred             -------------HHhhhcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCC
Confidence                         112347889999999975  2333332   455556776555  55544

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

Probab=94.01  E-value=0.01  Score=64.70  Aligned_cols=227  Identities=23%  Similarity=0.245  Sum_probs=114.9

Q ss_pred             cccEEEEEeecc-cccc--cccCCCCcceeeEEeccCc-cccccCc----cccccccCCCeeeecCCC-CCcc-ccchh-
Q 039519          394 WRNVRRMSLMKN-KIEN--LSELQPALTFFLFFNMSNN-HLLWKLP----LGISTLVSLEHLDLSSTA-ITHL-PIDLQ-  462 (647)
Q Consensus       394 ~~~l~~L~l~~n-~i~~--l~~~~~~l~~L~~L~l~~~-~~~~~lp----~~~~~L~~L~~L~L~~~~-l~~l-p~~~~-  462 (647)
                      .+.++.|.+..+ .+..  +-......+.|+.|+++++ ......+    .....+.+|+.|+++++. ++.. -..+. 
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            456666666654 2332  2222255567888888762 1111111    123445778888888775 5522 12222 


Q ss_pred             cCccCcEEeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEe-cch
Q 039519          463 KLVNLKCLNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITL-KRL  540 (647)
Q Consensus       463 ~l~~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~-~~~  540 (647)
                      .+++|++|.+.+|..++.-.- .+...+++|++|++..|....            .........++++|+.|.+.. ..+
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~------------d~~l~~~~~~c~~l~~l~~~~~~~c  334 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLT------------DSGLEALLKNCPNLRELKLLSLNGC  334 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccch------------HHHHHHHHHhCcchhhhhhhhcCCC
Confidence            367888888777643221111 113456678888887766521            111222234455566555431 112


Q ss_pred             hhHHHHhhhhhhh---hccceeeeeccCCCceEEEecccccCCcc-EEEEcCCCCCCCChh--h-ccccCCceEEeeccc
Q 039519          541 QALQELLISQELQ---RCTQFLFLRCFNDSKSLDIFCLACLHNLN-KLYVAGCKHLEDFQM--I-IQRSSLSVHNLFINK  613 (647)
Q Consensus       541 ~~l~~l~~~~~~~---~~l~~l~L~~~~~L~~L~l~~~~~l~~L~-~L~L~~~~~~~~~~~--~-~~l~~L~~L~L~~~~  613 (647)
                      ..++.+.......   ..+..+.+.+|+++..+.+...+ ..... .+.+.+|+.++ -..  . .....++.|+++.|.
T Consensus       335 ~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~~-~~~~~~~~~l~gc~~l~-~~l~~~~~~~~~l~~L~l~~~~  412 (482)
T KOG1947|consen  335 PSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSYCG-ISDLGLELSLRGCPNLT-ESLELRLCRSDSLRVLNLSDCR  412 (482)
T ss_pred             ccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhhhh-ccCcchHHHhcCCcccc-hHHHHHhccCCccceEecccCc
Confidence            3333333222222   25666666677777777765555 44444 56667776654 332  1 223337888888764


Q ss_pred             ccccccchhhhhh-hcCCCCccc
Q 039519          614 NYIHTNQLSILLG-INRLPHFTK  635 (647)
Q Consensus       614 ~~~~~~~~~~l~~-l~~L~~L~~  635 (647)
                       ......+..... ...+..+..
T Consensus       413 -~~t~~~l~~~~~~~~~~~~l~~  434 (482)
T KOG1947|consen  413 -LVTDKGLRCLADSCSNLKDLDL  434 (482)
T ss_pred             -cccccchHHHhhhhhccccCCc
Confidence             334344433333 445555533

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=93.99  E-value=0.13  Score=53.97  Aligned_cols=34  Identities=26%  Similarity=0.296  Sum_probs=27.1

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|+++.+++|.+.+..             ...+-+.++|.+|+|||
T Consensus       124 i~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT  170 (364)
T TIGR01242       124 IGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKT  170 (364)
T ss_pred             hCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHH
Confidence            47999999999887642             12455889999999999

Many proteins may score above the trusted cutoff because an internal

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=93.99  E-value=0.16  Score=59.03  Aligned_cols=36  Identities=17%  Similarity=0.219  Sum_probs=31.1

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .++|||+.++.++++.|......-+.++|.+|+|||
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKT  222 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKT  222 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHH
Confidence            567999999999999888765556669999999999

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK09087 hypothetical protein; Validated

Probab=93.96  E-value=0.46  Score=45.94  Aligned_cols=16  Identities=19%  Similarity=0.052  Sum_probs=14.0

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ..+.+.|||.+|+|||
T Consensus        43 ~~~~l~l~G~~GsGKT   58 (226)
T PRK09087         43 PSPVVVLAGPVGSGKT   58 (226)
T ss_pred             CCCeEEEECCCCCCHH
Confidence            3457899999999999

>PRK08181 transposase; Validated

Probab=93.90  E-value=0.039  Score=54.60  Aligned_cols=15  Identities=20%  Similarity=0.053  Sum_probs=13.1

Q ss_pred             ceEEEEEccCccCCC
Q 039519           97 VGIIGLYGMGGLLGA  111 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT  111 (647)
                      ..-+.++|.+|+|||
T Consensus       106 ~~nlll~Gp~GtGKT  120 (269)
T PRK08181        106 GANLLLFGPPGGGKS  120 (269)
T ss_pred             CceEEEEecCCCcHH
Confidence            345889999999999

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

Probab=93.90  E-value=0.22  Score=47.26  Aligned_cols=37  Identities=22%  Similarity=0.298  Sum_probs=25.2

Q ss_pred             CCCcccchHHHHHHHHHhh-----hCCceEEEEEccCccCCC
Q 039519           75 CEPTVGLESTFDKVRRCLR-----EEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        75 ~~~~vGr~~~~~~i~~~L~-----~~~~~vi~I~G~gGiGKT  111 (647)
                      ...|||.+..++++.-++.     ++...-+-.||++|+|||
T Consensus        23 L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKT   64 (233)
T PF05496_consen   23 LDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKT   64 (233)
T ss_dssp             CCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHH
T ss_pred             HHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchh
Confidence            3679999998888765554     234667889999999999

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.88  E-value=0.19  Score=52.69  Aligned_cols=36  Identities=11%  Similarity=0.216  Sum_probs=31.2

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.+...+.+.+.+..+.. ..+-++|.+|+|||
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt   53 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKT   53 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            5679999999999999987654 47889999999999

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=93.86  E-value=2.4  Score=46.71  Aligned_cols=96  Identities=11%  Similarity=0.084  Sum_probs=66.6

Q ss_pred             CcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC---------------CCCcce--EEEEEEcCccCHHHHHH
Q 039519           77 PTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA---------------PNDFDV--VIWMVVSKDLQLEKIQE  134 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT---------------~~~F~~--~~wv~~s~~~~~~~~~~  134 (647)
                      .+-+||.+..+|...+..     +..+.+-|.|.+|+|||               .+.-+.  .+.|..-.-....+++.
T Consensus       397 sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~  476 (767)
T KOG1514|consen  397 SLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYE  476 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHH
Confidence            345899999999998864     23458999999999999               222222  23444344456899999


Q ss_pred             HHHHHhCCCCcCCCCCCHHHHHHHHHHHhc-----cCCeeEEEecCCC
Q 039519          135 RIGRRIGFLDESWKNGSLEDKASDIFRILS-----KKKLLLLLDDIWE  177 (647)
Q Consensus       135 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~~r~LlVlDdv~~  177 (647)
                      .|...+....     .......+.+..++.     .+.++|++|+++.
T Consensus       477 ~I~~~lsg~~-----~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~  519 (767)
T KOG1514|consen  477 KIWEALSGER-----VTWDAALEALNFRFTVPKPKRSTTVVLIDELDI  519 (767)
T ss_pred             HHHHhcccCc-----ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHH
Confidence            9999987532     344555666666664     3568888898864

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=93.69  E-value=0.13  Score=60.06  Aligned_cols=36  Identities=17%  Similarity=0.256  Sum_probs=30.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .++|||+.++.++.+.|......-+.++|.+|+|||
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT  208 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKT  208 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHH
Confidence            557999999999999997755556668999999999

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

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

Probab=93.68  E-value=0.04  Score=56.19  Aligned_cols=62  Identities=26%  Similarity=0.213  Sum_probs=32.5

Q ss_pred             cccCCCeeeecCC-CCCc--cccchhcCccCcEEeecccccCCcCchhhh-cCCCCCcEEeccccC
Q 039519          440 TLVSLEHLDLSST-AITH--LPIDLQKLVNLKCLNLQYMYNLNQFPRLVI-SAFSKLQVLRMFDCG  501 (647)
Q Consensus       440 ~L~~L~~L~L~~~-~l~~--lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i-~~l~~L~~L~l~~~~  501 (647)
                      .+..|++|..+++ .+..  +..-..+..+|++|-++.|+.+...--..+ .+...|+.+++..|.
T Consensus       292 ~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~  357 (483)
T KOG4341|consen  292 GCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECG  357 (483)
T ss_pred             hhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccc
Confidence            4556777777665 4442  222223566777777777744333322112 334556666665554

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=93.60  E-value=0.53  Score=48.72  Aligned_cols=41  Identities=17%  Similarity=0.135  Sum_probs=33.8

Q ss_pred             CCCCCCCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           71 DQRPCEPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        71 ~~~~~~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      .|+....++|-++..+.+...+..+.. ..+-|+|..|+|||
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKt   59 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKA   59 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHH
Confidence            344556789999999999999987654 46889999999999

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.43  E-value=0.32  Score=54.12  Aligned_cols=36  Identities=17%  Similarity=0.177  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||-+..++.|.+.+..+.+ ..+-++|..|+|||
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKt   52 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKT   52 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHH
Confidence            5679999999999998887655 44889999999999

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.41  E-value=0.19  Score=53.56  Aligned_cols=36  Identities=11%  Similarity=0.288  Sum_probs=31.0

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..+||.+..+..|...+..+.+. .+.++|..|+|||
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKT   54 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKT   54 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            56799999999999999887654 5789999999999

>PRK08116 hypothetical protein; Validated

Probab=93.35  E-value=0.08  Score=52.66  Aligned_cols=91  Identities=20%  Similarity=0.142  Sum_probs=46.8

Q ss_pred             eEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCC
Q 039519           98 GIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK  167 (647)
Q Consensus        98 ~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r  167 (647)
                      ..+.++|.+|+|||          ...-..+++++      ...++..+.......    ...+..    .+.+.+.+-.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~------~~~ll~~i~~~~~~~----~~~~~~----~~~~~l~~~d  180 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN------FPQLLNRIKSTYKSS----GKEDEN----EIIRSLVNAD  180 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE------HHHHHHHHHHHHhcc----ccccHH----HHHHHhcCCC
Confidence            45889999999999          11223445554      344555555444321    111122    2334444444


Q ss_pred             eeEEEecCCC--cccccc--ccCCCCC-CCCCcEEEEecCc
Q 039519          168 LLLLLDDIWE--RVDLTK--VGVPFPD-PENKSRIDFTTRF  203 (647)
Q Consensus       168 ~LlVlDdv~~--~~~~~~--l~~~~~~-~~~gs~IivTTR~  203 (647)
                       ||||||+..  ..+|..  +...+.. ..+|..+||||..
T Consensus       181 -lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        181 -LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             -EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence             899999943  222321  2111111 1345668888864

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=93.14  E-value=0.21  Score=49.61  Aligned_cols=35  Identities=23%  Similarity=0.189  Sum_probs=24.7

Q ss_pred             CcccchHHHHHHHHHhh---------h------CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLR---------E------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~---------~------~~~~vi~I~G~gGiGKT  111 (647)
                      .++|.+..+++|.+...         .      ....-+.++|.+|+|||
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKT   56 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKT   56 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHH
Confidence            47898887777654422         1      13445778999999999

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=93.09  E-value=0.72  Score=53.19  Aligned_cols=36  Identities=14%  Similarity=0.157  Sum_probs=30.7

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.|...+..+++ ..+.++|..|+|||
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKT   51 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKT   51 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHH
Confidence            5579999999999999987655 45789999999999

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

Probab=93.06  E-value=0.048  Score=31.03  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=13.6

Q ss_pred             eeeEEeccCccccccCcccccc
Q 039519          419 FFLFFNMSNNHLLWKLPLGIST  440 (647)
Q Consensus       419 ~L~~L~l~~~~~~~~lp~~~~~  440 (647)
                      +|++|++++| .++.+|++|++
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT
T ss_pred             CccEEECCCC-cCEeCChhhcC
Confidence            3667777777 55577766554

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 ....

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=93.03  E-value=2.6  Score=41.38  Aligned_cols=36  Identities=19%  Similarity=0.349  Sum_probs=29.2

Q ss_pred             CCcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT  111 (647)
                      ..|||.++.++++.=.+..     +.+--|-++|++|.|||
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKT   66 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKT   66 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHH
Confidence            5689999988888766652     45667899999999999

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=93.02  E-value=0.87  Score=48.96  Aligned_cols=36  Identities=14%  Similarity=0.203  Sum_probs=30.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..+.. ..+-++|..|+|||
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKt   53 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKT   53 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHH
Confidence            5679999999999999987665 56778999999999

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=93.01  E-value=0.68  Score=44.82  Aligned_cols=36  Identities=17%  Similarity=0.175  Sum_probs=22.5

Q ss_pred             CCcc-cchHHHH-HHHHHhhh-CCceEEEEEccCccCCC
Q 039519           76 EPTV-GLESTFD-KVRRCLRE-EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~v-Gr~~~~~-~i~~~L~~-~~~~vi~I~G~gGiGKT  111 (647)
                      +.|+ |.+.... .+.++... .....+.|+|..|+|||
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT   56 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRS   56 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHH
Confidence            4444 5544443 33343332 34567889999999999

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=92.97  E-value=0.29  Score=48.29  Aligned_cols=80  Identities=24%  Similarity=0.303  Sum_probs=46.5

Q ss_pred             CceEEEEEccCccCCC------------C---CC-cceEEEEEEcCccCHHHHHHHHHHHhCCCCcC-------CCCCCH
Q 039519           96 QVGIIGLYGMGGLLGA------------P---ND-FDVVIWMVVSKDLQLEKIQERIGRRIGFLDES-------WKNGSL  152 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT------------~---~~-F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  152 (647)
                      ...+.=|+|.+|+|||            .   .. =..++||+-...|+...+.+ |++..+.+.+.       ....+.
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~-i~~~~~~~~~~~l~~I~v~~~~~~  115 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQ-IAERFGLDPEEILDNIFVIRVFDL  115 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHH-HHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHH-HhhccccccchhhhceeeeecCCH
Confidence            3468999999999999            1   11 23689999999999888764 55554432110       012233


Q ss_pred             HHHHHHH---HHHhc-cCCeeEEEecCC
Q 039519          153 EDKASDI---FRILS-KKKLLLLLDDIW  176 (647)
Q Consensus       153 ~~~~~~l---~~~l~-~~r~LlVlDdv~  176 (647)
                      ++....+   ...+. .+=-|||+|.+-
T Consensus       116 ~~l~~~L~~l~~~l~~~~ikLIVIDSIa  143 (256)
T PF08423_consen  116 EELLELLEQLPKLLSESKIKLIVIDSIA  143 (256)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHHHhhccccceEEEEecchH
Confidence            3333333   33332 334488888874

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=92.85  E-value=0.16  Score=44.20  Aligned_cols=12  Identities=33%  Similarity=0.124  Sum_probs=11.0

Q ss_pred             EEEEccCccCCC
Q 039519          100 IGLYGMGGLLGA  111 (647)
Q Consensus       100 i~I~G~gGiGKT  111 (647)
                      |-|+|.+|+|||
T Consensus         1 ill~G~~G~GKT   12 (132)
T PF00004_consen    1 ILLHGPPGTGKT   12 (132)
T ss_dssp             EEEESSTTSSHH
T ss_pred             CEEECcCCCCee
Confidence            568999999999

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PF14516 AAA_35: AAA-like domain

Probab=92.83  E-value=6.2  Score=40.62  Aligned_cols=101  Identities=15%  Similarity=0.170  Sum_probs=61.5

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC-----------CCCcceEEEEEEcCc-----cCHHH----HHHH
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSKD-----LQLEK----IQER  135 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~~-----~~~~~----~~~~  135 (647)
                      +..|.|...-+++.+.+.+. ...+.|.|.-.+|||           +..| .++++++..-     .+...    +...
T Consensus        11 ~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~~~-~~v~id~~~~~~~~~~~~~~f~~~~~~~   88 (331)
T PF14516_consen   11 PFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQGY-RCVYIDLQQLGSAIFSDLEQFLRWFCEE   88 (331)
T ss_pred             CcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHCCC-EEEEEEeecCCCcccCCHHHHHHHHHHH
Confidence            45689986666777777653 358899999999999           3344 3457775442     23444    4455


Q ss_pred             HHHHhCCCCc---CCC--CCCHHHHHHHHHHHh---ccCCeeEEEecCCCc
Q 039519          136 IGRRIGFLDE---SWK--NGSLEDKASDIFRIL---SKKKLLLLLDDIWER  178 (647)
Q Consensus       136 i~~~l~~~~~---~~~--~~~~~~~~~~l~~~l---~~~r~LlVlDdv~~~  178 (647)
                      +.++++....   .|+  ..........+.+.+   .+++.+|++|+|+..
T Consensus        89 i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l  139 (331)
T PF14516_consen   89 ISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRL  139 (331)
T ss_pred             HHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhh
Confidence            5555554321   011  123334444555544   258999999999864

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=92.68  E-value=0.43  Score=51.34  Aligned_cols=82  Identities=15%  Similarity=0.095  Sum_probs=52.2

Q ss_pred             CcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCCCCCcceEEEEEEcCccCHHHHHHHHHHHhCCCC
Q 039519           77 PTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLD  144 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  144 (647)
                      .+=|.+..+.++.+++.-            ...+=|-+||++|.|||                   .+.+.|+.+++..-
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT-------------------~lA~AiAgel~vPf  251 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKT-------------------SLANAIAGELGVPF  251 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHH-------------------HHHHHHhhhcCCce
Confidence            345899999998887652            13455789999999999                   23333333333211


Q ss_pred             ---------cCCCCCCHHHHHHHHHHHhccCCeeEEEecCCC
Q 039519          145 ---------ESWKNGSLEDKASDIFRILSKKKLLLLLDDIWE  177 (647)
Q Consensus       145 ---------~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~  177 (647)
                               ..+...+++.+.+.+.+.-..-.+++++|+++-
T Consensus       252 ~~isApeivSGvSGESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  252 LSISAPEIVSGVSGESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             EeecchhhhcccCcccHHHHHHHHHHHhccCCeEEEeecccc
Confidence                     001223455555555555567899999999974

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=92.55  E-value=0.13  Score=50.60  Aligned_cols=36  Identities=17%  Similarity=0.191  Sum_probs=31.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++-+.+.+..........+|++|.|||
T Consensus        36 de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKT   71 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKT   71 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHh
Confidence            456899999999999888877788889999999999

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=92.47  E-value=0.32  Score=54.00  Aligned_cols=36  Identities=14%  Similarity=0.291  Sum_probs=31.0

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.|.+.+..++.. .+-++|..|+|||
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKT   60 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKT   60 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence            55799999999999999877544 6889999999999

>PHA00729 NTP-binding motif containing protein

Probab=92.42  E-value=0.34  Score=46.30  Aligned_cols=25  Identities=12%  Similarity=0.113  Sum_probs=19.7

Q ss_pred             HHHHHhhhCCceEEEEEccCccCCC
Q 039519           87 KVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        87 ~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .+.+.+...+...|.|+|.+|+|||
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT   31 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKT   31 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHH
Confidence            4555566666678999999999999

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.40  E-value=0.33  Score=53.63  Aligned_cols=36  Identities=17%  Similarity=0.171  Sum_probs=29.8

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..+||-+..++.|.+.+..+. ...+-++|..|+|||
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKT   52 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKT   52 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence            557999888888888887765 466778999999999

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=92.38  E-value=0.66  Score=47.18  Aligned_cols=80  Identities=18%  Similarity=0.238  Sum_probs=49.2

Q ss_pred             CceEEEEEccCccCCC------------C----CCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCC-------CCCCH
Q 039519           96 QVGIIGLYGMGGLLGA------------P----NDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESW-------KNGSL  152 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT------------~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~-------~~~~~  152 (647)
                      .-+++-|+|.+|+|||            .    ..=..++||+...+|+.+++.+ +++.++.+.+..       ...+.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~~~~~~~~  173 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNILYARAYTS  173 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEEEecCCCH
Confidence            4568899999999999            0    0113789999999999888765 456665432210       11233


Q ss_pred             HHHH---HHHHHHhc-cCCeeEEEecCC
Q 039519          153 EDKA---SDIFRILS-KKKLLLLLDDIW  176 (647)
Q Consensus       153 ~~~~---~~l~~~l~-~~r~LlVlDdv~  176 (647)
                      ++..   ..+...+. ++--|||+|.+.
T Consensus       174 e~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       174 EHQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence            3333   33333343 344578888874

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=92.26  E-value=0.84  Score=44.11  Aligned_cols=81  Identities=14%  Similarity=0.105  Sum_probs=49.4

Q ss_pred             CceEEEEEccCccCCC----------CCCc------ceEEEEEEcCccCHHHHHHHHHHHhCCCCc-------CCCCCCH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDF------DVVIWMVVSKDLQLEKIQERIGRRIGFLDE-------SWKNGSL  152 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F------~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-------~~~~~~~  152 (647)
                      .-.++.|+|.+|+|||          ...-      ..++|++....++...+.+. ....+...+       -....+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~-~~~~~~~~~~~~~~i~~~~~~~~   96 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQL-AVRFGLDPEEVLDNIYVARPYNG   96 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHH-HHHhccchhhhhccEEEEeCCCH
Confidence            3579999999999999          1223      56789998877776555433 233221110       0123455


Q ss_pred             HHHHHHHHHHhc---c-CCeeEEEecCCC
Q 039519          153 EDKASDIFRILS---K-KKLLLLLDDIWE  177 (647)
Q Consensus       153 ~~~~~~l~~~l~---~-~r~LlVlDdv~~  177 (647)
                      ++....+.+..+   . +--|||+|.+..
T Consensus        97 ~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          97 EQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            666666666543   2 445888898853

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK12608 transcription termination factor Rho; Provisional

Probab=92.15  E-value=0.46  Score=48.92  Aligned_cols=92  Identities=9%  Similarity=0.052  Sum_probs=54.9

Q ss_pred             HHHHHHhhh-CCceEEEEEccCccCCC-----------CCCcce-EEEEEEcCc-cCHHHHHHHHHHHhCCCCcCCCCCC
Q 039519           86 DKVRRCLRE-EQVGIIGLYGMGGLLGA-----------PNDFDV-VIWMVVSKD-LQLEKIQERIGRRIGFLDESWKNGS  151 (647)
Q Consensus        86 ~~i~~~L~~-~~~~vi~I~G~gGiGKT-----------~~~F~~-~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~  151 (647)
                      .++++.+.- +.-.-+.|+|.+|+|||           .++-+. ++|+-+.+. ..+.++.+.+...+...........
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~~  200 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPDE  200 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHHH
Confidence            446666653 33346699999999999           233344 467677665 4688999998887654321001111


Q ss_pred             ---HHHHHHHHHHHh--ccCCeeEEEecCCC
Q 039519          152 ---LEDKASDIFRIL--SKKKLLLLLDDIWE  177 (647)
Q Consensus       152 ---~~~~~~~l~~~l--~~~r~LlVlDdv~~  177 (647)
                         .......+.+++  .+++++||+|++..
T Consensus       201 ~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        201 HIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence               111122222333  47999999999964

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=92.14  E-value=1.9  Score=47.74  Aligned_cols=36  Identities=8%  Similarity=0.199  Sum_probs=30.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..++|-+..++.+...+.++... .+-++|..|+|||
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKT   52 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKT   52 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            56799999999999999876544 5779999999999

>PF11868 DUF3388: Protein of unknown function (DUF3388); InterPro: IPR024514 This domain is found in a family of bacterial proteins that are functionally uncharacterised

Probab=92.07  E-value=0.21  Score=43.88  Aligned_cols=38  Identities=21%  Similarity=0.333  Sum_probs=29.3

Q ss_pred             HHHhhhCCceEEEEEccCccCCC-----CCCcceEEEEEEcCc
Q 039519           89 RRCLREEQVGIIGLYGMGGLLGA-----PNDFDVVIWMVVSKD  126 (647)
Q Consensus        89 ~~~L~~~~~~vi~I~G~gGiGKT-----~~~F~~~~wv~~s~~  126 (647)
                      -+.+..++..+|||-||+-+|||     ..-+...-|+.+|.+
T Consensus        46 aEl~K~~Gh~lIGiRGmPRVGKTEsivAasVcAnKrW~f~SST   88 (192)
T PF11868_consen   46 AELFKEEGHKLIGIRGMPRVGKTESIVAASVCANKRWLFLSST   88 (192)
T ss_pred             HHHHHhcCceEEeecCCCccCchhHHHHHhhhcCceEEEeeHH
Confidence            33445589999999999999999     444556679888864

Proteins in this family are typically between 261 to 275 amino acids in length and have a N-terminal ACT domain.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=91.90  E-value=0.39  Score=43.74  Aligned_cols=107  Identities=11%  Similarity=0.155  Sum_probs=58.9

Q ss_pred             cchHHHHHHHHHhhhCCc-eEEEEEccCccCCC------------C------------------CCcceEEEEEEcCc--
Q 039519           80 GLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA------------P------------------NDFDVVIWMVVSKD--  126 (647)
Q Consensus        80 Gr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT------------~------------------~~F~~~~wv~~s~~--  126 (647)
                      |-++..+.+.+.+..+.+ ..+-++|..|+||+            .                  .......|+.-...  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            556667777777776654 46789999999998            1                  12233444432221  


Q ss_pred             -cCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCc--cccccccCCCCCCCCCcEEEEecCc
Q 039519          127 -LQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWER--VDLTKVGVPFPDPENKSRIDFTTRF  203 (647)
Q Consensus       127 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IivTTR~  203 (647)
                       ..+..+. .+...+....                  ..+++=.+|+||++..  +....+...+......+++|++|++
T Consensus        81 ~i~i~~ir-~i~~~~~~~~------------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~  141 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSP------------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNN  141 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS-------------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-
T ss_pred             hhhHHHHH-HHHHHHHHHH------------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECC
Confidence             2233222 3333332211                  0135668899999874  3344444444444567888888876


Q ss_pred             hH
Q 039519          204 LE  205 (647)
Q Consensus       204 ~~  205 (647)
                      .+
T Consensus       142 ~~  143 (162)
T PF13177_consen  142 PS  143 (162)
T ss_dssp             GG
T ss_pred             hH
Confidence            54

...

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.89  E-value=0.095  Score=58.42  Aligned_cols=36  Identities=22%  Similarity=0.259  Sum_probs=30.3

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.|...+..+.+ ..+-++|..|+|||
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKT   52 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKT   52 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHH
Confidence            5679999999999888887654 45678999999999

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=91.82  E-value=0.36  Score=55.09  Aligned_cols=36  Identities=19%  Similarity=0.290  Sum_probs=30.3

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .+++||++++.++.+.|......-+.++|.+|+|||
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT  221 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKT  221 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHH
Confidence            467999999999999888754445568999999999

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=91.80  E-value=0.44  Score=50.31  Aligned_cols=34  Identities=29%  Similarity=0.299  Sum_probs=27.2

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|+++.++++.+.+..             ...+-|.++|.+|+|||
T Consensus       133 i~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT  179 (389)
T PRK03992        133 IGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKT  179 (389)
T ss_pred             hCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChH
Confidence            46999999999887642             23456889999999999

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=91.69  E-value=0.33  Score=56.52  Aligned_cols=36  Identities=19%  Similarity=0.431  Sum_probs=28.9

Q ss_pred             CCcccchHHHHHHHHHhhh---------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE---------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~---------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..         ....++.++|..|+|||
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT  610 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKT  610 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHH
Confidence            4568999999999888752         13457889999999999

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK06526 transposase; Provisional

Probab=91.64  E-value=0.12  Score=50.79  Aligned_cols=16  Identities=13%  Similarity=-0.029  Sum_probs=13.5

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      +..-+.++|.+|+|||
T Consensus        97 ~~~nlll~Gp~GtGKT  112 (254)
T PRK06526         97 GKENVVFLGPPGTGKT  112 (254)
T ss_pred             cCceEEEEeCCCCchH
Confidence            3456889999999999

>PRK12377 putative replication protein; Provisional

Probab=91.64  E-value=1.7  Score=42.62  Aligned_cols=16  Identities=13%  Similarity=-0.081  Sum_probs=14.0

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      +...+.++|.+|+|||
T Consensus       100 ~~~~l~l~G~~GtGKT  115 (248)
T PRK12377        100 GCTNFVFSGKPGTGKN  115 (248)
T ss_pred             cCCeEEEECCCCCCHH
Confidence            3467899999999999

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=91.61  E-value=1.6  Score=41.90  Aligned_cols=108  Identities=18%  Similarity=0.145  Sum_probs=53.8

Q ss_pred             ccc-hHHHHHHHHHhhhC---CceEEEEEccCccCCC----------CCC-cc-eEEEEEEcCccCHHHHHHHHHHHhCC
Q 039519           79 VGL-ESTFDKVRRCLREE---QVGIIGLYGMGGLLGA----------PND-FD-VVIWMVVSKDLQLEKIQERIGRRIGF  142 (647)
Q Consensus        79 vGr-~~~~~~i~~~L~~~---~~~vi~I~G~gGiGKT----------~~~-F~-~~~wv~~s~~~~~~~~~~~i~~~l~~  142 (647)
                      +|- .+..-...+.+.++   ....+-|+|..|+|||          ... -+ .++++      +..++...+...+..
T Consensus        12 ~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~------~~~~f~~~~~~~~~~   85 (219)
T PF00308_consen   12 VGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL------SAEEFIREFADALRD   85 (219)
T ss_dssp             -TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE------EHHHHHHHHHHHHHT
T ss_pred             cCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceee------cHHHHHHHHHHHHHc
Confidence            464 23333444444432   3457889999999999          111 11 23343      334555566555532


Q ss_pred             CCcCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccc---ccc-ccCCCC-CCCCCcEEEEecCch
Q 039519          143 LDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVD---LTK-VGVPFP-DPENKSRIDFTTRFL  204 (647)
Q Consensus       143 ~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~---~~~-l~~~~~-~~~~gs~IivTTR~~  204 (647)
                      .       .    ...+++.++ .-=+|++||+.....   |+. +...+. ....|.+||+|++..
T Consensus        86 ~-------~----~~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~  140 (219)
T PF00308_consen   86 G-------E----IEEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRP  140 (219)
T ss_dssp             T-------S----HHHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-
T ss_pred             c-------c----chhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCC
Confidence            1       1    223445555 344678899976321   211 111111 012466899999643

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=91.45  E-value=0.52  Score=51.73  Aligned_cols=36  Identities=19%  Similarity=0.243  Sum_probs=30.4

Q ss_pred             CCcccchHHHHHHHHHhhh------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------~~~~vi~I~G~gGiGKT  111 (647)
                      +.-.|+++-.++|.+++.-      -+-+++..+|++|||||
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKT  452 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKT  452 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcc
Confidence            4458999999999998762      25679999999999999

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.45  E-value=2.5  Score=47.35  Aligned_cols=36  Identities=17%  Similarity=0.187  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.+...+.|...+..+.. ..+-++|..|+|||
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKt   52 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKT   52 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChH
Confidence            5679999999999998887643 56778999999999

>smart00763 AAA_PrkA PrkA AAA domain

Probab=91.37  E-value=0.44  Score=48.85  Aligned_cols=35  Identities=20%  Similarity=0.269  Sum_probs=30.7

Q ss_pred             CcccchHHHHHHHHHhhh------CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLRE------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~------~~~~vi~I~G~gGiGKT  111 (647)
                      .++|.++.++++++.+..      ...++++++|.+|+|||
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKS   92 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKS   92 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHH
Confidence            689999999999998864      24678999999999999

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=91.28  E-value=0.5  Score=55.27  Aligned_cols=36  Identities=22%  Similarity=0.385  Sum_probs=29.2

Q ss_pred             CCcccchHHHHHHHHHhhhC---------CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREE---------QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~---------~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+...+...         ...++.++|..|+|||
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt  609 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKT  609 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHH
Confidence            45789999999998888641         1457889999999999

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

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

Probab=91.27  E-value=0.57  Score=40.48  Aligned_cols=101  Identities=19%  Similarity=0.250  Sum_probs=48.4

Q ss_pred             ccccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCcccc-chhcCccC
Q 039519          391 IQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHLPI-DLQKLVNL  467 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L  467 (647)
                      +.++++++.+.+.. .+..++... .+++.|+.+.+..+  +..++. .+..+..|+.+.+.. .+..++. .+..+++|
T Consensus         8 F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l   83 (129)
T PF13306_consen    8 FYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNL   83 (129)
T ss_dssp             TTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTE
T ss_pred             HhCCCCCCEEEECC-CeeEeChhhccccccccccccccc--ccccceeeeecccccccccccc-cccccccccccccccc
Confidence            44556677777663 455555543 55556777777664  333332 355666677777755 5554443 34457777


Q ss_pred             cEEeecccccCCcCchhhhcCCCCCcEEecc
Q 039519          468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       468 ~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~  498 (647)
                      +.+.+..  .+..++...+... +|+.+.+.
T Consensus        84 ~~i~~~~--~~~~i~~~~f~~~-~l~~i~~~  111 (129)
T PF13306_consen   84 KNIDIPS--NITEIGSSSFSNC-NLKEINIP  111 (129)
T ss_dssp             CEEEETT--T-BEEHTTTTTT--T--EEE-T
T ss_pred             cccccCc--cccEEchhhhcCC-CceEEEEC
Confidence            7777755  3456666656665 66666544

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.03  E-value=0.77  Score=50.76  Aligned_cols=36  Identities=17%  Similarity=0.174  Sum_probs=30.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.|.+.+..+.+. .+.++|..|+|||
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKT   49 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKT   49 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            56799999999999999876654 4689999999999

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=91.00  E-value=0.68  Score=50.44  Aligned_cols=36  Identities=17%  Similarity=0.224  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..+||-+...+.+...+..+... ++-++|..|+|||
T Consensus        14 deiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKT   50 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKT   50 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHH
Confidence            55799999999999999877654 5678999999999

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=90.86  E-value=0.39  Score=45.81  Aligned_cols=39  Identities=18%  Similarity=0.230  Sum_probs=29.0

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQER  135 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~  135 (647)
                      .-+++-|+|.+|+|||          ...-..++|++... ++...+.+.
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~-~~~~rl~~~   59 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG-LSPERFKQI   59 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CCHHHHHHH
Confidence            3579999999999999          23346789999875 666655543

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=90.85  E-value=1.1  Score=45.96  Aligned_cols=80  Identities=15%  Similarity=0.177  Sum_probs=48.6

Q ss_pred             CceEEEEEccCccCCC------------C---C-CcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC-------CCCCCH
Q 039519           96 QVGIIGLYGMGGLLGA------------P---N-DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES-------WKNGSL  152 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT------------~---~-~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  152 (647)
                      .-+++-|+|.+|+|||            .   . .-..++||+...+|++.++.+ +++.++.+.+.       ....+.
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~  203 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTY  203 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCH
Confidence            4568889999999999            0   1 124789999999999888766 45566543211       122333


Q ss_pred             HHHHHH---HHHHhc-cCCeeEEEecCC
Q 039519          153 EDKASD---IFRILS-KKKLLLLLDDIW  176 (647)
Q Consensus       153 ~~~~~~---l~~~l~-~~r~LlVlDdv~  176 (647)
                      ++....   +...+. .+--|||+|.+-
T Consensus       204 e~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        204 EHQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence            333322   222332 234477888874

>PRK06620 hypothetical protein; Validated

Probab=90.83  E-value=0.76  Score=44.01  Aligned_cols=14  Identities=7%  Similarity=-0.204  Sum_probs=12.9

Q ss_pred             eEEEEEccCccCCC
Q 039519           98 GIIGLYGMGGLLGA  111 (647)
Q Consensus        98 ~vi~I~G~gGiGKT  111 (647)
                      +.+-|||.+|+|||
T Consensus        45 ~~l~l~Gp~G~GKT   58 (214)
T PRK06620         45 FTLLIKGPSSSGKT   58 (214)
T ss_pred             ceEEEECCCCCCHH
Confidence            56899999999999

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=90.80  E-value=0.53  Score=54.17  Aligned_cols=94  Identities=17%  Similarity=0.134  Sum_probs=51.4

Q ss_pred             CCcccchHHHHHHHHHhhh------C---CceEEEEEccCccCCC-------CCCcceEEEEEEcCccCHHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE------E---QVGIIGLYGMGGLLGA-------PNDFDVVIWMVVSKDLQLEKIQERIGRR  139 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------~---~~~vi~I~G~gGiGKT-------~~~F~~~~wv~~s~~~~~~~~~~~i~~~  139 (647)
                      ..++|.+..++.+.+.+..      +   ...++.++|+.|+|||       +..+...+.++.++-.+..    .+...
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~----~~~~l  529 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKH----TVSRL  529 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcc----cHHHH
Confidence            4568988888888887763      1   2346789999999999       2223344555554422211    12222


Q ss_pred             hCCCCcCCCCCCHHHHHHHHHHHhccC-CeeEEEecCCC
Q 039519          140 IGFLDESWKNGSLEDKASDIFRILSKK-KLLLLLDDIWE  177 (647)
Q Consensus       140 l~~~~~~~~~~~~~~~~~~l~~~l~~~-r~LlVlDdv~~  177 (647)
                      ++....-......    ..+.+.++.+ .-+++||+++.
T Consensus       530 ig~~~gyvg~~~~----~~l~~~~~~~p~~VvllDEiek  564 (731)
T TIGR02639       530 IGAPPGYVGFEQG----GLLTEAVRKHPHCVLLLDEIEK  564 (731)
T ss_pred             hcCCCCCcccchh----hHHHHHHHhCCCeEEEEechhh
Confidence            2222111111111    2233444433 45999999986

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=90.57  E-value=1.3  Score=44.42  Aligned_cols=131  Identities=16%  Similarity=0.178  Sum_probs=73.2

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC---------CCCcc-eEEEEEEcCccCH-HHHHHHHHHHh
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA---------PNDFD-VVIWMVVSKDLQL-EKIQERIGRRI  140 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT---------~~~F~-~~~wv~~s~~~~~-~~~~~~i~~~l  140 (647)
                      ..++|-.++.+++..++..    ++...|.|+|+.|.|||         .+.|. ..+-|......-. +-.++.|.+++
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql  103 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQL  103 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHH
Confidence            4578988888888888764    45667789999999999         23453 3444555444322 12344444444


Q ss_pred             CCCCc--CCCCCCHHHHHHHHHHHhcc------CCeeEEEecCCCccc------c-ccccCCCCCCCCCcEEEEecCchH
Q 039519          141 GFLDE--SWKNGSLEDKASDIFRILSK------KKLLLLLDDIWERVD------L-TKVGVPFPDPENKSRIDFTTRFLE  205 (647)
Q Consensus       141 ~~~~~--~~~~~~~~~~~~~l~~~l~~------~r~LlVlDdv~~~~~------~-~~l~~~~~~~~~gs~IivTTR~~~  205 (647)
                      ...-.  .....+..+...++-+.|+.      -++..|+|..+--..      + .-|...-....+-|-|-+|||-..
T Consensus       104 ~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~  183 (408)
T KOG2228|consen  104 ALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDI  183 (408)
T ss_pred             HHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccH
Confidence            32111  11233455555666666643      357888888764211      1 111111111234577889999643


Q ss_pred             H
Q 039519          206 I  206 (647)
Q Consensus       206 v  206 (647)
                      +
T Consensus       184 l  184 (408)
T KOG2228|consen  184 L  184 (408)
T ss_pred             H
Confidence            3

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=90.54  E-value=0.6  Score=45.15  Aligned_cols=37  Identities=22%  Similarity=0.284  Sum_probs=27.2

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQ  133 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~  133 (647)
                      .-.++.|+|.+|+|||          ...-..++|++.. .++...+.
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e-~~~~~r~~   68 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERFK   68 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC-CCCHHHHH
Confidence            3569999999999999          2234678899887 56655543

>smart00370 LRR Leucine-rich repeats, outliers

Probab=90.51  E-value=0.2  Score=29.75  Aligned_cols=19  Identities=37%  Similarity=0.583  Sum_probs=11.0

Q ss_pred             cCCCeeeecCCCCCccccc
Q 039519          442 VSLEHLDLSSTAITHLPID  460 (647)
Q Consensus       442 ~~L~~L~L~~~~l~~lp~~  460 (647)
                      ++|++|+|++|.|+.+|..
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4556666666666665543

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

Probab=90.51  E-value=0.2  Score=29.75  Aligned_cols=19  Identities=37%  Similarity=0.583  Sum_probs=11.0

Q ss_pred             cCCCeeeecCCCCCccccc
Q 039519          442 VSLEHLDLSSTAITHLPID  460 (647)
Q Consensus       442 ~~L~~L~L~~~~l~~lp~~  460 (647)
                      ++|++|+|++|.|+.+|..
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4556666666666665543

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=90.46  E-value=0.72  Score=43.45  Aligned_cols=79  Identities=15%  Similarity=0.090  Sum_probs=42.5

Q ss_pred             ceEEEEEccCccCCC----------CCCcceEEEEEEcCc-cCHHHHHHHHHHHhCCCCcCC-CCCCHHHHHHHHHHHhc
Q 039519           97 VGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKD-LQLEKIQERIGRRIGFLDESW-KNGSLEDKASDIFRILS  164 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~~l~  164 (647)
                      .+||.++|..|+|||          ...=..+..|+.... ....+-++..++.++.+.... ...+..+.....-+..+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~   80 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFR   80 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHh
Confidence            368999999999999          222345667775322 244556777777777542111 12234444333333333


Q ss_pred             cCC-eeEEEecC
Q 039519          165 KKK-LLLLLDDI  175 (647)
Q Consensus       165 ~~r-~LlVlDdv  175 (647)
                      .++ =+|++|=.
T Consensus        81 ~~~~D~vlIDT~   92 (196)
T PF00448_consen   81 KKGYDLVLIDTA   92 (196)
T ss_dssp             HTTSSEEEEEE-
T ss_pred             hcCCCEEEEecC
Confidence            333 36666665

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.44  E-value=0.86  Score=50.96  Aligned_cols=36  Identities=17%  Similarity=0.262  Sum_probs=30.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..+||.+...+.|...+..+... .+-++|..|+|||
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKt   53 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKT   53 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHH
Confidence            56799999999999999877654 4788999999999

>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=90.44  E-value=0.18  Score=26.60  Aligned_cols=17  Identities=35%  Similarity=0.581  Sum_probs=10.6

Q ss_pred             ccCcEEeecccccCCcCc
Q 039519          465 VNLKCLNLQYMYNLNQFP  482 (647)
Q Consensus       465 ~~L~~L~l~~~~~l~~lp  482 (647)
                      ++|+.|++++| .+.++|
T Consensus         1 ~~L~~L~l~~n-~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNN-RLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCC-CCCCCc
Confidence            47899999998 477765

...

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.21  E-value=0.74  Score=51.19  Aligned_cols=36  Identities=14%  Similarity=0.160  Sum_probs=30.7

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+...+.|.+.+..+.+ ..+-++|..|+|||
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKt   52 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKT   52 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            5689999999999999887765 45678999999999

>CHL00181 cbbX CbbX; Provisional

Probab=90.16  E-value=1.2  Score=44.86  Aligned_cols=35  Identities=17%  Similarity=0.157  Sum_probs=23.7

Q ss_pred             CcccchHHHHHHHHHhh--------h-------CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLR--------E-------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~--------~-------~~~~vi~I~G~gGiGKT  111 (647)
                      .++|.++.+++|.++..        .       .....+.++|.+|+|||
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT   73 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKT   73 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHH
Confidence            57888777776655432        0       11234778999999999

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

Probab=90.16  E-value=0.61  Score=40.31  Aligned_cols=97  Identities=19%  Similarity=0.307  Sum_probs=52.5

Q ss_pred             cccccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCCCcccc-chhcCcc
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAITHLPI-DLQKLVN  466 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~  466 (647)
                      .+..+.+++.+.+..+ +..++... .+++.++.+.+..+  +..++ ..+..+.+|+.+.+..+ +..++. .+.++ +
T Consensus        30 ~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~~-~~~i~~~~f~~~-~  104 (129)
T PF13306_consen   30 AFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPNN--LKSIGDNAFSNCTNLKNIDIPSN-ITEIGSSSFSNC-N  104 (129)
T ss_dssp             TTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETST--T-EE-TTTTTT-TTECEEEETTT--BEEHTTTTTT--T
T ss_pred             hccccccccccccccc-ccccceeeeeccccccccccccc--ccccccccccccccccccccCcc-ccEEchhhhcCC-C
Confidence            4667778999998775 77776654 66667899998764  33343 34667899999999775 766653 45666 8


Q ss_pred             CcEEeecccccCCcCchhhhcCCCCCc
Q 039519          467 LKCLNLQYMYNLNQFPRLVISAFSKLQ  493 (647)
Q Consensus       467 L~~L~l~~~~~l~~lp~~~i~~l~~L~  493 (647)
                      |+.+.+..  .+..++...+.+.++|+
T Consensus       105 l~~i~~~~--~~~~i~~~~F~~~~~l~  129 (129)
T PF13306_consen  105 LKEINIPS--NITKIEENAFKNCTKLK  129 (129)
T ss_dssp             --EEE-TT--B-SS----GGG------
T ss_pred             ceEEEECC--CccEECCccccccccCC
Confidence            99998876  56788887777766653

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.11  E-value=1.1  Score=48.75  Aligned_cols=36  Identities=14%  Similarity=0.184  Sum_probs=30.1

Q ss_pred             CCcccchHHHHHHHHHhhhCCce-EEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVG-IIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~-vi~I~G~gGiGKT  111 (647)
                      ..++|-+..++.+.+.+..+... .+-++|..|+|||
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKT   52 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKT   52 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            55799999999999999876543 5678999999999

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=89.74  E-value=1.2  Score=44.77  Aligned_cols=35  Identities=14%  Similarity=0.152  Sum_probs=23.5

Q ss_pred             CcccchHHHHHHHHHhh--------h-CC------ceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLR--------E-EQ------VGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~--------~-~~------~~vi~I~G~gGiGKT  111 (647)
                      .++|.++.+++|.+...        . -+      ..-+.++|.+|+|||
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT   72 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKT   72 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHH
Confidence            46888777777655422        0 11      224779999999999

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>TIGR00602 rad24 checkpoint protein rad24

Probab=89.62  E-value=0.26  Score=54.81  Aligned_cols=36  Identities=14%  Similarity=0.155  Sum_probs=30.0

Q ss_pred             CCcccchHHHHHHHHHhhhC-----CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREE-----QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~-----~~~vi~I~G~gGiGKT  111 (647)
                      ..++|-+..++++..++...     ..+++.|+|.+|+|||
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKT  124 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKS  124 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHH
Confidence            55789999999999888752     3457999999999999

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=89.52  E-value=0.35  Score=49.41  Aligned_cols=16  Identities=25%  Similarity=0.318  Sum_probs=14.5

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ....++|||.+|.|||
T Consensus       147 ~PlgllL~GPPGcGKT  162 (413)
T PLN00020        147 VPLILGIWGGKGQGKS  162 (413)
T ss_pred             CCeEEEeeCCCCCCHH
Confidence            4678999999999999

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=89.26  E-value=1.6  Score=48.39  Aligned_cols=36  Identities=17%  Similarity=0.197  Sum_probs=30.5

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..+||.+...+.+.+.+..+. ...+-++|..|+|||
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKT   52 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKT   52 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            568999999999999998764 445678999999999

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=88.77  E-value=0.86  Score=46.76  Aligned_cols=34  Identities=15%  Similarity=0.139  Sum_probs=26.1

Q ss_pred             cccchHHHHHHHHHhhh-CCceE-EEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-EQVGI-IGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-~~~~v-i~I~G~gGiGKT  111 (647)
                      ++|-+....++..+... ++..- +-++|++|+|||
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gkt   38 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKT   38 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHH
Confidence            56677777788777774 44444 889999999999

>PRK05642 DNA replication initiation factor; Validated

Probab=88.74  E-value=0.3  Score=47.56  Aligned_cols=14  Identities=29%  Similarity=0.494  Sum_probs=13.0

Q ss_pred             eEEEEEccCccCCC
Q 039519           98 GIIGLYGMGGLLGA  111 (647)
Q Consensus        98 ~vi~I~G~gGiGKT  111 (647)
                      ..+.|+|..|+|||
T Consensus        46 ~~l~l~G~~G~GKT   59 (234)
T PRK05642         46 SLIYLWGKDGVGRS   59 (234)
T ss_pred             CeEEEECCCCCCHH
Confidence            57889999999999

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=88.67  E-value=2.3  Score=43.60  Aligned_cols=45  Identities=18%  Similarity=0.324  Sum_probs=32.8

Q ss_pred             CceEEEEEccCccCCC------------CCC----cceEEEEEEcCccCHHHHHHHHHHHhC
Q 039519           96 QVGIIGLYGMGGLLGA------------PND----FDVVIWMVVSKDLQLEKIQERIGRRIG  141 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT------------~~~----F~~~~wv~~s~~~~~~~~~~~i~~~l~  141 (647)
                      ...++-|+|.+|+|||            ...    =..++||+...+|++..+.+.. +.++
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~-~~~g  161 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMA-EALG  161 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHH-HHcC
Confidence            4578899999999999            110    1378999999988887776543 4444

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=88.63  E-value=1.3  Score=50.01  Aligned_cols=36  Identities=11%  Similarity=0.225  Sum_probs=30.3

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..++.+...+..+++ ..+-++|..|+|||
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKT   54 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKT   54 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHH
Confidence            5579999999999999987654 45678999999999

>CHL00176 ftsH cell division protein; Validated

Probab=88.50  E-value=1.9  Score=48.40  Aligned_cols=36  Identities=14%  Similarity=0.114  Sum_probs=25.7

Q ss_pred             CCcccchHHHHHHHHHhh---hC---------CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLR---EE---------QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~---~~---------~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++..+++.+.+.   ..         ..+-|.++|.+|+|||
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT  230 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKT  230 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHH
Confidence            456898887777766542   21         2345889999999999

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=88.40  E-value=1.5  Score=46.35  Aligned_cols=34  Identities=21%  Similarity=0.229  Sum_probs=26.6

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|.+..+++|.+.+.-             ...+-|.++|.+|+|||
T Consensus       147 igGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT  193 (398)
T PTZ00454        147 IGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKT  193 (398)
T ss_pred             cCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHH
Confidence            47889888888876541             13567889999999999

>TIGR01069 mutS2 MutS2 family protein

Probab=88.39  E-value=2.9  Score=48.18  Aligned_cols=99  Identities=19%  Similarity=0.218  Sum_probs=58.5

Q ss_pred             cCCeeEEEecCCCccc---ccc----ccCCCCCCCCCcEEEEecCchHHhhhcccce----------------eEecccc
Q 039519          165 KKKLLLLLDDIWERVD---LTK----VGVPFPDPENKSRIDFTTRFLEICSAMQAHE----------------FLKVEDV  221 (647)
Q Consensus       165 ~~r~LlVlDdv~~~~~---~~~----l~~~~~~~~~gs~IivTTR~~~v~~~~~~~~----------------~~~~~~~  221 (647)
                      +.+-|+++|..-...+   -..    +...+.  ..|+.+|+||....+........                .|++...
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d~~~l~p~Ykl~~G  478 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVLFDEETLSPTYKLLKG  478 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEEEcCCCCceEEEECCC
Confidence            4789999999976422   111    112222  24788999999887743221111                1222111


Q ss_pred             ccCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhh
Q 039519          222 LKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRI  271 (647)
Q Consensus       222 ~~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~  271 (647)
                      .    .-...|-+|++++ |+|-.+.--|..+.+ .....++.+++.+..
T Consensus       479 ~----~g~S~a~~iA~~~-Glp~~ii~~A~~~~~-~~~~~~~~li~~L~~  522 (771)
T TIGR01069       479 I----PGESYAFEIAQRY-GIPHFIIEQAKTFYG-EFKEEINVLIEKLSA  522 (771)
T ss_pred             C----CCCcHHHHHHHHh-CcCHHHHHHHHHHHH-hhHHHHHHHHHHHHH
Confidence            1    1134677788876 788888888877765 455567766666654

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=88.33  E-value=1.3  Score=42.97  Aligned_cols=40  Identities=10%  Similarity=0.071  Sum_probs=29.7

Q ss_pred             CceEEEEEccCccCCC-----------CCC-----cceEEEEEEcCccCHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA-----------PND-----FDVVIWMVVSKDLQLEKIQER  135 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-----------~~~-----F~~~~wv~~s~~~~~~~~~~~  135 (647)
                      .-.++.|+|.+|+|||           ...     -..++|++....++...+.+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~   73 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQI   73 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHH
Confidence            4578999999999999           111     368899998887776555443

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK09183 transposase/IS protein; Provisional

Probab=88.07  E-value=0.53  Score=46.58  Aligned_cols=15  Identities=27%  Similarity=0.157  Sum_probs=13.0

Q ss_pred             ceEEEEEccCccCCC
Q 039519           97 VGIIGLYGMGGLLGA  111 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT  111 (647)
                      ...+.|+|.+|+|||
T Consensus       102 ~~~v~l~Gp~GtGKT  116 (259)
T PRK09183        102 NENIVLLGPSGVGKT  116 (259)
T ss_pred             CCeEEEEeCCCCCHH
Confidence            356779999999999

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=88.07  E-value=1.5  Score=49.55  Aligned_cols=36  Identities=17%  Similarity=0.243  Sum_probs=27.5

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .+++|||+++.++++.|..-.-.=-.++|-+|+|||
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKT  205 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKT  205 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHH
Confidence            567999999999999997521111235899999999

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=87.96  E-value=1  Score=44.43  Aligned_cols=34  Identities=15%  Similarity=0.131  Sum_probs=25.1

Q ss_pred             cccchHHHHHHHHHhhh-------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------~~~~vi~I~G~gGiGKT  111 (647)
                      ++|..-..+.|+..+.+       .+.-|++.+|.+|+||.
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN  124 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKN  124 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchh
Confidence            46766666666666653       35679999999999998

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=87.94  E-value=4.3  Score=41.83  Aligned_cols=47  Identities=13%  Similarity=0.174  Sum_probs=34.3

Q ss_pred             CceEEEEEccCccCCC---------CC-------CcceEEEEEEcCccCHHHHHHHHHHHhCCC
Q 039519           96 QVGIIGLYGMGGLLGA---------PN-------DFDVVIWMVVSKDLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT---------~~-------~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  143 (647)
                      ...++-|+|.+|+|||         ..       .-..++||+...+|..+++. ++++.++.+
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~  184 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLN  184 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCC
Confidence            4568889999999999         01       11268999999999988775 445665543

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=87.86  E-value=0.81  Score=51.58  Aligned_cols=106  Identities=16%  Similarity=0.241  Sum_probs=62.7

Q ss_pred             CCcccchHHHHHHHHHhhh---------CCceEEEEEccCccCCC-------CCCc---ceEEEEEEcCccCHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE---------EQVGIIGLYGMGGLLGA-------PNDF---DVVIWMVVSKDLQLEKIQERI  136 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~---------~~~~vi~I~G~gGiGKT-------~~~F---~~~~wv~~s~~~~~~~~~~~i  136 (647)
                      ..++|.+..++.+.+.+..         ...++.-..|+.|||||       ..-|   +..+-++.|+-..    -+.+
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~E----kHsV  566 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYME----KHSV  566 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHH----HHHH
Confidence            5679999999999988863         14567778999999999       4455   3445555544221    2233


Q ss_pred             HHHhCCCCcCCCCCCHHHHHHHHHHHhccCCe-eEEEecCCC--ccccccccCCCC
Q 039519          137 GRRIGFLDESWKNGSLEDKASDIFRILSKKKL-LLLLDDIWE--RVDLTKVGVPFP  189 (647)
Q Consensus       137 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~-LlVlDdv~~--~~~~~~l~~~~~  189 (647)
                      .+-++.+++=+.-..    ...+-+.++.++| +|.||.|..  ++.++-|.+.+.
T Consensus       567 SrLIGaPPGYVGyee----GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlD  618 (786)
T COG0542         567 SRLIGAPPGYVGYEE----GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLD  618 (786)
T ss_pred             HHHhCCCCCCceecc----ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhc
Confidence            333443322111111    2245556667877 667799975  455555544443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=87.85  E-value=2.4  Score=46.40  Aligned_cols=36  Identities=11%  Similarity=0.117  Sum_probs=25.0

Q ss_pred             CCcccchHHHHHHHHHhh---h---------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLR---E---------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~---~---------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++.+.+.   .         ...+-+.++|.+|+|||
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT  102 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKT  102 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHH
Confidence            345788887777665443   1         12334788999999999

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PRK07261 topology modulation protein; Provisional

Probab=87.82  E-value=0.84  Score=41.98  Aligned_cols=27  Identities=22%  Similarity=0.308  Sum_probs=17.8

Q ss_pred             CCHHHHHHHHHHHhccCCeeEEEecCCCc
Q 039519          150 GSLEDKASDIFRILSKKKLLLLLDDIWER  178 (647)
Q Consensus       150 ~~~~~~~~~l~~~l~~~r~LlVlDdv~~~  178 (647)
                      .+.++....+.+.+.+.+  .|+|+....
T Consensus        43 ~~~~~~~~~~~~~~~~~~--wIidg~~~~   69 (171)
T PRK07261         43 RDDDDMIADISNFLLKHD--WIIDGNYSW   69 (171)
T ss_pred             CCHHHHHHHHHHHHhCCC--EEEcCcchh
Confidence            345566667777777666  677887543

>PRK04296 thymidine kinase; Provisional

Probab=87.79  E-value=0.24  Score=46.45  Aligned_cols=104  Identities=13%  Similarity=-0.027  Sum_probs=54.6

Q ss_pred             eEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCC
Q 039519           98 GIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK  167 (647)
Q Consensus        98 ~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r  167 (647)
                      .++.|+|..|.|||          ..+-..++.+.  ..++.+.....++++++............+....+++ ..++.
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~~~   79 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGEKI   79 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCCCC
Confidence            46788999999999          22222333331  2223233344455666543221112344555555555 23344


Q ss_pred             eeEEEecCCCc--cccccccCCCCCCCCCcEEEEecCchHH
Q 039519          168 LLLLLDDIWER--VDLTKVGVPFPDPENKSRIDFTTRFLEI  206 (647)
Q Consensus       168 ~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IivTTR~~~v  206 (647)
                      -+||+|.+.--  +++..+...+  ...|..|++|.++.+.
T Consensus        80 dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~~  118 (190)
T PRK04296         80 DCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTDF  118 (190)
T ss_pred             CEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCccc
Confidence            58999999532  2222222211  2357789999887443

>TIGR03689 pup_AAA proteasome ATPase

Probab=87.69  E-value=0.98  Score=48.95  Aligned_cols=36  Identities=22%  Similarity=0.283  Sum_probs=27.5

Q ss_pred             CCcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..+.|.+..+++|.+.+..             ...+-|.++|.+|+|||
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT  230 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKT  230 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHH
Confidence            3457899999998887641             13455889999999999

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=87.65  E-value=0.92  Score=51.87  Aligned_cols=36  Identities=14%  Similarity=0.240  Sum_probs=28.8

Q ss_pred             CCcccchHHHHHHHHHhhh---------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE---------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~---------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++.+.+.+..         .....+-++|++|+|||
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT  502 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKT  502 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHH
Confidence            4568999999998888762         12457889999999999

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=87.41  E-value=0.71  Score=48.81  Aligned_cols=41  Identities=20%  Similarity=0.129  Sum_probs=34.5

Q ss_pred             CCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHh
Q 039519          166 KKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEIC  207 (647)
Q Consensus       166 ~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~  207 (647)
                      ++.+++||.|.....|+.....+.+.++. +|++|+.+..+.
T Consensus        94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll  134 (398)
T COG1373          94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLL  134 (398)
T ss_pred             CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhh
Confidence            77899999999999999887777777666 899999877663

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=87.41  E-value=5.7  Score=45.96  Aligned_cols=103  Identities=20%  Similarity=0.197  Sum_probs=59.0

Q ss_pred             cCCeeEEEecCCCcccc---ccc----cCCCCCCCCCcEEEEecCchHHhhhccccee---Eec--c-cccc------CC
Q 039519          165 KKKLLLLLDDIWERVDL---TKV----GVPFPDPENKSRIDFTTRFLEICSAMQAHEF---LKV--E-DVLK------NH  225 (647)
Q Consensus       165 ~~r~LlVlDdv~~~~~~---~~l----~~~~~~~~~gs~IivTTR~~~v~~~~~~~~~---~~~--~-~~~~------~~  225 (647)
                      +.+-|+++|..-...+.   ..+    ...+.  ..|+.+|+||...++.........   ..+  . ....      .-
T Consensus       406 ~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~~~v~~~~~~~d~~~l~~~Ykl~~G  483 (782)
T PRK00409        406 DKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNREGVENASVEFDEETLRPTYRLLIG  483 (782)
T ss_pred             CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcCCCeEEEEEEEecCcCcEEEEEeeC
Confidence            47789999999754221   112    12221  247889999999887654322211   111  0 0000      00


Q ss_pred             CChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhh
Q 039519          226 PNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRI  271 (647)
Q Consensus       226 ~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~  271 (647)
                      ..-...|-+|++++ |+|-.+.--|..+.. .....++.+++.+..
T Consensus       484 ~~g~S~a~~iA~~~-Glp~~ii~~A~~~~~-~~~~~~~~li~~l~~  527 (782)
T PRK00409        484 IPGKSNAFEIAKRL-GLPENIIEEAKKLIG-EDKEKLNELIASLEE  527 (782)
T ss_pred             CCCCcHHHHHHHHh-CcCHHHHHHHHHHHh-hhhhHHHHHHHHHHH
Confidence            11234677788876 788888888877765 455567776666654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=87.28  E-value=1.6  Score=50.86  Aligned_cols=36  Identities=14%  Similarity=0.254  Sum_probs=28.2

Q ss_pred             CCcccchHHHHHHHHHhhhC---------CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREE---------QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~---------~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+...         ...++-++|+.|+|||
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt  553 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKT  553 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHH
Confidence            56789999999998877531         1345678999999999

>smart00370 LRR Leucine-rich repeats, outliers

Probab=87.20  E-value=0.52  Score=27.85  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=17.7

Q ss_pred             CccCcEEeecccccCCcCchhhh
Q 039519          464 LVNLKCLNLQYMYNLNQFPRLVI  486 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~lp~~~i  486 (647)
                      +++|++|+|++| .+..+|.+++
T Consensus         1 L~~L~~L~L~~N-~l~~lp~~~f   22 (26)
T smart00370        1 LPNLRELDLSNN-QLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCC-cCCcCCHHHc
Confidence            468899999988 7888888744

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

Probab=87.20  E-value=0.52  Score=27.85  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=17.7

Q ss_pred             CccCcEEeecccccCCcCchhhh
Q 039519          464 LVNLKCLNLQYMYNLNQFPRLVI  486 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~lp~~~i  486 (647)
                      +++|++|+|++| .+..+|.+++
T Consensus         1 L~~L~~L~L~~N-~l~~lp~~~f   22 (26)
T smart00369        1 LPNLRELDLSNN-QLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCC-cCCcCCHHHc
Confidence            468899999988 7888888744

>PRK10865 protein disaggregation chaperone; Provisional

Probab=87.11  E-value=1.5  Score=51.33  Aligned_cols=36  Identities=17%  Similarity=0.348  Sum_probs=28.2

Q ss_pred             CCcccchHHHHHHHHHhhh--------C-CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE--------E-QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~--------~-~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+...+..        + ...++.++|..|+|||
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT  612 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKT  612 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHH
Confidence            4568999998888887753        1 1257889999999999

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=87.04  E-value=3.9  Score=41.76  Aligned_cols=46  Identities=13%  Similarity=0.177  Sum_probs=32.0

Q ss_pred             CceEEEEEccCccCCC-------C-CC----c----ceEEEEEEcCccCHHHHHHHHHHHhCC
Q 039519           96 QVGIIGLYGMGGLLGA-------P-ND----F----DVVIWMVVSKDLQLEKIQERIGRRIGF  142 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-------~-~~----F----~~~~wv~~s~~~~~~~~~~~i~~~l~~  142 (647)
                      ...++.|+|.+|+|||       . -.    .    ..++||+....+...++. .+++.++.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl~-~ia~~~~~  156 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLL-AIAERYGL  156 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            4678999999999999       1 01    1    256999988888877643 34555543

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=86.98  E-value=5.2  Score=40.79  Aligned_cols=36  Identities=8%  Similarity=0.169  Sum_probs=31.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..+++ ...-++|..|+||+
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~   40 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRK   40 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHH
Confidence            4578999999999999988764 78899999999998

>PRK08118 topology modulation protein; Reviewed

Probab=86.87  E-value=0.22  Score=45.58  Aligned_cols=14  Identities=36%  Similarity=0.275  Sum_probs=12.5

Q ss_pred             eEEEEEccCccCCC
Q 039519           98 GIIGLYGMGGLLGA  111 (647)
Q Consensus        98 ~vi~I~G~gGiGKT  111 (647)
                      ..|.|+|++|+|||
T Consensus         2 ~rI~I~G~~GsGKS   15 (167)
T PRK08118          2 KKIILIGSGGSGKS   15 (167)
T ss_pred             cEEEEECCCCCCHH
Confidence            35889999999999

>PRK09354 recA recombinase A; Provisional

Probab=86.86  E-value=1.3  Score=45.56  Aligned_cols=77  Identities=10%  Similarity=0.098  Sum_probs=51.4

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC---CCCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES---WKNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~  162 (647)
                      .-+++-|+|.+|+|||          ...-..++||+..+.++..     .++.++.+.+.   .+..+.++....+...
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~~l  133 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIADTL  133 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHH
Confidence            4578999999999999          2223577899988877753     34555543221   1334566667777666


Q ss_pred             hcc-CCeeEEEecCCC
Q 039519          163 LSK-KKLLLLLDDIWE  177 (647)
Q Consensus       163 l~~-~r~LlVlDdv~~  177 (647)
                      ++. .--+||+|-|-.
T Consensus       134 i~s~~~~lIVIDSvaa  149 (349)
T PRK09354        134 VRSGAVDLIVVDSVAA  149 (349)
T ss_pred             hhcCCCCEEEEeChhh
Confidence            643 566899999853

>PRK06835 DNA replication protein DnaC; Validated

Probab=86.81  E-value=0.76  Score=47.05  Aligned_cols=15  Identities=20%  Similarity=0.138  Sum_probs=13.5

Q ss_pred             ceEEEEEccCccCCC
Q 039519           97 VGIIGLYGMGGLLGA  111 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT  111 (647)
                      ..-+.++|..|+|||
T Consensus       183 ~~~Lll~G~~GtGKT  197 (329)
T PRK06835        183 NENLLFYGNTGTGKT  197 (329)
T ss_pred             CCcEEEECCCCCcHH
Confidence            367999999999999

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=86.78  E-value=0.62  Score=42.00  Aligned_cols=47  Identities=17%  Similarity=0.108  Sum_probs=28.0

Q ss_pred             HHHHHhcc-CCeeEEEecCCCc-----cccccccCCCCCCCCCcEEEEecCch
Q 039519          158 DIFRILSK-KKLLLLLDDIWER-----VDLTKVGVPFPDPENKSRIDFTTRFL  204 (647)
Q Consensus       158 ~l~~~l~~-~r~LlVlDdv~~~-----~~~~~l~~~~~~~~~gs~IivTTR~~  204 (647)
                      ..++.+.. .-=|+|||++.-.     ...+.+...+.....+.-+|+|.|+.
T Consensus        86 ~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          86 FAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence            34444444 4459999999643     12223333334445567899999974

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK07952 DNA replication protein DnaC; Validated

Probab=86.51  E-value=5.4  Score=38.94  Aligned_cols=78  Identities=19%  Similarity=0.192  Sum_probs=40.5

Q ss_pred             HHHHHHHhhh--CCceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCH
Q 039519           85 FDKVRRCLRE--EQVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSL  152 (647)
Q Consensus        85 ~~~i~~~L~~--~~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~  152 (647)
                      +..+.+...+  .+...+.++|.+|+|||          ...-..+++++      +.++...+-.....     ...+.
T Consensus        85 l~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it------~~~l~~~l~~~~~~-----~~~~~  153 (244)
T PRK07952         85 LSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT------VADIMSAMKDTFSN-----SETSE  153 (244)
T ss_pred             HHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE------HHHHHHHHHHHHhh-----ccccH
Confidence            3444444433  23457889999999999          11123445553      34455544433321     11122


Q ss_pred             HHHHHHHHHHhccCCeeEEEecCCCc
Q 039519          153 EDKASDIFRILSKKKLLLLLDDIWER  178 (647)
Q Consensus       153 ~~~~~~l~~~l~~~r~LlVlDdv~~~  178 (647)
                      .    .+.+.+. +.=+||+||+...
T Consensus       154 ~----~~l~~l~-~~dlLvIDDig~~  174 (244)
T PRK07952        154 E----QLLNDLS-NVDLLVIDEIGVQ  174 (244)
T ss_pred             H----HHHHHhc-cCCEEEEeCCCCC
Confidence            2    2333344 3457888999654

>cd01394 radB RadB

Probab=86.49  E-value=3.2  Score=39.78  Aligned_cols=33  Identities=12%  Similarity=0.062  Sum_probs=23.5

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccC
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQ  128 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~  128 (647)
                      .-.++.|.|.+|+|||          ...-..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCCCH
Confidence            4578999999999999          12223677887655544

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=86.48  E-value=1.2  Score=45.23  Aligned_cols=76  Identities=13%  Similarity=0.096  Sum_probs=49.8

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC---CCCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES---WKNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~  162 (647)
                      .-+++-|+|.+|+|||          ...-..++||+..+.++..     .+++++.+.+.   .+..+.++....+...
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~l  128 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADSL  128 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHHH
Confidence            3578899999999999          2223568899987777753     34444433211   1334566666666666


Q ss_pred             hc-cCCeeEEEecCC
Q 039519          163 LS-KKKLLLLLDDIW  176 (647)
Q Consensus       163 l~-~~r~LlVlDdv~  176 (647)
                      ++ +.--+||+|-|-
T Consensus       129 i~s~~~~lIVIDSva  143 (325)
T cd00983         129 VRSGAVDLIVVDSVA  143 (325)
T ss_pred             HhccCCCEEEEcchH
Confidence            54 356689999985

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=86.13  E-value=3.6  Score=43.89  Aligned_cols=78  Identities=14%  Similarity=0.100  Sum_probs=40.0

Q ss_pred             CceEEEEEccCccCCC-----------CCCcceEEEEEEcCccC--HHHHHHHHHHHhCCCCcCC-CCCCHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSKDLQ--LEKIQERIGRRIGFLDESW-KNGSLEDKASDIFR  161 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~~~~--~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  161 (647)
                      ...+|.++|.+|+|||           +..+ .++-|+.. .+.  ..+-++.++.+++...... ...+.........+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~-kV~lV~~D-~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~  171 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGL-KVGLVAAD-TYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLE  171 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEecCC-CCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            3678999999999999           2222 33334332 222  3444556666665432111 11233333333333


Q ss_pred             HhccCCeeEEEecCC
Q 039519          162 ILSKKKLLLLLDDIW  176 (647)
Q Consensus       162 ~l~~~r~LlVlDdv~  176 (647)
                      .+.+. -+||+|..-
T Consensus       172 ~~~~~-DvVIIDTAG  185 (437)
T PRK00771        172 KFKKA-DVIIVDTAG  185 (437)
T ss_pred             HhhcC-CEEEEECCC
Confidence            33333 567778774

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=85.94  E-value=1.2  Score=49.14  Aligned_cols=36  Identities=22%  Similarity=0.237  Sum_probs=29.9

Q ss_pred             CCcccchHHHHHHHHHhhh------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------~~~~vi~I~G~gGiGKT  111 (647)
                      ..-.|.++-.++|++.|.-      -.-.++..||++|+|||
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKT  364 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKT  364 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCch
Confidence            3458999999999998862      24569999999999999

>TIGR02012 tigrfam_recA protein RecA

Probab=85.80  E-value=1.4  Score=44.83  Aligned_cols=77  Identities=12%  Similarity=0.103  Sum_probs=50.2

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC---CCCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES---WKNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~  162 (647)
                      .-+++-|+|.+|+|||          ...-..++||+..+.++..     .+++++.+.+.   .+..+.++....+...
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~~l  128 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAETL  128 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHH
Confidence            4579999999999999          2222467899887766653     34555543221   1334566666666666


Q ss_pred             hc-cCCeeEEEecCCC
Q 039519          163 LS-KKKLLLLLDDIWE  177 (647)
Q Consensus       163 l~-~~r~LlVlDdv~~  177 (647)
                      ++ +.--+||+|-|..
T Consensus       129 i~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       129 VRSGAVDIIVVDSVAA  144 (321)
T ss_pred             hhccCCcEEEEcchhh
Confidence            64 4567899999863

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PRK06921 hypothetical protein; Provisional

Probab=85.77  E-value=0.88  Score=45.16  Aligned_cols=16  Identities=25%  Similarity=0.221  Sum_probs=14.1

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ....+.++|..|+|||
T Consensus       116 ~~~~l~l~G~~G~GKT  131 (266)
T PRK06921        116 RKNSIALLGQPGSGKT  131 (266)
T ss_pred             CCCeEEEECCCCCcHH
Confidence            4567899999999999

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=85.63  E-value=7.2  Score=41.67  Aligned_cols=97  Identities=23%  Similarity=0.156  Sum_probs=57.0

Q ss_pred             CceEEEEEccCccCCC--------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHh----
Q 039519           96 QVGIIGLYGMGGLLGA--------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRIL----  163 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT--------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l----  163 (647)
                      +...+.+.|.+|+|||        ...|+.+=-++-.+                     .-..++......+++.+    
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~---------------------miG~sEsaKc~~i~k~F~DAY  595 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPED---------------------MIGLSESAKCAHIKKIFEDAY  595 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHH---------------------ccCccHHHHHHHHHHHHHHhh
Confidence            4567788999999999        66676432221110                     11122333333343333    


Q ss_pred             ccCCeeEEEecCCCccccccccC---------------CCCCCCCCcEEEEecCchHHhhhcccc
Q 039519          164 SKKKLLLLLDDIWERVDLTKVGV---------------PFPDPENKSRIDFTTRFLEICSAMQAH  213 (647)
Q Consensus       164 ~~~r~LlVlDdv~~~~~~~~l~~---------------~~~~~~~gs~IivTTR~~~v~~~~~~~  213 (647)
                      +..=-.||+||+..--+|-.++.               ..|..+..--|+-||....+...|+.-
T Consensus       596 kS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~  660 (744)
T KOG0741|consen  596 KSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGIL  660 (744)
T ss_pred             cCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHH
Confidence            44567899999987666544322               223334444577788888998887644

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

Probab=85.49  E-value=0.043  Score=51.54  Aligned_cols=81  Identities=22%  Similarity=0.169  Sum_probs=69.1

Q ss_pred             CCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcE
Q 039519          415 PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQV  494 (647)
Q Consensus       415 ~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~  494 (647)
                      ......+.||++.| .+..+-..|+.++.|..|+++.|.+..+|.+++.+..++++++..| +....|.+ +++++.++.
T Consensus        39 ~~~kr~tvld~~s~-r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n-~~~~~p~s-~~k~~~~k~  115 (326)
T KOG0473|consen   39 ASFKRVTVLDLSSN-RLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKN-NHSQQPKS-QKKEPHPKK  115 (326)
T ss_pred             hccceeeeehhhhh-HHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhcc-chhhCCcc-ccccCCcch
Confidence            45567888999999 6777888899999999999999999999999999999999998887 77889987 777777776


Q ss_pred             Eecc
Q 039519          495 LRMF  498 (647)
Q Consensus       495 L~l~  498 (647)
                      +..-
T Consensus       116 ~e~k  119 (326)
T KOG0473|consen  116 NEQK  119 (326)
T ss_pred             hhhc
Confidence            6443

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=85.23  E-value=1.8  Score=42.65  Aligned_cols=32  Identities=13%  Similarity=0.046  Sum_probs=20.8

Q ss_pred             cchHHHHHHHHHhhh-CCceEEEEEccCccCCC
Q 039519           80 GLESTFDKVRRCLRE-EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        80 Gr~~~~~~i~~~L~~-~~~~vi~I~G~gGiGKT  111 (647)
                      ++...+.++...... ++..-+.++|.+|+|||
T Consensus        87 ~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKT  119 (254)
T COG1484          87 IDKKALEDLASLVEFFERGENLVLLGPPGVGKT  119 (254)
T ss_pred             hhHHHHHHHHHHHHHhccCCcEEEECCCCCcHH
Confidence            344444444443322 35667889999999999

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=85.19  E-value=6.6  Score=40.04  Aligned_cols=29  Identities=17%  Similarity=0.214  Sum_probs=21.3

Q ss_pred             HHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           83 STFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        83 ~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      ...+.+...+..+++ ..+-++|..|+||+
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~   40 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKR   40 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHH
Confidence            345666666666654 45889999999998

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=85.06  E-value=2.2  Score=42.07  Aligned_cols=78  Identities=13%  Similarity=0.112  Sum_probs=55.2

Q ss_pred             ceEEEEEccCccCCC------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCCeeE
Q 039519           97 VGIIGLYGMGGLLGA------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLL  170 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~Ll  170 (647)
                      .+.+.|+|+.|+|||      ....+..+-+..++.+....+...+.......    ......+....+...+++..-++
T Consensus        94 g~l~~vyg~~g~gKt~a~~~y~~s~p~~~l~~~~p~~~a~~~i~~i~~~~~~~----~~~~~~d~~~~~~~~l~~~~~~i  169 (297)
T COG2842          94 GSLVVVYGYAGLGKTQAAKNYAPSNPNALLIEADPSYTALVLILIICAAAFGA----TDGTINDLTERLMIRLRDTVRLI  169 (297)
T ss_pred             CceEEEeccccchhHHHHHhhcccCccceeecCChhhHHHHHHHHHHHHHhcc----cchhHHHHHHHHHHHHccCccee
Confidence            348889999999999      33334444456777777777777666665443    33456667777777888888899


Q ss_pred             EEecCCCc
Q 039519          171 LLDDIWER  178 (647)
Q Consensus       171 VlDdv~~~  178 (647)
                      +.|..+.-
T Consensus       170 ivDEA~~L  177 (297)
T COG2842         170 IVDEADRL  177 (297)
T ss_pred             eeehhhcc
Confidence            99998763

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=84.69  E-value=2.5  Score=38.81  Aligned_cols=13  Identities=31%  Similarity=0.450  Sum_probs=12.2

Q ss_pred             EEEEEccCccCCC
Q 039519           99 IIGLYGMGGLLGA  111 (647)
Q Consensus        99 vi~I~G~gGiGKT  111 (647)
                      ++.++|++|+|||
T Consensus         2 ~~~~~G~~G~GKT   14 (173)
T cd03115           2 VILLVGLQGVGKT   14 (173)
T ss_pred             EEEEECCCCCCHH
Confidence            6889999999999

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=84.48  E-value=0.48  Score=49.13  Aligned_cols=76  Identities=16%  Similarity=0.135  Sum_probs=37.0

Q ss_pred             CceEEEEEccCccCCC--CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCCeeEEEe
Q 039519           96 QVGIIGLYGMGGLLGA--PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLD  173 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT--~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlD  173 (647)
                      ..+=+-|||..|.|||  -+.|-..+=+.-....-...+..++.+.+....      ...+....+.+.+.++..||.||
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~------~~~~~l~~va~~l~~~~~lLcfD  134 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLR------GQDDPLPQVADELAKESRLLCFD  134 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHh------CCCccHHHHHHHHHhcCCEEEEe
Confidence            3566889999999999  111110000000000111233444444432111      11122334556666777799999


Q ss_pred             cCCC
Q 039519          174 DIWE  177 (647)
Q Consensus       174 dv~~  177 (647)
                      ...=
T Consensus       135 EF~V  138 (362)
T PF03969_consen  135 EFQV  138 (362)
T ss_pred             eeec
Confidence            8753

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=84.42  E-value=3  Score=42.31  Aligned_cols=32  Identities=22%  Similarity=0.343  Sum_probs=25.8

Q ss_pred             cchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           80 GLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        80 Gr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      |-++.+++|.+.+.-             +..+=|-++|++|.|||
T Consensus       155 GL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKT  199 (406)
T COG1222         155 GLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKT  199 (406)
T ss_pred             CHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHH
Confidence            788899999887641             34566789999999999

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=84.24  E-value=2.7  Score=41.91  Aligned_cols=24  Identities=13%  Similarity=0.048  Sum_probs=19.2

Q ss_pred             HHHHhhhCCceEEEEEccCccCCC
Q 039519           88 VRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        88 i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+.+.+.+..+|.|.|.+|+|||
T Consensus        95 ~r~~~~~~~~~~v~l~G~pGsGKT  118 (290)
T PRK10463         95 NRARFAARKQLVLNLVSSPGSGKT  118 (290)
T ss_pred             HHHHHHhcCCeEEEEECCCCCCHH
Confidence            334444568899999999999999

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.96  E-value=0.19  Score=46.47  Aligned_cols=37  Identities=19%  Similarity=0.310  Sum_probs=23.6

Q ss_pred             ccCCccEEEEcCCCCCCCC--hhhccccCCceEEeeccc
Q 039519          577 CLHNLNKLYVAGCKHLEDF--QMIIQRSSLSVHNLFINK  613 (647)
Q Consensus       577 ~l~~L~~L~L~~~~~~~~~--~~~~~l~~L~~L~L~~~~  613 (647)
                      ..++|+.|+|++|+.++.-  -++..+++|+.|.|.+.+
T Consensus       149 ~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~  187 (221)
T KOG3864|consen  149 LAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLP  187 (221)
T ss_pred             cccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCch
Confidence            3566777777777665543  356677777777776644

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=83.66  E-value=2.9  Score=46.17  Aligned_cols=14  Identities=29%  Similarity=0.399  Sum_probs=12.7

Q ss_pred             eEEEEEccCccCCC
Q 039519           98 GIIGLYGMGGLLGA  111 (647)
Q Consensus        98 ~vi~I~G~gGiGKT  111 (647)
                      ..+.|+|-.|+|||
T Consensus       315 NpL~LyG~sGsGKT  328 (617)
T PRK14086        315 NPLFIYGESGLGKT  328 (617)
T ss_pred             CcEEEECCCCCCHH
Confidence            45899999999999

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=83.27  E-value=0.58  Score=43.32  Aligned_cols=16  Identities=25%  Similarity=0.146  Sum_probs=12.7

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ...-+.++|..|+|||
T Consensus        46 ~~~~l~l~G~~G~GKT   61 (178)
T PF01695_consen   46 NGENLILYGPPGTGKT   61 (178)
T ss_dssp             C--EEEEEESTTSSHH
T ss_pred             cCeEEEEEhhHhHHHH
Confidence            3456889999999999

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=83.25  E-value=2.5  Score=45.02  Aligned_cols=81  Identities=11%  Similarity=0.211  Sum_probs=45.9

Q ss_pred             CcccchH---HHHHHHHHhhhC--------C-ceEEEEEccCccCCC------CCCcceEEEEEEcCccCHHHHHHHHHH
Q 039519           77 PTVGLES---TFDKVRRCLREE--------Q-VGIIGLYGMGGLLGA------PNDFDVVIWMVVSKDLQLEKIQERIGR  138 (647)
Q Consensus        77 ~~vGr~~---~~~~i~~~L~~~--------~-~~vi~I~G~gGiGKT------~~~F~~~~wv~~s~~~~~~~~~~~i~~  138 (647)
                      .+-|-|+   ++++|++.|.+.        + .+=|-++|++|.|||      .+.-..=+|...+..|           
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEF-----------  373 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEF-----------  373 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccch-----------
Confidence            3457765   456667777651        1 345778999999999      1111111222222222           


Q ss_pred             HhCCCCcCCCCCCHHHHHHHHHHHhc----cCCeeEEEecCCC
Q 039519          139 RIGFLDESWKNGSLEDKASDIFRILS----KKKLLLLLDDIWE  177 (647)
Q Consensus       139 ~l~~~~~~~~~~~~~~~~~~l~~~l~----~~r~LlVlDdv~~  177 (647)
                               +..-....++.+++.+.    .-++.|.+|.++.
T Consensus       374 ---------dEm~VGvGArRVRdLF~aAk~~APcIIFIDEiDa  407 (752)
T KOG0734|consen  374 ---------DEMFVGVGARRVRDLFAAAKARAPCIIFIDEIDA  407 (752)
T ss_pred             ---------hhhhhcccHHHHHHHHHHHHhcCCeEEEEechhh
Confidence                     22233334555555553    4579999999974

>PRK06696 uridine kinase; Validated

Probab=83.18  E-value=1.1  Score=43.36  Aligned_cols=32  Identities=3%  Similarity=-0.001  Sum_probs=26.1

Q ss_pred             cchHHHHHHHHHhhh---CCceEEEEEccCccCCC
Q 039519           80 GLESTFDKVRRCLRE---EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        80 Gr~~~~~~i~~~L~~---~~~~vi~I~G~gGiGKT  111 (647)
                      .|.+.+++|.+.+..   ++..+|+|.|.+|+|||
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKS   36 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKT   36 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHH
Confidence            366777888877753   56789999999999999

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=83.14  E-value=4.7  Score=40.42  Aligned_cols=16  Identities=38%  Similarity=0.482  Sum_probs=14.4

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      +.++|+|+|.+|+|||
T Consensus       193 ~~~vi~~vGptGvGKT  208 (282)
T TIGR03499       193 QGGVIALVGPTGVGKT  208 (282)
T ss_pred             CCeEEEEECCCCCCHH
Confidence            3569999999999999

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=83.14  E-value=4.2  Score=40.61  Aligned_cols=69  Identities=12%  Similarity=0.102  Sum_probs=40.0

Q ss_pred             ceEEEEEccCccCCC--------------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHH
Q 039519           97 VGIIGLYGMGGLLGA--------------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRI  162 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT--------------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  162 (647)
                      -++|-++|++|.|||              .+.|....-|.++.    ..+.....+.-        ..-.....++|.+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins----hsLFSKWFsES--------gKlV~kmF~kI~EL  244 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS----HSLFSKWFSES--------GKLVAKMFQKIQEL  244 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh----hHHHHHHHhhh--------hhHHHHHHHHHHHH
Confidence            578999999999999              34444444444422    23333322221        12345566677777


Q ss_pred             hccCCee--EEEecCCC
Q 039519          163 LSKKKLL--LLLDDIWE  177 (647)
Q Consensus       163 l~~~r~L--lVlDdv~~  177 (647)
                      ++.+..|  +.+|.|.+
T Consensus       245 v~d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  245 VEDRGNLVFVLIDEVES  261 (423)
T ss_pred             HhCCCcEEEEEeHHHHH
Confidence            7766544  45588853

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=83.07  E-value=0.5  Score=40.44  Aligned_cols=13  Identities=23%  Similarity=0.161  Sum_probs=12.4

Q ss_pred             EEEEEccCccCCC
Q 039519           99 IIGLYGMGGLLGA  111 (647)
Q Consensus        99 vi~I~G~gGiGKT  111 (647)
                      ||+|.|++|+|||
T Consensus         1 vI~I~G~~gsGKS   13 (121)
T PF13207_consen    1 VIIISGPPGSGKS   13 (121)
T ss_dssp             EEEEEESTTSSHH
T ss_pred             CEEEECCCCCCHH
Confidence            6899999999999

...

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=83.02  E-value=3  Score=48.15  Aligned_cols=34  Identities=26%  Similarity=0.271  Sum_probs=26.8

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|.+..++++.+.+..             ...+-|.++|.+|+|||
T Consensus       180 i~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT  226 (733)
T TIGR01243       180 IGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKT  226 (733)
T ss_pred             hcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChH
Confidence            57999999998887641             12356889999999999

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=82.99  E-value=4.4  Score=36.26  Aligned_cols=30  Identities=13%  Similarity=0.307  Sum_probs=21.1

Q ss_pred             EEEEEccCccCCC----------CCCcceEEEEEEcCccC
Q 039519           99 IIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQ  128 (647)
Q Consensus        99 vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~  128 (647)
                      ++.|+|.+|+|||          ...-..++|+.......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchH
Confidence            4689999999999          22234677877765543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.98  E-value=0.31  Score=45.06  Aligned_cols=37  Identities=16%  Similarity=0.176  Sum_probs=22.9

Q ss_pred             CccCcEEeecccccCCcCchhhhcCCCCCcEEecccc
Q 039519          464 LVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC  500 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~  500 (647)
                      .++|+.|++++|+.+++-.-..+.++++|+.|.+.+.
T Consensus       150 ~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l  186 (221)
T KOG3864|consen  150 APSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDL  186 (221)
T ss_pred             ccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCc
Confidence            4677888888876555443333556666666666554

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=82.95  E-value=1.2  Score=48.42  Aligned_cols=36  Identities=28%  Similarity=0.348  Sum_probs=31.0

Q ss_pred             CCcccchHHHHHHHHHhh------hCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLR------EEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~------~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.+++|++.|.      +..-+++.++|++|+|||
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKS  117 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKS  117 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCch
Confidence            346899999999999884      245679999999999999

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=82.46  E-value=2.3  Score=44.98  Aligned_cols=82  Identities=20%  Similarity=0.190  Sum_probs=47.8

Q ss_pred             CceEEEEEccCccCCC--------CCCcceEEEEEEcCcc-CHHHHHHHHHHHhCCCCc----CCCCCCHHH------HH
Q 039519           96 QVGIIGLYGMGGLLGA--------PNDFDVVIWMVVSKDL-QLEKIQERIGRRIGFLDE----SWKNGSLED------KA  156 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT--------~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~----~~~~~~~~~------~~  156 (647)
                      .-..++|+|..|+|||        ....+.++.+-+++.. .+.++.+.++..-+....    ...+.....      .+
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~A  240 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGTTADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCETA  240 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCCCCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHHHH
Confidence            4467999999999999        2233566666676654 456666666444221100    001111111      12


Q ss_pred             HHHHHHh--ccCCeeEEEecCCC
Q 039519          157 SDIFRIL--SKKKLLLLLDDIWE  177 (647)
Q Consensus       157 ~~l~~~l--~~~r~LlVlDdv~~  177 (647)
                      -.+.+++  +++++|+++||+-.
T Consensus       241 ~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        241 TTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHcCCCEEEEEcChHH
Confidence            2344555  58999999999965

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=82.45  E-value=5.2  Score=38.96  Aligned_cols=39  Identities=10%  Similarity=0.117  Sum_probs=27.1

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERI  136 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i  136 (647)
                      .-+++.|.|.+|+|||          -..-..++||+...  +..++.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC--CHHHHHHHH
Confidence            4579999999999999          12234678888765  444555543

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>PRK10867 signal recognition particle protein; Provisional

Probab=82.26  E-value=4.3  Score=43.22  Aligned_cols=16  Identities=19%  Similarity=0.233  Sum_probs=14.5

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ...+|.++|.+|+|||
T Consensus        99 ~p~vI~~vG~~GsGKT  114 (433)
T PRK10867         99 PPTVIMMVGLQGAGKT  114 (433)
T ss_pred             CCEEEEEECCCCCcHH
Confidence            3679999999999999

>TIGR00959 ffh signal recognition particle protein

Probab=82.17  E-value=4.7  Score=42.86  Aligned_cols=15  Identities=20%  Similarity=0.213  Sum_probs=14.0

Q ss_pred             ceEEEEEccCccCCC
Q 039519           97 VGIIGLYGMGGLLGA  111 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT  111 (647)
                      ..++.++|.+|+|||
T Consensus        99 p~vi~~vG~~GsGKT  113 (428)
T TIGR00959        99 PTVILMVGLQGSGKT  113 (428)
T ss_pred             CEEEEEECCCCCcHH
Confidence            578999999999999

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=82.16  E-value=5.2  Score=40.78  Aligned_cols=45  Identities=13%  Similarity=0.124  Sum_probs=32.6

Q ss_pred             CceEEEEEccCccCCC----------CC------CcceEEEEEEcCccCHHHHHHHHHHHhC
Q 039519           96 QVGIIGLYGMGGLLGA----------PN------DFDVVIWMVVSKDLQLEKIQERIGRRIG  141 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~------~F~~~~wv~~s~~~~~~~~~~~i~~~l~  141 (647)
                      ...++-|+|.+|+|||          ..      .=..++||+...+|+..++.+. +..++
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~-~~~~g  154 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQM-AEARG  154 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHH-HHHcC
Confidence            3578899999999999          10      0137899999998888776544 44444

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PTZ00035 Rad51 protein; Provisional

Probab=81.94  E-value=11  Score=38.86  Aligned_cols=80  Identities=18%  Similarity=0.176  Sum_probs=45.9

Q ss_pred             CceEEEEEccCccCCC---------CC-------CcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC-------CCCCCH
Q 039519           96 QVGIIGLYGMGGLLGA---------PN-------DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES-------WKNGSL  152 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT---------~~-------~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  152 (647)
                      .-.++.|+|.+|+|||         ..       .=..++||+....|+..++. .+++.++.....       ....+.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~-~ia~~~g~~~~~~l~nI~~~~~~~~  195 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIV-QIAERFGLDPEDVLDNIAYARAYNH  195 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHH-HHHHHhCCChHhHhhceEEEccCCH
Confidence            4578999999999999         11       12356799988878877743 335555443210       012233


Q ss_pred             HHHHHHH---HHHhc-cCCeeEEEecCC
Q 039519          153 EDKASDI---FRILS-KKKLLLLLDDIW  176 (647)
Q Consensus       153 ~~~~~~l---~~~l~-~~r~LlVlDdv~  176 (647)
                      ++....+   .+.+. .+--|||+|-+.
T Consensus       196 e~~~~~l~~~~~~l~~~~~~lvVIDSit  223 (337)
T PTZ00035        196 EHQMQLLSQAAAKMAEERFALLIVDSAT  223 (337)
T ss_pred             HHHHHHHHHHHHHhhccCccEEEEECcH
Confidence            3333333   22332 344578888874

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=81.47  E-value=8  Score=39.29  Aligned_cols=77  Identities=12%  Similarity=0.118  Sum_probs=47.4

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCC---CCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESW---KNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~  162 (647)
                      .-+++-|+|..|+|||          ...-..++||+..+.++..     .+..++.+.+..   ++...++..+.+.+.
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~~e~l  126 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWIAEQL  126 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHHHHHH
Confidence            3579999999999999          2334578999998877653     344445443321   345567777777777


Q ss_pred             hcc-CCeeEEEecCCC
Q 039519          163 LSK-KKLLLLLDDIWE  177 (647)
Q Consensus       163 l~~-~r~LlVlDdv~~  177 (647)
                      ++. .--++|+|-|-.
T Consensus       127 irsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  127 IRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             HHTTSESEEEEE-CTT
T ss_pred             hhcccccEEEEecCcc
Confidence            754 446888898854

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=81.31  E-value=5.6  Score=39.51  Aligned_cols=116  Identities=11%  Similarity=-0.067  Sum_probs=60.4

Q ss_pred             HHHHHHhhh-CCceEEEEEccCccCCC---------CCCcceEEEEE---EcCccCHHHHHHHHHHHhCC-CCc----CC
Q 039519           86 DKVRRCLRE-EQVGIIGLYGMGGLLGA---------PNDFDVVIWMV---VSKDLQLEKIQERIGRRIGF-LDE----SW  147 (647)
Q Consensus        86 ~~i~~~L~~-~~~~vi~I~G~gGiGKT---------~~~F~~~~wv~---~s~~~~~~~~~~~i~~~l~~-~~~----~~  147 (647)
                      +.+...+.+ ....-++|+|..|.|||         .....+.+++.   +......    .++...... ...    ..
T Consensus        99 ~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~----~ei~~~~~~~~q~~~~~r~  174 (270)
T TIGR02858        99 DKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDER----SEIAGCVNGVPQHDVGIRT  174 (270)
T ss_pred             HHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhH----HHHHHHhcccccccccccc
Confidence            344444443 44568999999999999         22223445542   2211111    223222211 110    00


Q ss_pred             CCCCHHHHHHHHHHHhc-cCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhh
Q 039519          148 KNGSLEDKASDIFRILS-KKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICS  208 (647)
Q Consensus       148 ~~~~~~~~~~~l~~~l~-~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~  208 (647)
                      +..+.......+...+. ..+=++++|.+...+.+..+...+.   .|..||+||-...+..
T Consensus       175 ~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~~~  233 (270)
T TIGR02858       175 DVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDVED  233 (270)
T ss_pred             cccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHHHH
Confidence            11111111222333333 5788999999988776666544432   4778999998766643

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=80.93  E-value=5.9  Score=40.67  Aligned_cols=84  Identities=7%  Similarity=0.103  Sum_probs=39.8

Q ss_pred             CCeeEEEecCCCc--cccccccCCCCCCCCCcEEEEecCch-HHhhhccc-ceeEecc-----c---cccC--CCChHHH
Q 039519          166 KKLLLLLDDIWER--VDLTKVGVPFPDPENKSRIDFTTRFL-EICSAMQA-HEFLKVE-----D---VLKN--HPNIPEL  231 (647)
Q Consensus       166 ~r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IivTTR~~-~v~~~~~~-~~~~~~~-----~---~~~~--~~~~~~~  231 (647)
                      ++-++|+|+++..  .....+...+.....++.+|+||.+. .+...+.. -..+.+.     +   ....  ....++.
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~~~~~~  185 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPESDERE  185 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcccCChHH
Confidence            3444567999864  33344433343333466666666654 33322111 1122220     0   0000  0122344


Q ss_pred             HHHHHHHhcCCchhHHHH
Q 039519          232 ARSVAQECAGLPLALITI  249 (647)
Q Consensus       232 ~~~i~~~c~glPLai~~~  249 (647)
                      +..++..++|.|..+..+
T Consensus       186 ~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        186 RIELLTLAGGSPLRALQL  203 (328)
T ss_pred             HHHHHHHcCCCHHHHHHH
Confidence            566788888988655443

>KOG2859 consensus DNA repair protein, member of the recA/RAD51 family [Replication, recombination and repair]

Probab=80.84  E-value=6.2  Score=37.02  Aligned_cols=79  Identities=11%  Similarity=0.149  Sum_probs=51.3

Q ss_pred             ceEEEEEccCccCCC------------CCCcc----eEEEEEEcCccCHHHHHHHHHHHhCCC---CcC-CCCCCHHHHH
Q 039519           97 VGIIGLYGMGGLLGA------------PNDFD----VVIWMVVSKDLQLEKIQERIGRRIGFL---DES-WKNGSLEDKA  156 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT------------~~~F~----~~~wv~~s~~~~~~~~~~~i~~~l~~~---~~~-~~~~~~~~~~  156 (647)
                      ..+|-|.|+||.|||            -..|.    .+.|++.+..||...+.+.+-..+...   +.. ..-.+++...
T Consensus        38 G~~vEi~Gp~~sgKt~vL~ql~a~CilPk~~GGl~~~VLfidld~~fd~lrL~~~l~hrL~q~~~~e~~~~~c~te~~~e  117 (293)
T KOG2859|consen   38 GTLVEISGPGNSGKTLVLQQLVAHCILPKKFGGLQWSVLFIDLDHKFDRLRLAKSLRHRLKQYSVGEVIAAKCPTEEQLE  117 (293)
T ss_pred             CcEEEEeCCCCccHHHHHHHHHHHeecccccCCceeEEEEEeccccccHHHHHHHHHHHHHHhhhhhhhhhcCCcHhHHH
Confidence            358999999999999            44453    578889999999888877776665432   100 0112344555


Q ss_pred             HHHHHHhccCCeeEEEecC
Q 039519          157 SDIFRILSKKKLLLLLDDI  175 (647)
Q Consensus       157 ~~l~~~l~~~r~LlVlDdv  175 (647)
                      +...+.++.-+++=.+|+.
T Consensus       118 Ei~~~Cm~Rf~~v~C~~s~  136 (293)
T KOG2859|consen  118 EIAGECMSRFRFVNCFASD  136 (293)
T ss_pred             HHHHHHHhhEEEEEeeccH
Confidence            6666666555555555543

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=80.74  E-value=7.3  Score=37.14  Aligned_cols=81  Identities=16%  Similarity=0.275  Sum_probs=49.6

Q ss_pred             HHHHHHHhccCCeeEEEecCCCccccccccC------CCCCCCCCcEEEEecCchHHhhhcccceeEeccc-cccCCCCh
Q 039519          156 ASDIFRILSKKKLLLLLDDIWERVDLTKVGV------PFPDPENKSRIDFTTRFLEICSAMQAHEFLKVED-VLKNHPNI  228 (647)
Q Consensus       156 ~~~l~~~l~~~r~LlVlDdv~~~~~~~~l~~------~~~~~~~gs~IivTTR~~~v~~~~~~~~~~~~~~-~~~~~~~~  228 (647)
                      ...+.+.+--++-+.|||..++--+.+++..      .+.  ..|+-++|.|..+.++....++..+-+-+ .+-. ..-
T Consensus       152 R~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr--~~~~~~liITHy~rll~~i~pD~vhvl~~GrIv~-sG~  228 (251)
T COG0396         152 RNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALR--EEGRGVLIITHYQRLLDYIKPDKVHVLYDGRIVK-SGD  228 (251)
T ss_pred             HHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHh--cCCCeEEEEecHHHHHhhcCCCEEEEEECCEEEe-cCC
Confidence            3345555556778999999998766555421      122  23666888888899998888777666622 2111 122


Q ss_pred             HHHHHHHHHHh
Q 039519          229 PELARSVAQEC  239 (647)
Q Consensus       229 ~~~~~~i~~~c  239 (647)
                      .+++.++-++|
T Consensus       229 ~el~~~le~~g  239 (251)
T COG0396         229 PELAEELEEKG  239 (251)
T ss_pred             HHHHHHHHHhc
Confidence            26666665544

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=80.64  E-value=1  Score=26.66  Aligned_cols=18  Identities=39%  Similarity=0.582  Sum_probs=13.4

Q ss_pred             cCCCeeeecCCCCCcccc
Q 039519          442 VSLEHLDLSSTAITHLPI  459 (647)
Q Consensus       442 ~~L~~L~L~~~~l~~lp~  459 (647)
                      .+|++|++++|++++||+
T Consensus         2 ~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        2 PSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             cccceeecCCCccccCcc
Confidence            357778888888887775

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=80.59  E-value=3.7  Score=40.60  Aligned_cols=81  Identities=15%  Similarity=0.226  Sum_probs=47.4

Q ss_pred             CceEEEEEccCccCCC----------CCCcc-eEEEEEEcCcc-CHHHHHHHHHHHhCCCC-----cCCCCCCHH-----
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFD-VVIWMVVSKDL-QLEKIQERIGRRIGFLD-----ESWKNGSLE-----  153 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-----~~~~~~~~~-----  153 (647)
                      .-.-++|+|-+|+|||          ..+|+ .++++-+++.. .+.++.+.+...=....     .. -+....     
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t-~d~~~~~r~~~  146 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQ-MNEPPGARARV  146 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEEC-CCCCHHHHHHH
Confidence            3457899999999999          33454 45556676654 46667776654311100     00 111111     


Q ss_pred             -HHHHHHHHHh---ccCCeeEEEecCCC
Q 039519          154 -DKASDIFRIL---SKKKLLLLLDDIWE  177 (647)
Q Consensus       154 -~~~~~l~~~l---~~~r~LlVlDdv~~  177 (647)
                       ...-.+.+++   +++.+|+++||+-.
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeChhH
Confidence             1122455555   38999999999854

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=80.34  E-value=5.1  Score=41.20  Aligned_cols=35  Identities=6%  Similarity=0.027  Sum_probs=26.4

Q ss_pred             Cccc-chHHHHHHHHHhhhCCc-eEEEEEccCccCCC
Q 039519           77 PTVG-LESTFDKVRRCLREEQV-GIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vG-r~~~~~~i~~~L~~~~~-~vi~I~G~gGiGKT  111 (647)
                      .++| -+..++.+...+..+++ ...-++|..|+|||
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~   42 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKK   42 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence            3566 66677778887776654 45689999999998

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=80.30  E-value=2.7  Score=39.66  Aligned_cols=118  Identities=14%  Similarity=0.160  Sum_probs=52.5

Q ss_pred             chHHHHHHHHHhhhCCceEEEEEccCccCCC------------CCCcceEEEEEE--c--Cc--cCHHHH-------HHH
Q 039519           81 LESTFDKVRRCLREEQVGIIGLYGMGGLLGA------------PNDFDVVIWMVV--S--KD--LQLEKI-------QER  135 (647)
Q Consensus        81 r~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT------------~~~F~~~~wv~~--s--~~--~~~~~~-------~~~  135 (647)
                      +..+-....+.|.  ...+|.+.|.+|.|||            .+.|+.++++.-  .  +.  |-+.++       ..-
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p   82 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRP   82 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHH
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHH
Confidence            4455556666666  4468999999999999            788888887752  1  11  111111       112


Q ss_pred             HHHHhCCCCcCCCCCCHHHHHHH------HHHHhccC---CeeEEEecCCCc--cccccccCCCCCCCCCcEEEEecCch
Q 039519          136 IGRRIGFLDESWKNGSLEDKASD------IFRILSKK---KLLLLLDDIWER--VDLTKVGVPFPDPENKSRIDFTTRFL  204 (647)
Q Consensus       136 i~~~l~~~~~~~~~~~~~~~~~~------l~~~l~~~---r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IivTTR~~  204 (647)
                      +...+..-   ......+.....      --.+++|+   ...||+|++.+.  .++..+   +-..+.||+||++--..
T Consensus        83 ~~d~l~~~---~~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~i---lTR~g~~skii~~GD~~  156 (205)
T PF02562_consen   83 IYDALEEL---FGKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMI---LTRIGEGSKIIITGDPS  156 (205)
T ss_dssp             HHHHHTTT---S-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHH---HTTB-TT-EEEEEE---
T ss_pred             HHHHHHHH---hChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHH---HcccCCCcEEEEecCce
Confidence            22222110   011112111100      00123343   568999999764  445444   33457899999987665


Q ss_pred             HH
Q 039519          205 EI  206 (647)
Q Consensus       205 ~v  206 (647)
                      ++
T Consensus       157 Q~  158 (205)
T PF02562_consen  157 QI  158 (205)
T ss_dssp             --
T ss_pred             ee
Confidence            55

; GO: 0005524 ATP binding; PDB: 3B85_A.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=80.24  E-value=14  Score=38.85  Aligned_cols=60  Identities=20%  Similarity=0.164  Sum_probs=31.8

Q ss_pred             EEEEEccCccCCCCCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCC
Q 039519           99 IIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIW  176 (647)
Q Consensus        99 vi~I~G~gGiGKT~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~  176 (647)
                      =--++|++|.|||                   .+...|+..+..+-......+... -..+++.|.  ..|-.||+.|++
T Consensus       237 GYLLYGPPGTGKS-------------------S~IaAmAn~L~ydIydLeLt~v~~-n~dLr~LL~~t~~kSIivIEDID  296 (457)
T KOG0743|consen  237 GYLLYGPPGTGKS-------------------SFIAAMANYLNYDIYDLELTEVKL-DSDLRHLLLATPNKSILLIEDID  296 (457)
T ss_pred             cceeeCCCCCCHH-------------------HHHHHHHhhcCCceEEeeeccccC-cHHHHHHHHhCCCCcEEEEeecc
Confidence            3568999999999                   344445555443221111111111 111444442  357788889987


Q ss_pred             Cc
Q 039519          177 ER  178 (647)
Q Consensus       177 ~~  178 (647)
                      ..
T Consensus       297 cs  298 (457)
T KOG0743|consen  297 CS  298 (457)
T ss_pred             cc
Confidence            43

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	647
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	3e-37
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	4e-34
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-29
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-13
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	7e-10
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-10
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-10
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	9e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	4e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-09
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	5e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-09
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	6e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	4e-09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	2e-08
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-08
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	9e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	6e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-08
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-08
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-07
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	4e-07
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	7e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	8e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-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	2e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	7e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	9e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	4e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-06
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	7e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-06
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	6e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	8e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-05
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-05
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	9e-05
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-05
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	6e-05
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	6e-05
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	1e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	8e-04
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	3e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	4e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-04

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  145 bits (366), Expect = 3e-37
 Identities = 47/332 (14%), Positives = 94/332 (28%), Gaps = 60/332 (18%)

Query: 92  LREEQVGIIGLYGMGGL--------------LGAPNDFDVVIWMVVSKDL--QLEKIQER 135
           + +     + L+G  G                    ++D ++W+  S         +   
Sbjct: 147 MCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD 206

Query: 136 IGRRIGFLDESWKNGSLEDKASDIFRI------LSKKKLLLLLDDIWERVDLTKVGVPFP 189
           I   +   D+     S+E   S + +       + +   L + DD+ +   +        
Sbjct: 207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI------RW 260

Query: 190 DPENKSRIDFTTRFLEICSAMQA----------------HEFLKVEDVLKNHPNIPELAR 233
             E + R   TTR +EI +A                            +       ++  
Sbjct: 261 AQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLN 320

Query: 234 SVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISA-----SEFPGMGKEVYPLLK 288
              +  +G P  L+   +     KT ++       L            P   K +   L+
Sbjct: 321 KTIELSSGNPATLMMFFKSCE-PKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQ 379

Query: 289 YSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGI 348
              + L DE  RS L +  + P                +   ++ ++    DE    +  
Sbjct: 380 RCVEVLSDE-DRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLD--DEVADRLKR 436

Query: 349 LLHACLLEEEWGDIGEEETCKIEKEKENFLVH 380
           L     L    G      T KI     + ++H
Sbjct: 437 LSKRGALLS--GKRMPVLTFKI-----DHIIH 461

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  136 bits (344), Expect = 4e-34
 Identities = 60/338 (17%), Positives = 121/338 (35%), Gaps = 61/338 (18%)

Query: 40  KRVAKTLQLVNNLMGEGAFDAVAEKV----PPPAVDQRPCEPTVGLESTFDKVRRCLR-- 93
             +   + +V++  G+ +   +   V        V QRP    V  +   + +++ L   
Sbjct: 85  ALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVV-FVTRKKLVNAIQQKLSKL 143

Query: 94  EEQVGIIGLYGMGGLLG-------APNDFDVV--------IWMVVSKD------LQLEKI 132
           + + G + ++GM G  G       A  D  ++         W+ V K       ++L+ +
Sbjct: 144 KGEPGWVTIHGMAGC-GKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNL 202

Query: 133 QERIGRRIGFLD-ESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDP 191
             R+ +   F           +D+      +    + LL+LDD+W+   L K        
Sbjct: 203 CTRLDQDESFSQRLPLNIEEAKDRLRI-LMLRKHPRSLLILDDVWDSWVL-KAF------ 254

Query: 192 ENKSRIDFTTRFLEICSAMQAH-------EFLKVED--------VLKNHPNIPELARSVA 236
           +++ +I  TTR   +  ++            L  E         V     ++PE A S+ 
Sbjct: 255 DSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSII 314

Query: 237 QECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGK-----EVYPLLKYSY 291
           +EC G PL +  IG ++     P  W Y ++ L+    +            +   +  S 
Sbjct: 315 KECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISV 372

Query: 292 DSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGF 329
           + L ++ I+       +  +D +     L   W  E  
Sbjct: 373 EMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDMETE 409

>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 =  123 bits (309), Expect = 3e-29
 Identities = 69/505 (13%), Positives = 150/505 (29%), Gaps = 121/505 (23%)

Query: 71  DQRPCEP-TVGLESTFDKVRRCLREEQVG-IIGLYGMGG-----L-LGAPNDFDV----- 117
           D +      V     + K+R+ L E +    + + G+ G     + L     + V     
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181

Query: 118 --VIWMVVSKDLQLEKIQERIGRRIGFLDESWKNG------------SLEDKASDIFRIL 163
             + W+ +      E + E + + +  +D +W +             S++ +   + +  
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 164 SKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQA----HEFL--- 216
             +  LL+L ++       K    F       +I  TTRF ++   + A    H  L   
Sbjct: 242 PYENCLLVLLNVQNA----KAWNAF---NLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294

Query: 217 -------KVEDVLKNHPNIP--ELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQ 267
                  +V+ +L  + +    +L R   +     P  L  I   +  +     W     
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPR---EVLTTNPRRLSIIAESI--RDGLATWDNWKH 349

Query: 268 VLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIG- 326
           V             ++  +++ S + L     R       +FP         L   W   
Sbjct: 350 VNC----------DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399

Query: 327 -----EGFLDQYDRSGAYDEG-----YYIIGIL------------LHACLLEE-EWGDIG 363
                   +++  +    ++        I  I             LH  +++        
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF 459

Query: 364 EEETCKIEKEKENFLVHAGFGLTEAPEIQNWRNVRRMSL----MKNKIENLSELQPALTF 419
           + +        + F  H G  L      +     R + L    ++ KI + S        
Sbjct: 460 DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDS-------- 511

Query: 420 FLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNL 478
                       W     I     L+ L      I  + P   + +  +    L ++  +
Sbjct: 512 ----------TAWNASGSILNT--LQQLKFYKPYICDNDPKYERLVNAI----LDFLPKI 555

Query: 479 NQFPRLVISAFSKL-QVLRMFDCGG 502
            +   L+ S ++ L ++  M +   
Sbjct: 556 EE--NLICSKYTDLLRIALMAEDEA 578

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

 Score = 56.8 bits (136), Expect = 2e-08
 Identities = 83/559 (14%), Positives = 147/559 (26%), Gaps = 170/559 (30%)

Query: 114 DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFR-ILSKKKLLLLL 172
           DF+        KD+ L   ++         D             D+ + ILSK+++    
Sbjct: 8   DFETGEHQYQYKDI-LSVFEDAFVDNFDCKD-----------VQDMPKSILSKEEI---- 51

Query: 173 DDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEFLKVEDVLKNHPNIPELA 232
           D I              D  + +   F T  L         +F  VE+VL+   N   L 
Sbjct: 52  DHIIMS----------KDAVSGTLRLFWT--LLSKQEEMVQKF--VEEVLR--INYKFLM 95

Query: 233 RSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYD 292
             +  E                   +     Y  Q  R        +  +     KY+  
Sbjct: 96  SPIKTEQRQ---------------PSMMTRMYIEQRDR--------LYNDNQVFAKYNVS 132

Query: 293 SL-PDETIRSCLLYCGLFPEDYRTR-------KSELIDCWIGEGFLDQYDRSGAYDEGYY 344
            L P   +R  LL   L P             K+ +      +  L  Y      D   +
Sbjct: 133 RLQPYLKLRQALL--ELRPAKNVLIDGVLGSGKTWVA----LDVCLS-YKVQCKMDFKIF 185

Query: 345 IIGILLHACLLEEEWGDIGEEETCKIEKEK-ENFLVHAGFGLTEAPEIQNWRNVRRMSLM 403
                         W ++    + +   E  +  L       T   +             
Sbjct: 186 --------------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH-----------S 220

Query: 404 KNKIENLSELQPALTFFLFFNMSNNHLL----------WK-LPLGISTLV---SLEHLD- 448
            N    +  +Q  L   L      N LL          W    L    L+     +  D 
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDF 280

Query: 449 LSSTAITHLPID-------LQKLVNL--KCLNLQYMYNLNQFPR-------LVISAFSKL 492
           LS+   TH+ +D         ++ +L  K L+          PR         +S  ++ 
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC----RPQDLPREVLTTNPRRLSIIAES 336

Query: 493 --------QVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM------AVTITLK 538
                      +  +C   K+  +  + L     VL        +        +  I   
Sbjct: 337 IRDGLATWDNWKHVNC--DKLTTIIESSL----NVLEPAEYRKMFDRLSVFPPSAHIPTI 390

Query: 539 RLQALQELLISQELQRCTQFLFLRC--FNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ 596
            L  +   +I  ++      L          K   I     + +   +Y+     LE+  
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS----IPS---IYLELKVKLENEY 443

Query: 597 MIIQRSSLSVHNLFINKNY 615
                   ++H   ++  Y
Sbjct: 444 --------ALHRSIVDH-Y 453

>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 = 44.8 bits (105), Expect = 8e-05
 Identities = 40/230 (17%), Positives = 71/230 (30%), Gaps = 75/230 (32%)

Query: 475 MYNLNQ-FPRLVISAFSKLQVLRMFDCGGSKIERLKSN---VLFG----GHQVLVEEL-- 524
           +YN NQ F +  +S       LR        +  L+     ++ G    G   +  ++  
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLR------QALLELRPAKNVLIDGVLGSGKTWVALDVCL 172

Query: 525 --------------IGMKYLMAVTITLKRLQAL--------------------------- 543
                         + +K   +    L+ LQ L                           
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 544 --QELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNK-LYVAGCKHLEDFQMIIQ 600
             + LL S+  + C   L L    ++K+ + F L+C     K L     K + DF     
Sbjct: 233 ELRRLLKSKPYENC--LLVLLNVQNAKAWNAFNLSC-----KILLTTRFKQVTDFLSAAT 285

Query: 601 RSSLSVHNLFINKNYIHTNQLSIL---LGI--NRLPH-FTKSNPYHPTIF 644
            + +S+ +   +         S+L   L      LP     +NP   +I 
Sbjct: 286 TTHISLDHH--SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII 333

>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 = 71.3 bits (175), Expect = 3e-13
 Identities = 46/269 (17%), Positives = 87/269 (32%), Gaps = 38/269 (14%)

Query: 376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKL 434
             L           ++     +  +    NKI  L   Q   L      N   N++    
Sbjct: 151 TELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNRL---NCDTNNIT--- 204

Query: 435 PLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQV 494
            L ++  + L  LD SS  +T   ID+  L  L   +       N    L +S  SKL  
Sbjct: 205 KLDLNQNIQLTFLDCSSNKLTE--IDVTPLTQLTYFDCSV----NPLTELDVSTLSKLTT 258

Query: 495 LRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ---- 550
           L        +I+   +  L      +  +  G + +    + +     L  L        
Sbjct: 259 LHCIQTDLLEIDLTHNTQL------IYFQAEGCRKIK--ELDVTHNTQLYLLDCQAAGIT 310

Query: 551 --ELQRCTQFLFLRCFNDS-KSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVH 607
             +L +  + ++L   N     LD+   +    L  L       ++DF  + +  +L+ +
Sbjct: 311 ELDLSQNPKLVYLYLNNTELTELDV---SHNTKLKSLSCVNAH-IQDFSSVGKIPALNNN 366

Query: 608 NLFINK------NYIHTNQLSILLGINRL 630
                +        +  N L+I +  + L
Sbjct: 367 FEAEGQTITMPKETLTNNSLTIAVSPDLL 395

>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 = 55.1 bits (133), Expect = 4e-08
 Identities = 46/271 (16%), Positives = 84/271 (30%), Gaps = 47/271 (17%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLV 442
            +T+   I+    + ++    N I  L   Q   LT   +    +N L   L   ++ L 
Sbjct: 53  SITDMTGIEKLTGLTKLICTSNNITTLDLSQNTNLT---YLACDSNKLT-NLD--VTPLT 106

Query: 443 SLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG 502
            L +L+  +  +T L +   +   L  LN       N    + +S  ++L  L   DC  
Sbjct: 107 KLTYLNCDTNKLTKLDV--SQNPLLTYLNCAR----NTLTEIDVSHNTQLTEL---DCHL 157

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYLMA-----VTITLKRLQALQELLISQ------E 551
           +K                V     +  L         + + + + L  L          +
Sbjct: 158 NKKITKLD----------VTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNITKLD 207

Query: 552 LQRCTQFLFLRC-FNDSKSLDIFCLACLHNLN-------KLYVAGCKHLEDFQMII-QRS 602
           L +  Q  FL C  N    +D+  L  L   +       +L V+    L     I     
Sbjct: 208 LNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLL 267

Query: 603 SLSV-HNLFINKNYIHTNQLSILLGINRLPH 632
            + + HN  +        +    L +     
Sbjct: 268 EIDLTHNTQLIYFQAEGCRKIKELDVTHNTQ 298

>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 = 53.9 bits (130), Expect = 8e-08
 Identities = 44/200 (22%), Positives = 72/200 (36%), Gaps = 29/200 (14%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLS 450
            N+ +    +      + +SE Q   LT     +  N+ +   +  GI  L  L  L  +
Sbjct: 18  DNFASEVAAAFEMQATDTISEEQLATLTSL---DCHNSSIT-DMT-GIEKLTGLTKLICT 72

Query: 451 STAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKS 510
           S  IT   +DL +  NL  L        N+   L ++  +KL  L   +C  +K+ +L  
Sbjct: 73  SNNITT--LDLSQNTNLTYLACDS----NKLTNLDVTPLTKLTYL---NCDTNKLTKLD- 122

Query: 511 NVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ-------ELQRCTQFLFLRC 563
                 + +L    +         I +     L EL           ++   TQ   L C
Sbjct: 123 ---VSQNPLL--TYLNCARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDC 177

Query: 564 -FNDSKSLDIFCLACLHNLN 582
            FN    LD+     L+ LN
Sbjct: 178 SFNKITELDVSQNKLLNRLN 197

>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 = 66.5 bits (163), Expect = 5e-12
 Identities = 40/225 (17%), Positives = 73/225 (32%), Gaps = 20/225 (8%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
             +  E         + L    +    +    L+      +    L+ +LP  +     L
Sbjct: 71  TADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLM-ELPDTMQQFAGL 129

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPR-----LVISAFSKLQVLRMFD 499
           E L L+   +  LP  +  L  L+ L+++    L + P              L  L+   
Sbjct: 130 ETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLR 189

Query: 500 CGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ--------- 550
              + I  L ++      Q L    I    L A+   +  L  L+EL +           
Sbjct: 190 LEWTGIRSLPAS--IANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP 247

Query: 551 ELQRCT--QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE 593
                   + L L+  ++  +L    +  L  L KL + GC +L 
Sbjct: 248 IFGGRAPLKRLILKDCSNLLTLP-LDIHRLTQLEKLDLRGCVNLS 291

>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 = 60.0 bits (146), Expect = 7e-10
 Identities = 24/125 (19%), Positives = 51/125 (40%), Gaps = 17/125 (13%)

Query: 385 LTEAP-EIQNWRNVRRMSLMKNK-------IENLSELQPALTFFLFFNMSNNHLLWKLPL 436
           +   P  I N +N++ + +  +        I +L +L+         ++     L   P 
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLE-------ELDLRGCTALRNYPP 247

Query: 437 GISTLVSLEHLDLSS-TAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL 495
                  L+ L L   + +  LP+D+ +L  L+ L+L+   NL++ P L I+      ++
Sbjct: 248 IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL-IAQLPANCII 306

Query: 496 RMFDC 500
            +   
Sbjct: 307 LVPPH 311

>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 = 66.3 bits (161), Expect = 1e-11
 Identities = 44/262 (16%), Positives = 82/262 (31%), Gaps = 45/262 (17%)

Query: 391 IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLS 450
              +    + +L K  + +       L        +N+ +   +  GI  L ++  L L+
Sbjct: 17  DDAFAETIKDNLKKKSVTDAVTQN-ELNSIDQIIANNSDIK-SVQ-GIQYLPNVTKLFLN 73

Query: 451 STAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKS 510
              +T +   L  L NL  L L      N+     +S+   L+ L+      + I  +  
Sbjct: 74  GNKLTDIK-PLTNLKNLGWLFLDE----NKIKD--LSSLKDLKKLKSLSLEHNGISDING 126

Query: 511 NVLFGGHQVLVEELIGMKYLMA-----VTIT-LKRLQALQELLISQELQRCTQFLFLRCF 564
                     +  L  ++ L         IT L RL  L  L +                
Sbjct: 127 ----------LVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLED-------------- 162

Query: 565 NDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSIL 624
           N    +    LA L  L  LY++    + D + +    +L V  L +         ++  
Sbjct: 163 NQISDIVP--LAGLTKLQNLYLSKNH-ISDLRALAGLKNLDV--LELFSQECLNKPINHQ 217

Query: 625 LGINRLPHFTKSNPYHPTIFII 646
             +        ++    T  II
Sbjct: 218 SNLVVPNTVKNTDGSLVTPEII 239

>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 = 55.1 bits (132), Expect = 5e-08
 Identities = 51/256 (19%), Positives = 82/256 (32%), Gaps = 62/256 (24%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTL 441
            +     IQ   NV ++ L  NK+ ++  L     L    +  +  N +   L   +  L
Sbjct: 54  DIKSVQGIQYLPNVTKLFLNGNKLTDIKPLTNLKNLG---WLFLDENKIK-DLS-SLKDL 108

Query: 442 VSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCG 501
             L+ L L    I+ +   L  L  L+ L L      N+     I+  S+L  L      
Sbjct: 109 KKLKSLSLEHNGISDIN-GLVHLPQLESLYLGN----NKITD--ITVLSRLTKLDTLSLE 161

Query: 502 GSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFL 561
            ++I  +                            L  L  LQ L +S            
Sbjct: 162 DNQISDIVP--------------------------LAGLTKLQNLYLS------------ 183

Query: 562 RCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQL 621
                +   D+  LA L NL+ L +   + L     I  +S+L V N   N +      L
Sbjct: 184 ----KNHISDLRALAGLKNLDVLELFSQECLNK--PINHQSNLVVPNTVKNTD----GSL 233

Query: 622 SILLGINRLPHFTKSN 637
                I+    + K N
Sbjct: 234 VTPEIISDDGDYEKPN 249

>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 = 63.3 bits (155), Expect = 7e-11
 Identities = 43/261 (16%), Positives = 92/261 (35%), Gaps = 40/261 (15%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTLV 442
           +T+   + N   +  + +  NKI ++S LQ    L       ++ +++       ++ L 
Sbjct: 78  ITDISPLSNLVKLTNLYIGTNKITDISALQNLTNLREL---YLNEDNI--SDISPLANLT 132

Query: 443 SLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG 502
            +  L+L +         L  +  L  L +      ++     ++  + L  L       
Sbjct: 133 KMYSLNLGANHNLSDLSPLSNMTGLNYLTVTE----SKVKD--VTPIANLTDLYSLSLNY 186

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYL------MAVTITLKRLQALQELLIS------- 549
           ++IE +            +  L  + Y       +     +  +  L  L I        
Sbjct: 187 NQIEDISP----------LASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDL 236

Query: 550 QELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNL 609
             L   +Q  +L    +  S DI  +  L  L  L V   + + D  ++   S L+  +L
Sbjct: 237 SPLANLSQLTWLEIGTNQIS-DINAVKDLTKLKMLNVGSNQ-ISDISVLNNLSQLN--SL 292

Query: 610 FINKNYIHTNQLSILLGINRL 630
           F+N N +    + ++ G+  L
Sbjct: 293 FLNNNQLGNEDMEVIGGLTNL 313

>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 = 61.4 bits (150), Expect = 2e-10
 Identities = 43/234 (18%), Positives = 80/234 (34%), Gaps = 57/234 (24%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTLV 442
           + +   I N  ++  +SL  N+IE++S L    +L +F       N +   +   ++ + 
Sbjct: 167 VKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYF---TAYVNQIT-DIT-PVANMT 221

Query: 443 SLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG 502
            L  L + +  IT L   L  L  L  L +      NQ     I+A   L  L+M + G 
Sbjct: 222 RLNSLKIGNNKITDLS-PLANLSQLTWLEIGT----NQISD--INAVKDLTKLKMLNVGS 274

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLR 562
           ++I  +                            L  L  L  L ++             
Sbjct: 275 NQISDISV--------------------------LNNLSQLNSLFLNN------------ 296

Query: 563 CFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYI 616
             N   + D+  +  L NL  L+++    + D + +   S +   +       I
Sbjct: 297 --NQLGNEDMEVIGGLTNLTTLFLSQNH-ITDIRPLASLSKM--DSADFANQVI 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 = 56.4 bits (137), Expect = 1e-08
 Identities = 45/245 (18%), Positives = 82/245 (33%), Gaps = 54/245 (22%)

Query: 401 SLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID 460
           + +   I  +      L   +   +    +     +    L S+  L ++   +  +   
Sbjct: 6   ATLPAPINQIFPD-ADLAEGIRAVLQKASV--TDVVTQEELESITKLVVAGEKVASIQ-G 61

Query: 461 LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVL 520
           ++ L NL+ LNL      NQ     IS  S L  L     G +KI  + +          
Sbjct: 62  IEYLTNLEYLNLNG----NQITD--ISPLSNLVKLTNLYIGTNKITDISA---------- 105

Query: 521 VEELIGMKYLMAVTITLKRLQALQELLISQ-------ELQRCTQFLFLRCFNDSKSLDIF 573
                           L+ L  L+EL +++        L   T+   L    +    D+ 
Sbjct: 106 ----------------LQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLS 149

Query: 574 CLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHT-------NQLSIL-L 625
            L+ +  LN L V   K ++D   I   + L  ++L +N N I           L     
Sbjct: 150 PLSNMTGLNYLTVTESK-VKDVTPIANLTDL--YSLSLNYNQIEDISPLASLTSLHYFTA 206

Query: 626 GINRL 630
            +N++
Sbjct: 207 YVNQI 211

>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 = 52.2 bits (126), Expect = 2e-07
 Identities = 18/93 (19%), Positives = 39/93 (41%), Gaps = 6/93 (6%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTL 441
            +++   +++   ++ +++  N+I ++S L     L       ++NN L  +    I  L
Sbjct: 254 QISDINAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSL---FLNNNQLGNEDMEVIGGL 310

Query: 442 VSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQY 474
            +L  L LS   IT +   L  L  +   +   
Sbjct: 311 TNLTTLFLSQNHITDIR-PLASLSKMDSADFAN 342

>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 = 64.1 bits (156), Expect = 8e-11
 Identities = 49/258 (18%), Positives = 84/258 (32%), Gaps = 17/258 (6%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGI-STL 441
            LT+ P  Q      R+ L  N I  ++    P L       + + +    +       L
Sbjct: 15  NLTQVP--QVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNL 72

Query: 442 VSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC 500
            +L  LDL S+ I  L  D  Q L +L  L L   +       L    F  L+ L   D 
Sbjct: 73  PNLRILDLGSSKIYFLHPDAFQGLFHLFELRLY--FCGLSDAVLKDGYFRNLKALTRLDL 130

Query: 501 GGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTI---TLKRLQA--LQELLISQ-ELQR 554
             ++I  L  +  FG    L  + I         +    L+ LQ   L    ++   L  
Sbjct: 131 SKNQIRSLYLHPSFGKLNSL--KSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYS 188

Query: 555 CTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAG--CKHLEDFQMIIQRSSLSVHNLFIN 612
                + +C N  +++ +  L    N   + + G     +   Q      +  +      
Sbjct: 189 RVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFG 248

Query: 613 KNYIHTNQLSILLGINRL 630
            + I     +   G+ R 
Sbjct: 249 FHNIKDPDQNTFAGLARS 266

>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 = 57.1 bits (138), Expect = 1e-08
 Identities = 43/259 (16%), Positives = 88/259 (33%), Gaps = 30/259 (11%)

Query: 382 GFGLTEAPEIQNWRNVRRMSLMKNKIENLSE--LQP-ALTFFLFFNMSNNHLLWKLPLGI 438
               ++A  +    ++       + I++  +      A +     ++S+  +        
Sbjct: 227 AISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVF 286

Query: 439 STLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM 497
            TL  L+ L+L+   I  +  +    L NL+ LNL Y    N    L  S F  L  +  
Sbjct: 287 ETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSY----NLLGELYSSNFYGLPKVAY 342

Query: 498 FDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA---VTITLKRLQALQELLISQELQR 554
            D   + I  ++              L  ++ L        T+  + ++ ++ +S     
Sbjct: 343 IDLQKNHIAIIQDQTFKF--------LEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLV 394

Query: 555 CTQFLFLRC------FNDSKSLDIFC-LACLHNLNKLYVAGCK--HLEDFQMIIQRSSLS 605
               + L         N  ++LDI   L  + +L  L +   +       Q   +  SL 
Sbjct: 395 TLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLE 454

Query: 606 VHNLFINKNYIHTNQLSIL 624
              LF+ +N +     + L
Sbjct: 455 Q--LFLGENMLQLAWETEL 471

>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 = 55.2 bits (133), Expect = 5e-08
 Identities = 37/281 (13%), Positives = 84/281 (29%), Gaps = 57/281 (20%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPALTFFLF-----FNMSNNHLLWKLPLGISTLVSLEH 446
               N++ ++L  N +  L     +  F+        ++  NH+          L  L+ 
Sbjct: 311 YGLDNLQVLNLSYNLLGEL----YSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQT 366

Query: 447 LDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISA------------------ 488
           LDL   A+T +      + ++  + L     L   P++ ++A                  
Sbjct: 367 LDLRDNALTTIHF----IPSIPDIFLSGN-KLVTLPKINLTANLIHLSENRLENLDILYF 421

Query: 489 FSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVE------ELIGMKYLMAVTITLKRLQA 542
             ++  L++     ++      +     +  L +       L             + L  
Sbjct: 422 LLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSH 481

Query: 543 LQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRS 602
           LQ L ++               N   SL     + L  L  L +   + L         +
Sbjct: 482 LQVLYLN--------------HNYLNSLPPGVFSHLTALRGLSLNSNR-LTVLSHNDLPA 526

Query: 603 SLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYHPTI 643
           +L +  L I++N +      + + ++        N +    
Sbjct: 527 NLEI--LDISRNQLLAPNPDVFVSLSV--LDITHNKFICEC 563

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 63.1 bits (154), Expect = 1e-10
 Identities = 26/116 (22%), Positives = 48/116 (41%), Gaps = 6/116 (5%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVS 443
           LT+   + N+  +  + L  N++E +       +       +SNN L   L L    + +
Sbjct: 238 LTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRL-VALNLYGQPIPT 296

Query: 444 LEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD 499
           L+ LDLS   + H+  +  +   L+ L L +    N    L +S    L+ L +  
Sbjct: 297 LKVLDLSHNHLLHVERNQPQFDRLENLYLDH----NSIVTLKLSTHHTLKNLTLSH 348

>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 = 41/236 (17%), Positives = 86/236 (36%), Gaps = 39/236 (16%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSS 451
           Q   +++ + L  N++ ++        F    N+S N L       ++  +++E LD S 
Sbjct: 162 QATTSLQNLQLSSNRLTHVDLSLIPSLFHA--NVSYNLLS-----TLAIPIAVEELDASH 214

Query: 452 TAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN 511
            +I  +   +   V L  L LQ+    N       +       L   D   +++E++  +
Sbjct: 215 NSINVVRGPV--NVELTILKLQH----NNLTD--TAWLLNYPGLVEVDLSYNELEKIMYH 266

Query: 512 VLFGGHQVLVE-ELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSL 570
             F   Q L    +   + L+A+ +  + +  L+ L +S               N    +
Sbjct: 267 P-FVKMQRLERLYISNNR-LVALNLYGQPIPTLKVLDLS--------------HNHLLHV 310

Query: 571 DIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSL-SVHNLFINKNYIHTNQLSILL 625
           +         L  LY+     +      ++ S+  ++ NL ++ N    N L  L 
Sbjct: 311 ERN-QPQFDRLENLYLDHNS-IVT----LKLSTHHTLKNLTLSHNDWDCNSLRALF 360

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 48.1 bits (115), Expect = 5e-06
 Identities = 16/102 (15%), Positives = 32/102 (31%), Gaps = 5/102 (4%)

Query: 415 PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQ 473
                F   ++              TL + + +   ++ +  LP   L     ++ LNL 
Sbjct: 18  QYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLN 77

Query: 474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFG 515
                 Q   +   AF+    ++    G + I  L  +V   
Sbjct: 78  D----LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQN 115

>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 = 62.2 bits (151), Expect = 2e-10
 Identities = 47/249 (18%), Positives = 95/249 (38%), Gaps = 19/249 (7%)

Query: 395 RNVRRMSLMKNKIENLSELQPA----LTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDL 449
           +    +++ +N I   SEL  +    L+      +S+N +   L + +      LE+LDL
Sbjct: 21  QKTTILNISQNYI---SELWTSDILSLSKLRILIISHNRI-QYLDISVFKFNQELEYLDL 76

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRL-VISAFSKLQVLRMFDCGGSKIERL 508
           S   +  +       VNLK L+L +    N F  L +   F  +  L+      + +E+ 
Sbjct: 77  SHNKLVKISCH--PTVNLKHLDLSF----NAFDALPICKEFGNMSQLKFLGLSTTHLEKS 130

Query: 509 KSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSK 568
               +   +   V  ++G  Y         +    + L I     +   F+         
Sbjct: 131 SVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVA 190

Query: 569 SLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGIN 628
           +L++  + C+   NK        L   Q   + S+L+++N+    N     ++  L+   
Sbjct: 191 NLELSNIKCVLEDNKCSYF-LSILAKLQTNPKLSNLTLNNIETTWNSF--IRILQLVWHT 247

Query: 629 RLPHFTKSN 637
            + +F+ SN
Sbjct: 248 TVWYFSISN 256

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 27/115 (23%), Positives = 39/115 (33%), Gaps = 24/115 (20%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGIST--LVSLEHLDLSST 452
           +N       K        L          NMS+N     L   I       ++ LDL S 
Sbjct: 383 QNSVSYDEKKGDCSWTKSLL-------SLNMSSN----ILTDTIFRCLPPRIKVLDLHSN 431

Query: 453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM-------FDC 500
            I  +P  + KL  L+ LN+      NQ   +    F +L  L+        +DC
Sbjct: 432 KIKSIPKQVVKLEALQELNVAS----NQLKSVPDGIFDRLTSLQKIWLHTNPWDC 482

>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 = 62.3 bits (151), Expect = 3e-10
 Identities = 26/116 (22%), Positives = 48/116 (41%), Gaps = 6/116 (5%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVS 443
           LT+   + N+  +  + L  N++E +       +       +SNN L   L L    + +
Sbjct: 244 LTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRL-VALNLYGQPIPT 302

Query: 444 LEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD 499
           L+ LDLS   + H+  +  +   L+ L L +    N    L +S    L+ L +  
Sbjct: 303 LKVLDLSHNHLLHVERNQPQFDRLENLYLDH----NSIVTLKLSTHHTLKNLTLSH 354

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 48.0 bits (114), Expect = 8e-06
 Identities = 38/232 (16%), Positives = 82/232 (35%), Gaps = 37/232 (15%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI 454
            +++ + L  N++ ++      +      N+S N L       ++  +++E LD S  +I
Sbjct: 171 TSLQNLQLSSNRLTHVDL--SLIPSLFHANVSYNLLST-----LAIPIAVEELDASHNSI 223

Query: 455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLF 514
             +   +   V L  L LQ+    N       +       L   D   +++E++  +  F
Sbjct: 224 NVVRGPV--NVELTILKLQH----NNLTD--TAWLLNYPGLVEVDLSYNELEKIMYHP-F 274

Query: 515 GGHQVLVE-ELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIF 573
              Q L    +   + L+A+ +  + +  L+ L +S               N    ++  
Sbjct: 275 VKMQRLERLYISNNR-LVALNLYGQPIPTLKVLDLS--------------HNHLLHVERN 319

Query: 574 CLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILL 625
                  L  LY+           +   +  ++ NL ++ N    N L  L 
Sbjct: 320 -QPQFDRLENLYLDHNS----IVTLKLSTHHTLKNLTLSHNDWDCNSLRALF 366

>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 = 47.2 bits (112), Expect = 1e-05
 Identities = 16/100 (16%), Positives = 32/100 (32%), Gaps = 5/100 (5%)

Query: 415 PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQ 473
                F   ++              TL + + +   ++ +  LP   L     ++ LNL 
Sbjct: 24  QYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLN 83

Query: 474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVL 513
                 Q   +   AF+    ++    G + I  L  +V 
Sbjct: 84  D----LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVF 119

>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 = 61.3 bits (149), Expect = 5e-10
 Identities = 41/238 (17%), Positives = 75/238 (31%), Gaps = 57/238 (23%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPALTFFL----FFNMSNNHL--LWKLPLGISTLVSLE 445
           Q+ +++  + L +N +        A            +S NHL  + K    + TL +L 
Sbjct: 331 QHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLT 390

Query: 446 HLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKI 505
            LD+S      +P   Q    ++ LNL           +       L+VL   D   + +
Sbjct: 391 SLDISRNTFHPMPDSCQWPEKMRFLNLSS----TGIRVVKTCIPQTLEVL---DVSNNNL 443

Query: 506 ERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS----QELQRCTQF--- 558
           +                                 L  LQEL IS    + L   + F   
Sbjct: 444 DSFSLF----------------------------LPRLQELYISRNKLKTLPDASLFPVL 475

Query: 559 --LFLRCFNDSKSLDIFCLACLHNLNKLYVAG------CKHLEDFQMIIQRSSLSVHN 608
             + +   N  KS+       L +L K+++        C  ++     + ++S     
Sbjct: 476 LVMKIS-RNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSRWLNKNSQKEQG 532

>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 = 59.0 bits (143), Expect = 3e-09
 Identities = 40/266 (15%), Positives = 95/266 (35%), Gaps = 27/266 (10%)

Query: 390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFL-FFNMSNNHLLWKLPLGISTLVSLEHLD 448
           E  +           ++ + +SEL    T  +   ++   +L + L    S L  ++ + 
Sbjct: 257 EFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRIT 316

Query: 449 LSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVI---SAFSKLQVLRMFDCGGSK 504
           + ++ +  +P    Q L +L+ L+L      N      +   +       L+      + 
Sbjct: 317 VENSKVFLVPCSFSQHLKSLEFLDLSE----NLMVEEYLKNSACKGAWPSLQTLVLSQNH 372

Query: 505 IERLKSNVLFGGHQVLVEEL-IGMKYLMAVTITLKRLQALQELLIS----QELQRCT--- 556
           +  ++           +  L I       +  + +  + ++ L +S    + ++ C    
Sbjct: 373 LRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCIPQT 432

Query: 557 -QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNY 615
            + L +   N+  S  +F    L  L +LY++  K L+          L V  + I++N 
Sbjct: 433 LEVLDVS-NNNLDSFSLF----LPRLQELYISRNK-LKTLPDASLFPVLLV--MKISRNQ 484

Query: 616 IHTNQLSILLGINRLPHFT-KSNPYH 640
           + +    I   +  L      +NP+ 
Sbjct: 485 LKSVPDGIFDRLTSLQKIWLHTNPWD 510

>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 = 59.0 bits (143), Expect = 3e-09
 Identities = 37/266 (13%), Positives = 82/266 (30%), Gaps = 30/266 (11%)

Query: 395 RNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSST 452
             ++ + L  NKI  +      A        + ++ +   +      +L SLEHLDLS  
Sbjct: 26  AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRI-NTIEGDAFYSLGSLEHLDLSDN 84

Query: 453 AITHLPID-LQKLVNLKCLNLQ----------------------YMYNLNQFPRLVISAF 489
            ++ L       L +LK LNL                        + N+  F  +    F
Sbjct: 85  HLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDF 144

Query: 490 SKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS 549
           + L  L   +     +   +S  L     +    L   +    + I    L +++ L + 
Sbjct: 145 AGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELR 204

Query: 550 QELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNL 609
                             +                  +  + L+  + I++ S +   + 
Sbjct: 205 ---DTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDC 261

Query: 610 FINK-NYIHTNQLSILLGINRLPHFT 634
            +N     + ++  ++  + ++   T
Sbjct: 262 TLNGLGDFNPSESDVVSELGKVETVT 287

>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 = 59.3 bits (144), Expect = 1e-09
 Identities = 42/252 (16%), Positives = 80/252 (31%), Gaps = 47/252 (18%)

Query: 393 NWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST 452
            +    + +L K  + +       L        +N+ +   +  GI  L ++  L L+  
Sbjct: 22  AFAETIKDNLKKKSVTDAVTQN-ELNSIDQIIANNSDIK-SVQ-GIQYLPNVTKLFLNGN 78

Query: 453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNV 512
            +T +   L  L NL  L L      N+     +S+   L+ L+      + I  +    
Sbjct: 79  KLTDIK-PLANLKNLGWLFLDE----NKVKD--LSSLKDLKKLKSLSLEHNGISDING-- 129

Query: 513 LFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS-------QELQRCTQFLFLRCFN 565
                                   L  L  L+ L +          L R T+   L    
Sbjct: 130 ------------------------LVHLPQLESLYLGNNKITDITVLSRLTKLDTLSL-E 164

Query: 566 DSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILL 625
           D++  DI  LA L  L  LY++    + D + +    +L V  L +         ++   
Sbjct: 165 DNQISDIVPLAGLTKLQNLYLSKNH-ISDLRALAGLKNLDV--LELFSQECLNKPINHQS 221

Query: 626 GINRLPHFTKSN 637
            +        ++
Sbjct: 222 NLVVPNTVKNTD 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 = 59.6 bits (145), Expect = 1e-09
 Identities = 53/292 (18%), Positives = 104/292 (35%), Gaps = 59/292 (20%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS 443
           G+     ++   N+ +++   N++ +++ L+  LT  +   M+NN +       ++ L +
Sbjct: 57  GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNNQI--ADITPLANLTN 113

Query: 444 LEHLDLSSTAITHLPIDLQKLVNLKCLNLQY-----MYNLNQFPRLV----------ISA 488
           L  L L +  IT +   L+ L NL  L L       +  L+    L           +  
Sbjct: 114 LTGLTLFNNQITDID-PLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKP 172

Query: 489 FSKLQVLRMFDCGGSKIERLKSNVLFGGHQVL------------VEELIGMKYLMAVTI- 535
            + L  L   D   +K+  +           L            +  L  +  L  +++ 
Sbjct: 173 LANLTTLERLDISSNKVSDISV---LAKLTNLESLIATNNQISDITPLGILTNLDELSLN 229

Query: 536 --------TLKRLQALQELLISQ-------ELQRCTQFLFLRCFNDSKSLDIFCLACLHN 580
                   TL  L  L +L ++         L   T+   L+    ++  +I  LA L  
Sbjct: 230 GNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKL-GANQISNISPLAGLTA 288

Query: 581 LNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPH 632
           L  L +   + LED   I    +L+   L       + N +S +  ++ L  
Sbjct: 289 LTNLELNENQ-LEDISPISNLKNLTYLTL-------YFNNISDISPVSSLTK 332

>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 = 59.6 bits (145), Expect = 2e-09
 Identities = 43/248 (17%), Positives = 80/248 (32%), Gaps = 59/248 (23%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTLV 442
           +++   +    N+  +SL  N+++++  L     LT     +++NN +   L   +S L 
Sbjct: 211 ISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDL---DLANNQIS-NLA-PLSGLT 265

Query: 443 SLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG 502
            L  L L +  I+++   L  L  L  L L      NQ     IS  S L+ L       
Sbjct: 266 KLTELKLGANQISNIS-PLAGLTALTNLELNE----NQLED--ISPISNLKNLTYLTLYF 318

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLR 562
           + I  +                            +  L  LQ L                
Sbjct: 319 NNISDISP--------------------------VSSLTKLQRLFFYN------------ 340

Query: 563 CFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLS 622
             N    +    LA L N+N L     + + D   +   + ++   L +N        ++
Sbjct: 341 --NKVSDVSS--LANLTNINWLSAGHNQ-ISDLTPLANLTRITQ--LGLNDQAWTNAPVN 393

Query: 623 ILLGINRL 630
               ++  
Sbjct: 394 YKANVSIP 401

>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 = 39/226 (17%), Positives = 78/226 (34%), Gaps = 34/226 (15%)

Query: 391 IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLS 450
                   +  L K  + +       L            +  K   G+  L +L  ++ S
Sbjct: 20  DTALAEKMKTVLGKTNVTDTVSQTD-LDQVTTLQADRLGI--KSIDGVEYLNNLTQINFS 76

Query: 451 STAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKS 510
           +  +T +   L+ L  L  + +      NQ     I+  + L  L       ++I  +  
Sbjct: 77  NNQLTDIT-PLKNLTKLVDILMNN----NQIAD--ITPLANLTNLTGLTLFNNQITDIDP 129

Query: 511 NVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSL 570
                     ++ L  +  L   + T+  + AL  L     LQ+    L       ++  
Sbjct: 130 ----------LKNLTNLNRLELSSNTISDISALSGL---TSLQQ----LSF----GNQVT 168

Query: 571 DIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYI 616
           D+  LA L  L +L ++  K + D  ++ + ++L   +L    N I
Sbjct: 169 DLKPLANLTTLERLDISSNK-VSDISVLAKLTNL--ESLIATNNQI 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 = 48.0 bits (115), Expect = 6e-06
 Identities = 19/111 (17%), Positives = 44/111 (39%), Gaps = 5/111 (4%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           +++   + +   ++R+    NK+ ++S L   LT   + +  +N +    P  ++ L  +
Sbjct: 321 ISDISPVSSLTKLQRLFFYNNKVSDVSSLA-NLTNINWLSAGHNQISDLTP--LANLTRI 377

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL 495
             L L+  A T+ P++ +  V++   N              IS        
Sbjct: 378 TQLGLNDQAWTNAPVNYKANVSI--PNTVKNVTGALIAPATISDGGSYTEP 426

>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 = 44.6 bits (106), Expect = 9e-05
 Identities = 19/109 (17%), Positives = 42/109 (38%), Gaps = 4/109 (3%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           +++   + N  N+  +S   N+I +L+ L   LT      +++       P+     VS+
Sbjct: 343 VSDVSSLANLTNINWLSAGHNQISDLTPLAN-LTRITQLGLNDQAWT-NAPVNYKANVSI 400

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQ 493
            +   + T     P  +    +    ++   +NL  +   V   FS+  
Sbjct: 401 PNTVKNVTGALIAPATISDGGSYTEPDIT--WNLPSYTNEVSYTFSQPV 447

>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 = 41.9 bits (99), Expect = 5e-04
 Identities = 33/217 (15%), Positives = 59/217 (27%), Gaps = 58/217 (26%)

Query: 437 GISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLR 496
             + L       L  T +T   +    L  +  L               I     L  L 
Sbjct: 19  TDTALAEKMKTVLGKTNVTDT-VSQTDLDQVTTLQADR----LGIKS--IDGVEYLNNLT 71

Query: 497 MFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ------ 550
             +   +++  +                            LK L  L ++L++       
Sbjct: 72  QINFSNNQLTDI--------------------------TPLKNLTKLVDILMNNNQIADI 105

Query: 551 -ELQRCT--QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCK--HLEDFQMIIQRSSLS 605
             L   T    L L     +   DI  L  L NLN+L ++      +     +     LS
Sbjct: 106 TPLANLTNLTGLTLFNNQIT---DIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLS 162

Query: 606 VHNLFIN-------KN----YIHTNQLSILLGINRLP 631
             N   +              I +N++S +  + +L 
Sbjct: 163 FGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLT 199

>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 = 58.5 bits (142), Expect = 2e-09
 Identities = 47/252 (18%), Positives = 89/252 (35%), Gaps = 37/252 (14%)

Query: 393 NWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST 452
              N  +++  K+ + +       L      +      +  +  G+  L +L  L+L   
Sbjct: 17  ALANAIKIAAGKSNVTDTVTQA-DLDGITTLSAFGT-GVTTIE-GVQYLNNLIGLELKDN 73

Query: 453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNV 512
            IT L   L+ L  +  L L      N      +SA + LQ ++  D   ++I  +    
Sbjct: 74  QITDLA-PLKNLTKITELELSG----NPLKN--VSAIAGLQSIKTLDLTSTQITDVTP-- 124

Query: 513 LFGGHQVLVEELIGMKYLMAVT--IT----LKRLQALQELLIS-------QELQRCTQFL 559
                   +  L  ++ L      IT    L  L  LQ L I          L   ++  
Sbjct: 125 --------LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLT 176

Query: 560 FLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTN 619
            L+  +D+K  DI  LA L NL ++++   + + D   +   S+L +  + +    I   
Sbjct: 177 TLKA-DDNKISDISPLASLPNLIEVHLKNNQ-ISDVSPLANTSNLFI--VTLTNQTITNQ 232

Query: 620 QLSILLGINRLP 631
            +     +    
Sbjct: 233 PVFYNNNLVVPN 244

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 52.8 bits (127), Expect = 1e-07
 Identities = 25/131 (19%), Positives = 47/131 (35%), Gaps = 14/131 (10%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTLV 442
           +T+   +    N++ + L  N+I N+S L     L    + ++ N  +   L   ++ L 
Sbjct: 119 ITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQ---YLSIGNAQVS-DLT-PLANLS 173

Query: 443 SLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG 502
            L  L      I+ +   L  L NL  ++L+     NQ     +S  +    L +     
Sbjct: 174 KLTTLKADDNKISDIS-PLASLPNLIEVHLKN----NQI--SDVSPLANTSNLFIVTLTN 226

Query: 503 SKIERLKSNVL 513
             I        
Sbjct: 227 QTITNQPVFYN 237

>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 = 48.1 bits (115), Expect = 4e-06
 Identities = 17/111 (15%), Positives = 42/111 (37%), Gaps = 8/111 (7%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           +T    +    N++ +S+   ++ +L+ L   L+        +N +   +   +++L +L
Sbjct: 141 ITNISPLAGLTNLQYLSIGNAQVSDLTPLA-NLSKLTTLKADDNKIS-DIS-PLASLPNL 197

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL 495
             + L +  I+ +   L    NL  + L             +   + L V 
Sbjct: 198 IEVHLKNNQISDVSP-LANTSNLFIVTLTN----QTITNQPVFYNNNLVVP 243

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 58.1 bits (141), Expect = 2e-09
 Identities = 34/251 (13%), Positives = 81/251 (32%), Gaps = 31/251 (12%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           L E  ++++   +R + L  N ++ L    P++      + +NN++  ++          
Sbjct: 70  LYETLDLESLSTLRTLDLNNNYVQELLVG-PSIE---TLHAANNNIS-RVSCSR--GQGK 122

Query: 445 EHLDLSSTAITHLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAF-SKLQVLRMFDCGG 502
           +++ L++  IT L  +D      ++ L+L+     N+   +  +   +    L   +   
Sbjct: 123 KNIYLANNKITMLRDLDEGCRSRVQYLDLKL----NEIDTVNFAELAASSDTLEHLNLQY 178

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLR 562
           + I  +K  V+F     L    +    L  +    +    +  + +              
Sbjct: 179 NFIYDVKGQVVF---AKLKTLDLSSNKLAFMGPEFQSAAGVTWISLR------------- 222

Query: 563 CFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLS 622
             N    ++   L    NL    + G              +  V  +        T Q  
Sbjct: 223 -NNKLVLIEK-ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNE 280

Query: 623 ILLGINRLPHF 633
               +  L H+
Sbjct: 281 EECTVPTLGHY 291

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 54.2 bits (131), Expect = 4e-08
 Identities = 15/140 (10%), Positives = 41/140 (29%), Gaps = 13/140 (9%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           +  A    +   +  ++L  N I ++             ++S+N L   +     +   +
Sbjct: 159 VNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDLSSNKLA-FMGPEFQSAAGV 216

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQY-----------MYNLNQFPRLVISAFSKLQ 493
             + L +  +  +   L+   NL+  +L+                 +   +      KL 
Sbjct: 217 TWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLT 276

Query: 494 VLRMFDCGGSKIERLKSNVL 513
                +C    +    +   
Sbjct: 277 GQNEEECTVPTLGHYGAYCC 296

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 44.6 bits (106), Expect = 5e-05
 Identities = 17/103 (16%), Positives = 38/103 (36%), Gaps = 9/103 (8%)

Query: 410 LSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTAITHLPID-LQKLVNL 467
           + E++     +    ++++ L  +    +  +  +++ LDLS   ++ +    L     L
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLK-QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKL 60

Query: 468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKS 510
           + LNL      N            L  LR  D   + ++ L  
Sbjct: 61  ELLNLSS----NVLYE--TLDLESLSTLRTLDLNNNYVQELLV 97

>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 = 59.0 bits (143), Expect = 2e-09
 Identities = 31/136 (22%), Positives = 45/136 (33%), Gaps = 11/136 (8%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGI-STL 441
           GL + PE+    +V  + L  N I  L+E     L    F  +        +       L
Sbjct: 21  GLHQVPELPA--HVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGL 78

Query: 442 VSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVIS--AFSKLQVLRMF 498
            SL  L L       L       L NL+ L L            V+S   F  L  L M 
Sbjct: 79  SSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQ----CNLDGAVLSGNFFKPLTSLEML 134

Query: 499 DCGGSKIERLKSNVLF 514
               + I++++    F
Sbjct: 135 VLRDNNIKKIQPASFF 150

>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 = 45.5 bits (108), Expect = 3e-05
 Identities = 24/104 (23%), Positives = 41/104 (39%), Gaps = 8/104 (7%)

Query: 396 NVRRMSLMKNKIENLSELQPA-LTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTA 453
            V+   L K+KI  L +   +  T      ++ N +  K+       L  L  L+LS   
Sbjct: 276 GVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEIN-KIDDNAFWGLTHLLKLNLSQNF 334

Query: 454 ITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLR 496
           +  +   + + L  L+ L+L Y    N    L   +F  L  L+
Sbjct: 335 LGSIDSRMFENLDKLEVLDLSY----NHIRALGDQSFLGLPNLK 374

>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 = 58.5 bits (142), Expect = 4e-09
 Identities = 27/127 (21%), Positives = 43/127 (33%), Gaps = 13/127 (10%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           L E PE+QN   +  +    N ++ L +L  +L         NN L  +    +  L  L
Sbjct: 185 LEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESI---VAGNNIL--EELPELQNLPFL 239

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSK 504
             +   +  +  LP     L  L   +      L   P L       L  L + +   S 
Sbjct: 240 TTIYADNNLLKTLPDLPPSLEALNVRDNY----LTDLPEL----PQSLTFLDVSENIFSG 291

Query: 505 IERLKSN 511
           +  L  N
Sbjct: 292 LSELPPN 298

>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 = 47.3 bits (113), Expect = 1e-05
 Identities = 29/125 (23%), Positives = 53/125 (42%), Gaps = 18/125 (14%)

Query: 385 LTEAP-EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS 443
           LTE P   Q+ +++    +  N ++ LS+L P L +     +SNN L  KLP  +     
Sbjct: 103 LTELPELPQSLKSLL---VDNNNLKALSDLPPLLEYL---GVSNNQL-EKLP-ELQNSSF 154

Query: 444 LEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGS 503
           L+ +D+ + ++  LP       +L+ +        NQ   L       L  L       +
Sbjct: 155 LKIIDVDNNSLKKLP---DLPPSLEFIAAGN----NQLEEL--PELQNLPFLTAIYADNN 205

Query: 504 KIERL 508
            +++L
Sbjct: 206 SLKKL 210

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 46.5 bits (111), Expect = 2e-05
 Identities = 25/135 (18%), Positives = 38/135 (28%), Gaps = 33/135 (24%)

Query: 389 PEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLD 448
           P     R +    L         EL           ++N  L   LP        LE L 
Sbjct: 52  PGNGEQREMAVSRLRDCLDRQAHEL----------ELNNLGLS-SLPELPP---HLESLV 97

Query: 449 LSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRL---------------VISAFSKLQ 493
            S  ++T LP   Q L +L   N      L     L                +       
Sbjct: 98  ASCNSLTELPELPQSLKSLLVDNNN----LKALSDLPPLLEYLGVSNNQLEKLPELQNSS 153

Query: 494 VLRMFDCGGSKIERL 508
            L++ D   + +++L
Sbjct: 154 FLKIIDVDNNSLKKL 168

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 45.0 bits (107), Expect = 6e-05
 Identities = 11/100 (11%), Positives = 38/100 (38%), Gaps = 12/100 (12%)

Query: 396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT 455
           N++++ +  N +    ++  ++      ++  N  L ++P       +L+ L + +  + 
Sbjct: 358 NLKQLHVEYNPLREFPDIPESVE-----DLRMNSHLAEVP---ELPQNLKQLHVETNPLR 409

Query: 456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL 495
             P   + + +L+  + +    +            KL+  
Sbjct: 410 EFPDIPESVEDLRMNSER----VVDPYEFAHETTDKLEDD 445

>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 = 55.7 bits (135), Expect = 4e-09
 Identities = 19/129 (14%), Positives = 44/129 (34%), Gaps = 11/129 (8%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWKLPLGISTL 441
            +T+   I+   N++ +++      N + +     L       +    +       +S L
Sbjct: 55  NVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERL---RIMGKDVTSDKIPNLSGL 111

Query: 442 VSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC 500
            SL  LD+S +A     +  +  L  +  ++L Y   +       I     L  L+  + 
Sbjct: 112 TSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITD-----IMPLKTLPELKSLNI 166

Query: 501 GGSKIERLK 509
               +   +
Sbjct: 167 QFDGVHDYR 175

>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 = 52.3 bits (126), Expect = 6e-08
 Identities = 31/208 (14%), Positives = 67/208 (32%), Gaps = 46/208 (22%)

Query: 393 NWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST 452
            ++      L ++   N++E Q  +    +  ++N ++   L  GI    +++ L +++ 
Sbjct: 21  TFKAYLNGLLGQSSTANITEAQ--MNSLTYITLANINV-TDLT-GIEYAHNIKDLTINNI 76

Query: 453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNV 512
             T+    +  L NL+ L +             I   S L  L + D   S  +      
Sbjct: 77  HATNYN-PISGLSNLERLRIMG----KDVTSDKIPNLSGLTSLTLLDISHSAHDDSI--- 128

Query: 513 LFGGHQVLVEELIGMKYLMAVTIT----------LKRLQALQELLISQELQRCTQFLFLR 562
                   + ++  +  + ++ ++          LK L  L+ L I              
Sbjct: 129 --------LTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQ------------- 167

Query: 563 CFNDSKSLDIFCLACLHNLNKLYVAGCK 590
                   D   +     LN+LY     
Sbjct: 168 ---FDGVHDYRGIEDFPKLNQLYAFSQT 192

>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 = 46.5 bits (111), Expect = 6e-06
 Identities = 26/182 (14%), Positives = 52/182 (28%), Gaps = 47/182 (25%)

Query: 435 PLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQV 494
            +  + + SL ++ L++  +T L   ++   N+K L +              +  S L  
Sbjct: 37  NITEAQMNSLTYITLANINVTDLT-GIEYAHNIKDLTINN----IHAT--NYNPISGLSN 89

Query: 495 LRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQR 554
           L      G  +   K   L G                        L +L  L IS     
Sbjct: 90  LERLRIMGKDVTSDKIPNLSG------------------------LTSLTLLDIS----- 120

Query: 555 CTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKN 614
                     +      +  +  L  +N + ++    + D   +     L    L I  +
Sbjct: 121 ---------HSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKS--LNIQFD 169

Query: 615 YI 616
            +
Sbjct: 170 GV 171

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

 Score = 58.3 bits (141), Expect = 6e-09
 Identities = 19/138 (13%), Positives = 43/138 (31%), Gaps = 13/138 (9%)

Query: 388 APEIQNWRNVRRMSLMKNKIENLSELQPALTFFLF--------FNMSNNHLLWKLP--LG 437
                    +  + L  N + ++ E         +         ++  N L   L     
Sbjct: 690 TELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLT-SLSDDFR 748

Query: 438 ISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNL--NQFPRLVISAFSKLQVL 495
            +TL  L ++D+S    +  P        LK   +++  +   N+  R   +  +    L
Sbjct: 749 ATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSL 808

Query: 496 RMFDCGGSKIERLKSNVL 513
                G + I ++   + 
Sbjct: 809 IQLQIGSNDIRKVDEKLT 826

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

 Score = 56.8 bits (137), Expect = 1e-08
 Identities = 36/261 (13%), Positives = 75/261 (28%), Gaps = 64/261 (24%)

Query: 382 GFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTL 441
              +    E  N    ++    +    NL +L           + N   + +LP  +  L
Sbjct: 462 YDNIAVDWEDANSDYAKQYENEELSWSNLKDLT-------DVELYNCPNMTQLPDFLYDL 514

Query: 442 VSLEHLDLSS----------TAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISA-FS 490
             L+ L+++              T L  D      ++   + Y    N       SA   
Sbjct: 515 PELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGY----NNLEEFPASASLQ 570

Query: 491 KLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ 550
           K+  L + DC  +K+  L++                                L +L +  
Sbjct: 571 KMVKLGLLDCVHNKVRHLEA--------------------------FGTNVKLTDLKLD- 603

Query: 551 ELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSL-SVHNL 609
                        +N  + +     A    +  L  +  K L+    I    S+  + ++
Sbjct: 604 -------------YNQIEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSV 649

Query: 610 FINKNYIHTNQLSILLGINRL 630
             + N I +   +I   ++  
Sbjct: 650 DFSYNKIGSEGRNISCSMDDY 670

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

 Score = 53.3 bits (128), Expect = 2e-07
 Identities = 30/257 (11%), Positives = 66/257 (25%), Gaps = 43/257 (16%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPA--LTFFLFFNMSNNHLL-----WKLPLGISTLVSL 444
                V  +    NK++ +  +  A  +      + S N +          +     ++ 
Sbjct: 616 AFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINA 675

Query: 445 EHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRL-------VISAFSKLQVLR 496
             + LS   I   P +       +  + L      N    +           +    +L 
Sbjct: 676 STVTLSYNEIQKFPTELFATGSPISTIILSN----NLMTSIPENSLKPKDGNYKNTYLLT 731

Query: 497 MFDCGGSKIERLKSNVLFGGHQVLVEEL-IGMKYLMAVTITLKRLQALQELLISQ----- 550
             D   +K+  L  +        L   + +      +          L+   I       
Sbjct: 732 TIDLRFNKLTSLSDDFRATTLPYL-SNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAE 790

Query: 551 ----------ELQRCT--QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE-DFQM 597
                      +  C     L +   ND + +D         L  L +A   ++  D   
Sbjct: 791 GNRILRQWPTGITTCPSLIQLQIGS-NDIRKVD---EKLTPQLYILDIADNPNISIDVTS 846

Query: 598 IIQRSSLSVHNLFINKN 614
           +       ++ L  +K 
Sbjct: 847 VCPYIEAGMYVLLYDKT 863

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

 Score = 47.9 bits (114), Expect = 8e-06
 Identities = 28/226 (12%), Positives = 58/226 (25%), Gaps = 31/226 (13%)

Query: 389 PEIQNWRNVRRMSLMKNKIENLSEL--QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEH 446
             I     ++ +S   +       L     LT  +     +   +    + +     L  
Sbjct: 341 DAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNL 400

Query: 447 LDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVI--SAFSKLQVLRMFDCGGSK 504
            DL   AI   P +++ +     ++L+     N   R+     A  +L  L++     S 
Sbjct: 401 SDLLQDAINRNP-EMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSP 459

Query: 505 IERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQEL---------LISQELQRC 555
                  V +             K      ++   L+ L ++          +   L   
Sbjct: 460 FTYDNIAVDW-----EDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDL 514

Query: 556 T--QFLFLRCFNDSKSLDIFC---------LACLHNLNKLYVAGCK 590
              Q L +   N   S                    +   Y+    
Sbjct: 515 PELQSLNIA-CNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNN 559

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

 Score = 47.9 bits (114), Expect = 9e-06
 Identities = 25/217 (11%), Positives = 66/217 (30%), Gaps = 13/217 (5%)

Query: 424 NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLP-IDLQKLVNLKCLNLQYMYNLNQFP 482
           +++      ++P  I  L  L+ L   + + T    +   + +       +       + 
Sbjct: 329 SLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYK 388

Query: 483 RLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTI--TLKRL 540
           ++ +    +L +  +     ++   +K  +       L +  IG        I   ++RL
Sbjct: 389 KMFLDYDQRLNLSDLLQDAINRNPEMKP-IKKDSRISLKDTQIGNLTNRITFISKAIQRL 447

Query: 541 QALQELLISQ----ELQRCTQFL-FLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDF 595
             LQ +  +            +      +      +    + L +L  + +  C ++   
Sbjct: 448 TKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQL 507

Query: 596 QMIIQR-SSLSVHNLFINKNYIHTNQLSILLGINRLP 631
              +     L   +L I  N    +   +     RL 
Sbjct: 508 PDFLYDLPEL--QSLNIACNRG-ISAAQLKADWTRLA 541

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 57.3 bits (139), Expect = 9e-09
 Identities = 48/264 (18%), Positives = 84/264 (31%), Gaps = 45/264 (17%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHL--LWKLPLGISTLVSLEHL 447
            +   ++ ++L  NK     +    P+L++    ++S N L              SL HL
Sbjct: 325 LDLPFLKSLTLTMNKGSISFKKVALPSLSYL---DLSRNALSFSGCCSYSDLGTNSLRHL 381

Query: 448 DLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLV-ISAFSKLQVLRMFDCGGSKIE 506
           DLS      +  +   L  L+ L+ Q+    +   R+   SAF  L+ L   D   +  +
Sbjct: 382 DLSFNGAIIMSANFMGLEELQHLDFQH----STLKRVTEFSAFLSLEKLLYLDISYTNTK 437

Query: 507 RLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQAL-------QELLISQELQRCT--Q 557
                +  G                     L  L  L       ++  +S      T   
Sbjct: 438 IDFDGIFLG---------------------LTSLNTLKMAGNSFKDNTLSNVFANTTNLT 476

Query: 558 FLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIH 617
           FL L      + +       LH L  L ++   +L            S+  L  + N I 
Sbjct: 477 FLDLS-KCQLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSHYNQLYSLSTLDCSFNRIE 534

Query: 618 TNQLSILLGINRLPHFT-KSNPYH 640
           T++  +      L  F   +N   
Sbjct: 535 TSKGILQHFPKSLAFFNLTNNSVA 558

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 53.9 bits (130), Expect = 1e-07
 Identities = 37/231 (16%), Positives = 74/231 (32%), Gaps = 26/231 (11%)

Query: 407 IENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID-LQKLV 465
              L  L           ++ N +    P   S L SLE+L    T +  L    + +L+
Sbjct: 76  WHGLHHLS-------NLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLI 128

Query: 466 NLKCLNLQYMYNLNQFPRLVISA-FSKLQVLRMFDCGGSKIERLKSN---VLFGGHQVLV 521
            LK LN+ +    N      + A FS L  L   D   + I+ +  N    L    QV +
Sbjct: 129 TLKKLNVAH----NFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNL 184

Query: 522 EELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLA--CLH 579
              + +  +  +     +   L EL +       +  +   C  +   L +  L      
Sbjct: 185 SLDMSLNPIDFIQDQAFQGIKLHELTLRGNFN--SSNIMKTCLQNLAGLHVHRLILGEFK 242

Query: 580 NLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRL 630
           +   L +     +E          +++    +      ++ +     +  +
Sbjct: 243 DERNLEIFEPSIMEGL------CDVTIDEFRLTYTNDFSDDIVKFHCLANV 287

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 51.2 bits (123), Expect = 9e-07
 Identities = 32/242 (13%), Positives = 66/242 (27%), Gaps = 54/242 (22%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS 443
                    N  N+  + L  N I+ +                                 
Sbjct: 142 SCKLPAYFSNLTNLVHVDLSYNYIQTI----TVNDLQFLRENPQ---------------V 182

Query: 444 LEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGS 503
              LD+S   I  +     + + L  L L+  +N +   +  +   + L V         
Sbjct: 183 NLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVH-------- 234

Query: 504 KIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRC 563
              RL                             + L+  +  ++ + L   T   F   
Sbjct: 235 ---RLILGEFKD---------------------ERNLEIFEPSIM-EGLCDVTIDEFRLT 269

Query: 564 FNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK-NYIHTNQLS 622
           + +  S DI    CL N++ + +AG   ++  + + +       ++   +     T  L 
Sbjct: 270 YTNDFSDDIVKFHCLANVSAMSLAGVS-IKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLP 328

Query: 623 IL 624
            L
Sbjct: 329 FL 330

>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 = 47.7 bits (114), Expect = 1e-05
 Identities = 38/209 (18%), Positives = 70/209 (33%), Gaps = 48/209 (22%)

Query: 426 SNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRL 484
            +  L  K+P  I +  S +++DLS   +  L          L+ L+L       +   +
Sbjct: 19  MDQKLS-KVPDDIPS--STKNIDLSFNPLKILKSYSFSNFSELQWLDLSR----CEIETI 71

Query: 485 VISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQ 544
              A+  L  L      G+ I+        G                        L +L+
Sbjct: 72  EDKAWHGLHHLSNLILTGNPIQSFSPGSFSG------------------------LTSLE 107

Query: 545 ELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSL 604
            L+                     SL+ F +  L  L KL VA    +   ++    S+L
Sbjct: 108 NLVAV--------------ETKLASLESFPIGQLITLKKLNVAHN-FIHSCKLPAYFSNL 152

Query: 605 -SVHNLFINKNYIHTNQLSILLGINRLPH 632
            ++ ++ ++ NYI T  ++ L  +   P 
Sbjct: 153 TNLVHVDLSYNYIQTITVNDLQFLRENPQ 181

>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 = 57.4 bits (139), Expect = 9e-09
 Identities = 40/246 (16%), Positives = 79/246 (32%), Gaps = 26/246 (10%)

Query: 395 RNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTA 453
            + + + L  N + +L      +       ++S   +         +L  L  L L+   
Sbjct: 28  FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP 87

Query: 454 ITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNV 512
           I  L +     L +L+ L             L       L+ L+  +   + I+  K   
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVE----TNLASLENFPIGHLKTLKELNVAHNLIQSFKLPE 143

Query: 513 LFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS--QELQRCTQFLFLRCFNDSKSL 570
            F            +  L  + ++  ++Q++    +    ++      L L   N    +
Sbjct: 144 YFS----------NLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSL-NPMNFI 192

Query: 571 DIFCLACLHNLNKLYVAGCK-HLEDFQMIIQR-SSLSVHNL----FINKNYIHTNQLSIL 624
                  +  L+KL +      L   +  IQ  + L VH L    F N+  +     S L
Sbjct: 193 QPGAFKEI-RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSAL 251

Query: 625 LGINRL 630
            G+  L
Sbjct: 252 EGLCNL 257

>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 = 50.9 bits (122), Expect = 1e-06
 Identities = 44/245 (17%), Positives = 87/245 (35%), Gaps = 47/245 (19%)

Query: 395 RNVRRMSLMKNKIENLSELQ--PALTFFLFFNMSNNHLLWK--LPLGISTLVSLEHLDLS 450
           ++++R++   NK  N       P+L F    ++S N L +K           SL++LDLS
Sbjct: 325 KSLKRLTFTSNKGGNAFSEVDLPSLEFL---DLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381

Query: 451 STAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLV-ISAFSKLQVLRMFDCGGSKIERLK 509
              +  +  +   L  L+ L+ Q+    +   ++   S F  L+ L   D   +      
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQH----SNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF 437

Query: 510 SNVLFGGHQVLVEELIGMKYL---------MAVTITLKRLQALQELLIS----QELQRCT 556
           + +  G        L  ++ L           +      L+ L  L +S    ++L    
Sbjct: 438 NGIFNG--------LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTA 489

Query: 557 -------QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAG------CKHLEDFQMIIQRSS 603
                  Q L +   N  KS+       L +L K+++        C  ++     + ++S
Sbjct: 490 FNSLSSLQVLNMA-SNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSRWLNKNS 548

Query: 604 LSVHN 608
                
Sbjct: 549 QKEQG 553

>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 = 47.0 bits (112), Expect = 2e-05
 Identities = 44/251 (17%), Positives = 78/251 (31%), Gaps = 51/251 (20%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGIST--LVSLEHLDLSST 452
            NV   SL+   IE + +      F   F   +  L+        T  L SL+ L  +S 
Sbjct: 282 TNVSSFSLVSVTIERVKD------FSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSN 335

Query: 453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNV 512
              +       L +L+ L+L    N   F      +      L+  D   + +  + SN 
Sbjct: 336 KGGNAF-SEVDLPSLEFLDLS--RNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN- 391

Query: 513 LFGGHQVLVEELIGMKYL---------MAVTITLKRLQALQELLISQELQRCTQFLFLRC 563
            F G + L       ++L         M+       L+ L  L IS              
Sbjct: 392 -FLGLEQL-------EHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH------------- 430

Query: 564 FNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSL----SVHNLFINKNYIHTN 619
              ++         L +L  L +AG      FQ            ++  L +++  +   
Sbjct: 431 -THTRVAFNGIFNGLSSLEVLKMAGNS----FQENFLPDIFTELRNLTFLDLSQCQLEQL 485

Query: 620 QLSILLGINRL 630
             +    ++ L
Sbjct: 486 SPTAFNSLSSL 496

>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 = 42.0 bits (99), Expect = 6e-04
 Identities = 38/231 (16%), Positives = 71/231 (30%), Gaps = 22/231 (9%)

Query: 395 RNVRRMSLMKNKIE--NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLE----HLD 448
           + ++ +++  N I+   L E    LT     ++S+N +       +  L  +      LD
Sbjct: 124 KTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLD 183

Query: 449 LSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 508
           LS   +  +     K + L  L L+  ++     +  I   + L+V            RL
Sbjct: 184 LSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVH-----------RL 232

Query: 509 KSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS-QELQRCTQFLFLRCFNDS 567
                     +   +   ++ L  +TI   RL  L   L    +L  C   +        
Sbjct: 233 VLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSV 292

Query: 568 KSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHT 618
               +   +       L +  CK    F         S+  L    N    
Sbjct: 293 TIERVKDFSYNFGWQHLELVNCK----FGQFPTLKLKSLKRLTFTSNKGGN 339

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 56.4 bits (136), Expect = 2e-08
 Identities = 56/290 (19%), Positives = 103/290 (35%), Gaps = 57/290 (19%)

Query: 67  PPAVDQRPCEPTVGLESTFDKVRRCLR--EEQVGIIGLYGMGG-------------LLGA 111
              V QRP    V  +     +++ L     + G + +YGM G                 
Sbjct: 116 EGGVPQRPVIF-VTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLL 174

Query: 112 PNDF-DVVIWMVVSKDL------QLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILS 164
              F   V W+ + K        +L+ +  R+ +   F      N  +E+    +  ++ 
Sbjct: 175 EGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLN--IEEAKDRLRVLML 232

Query: 165 KK--KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAHEF-LKVEDV 221
           +K  + LL+LDD+W+   L           N+ +I  TTR   +  ++   +  + VE  
Sbjct: 233 RKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTRDKSVTDSVMGPKHVVPVESG 285

Query: 222 LKNH--------------PNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQ 267
           L                  ++P  A S+ +EC G PL +  IG ++  +  P  W Y ++
Sbjct: 286 LGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLR 343

Query: 268 VLRISA-SEFPGMGKEVYP----LLKYSYDSLPDETIRSCLLYCGLFPED 312
            L+              Y      +  S + L  E I+       +  +D
Sbjct: 344 QLQNKQFKRIRKSSSYDYEALDEAMSISVEML-REDIKDYYTDLSILQKD 392

>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 = 55.1 bits (133), Expect = 3e-08
 Identities = 28/156 (17%), Positives = 55/156 (35%), Gaps = 11/156 (7%)

Query: 396 NVRRMSLMKNKIENLSELQP--ALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSST 452
           ++  ++L+ N  + L E      LT      + N     K+     + L  LE L++ ++
Sbjct: 125 SLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS 184

Query: 453 AITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN 511
            +       L+ + N+  L L       Q   L+         +   +   + ++    +
Sbjct: 185 DLQSYEPKSLKSIQNVSHLILHM----KQHILLLEIFVDVTSSVECLELRDTDLDTFHFS 240

Query: 512 VLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELL 547
            L  G       LI       V IT + L  + +LL
Sbjct: 241 ELSTG---ETNSLIKKFTFRNVKITDESLFQVMKLL 273

>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 = 49.3 bits (118), Expect = 2e-06
 Identities = 48/237 (20%), Positives = 81/237 (34%), Gaps = 49/237 (20%)

Query: 396 NVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTA 453
            V+ + L  N+I  +S              +++N +   +     S+L SLEHLDLS   
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYNY 111

Query: 454 ITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLV-ISAFSKLQVLRMFDCGG-SKIERLKS 510
           +++L     + L +L  LNL      N +  L   S FS L  L++   G      +++ 
Sbjct: 112 LSNLSSSWFKPLSSLTFLNLLG----NPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQR 167

Query: 511 NVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSL 570
               G                        L  L+EL I                +D +S 
Sbjct: 168 KDFAG------------------------LTFLEELEIDA--------------SDLQSY 189

Query: 571 DIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGI 627
           +   L  + N++ L +   +       I    + SV  L +    + T   S L   
Sbjct: 190 EPKSLKSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTG 245

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 55.7 bits (135), Expect = 3e-08
 Identities = 25/122 (20%), Positives = 45/122 (36%), Gaps = 25/122 (20%)

Query: 389 PEIQNWRNVRRMSLMKNKIE--------NLSELQPALTFFLFFNMSNNHLLWKLPLGIST 440
             + +   +R + L  N +E         +  L+          +  N L  ++P G+S 
Sbjct: 436 SSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLE-------TLILDFNDLTGEIPSGLSN 488

Query: 441 LVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNLNQF----PRLVISAFSKLQVL 495
             +L  + LS+  +T  +P  + +L NL  L L      N F    P   +     L  L
Sbjct: 489 CTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSN----NSFSGNIPA-ELGDCRSLIWL 543

Query: 496 RM 497
            +
Sbjct: 544 DL 545

>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 = 44.1 bits (105), Expect = 1e-04
 Identities = 18/83 (21%), Positives = 27/83 (32%), Gaps = 13/83 (15%)

Query: 422 FFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNLNQ 480
              + NN    K+P  +S    L  L LS   ++  +P  L  L  L+ L L      N 
Sbjct: 398 ELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL----NM 453

Query: 481 F----PRLVISAFSKLQVLRMFD 499
                P         ++ L    
Sbjct: 454 LEGEIP----QELMYVKTLETLI 472

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.7 bits (104), Expect = 2e-04
 Identities = 29/123 (23%), Positives = 49/123 (39%), Gaps = 26/123 (21%)

Query: 393 NWRNVRRMSLMKNKIE---------NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS 443
             ++++ +SL +NK               L          ++S NH    +P    +   
Sbjct: 267 PLKSLQYLSLAENKFTGEIPDFLSGACDTLT-------GLDLSGNHFYGAVPPFFGSCSL 319

Query: 444 LEHLDLSSTAIT-HLPID-LQKLVNLKCLNLQYMYNLNQF----PRLVISAFSKLQVLRM 497
           LE L LSS   +  LP+D L K+  LK L+L +    N+F    P  + +  + L  L +
Sbjct: 320 LESLALSSNNFSGELPMDTLLKMRGLKVLDLSF----NEFSGELPESLTNLSASLLTLDL 375

Query: 498 FDC 500
              
Sbjct: 376 SSN 378

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.4 bits (103), Expect = 3e-04
 Identities = 19/87 (21%), Positives = 31/87 (35%), Gaps = 4/87 (4%)

Query: 417 LTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQ--KLVNLKCLNLQ 473
           LT      +SN+H+   +  G     SL  LDLS  +++  +           LK LN+ 
Sbjct: 76  LTGLESLFLSNSHINGSVS-GFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVS 134

Query: 474 YMYNLNQFPRLVISAFSKLQVLRMFDC 500
                           + L+VL +   
Sbjct: 135 SNTLDFPGKVSGGLKLNSLEVLDLSAN 161

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 27/116 (23%), Positives = 42/116 (36%), Gaps = 23/116 (19%)

Query: 391 IQNWRNVRRMSLMKNKIE-------NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS 443
           +    N+  + +  N          + S LQ         ++S N L       IST   
Sbjct: 196 VSRCVNLEFLDVSSNNFSTGIPFLGDCSALQ-------HLDISGNKLSGDFSRAISTCTE 248

Query: 444 LEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQF----PRLVISAFSKLQVL 495
           L+ L++SS      PI    L +L+ L+L      N+F    P  +  A   L  L
Sbjct: 249 LKLLNISSNQFV-GPIPPLPLKSLQYLSLAE----NKFTGEIPDFLSGACDTLTGL 299

>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 = 41.8 bits (99), Expect = 7e-04
 Identities = 15/85 (17%), Positives = 28/85 (32%), Gaps = 9/85 (10%)

Query: 424 NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQF-- 481
           +   N     +   + +L  LE L LS++ I       +   +L  L+L      N    
Sbjct: 59  SKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSR----NSLSG 114

Query: 482 ---PRLVISAFSKLQVLRMFDCGGS 503
                  + + S L+ L +      
Sbjct: 115 PVTTLTSLGSCSGLKFLNVSSNTLD 139

>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 = 55.2 bits (133), Expect = 4e-08
 Identities = 34/250 (13%), Positives = 81/250 (32%), Gaps = 31/250 (12%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           L E  ++++   +R + L  N ++ L    P++      + +NN++  ++          
Sbjct: 70  LYETLDLESLSTLRTLDLNNNYVQELLVG-PSIE---TLHAANNNIS-RVSCSR--GQGK 122

Query: 445 EHLDLSSTAITHLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAF-SKLQVLRMFDCGG 502
           +++ L++  IT L  +D      ++ L+L+     N+   +  +   +    L   +   
Sbjct: 123 KNIYLANNKITMLRDLDEGCRSRVQYLDLKL----NEIDTVNFAELAASSDTLEHLNLQY 178

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLR 562
           + I  +K  V+F   + L    +    L  +    +    +  + +              
Sbjct: 179 NFIYDVKGQVVFAKLKTL---DLSSNKLAFMGPEFQSAAGVTWISLR------------- 222

Query: 563 CFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLS 622
             N    ++   L    NL    + G              +  V  +        T Q  
Sbjct: 223 -NNKLVLIEK-ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNE 280

Query: 623 ILLGINRLPH 632
               +  L H
Sbjct: 281 EECTVPTLGH 290

>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 = 54.1 bits (130), Expect = 9e-08
 Identities = 32/253 (12%), Positives = 79/253 (31%), Gaps = 31/253 (12%)

Query: 387 EAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEH 446
            A ++  +  +  ++L  N +    +L+  L+     +++NN++       +    S+E 
Sbjct: 50  SAADLAPFTKLELLNLSSNVLYETLDLES-LSTLRTLDLNNNYVQ-----ELLVGPSIET 103

Query: 447 LDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIE 506
           L  ++  I+ +          K + L      N+   L          ++  D   ++I+
Sbjct: 104 LHAANNNISRVSCSR--GQGKKNIYLAN----NKITMLRDLDEGCRSRVQYLDLKLNEID 157

Query: 507 RLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFND 566
            +    L      L    +   ++  V   +     L+ L +S               N 
Sbjct: 158 TVNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDLS--------------SNK 202

Query: 567 SKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQL-SILL 625
              +          +  + +   K L   +  ++ S  ++ +  +  N  H   L     
Sbjct: 203 LAFMGP-EFQSAAGVTWISLRNNK-LVLIEKALRFSQ-NLEHFDLRGNGFHCGTLRDFFS 259

Query: 626 GINRLPHFTKSNP 638
              R+    K   
Sbjct: 260 KNQRVQTVAKQTV 272

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 51.4 bits (123), Expect = 6e-07
 Identities = 15/140 (10%), Positives = 42/140 (30%), Gaps = 13/140 (9%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           +  A    +   +  ++L  N I ++             ++S+N L + +     +   +
Sbjct: 159 VNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDLSSNKLAF-MGPEFQSAAGV 216

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQY-----------MYNLNQFPRLVISAFSKLQ 493
             + L +  +  +   L+   NL+  +L+                 +   +      KL 
Sbjct: 217 TWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLT 276

Query: 494 VLRMFDCGGSKIERLKSNVL 513
                +C    +    +   
Sbjct: 277 GQNEEECTVPTLGHYGAYCC 296

>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 = 43.3 bits (102), Expect = 2e-04
 Identities = 17/101 (16%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 410 LSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTAITHLPID-LQKLVNL 467
           + E++     +    ++++ L  +    +  +  +++ LDLS   ++ +    L     L
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLK-QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKL 60

Query: 468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 508
           + LNL      N            L  LR  D   + ++ L
Sbjct: 61  ELLNLSS----NVLYE--TLDLESLSTLRTLDLNNNYVQEL 95

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

 Score = 54.5 bits (131), Expect = 4e-08
 Identities = 23/132 (17%), Positives = 39/132 (29%), Gaps = 14/132 (10%)

Query: 374 KENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLF-----FNMSNN 428
           K   +  A        +++ +  +  + L  N       L  AL    F       + N 
Sbjct: 152 KVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNA 211

Query: 429 H---LLWKLPLGISTLVSLEHLDLSSTAITHLPIDL--QKLVNLKCLNLQYMYNLNQFPR 483
                        +  V L+ LDLS  ++              L  LNL +        +
Sbjct: 212 GMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSF----TGLKQ 267

Query: 484 LVISAFSKLQVL 495
           +     +KL VL
Sbjct: 268 VPKGLPAKLSVL 279

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

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 27/203 (13%), Positives = 50/203 (24%), Gaps = 52/203 (25%)

Query: 397 VRRMSLMKNKIENLSELQPALTFFLFF---------NMSNNHLLWKLP--LGISTLVSLE 445
           ++ +SL +  +         L   L            + N  +    P  L  +T   L 
Sbjct: 65  IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLN 124

Query: 446 HLDLSSTAITHLPIDLQKLVNLKCLNLQYMY----NLNQFPRLVISAFSKLQVLRMFDCG 501
            L+L + +       L +L       L+ +     +   F    +  F  L  L      
Sbjct: 125 ILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTL------ 178

Query: 502 GSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFL 561
                 L  N   G               +   +   +   LQ L +             
Sbjct: 179 -----DLSDNPELGERG------------LISALCPLKFPTLQVLALRN----------- 210

Query: 562 RCFNDSKSLDIFCLACLHNLNKL 584
                 ++    C A      +L
Sbjct: 211 ---AGMETPSGVCSALAAARVQL 230

>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 = 53.9 bits (130), Expect = 5e-08
 Identities = 26/127 (20%), Positives = 42/127 (33%), Gaps = 13/127 (10%)

Query: 395 RNVRRMSLMKNKIENLSE--LQ--PALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDL 449
           RN+  + +                 +L       M+ N         I + L +L  LDL
Sbjct: 126 RNLIYLDISHTHTRVAFNGIFNGLSSLEVL---KMAGNSFQENFLPDIFTELRNLTFLDL 182

Query: 450 SSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 508
           S   +  L       L +L+ LN+ +    N F  L    +  L  L++ D   + I   
Sbjct: 183 SQCQLEQLSPTAFNSLSSLQVLNMSH----NNFFSLDTFPYKCLNSLQVLDYSLNHIMTS 238

Query: 509 KSNVLFG 515
           K   L  
Sbjct: 239 KKQELQH 245

>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 = 52.7 bits (127), Expect = 1e-07
 Identities = 46/209 (22%), Positives = 82/209 (39%), Gaps = 27/209 (12%)

Query: 396 NVRRMSLMKNKIENLSELQ----PALTFFLFFNMSNNHLLWK--LPLGISTLVSLEHLDL 449
           +  R+ L  NK+++L          LT  L  ++S+N L +K           SL++LDL
Sbjct: 29  SATRLELESNKLQSLPHGVFDKLTQLTK-L--SLSSNGLSFKGCCSQSDFGTTSLKYLDL 85

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLV-ISAFSKLQVLRMFDCGGSKIERL 508
           S   +  +  +   L  L+ L+ Q+    +   ++   S F  L+ L   D   +     
Sbjct: 86  SFNGVITMSSNFLGLEQLEHLDFQH----SNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 141

Query: 509 KSNVLFGGHQVLVEELIGMKYLMAV-TITLKRLQALQELLIS----QELQRCT------- 556
            + +  G   + V ++ G  +           L+ L  L +S    ++L           
Sbjct: 142 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSL 201

Query: 557 QFLFLRCFNDSKSLDIFCLACLHNLNKLY 585
           Q L +   N+  SLD F   CL++L  L 
Sbjct: 202 QVLNMSH-NNFFSLDTFPYKCLNSLQVLD 229

>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 = 54.8 bits (131), Expect = 6e-08
 Identities = 31/171 (18%), Positives = 53/171 (30%), Gaps = 6/171 (3%)

Query: 329 FLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEEETCKIEKEKENFLVHAGFGLTEA 388
            L     +  Y      +  +  A L +     + E    K+E      L  A   LT  
Sbjct: 397 PLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVL 456

Query: 389 PEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLD 448
             ++    V  + L  N++  L     AL        S+N L   +  G++ L  L+ L 
Sbjct: 457 CHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALE-NVD-GVANLPRLQELL 514

Query: 449 LSSTAITHLP--IDLQKLVNLKCLNLQY--MYNLNQFPRLVISAFSKLQVL 495
           L +  +        L     L  LNLQ   +         +      +  +
Sbjct: 515 LCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 565

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 52.1 bits (124), Expect = 4e-07
 Identities = 21/121 (17%), Positives = 42/121 (34%), Gaps = 8/121 (6%)

Query: 390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDL 449
            +   R      L    +   S L+         ++++  L   L   +  L+ + HLDL
Sbjct: 413 AVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLT-VLC-HLEQLLLVTHLDL 470

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 509
           S   +  LP  L  L  L+ L        N    +     + L  L+      +++++  
Sbjct: 471 SHNRLRALPPALAALRCLEVLQASD----NALENV--DGVANLPRLQELLLCNNRLQQSA 524

Query: 510 S 510
           +
Sbjct: 525 A 525

>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 = 54.4 bits (131), Expect = 7e-08
 Identities = 50/253 (19%), Positives = 92/253 (36%), Gaps = 31/253 (12%)

Query: 395 RNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSST 452
            N R ++LM+N I+ +       L       +  N +  ++ +G  + L SL  L+L   
Sbjct: 75  SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSI-RQIEVGAFNGLASLNTLELFDN 133

Query: 453 AITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFS---KLQVLRMFDCGGSKIERL 508
            +T +P    + L  L+ L L+     N    +   AF+    L  L + +    K+E +
Sbjct: 134 WLTVIPSGAFEYLSKLRELWLRN----NPIESIPSYAFNRVPSLMRLDLGELK--KLEYI 187

Query: 509 KSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSK 568
                F G   L    +GM  +  +   L  L  L+EL +S               N   
Sbjct: 188 SEGA-FEGLFNLKYLNLGMCNIKDMP-NLTPLVGLEELEMSG--------------NHFP 231

Query: 569 SLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGIN 628
            +       L +L KL+V   + +   +        S+  L +  N + +    +   + 
Sbjct: 232 EIRPGSFHGLSSLKKLWVMNSQ-VSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLR 290

Query: 629 RLPHFT-KSNPYH 640
            L       NP++
Sbjct: 291 YLVELHLHHNPWN 303

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

 Score = 47.8 bits (114), Expect = 7e-06
 Identities = 27/126 (21%), Positives = 52/126 (41%), Gaps = 7/126 (5%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPA-LTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDL 449
           +    +R + L  N IE++       +   +  ++     L  +  G    L +L++L+L
Sbjct: 144 EYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNL 203

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 509
               I  +P +L  LV L+ L +      N FP +   +F  L  L+      S++  ++
Sbjct: 204 GMCNIKDMP-NLTPLVGLEELEMSG----NHFPEIRPGSFHGLSSLKKLWVMNSQVSLIE 258

Query: 510 SNVLFG 515
            N   G
Sbjct: 259 RNAFDG 264

>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 = 54.6 bits (132), Expect = 7e-08
 Identities = 39/234 (16%), Positives = 76/234 (32%), Gaps = 61/234 (26%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFF---LFFNMSNNHLLWKLPLGISTLVSLEHLDLSS 451
            +++R+ L +  ++N+                ++SNN++       +  L  LE LDL  
Sbjct: 454 PSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQH 513

Query: 452 TAITHLPID---------LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG 502
             +  L            L+ L +L  LNL+     N F  + +  F  L  L++ D G 
Sbjct: 514 NNLARLWKHANPGGPIYFLKGLSHLHILNLES----NGFDEIPVEVFKDLFELKIIDLGL 569

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLR 562
           + +  L ++V                             +L+ L +              
Sbjct: 570 NNLNTLPASVFNN------------------------QVSLKSLNLQ------------- 592

Query: 563 CFNDSKSLDIFCLA-CLHNLNKLYVAG------CKHLEDFQMIIQRSSLSVHNL 609
             N   S++         NL +L +        C+ +  F   I  +  ++  L
Sbjct: 593 -KNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIPEL 645

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

 Score = 51.9 bits (125), Expect = 5e-07
 Identities = 39/254 (15%), Positives = 81/254 (31%), Gaps = 62/254 (24%)

Query: 388 APEIQNWRNVRRMSLMKNKIE--------NLSELQPALTFFLFFNMSNNHLLWKLPLGIS 439
           A     +  +  + +  N I          L  L+         N+ +N L        +
Sbjct: 42  AANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLK-------VLNLQHNELSQLSDKTFA 94

Query: 440 TLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF 498
              +L  L L S +I  +  +   K  NL  L+L +    N      +    +L+ L+  
Sbjct: 95  FCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH----NGLSSTKLGTQVQLENLQEL 150

Query: 499 DCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQF 558
                    L +N +              + L +  + +    +L++L +S         
Sbjct: 151 L--------LSNNKI--------------QALKSEELDIFANSSLKKLELS--------- 179

Query: 559 LFLRCFNDSKSLDIFCLACLHNLNKLYVAGCK----HLEDFQMIIQRSSLSVHNLFINKN 614
                 N  K     C   +  L  L++   +      E   + +  +S+   NL ++ +
Sbjct: 180 -----SNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSI--RNLSLSNS 232

Query: 615 YIHTNQLSILLGIN 628
            + T   +  LG+ 
Sbjct: 233 QLSTTSNTTFLGLK 246

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

 Score = 51.5 bits (124), Expect = 6e-07
 Identities = 40/213 (18%), Positives = 75/213 (35%), Gaps = 31/213 (14%)

Query: 424 NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQYMYNLNQFP 482
           + S+  L  ++P  + T  ++  L+L+   +  L   +  +   L  L++ +    N   
Sbjct: 10  DCSHLKL-TQVPDDLPT--NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGF----NTIS 62

Query: 483 RLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVE-ELIGMKYLMAVTITLKRLQ 541
           +L      KL +L++ +   +++ +L     F     L E  L+             + +
Sbjct: 63  KLEPELCQKLPMLKVLNLQHNELSQLSDK-TFAFCTNLTELHLMSNSIQKIKNNPFVKQK 121

Query: 542 ALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCK----HLEDFQM 597
            L  L +S               N   S  +     L NL +L ++  K      E+   
Sbjct: 122 NLITLDLS--------------HNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELD- 166

Query: 598 IIQRSSLSVHNLFINKNYIHTNQLSILLGINRL 630
           I   SSL    L ++ N I          I RL
Sbjct: 167 IFANSSLKK--LELSSNQIKEFSPGCFHAIGRL 197

>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 = 46/271 (16%), Positives = 84/271 (30%), Gaps = 39/271 (14%)

Query: 391 IQNWRNVRRMSLMKNKIENLSEL----QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEH 446
                N+  + LM N I+ +       Q  L      ++S+N L          L +L+ 
Sbjct: 93  FAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITL---DLSHNGLSSTKLGTQVQLENLQE 149

Query: 447 LDLSSTAITHLP---IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGS 503
           L LS+  I  L    +D+    +LK L L      NQ        F  +  L        
Sbjct: 150 LLLSNNKIQALKSEELDIFANSSLKKLELSS----NQIKEFSPGCFHAIGRLFGLFLNNV 205

Query: 504 KIERLKSNVLFGGHQVL-VEELI----GMKYLMAVTITLKRLQALQEL---------LIS 549
           ++    +  L        +  L      +      T    +   L  L         + +
Sbjct: 206 QLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGN 265

Query: 550 QELQRCT--QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMI----IQRSS 603
                    ++ FL  +N+ + L    L  L N+  L +      +   +     I   S
Sbjct: 266 DSFAWLPQLEYFFLE-YNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFS 324

Query: 604 L----SVHNLFINKNYIHTNQLSILLGINRL 630
                 + +L +  N I   + ++  G+  L
Sbjct: 325 FQWLKCLEHLNMEDNDIPGIKSNMFTGLINL 355

>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 = 40/185 (21%), Positives = 63/185 (34%), Gaps = 37/185 (20%)

Query: 442 VSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCG 501
           VS E  D S   +T +P DL    N+  LNL +    NQ  RL  + F++   L   D G
Sbjct: 4   VSHEVADCSHLKLTQVPDDL--PTNITVLNLTH----NQLRRLPAANFTRYSQLTSLDVG 57

Query: 502 GSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQ------ELLISQELQRC 555
            + I +L+  +                        L  L+ L         L  +    C
Sbjct: 58  FNTISKLEPELCQK---------------------LPMLKVLNLQHNELSQLSDKTFAFC 96

Query: 556 T--QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK 613
           T    L L   N  + +         NL  L ++    L   ++  Q    ++  L ++ 
Sbjct: 97  TNLTELHLM-SNSIQKIKNNPFVKQKNLITLDLSHN-GLSSTKLGTQVQLENLQELLLSN 154

Query: 614 NYIHT 618
           N I  
Sbjct: 155 NKIQA 159

>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 = 24/127 (18%), Positives = 53/127 (41%), Gaps = 8/127 (6%)

Query: 395 RNVRRMSLMKNKIENLSEL----QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLS 450
           R+  + S+    +  + +        L      NM +N +        + L++L++L LS
Sbjct: 305 RSFTKQSISLASLPKIDDFSFQWLKCLEHL---NMEDNDIPGIKSNMFTGLINLKYLSLS 361

Query: 451 STAITHLPIDLQKLVNLKCLNLQYMY-NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 509
           ++  +   +  +  V+L    L  +    N+  ++   AFS L  L + D G ++I +  
Sbjct: 362 NSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQEL 421

Query: 510 SNVLFGG 516
           +   + G
Sbjct: 422 TGQEWRG 428

>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 = 51.6 bits (124), Expect = 7e-08
 Identities = 27/119 (22%), Positives = 45/119 (37%), Gaps = 7/119 (5%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           + +A +  N    R + L   KI  +  L   L  F   + S+N +  KL  G   L  L
Sbjct: 9   IEQAAQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIR-KLD-GFPLLRRL 66

Query: 445 EHLDLSSTAITHL-PIDLQKLVNLKCLNLQY--MYNLNQFPRLVISAFSKLQVLRMFDC 500
           + L +++  I  +     Q L +L  L L    +  L     L  ++   L  L +   
Sbjct: 67  KTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPL--ASLKSLTYLCILRN 123

>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 = 53.2 bits (128), Expect = 8e-08
 Identities = 28/117 (23%), Positives = 43/117 (36%), Gaps = 7/117 (5%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVS 443
           LT+         +  + L  N++++L  L   L      ++S N L   LPLG    L  
Sbjct: 67  LTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGE 125

Query: 444 LEHLDLSSTAITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD 499
           L+ L L    +  LP  L      L+ L+L      N    L     + L+ L    
Sbjct: 126 LQELYLKGNELKTLPPGLLTPTPKLEKLSLAN----NNLTELPAGLLNGLENLDTLL 178

>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 = 29/119 (24%), Positives = 48/119 (40%), Gaps = 7/119 (5%)

Query: 396 NVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI 454
           +   + L +N +   S       T     N+    L  KL +   TL  L  LDLS   +
Sbjct: 32  DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQVD-GTLPVLGTLDLSHNQL 89

Query: 455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVL 513
             LP+  Q L  L  L++ +    N+   L + A   L  L+     G++++ L   +L
Sbjct: 90  QSLPLLGQTLPALTVLDVSF----NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLL 144

>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 = 54.3 bits (131), Expect = 8e-08
 Identities = 23/135 (17%), Positives = 42/135 (31%), Gaps = 13/135 (9%)

Query: 391 IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNM--------SNNHLLWKLP--LGIST 440
                 +  ++LM N +  + +         F N           N L  KL      +T
Sbjct: 453 FSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLT-KLSDDFRATT 511

Query: 441 LVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNL--NQFPRLVISAFSKLQVLRMF 498
           L  L  +DLS  + +  P        LK   ++   +   N+  R      +    L   
Sbjct: 512 LPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQL 571

Query: 499 DCGGSKIERLKSNVL 513
             G + I ++   + 
Sbjct: 572 QIGSNDIRKVNEKIT 586

>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 = 52.0 bits (125), Expect = 4e-07
 Identities = 10/105 (9%), Positives = 30/105 (28%), Gaps = 6/105 (5%)

Query: 393 NWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSST 452
             +   RM   K  ++         +  +   ++++     +       +    +   S 
Sbjct: 136 EQKQKMRMHYQKTFVDYDPRED--FSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSN 193

Query: 453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM 497
            IT +   + +L  L+   +      + F    I    + +    
Sbjct: 194 NITFVSKAVMRLTKLRQFYMGN----SPFVAENICEAWENENSEY 234

>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 = 52.0 bits (125), Expect = 5e-07
 Identities = 21/237 (8%), Positives = 63/237 (26%), Gaps = 39/237 (16%)

Query: 389 PEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFF---------NMSNNHLLW-KLPLGI 438
             ++    ++ +++  N+  +  +L+                   +  N+L    +   +
Sbjct: 267 TFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSL 326

Query: 439 STLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF 498
             +  L  L+     +          + L  LNL Y    NQ   +  +     + +   
Sbjct: 327 QKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAY----NQITEIPANFCGFTEQVENL 382

Query: 499 DCGGSKIERLKSNVLFGGHQVLVE--------ELIGMKYLMAVTITLKRLQALQEL---- 546
               +K++ + +        V+            +  K    +  T  +   +  +    
Sbjct: 383 SFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSN 442

Query: 547 -----LISQELQRCT--QFLFLRC------FNDSKSLDIFCLACLHNLNKLYVAGCK 590
                   +     +    + L          +S   +       + L  + +   K
Sbjct: 443 NQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNK 499

>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 = 43.5 bits (103), Expect = 2e-04
 Identities = 23/218 (10%), Positives = 65/218 (29%), Gaps = 20/218 (9%)

Query: 424 NMSNNHLLWKLPLGISTLVSLEHLDLSS-----TAITHLPIDLQKLVNLKCLNLQYMYNL 478
           ++       ++P  I  L  LE L L S           P  +   ++ +          
Sbjct: 87  SLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKM----R 142

Query: 479 NQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMK-YLMAVTITL 537
             + +  +    +     +     +   + KS        +   ++  +   +  V+  +
Sbjct: 143 MHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAV 202

Query: 538 KRLQALQEL------LISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKH 591
            RL  L++        +++ +    +          K+ D+     L +L  + V  C +
Sbjct: 203 MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDL-KWDNLKDLTDVEVYNCPN 261

Query: 592 LEDFQMIIQR-SSLSVHNLFINKNYIHTNQLSILLGIN 628
           L      ++    + +  + +  N   + +        
Sbjct: 262 LTKLPTFLKALPEMQL--INVACNRGISGEQLKDDWQA 297

>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 = 54.3 bits (131), Expect = 1e-07
 Identities = 36/239 (15%), Positives = 70/239 (29%), Gaps = 26/239 (10%)

Query: 409 NLSELQPA----LTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID-LQK 463
            L  L              ++S   +         +L  L  L L+   I  L +     
Sbjct: 39  PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSG 98

Query: 464 LVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEE 523
           L +L+ L             L       L+ L+  +   + I+  K    F         
Sbjct: 99  LSSLQKLVAVE----TNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFS-------- 146

Query: 524 LIGMKYLMAVTITLKRLQALQELLIS--QELQRCTQFLFLRCFNDSKSLDIFCLACLHNL 581
              +  L  + ++  ++Q++    +    ++      L L   N    +       +  L
Sbjct: 147 --NLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLS-LNPMNFIQPGAFKEI-RL 202

Query: 582 NKLYVAGCK-HLEDFQMIIQR-SSLSVHNLFINKNYIHTNQLSILLG-INRLPHFTKSN 637
           +KL +      L   +  IQ  + L VH L + +     N        +  L + T   
Sbjct: 203 HKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEE 261

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 53.1 bits (128), Expect = 2e-07
 Identities = 46/263 (17%), Positives = 83/263 (31%), Gaps = 42/263 (15%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWK--LPLGISTLVSLEHLDL 449
              ++++R++   NK  N       L    F ++S N L +K           SL++LDL
Sbjct: 322 LKLKSLKRLTFTSNKGGNAFSEVD-LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDL 380

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLV-ISAFSKLQVLRMFDCGGSKIERL 508
           S   +  +  +   L  L+ L+ Q+    +   ++   S F  L+ L   D   +     
Sbjct: 381 SFNGVITMSSNFLGLEQLEHLDFQH----SNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 436

Query: 509 KSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQAL-------QELLISQELQRCT--QFL 559
            + +  G                     L  L+ L       QE  +           FL
Sbjct: 437 FNGIFNG---------------------LSSLEVLKMAGNSFQENFLPDIFTELRNLTFL 475

Query: 560 FLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTN 619
            L      + L       L +L  L ++             +   S+  L  + N+I T+
Sbjct: 476 DLS-QCQLEQLSPTAFNSLSSLQVLNMSHNN-FFSLDTFPYKCLNSLQVLDYSLNHIMTS 533

Query: 620 QLSILLGINR-LPHFT-KSNPYH 640
           +   L      L       N + 
Sbjct: 534 KKQELQHFPSSLAFLNLTQNDFA 556

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 44.6 bits (106), Expect = 9e-05
 Identities = 38/222 (17%), Positives = 72/222 (32%), Gaps = 54/222 (24%)

Query: 426 SNNHLLWKLPLGISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQYMYNLNQFPRL 484
              +   K+P  +    S ++LDLS   + HL          L+ L+L       +   +
Sbjct: 15  MELNFY-KIPDNLPF--STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR----CEIQTI 67

Query: 485 VISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQ 544
              A+  L  L      G+ I+ L      G                        L +LQ
Sbjct: 68  EDGAYQSLSHLSTLILTGNPIQSLALGAFSG------------------------LSSLQ 103

Query: 545 EL---------LISQELQRCT--QFLFLRCFNDSKSLDIF-CLACLHNLNKLYVAGCK-- 590
           +L         L +  +      + L +   N  +S  +    + L NL  L ++  K  
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVA-HNLIQSFKLPEYFSNLTNLEHLDLSSNKIQ 162

Query: 591 --HLEDFQMIIQRSSLSVHNLFIN--KNYIHTNQLSILLGIN 628
             +  D +++     + + NL ++   N ++  Q      I 
Sbjct: 163 SIYCTDLRVL---HQMPLLNLSLDLSLNPMNFIQPGAFKEIR 201

>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 = 52.4 bits (126), Expect = 3e-07
 Identities = 50/254 (19%), Positives = 92/254 (36%), Gaps = 32/254 (12%)

Query: 395 RNVRRMSLMKNKIENLSELQ----PALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDL 449
            N+ ++ + +NKI  L +        L       + +N L+  +     S L SLE L L
Sbjct: 104 SNLTKLDISENKIVILLDYMFQDLYNLKSL---EVGDNDLV-YISHRAFSGLNSLEQLTL 159

Query: 450 SSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 508
               +T +P + L  L  L  L L++         +   +F +L  L++ +         
Sbjct: 160 EKCNLTSIPTEALSHLHGLIVLRLRH----LNINAIRDYSFKRLYRLKVLEISHWPYLDT 215

Query: 509 KSNVLFGGHQVLVEELIGMKYLMAV-TITLKRLQALQELLISQELQRCTQFLFLRCFNDS 567
            +     G   L    I    L AV  + ++ L  L+ L +S               N  
Sbjct: 216 MTPNCLYGLN-LTSLSITHCNLTAVPYLAVRHLVYLRFLNLSY--------------NPI 260

Query: 568 KSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGI 627
            +++   L  L  L ++ + G + L   +    R    +  L ++ N + T + S+   +
Sbjct: 261 STIEGSMLHELLRLQEIQLVGGQ-LAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSV 319

Query: 628 NRLPHFT-KSNPYH 640
             L      SNP  
Sbjct: 320 GNLETLILDSNPLA 333

>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 = 51.3 bits (123), Expect = 7e-07
 Identities = 34/208 (16%), Positives = 72/208 (34%), Gaps = 20/208 (9%)

Query: 424 NMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFP 482
           ++  N +        ++   LE L+L+   ++ +       L NL+ L L+     N+  
Sbjct: 38  DLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRS----NRLK 93

Query: 483 RLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVE-ELIGMKYLMAVTITLKRLQ 541
            + +  F+ L  L   D   +KI  L    +F     L   E+     +         L 
Sbjct: 94  LIPLGVFTGLSNLTKLDISENKIVILLDY-MFQDLYNLKSLEVGDNDLVYISHRAFSGLN 152

Query: 542 ALQELLIS----QELQ-------RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCK 590
           +L++L +       +             L LR   +  ++  +    L+ L  L ++   
Sbjct: 153 SLEQLTLEKCNLTSIPTEALSHLHGLIVLRLR-HLNINAIRDYSFKRLYRLKVLEISHWP 211

Query: 591 HLEDFQMIIQRSSLSVHNLFINKNYIHT 618
           +L+          L++ +L I    +  
Sbjct: 212 YLDTMTPNCLY-GLNLTSLSITHCNLTA 238

>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 = 44.3 bits (105), Expect = 1e-04
 Identities = 32/172 (18%), Positives = 56/172 (32%), Gaps = 34/172 (19%)

Query: 426 SNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRL 484
                +  +P GI T      LDL    I  L  D      +L+ L L      N    +
Sbjct: 19  HRKRFV-AVPEGIPT--ETRLLDLGKNRIKTLNQDEFASFPHLEELELNE----NIVSAV 71

Query: 485 VISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA---VTI---TLK 538
              AF+ L  LR      ++++ +   V  G     + +L     +     V +     +
Sbjct: 72  EPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSN--LTKL----DISENKIVILLDYMFQ 125

Query: 539 RLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCK 590
            L  L+ L +                ND   +     + L++L +L +  C 
Sbjct: 126 DLYNLKSLEVGD--------------NDLVYISHRAFSGLNSLEQLTLEKCN 163

>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 = 51.9 bits (125), Expect = 4e-07
 Identities = 32/255 (12%), Positives = 70/255 (27%), Gaps = 34/255 (13%)

Query: 387 EAPEIQNWRNVRRMSLMKNKIE--------NLSELQPALTFFLFFNMSNNHLLWKLPLGI 438
           +        N+  + L + +I         +   L           ++ N L++     +
Sbjct: 49  QNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLD-------TLVLTANPLIFMAETAL 101

Query: 439 STLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM 497
           S   +L+HL    T I+ +    L     L+ L L      N    + +      + L++
Sbjct: 102 SGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGS----NHISSIKLPKGFPTEKLKV 157

Query: 498 FDCGGSKIERLKSNVLFGGHQVLVEEL-IGMKYLMAVTITLKRLQALQELLISQELQRCT 556
            D   + I  L    +    Q     L +    +  +          Q L          
Sbjct: 158 LDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFG------- 210

Query: 557 QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE-DFQMIIQRSSLSVHNLFINKNY 615
                   N          + + +L           +    +      +SV ++ + K+Y
Sbjct: 211 -----GTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHY 265

Query: 616 IHTNQLSILLGINRL 630
                 +     + L
Sbjct: 266 FFNISSNTFHCFSGL 280

>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 = 50.8 bits (122), Expect = 1e-06
 Identities = 46/258 (17%), Positives = 82/258 (31%), Gaps = 40/258 (15%)

Query: 401 SLMKNKIENLSELQPALTFFL---FFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHL 457
           +      E++S         +     N+  ++              L+ LDL++T ++ L
Sbjct: 234 TFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSEL 293

Query: 458 PIDLQKLVNLKCLNLQYMYN-LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGG 516
           P  L  L  LK L L    N      ++  S F  L  L +     +K   L +  L   
Sbjct: 294 PSGLVGLSTLKKLVLS--ANKFENLCQISASNFPSLTHLSIKGN--TKRLELGTGCLEN- 348

Query: 517 HQVLVEELIGMKYLM----------AVTITLKRLQALQEL---------LISQELQRCT- 556
                  L  ++ L              + L+ L  LQ L         L ++  + C  
Sbjct: 349 -------LENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQ 401

Query: 557 -QFLFLRCFNDSKSLDIF-CLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKN 614
            + L L  F   K  D       LH L  L ++    L+     +     ++ +L +  N
Sbjct: 402 LELLDLA-FTRLKVKDAQSPFQNLHLLKVLNLSHS-LLDISSEQLFDGLPALQHLNLQGN 459

Query: 615 YIHTNQLSILLGINRLPH 632
           +     +     +  L  
Sbjct: 460 HFPKGNIQKTNSLQTLGR 477

>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 = 48.5 bits (116), Expect = 6e-06
 Identities = 32/213 (15%), Positives = 60/213 (28%), Gaps = 47/213 (22%)

Query: 423 FNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQYMYNLNQF 481
           +N  N  L  ++P  +    S E L+ S   +  +      +L+NL  L+L       Q 
Sbjct: 17  YNCENLGLN-EIPGTLPN--STECLEFSFNVLPTIQNTTFSRLINLTFLDLTR----CQI 69

Query: 482 PRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ 541
             +    F     L       + +  +    L G                         +
Sbjct: 70  YWIHEDTFQSQHRLDTLVLTANPLIFMAETALSG------------------------PK 105

Query: 542 ALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQR 601
           AL+ L                      S+D   L     L  LY+    H+   ++    
Sbjct: 106 ALKHLFFI--------------QTGISSIDFIPLHNQKTLESLYLGSN-HISSIKLPKGF 150

Query: 602 SSLSVHNLFINKNYIHTNQLSILLGINRLPHFT 634
            +  +  L    N IH      +  + +  + +
Sbjct: 151 PTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLS 183

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

 Score = 47.7 bits (114), Expect = 9e-06
 Identities = 21/114 (18%), Positives = 38/114 (33%), Gaps = 10/114 (8%)

Query: 391 IQNWRNVRRMSLMKNKIENLSELQPA----LTFFLFFNMSNNHLLWKLPLGISTLVSLEH 446
                 ++ ++L  N     +  +      L       +S   L        ++L  + H
Sbjct: 445 FDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNH 504

Query: 447 LDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD 499
           +DLS   +T   I+ L  L  +  LNL      N    ++ S    L   R  +
Sbjct: 505 VDLSHNRLTSSSIEALSHLKGIY-LNLAS----NHISIILPSLLPILSQQRTIN 553

>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 = 51.8 bits (124), Expect = 5e-07
 Identities = 46/255 (18%), Positives = 84/255 (32%), Gaps = 35/255 (13%)

Query: 396 NVRRMSLMKNKIE--------NLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEH 446
             + +SL +N I          LSEL+          +S+N +   L   +      LE+
Sbjct: 53  RTKALSLSQNSISELRMPDISFLSELR-------VLRLSHNRI-RSLDFHVFLFNQDLEY 104

Query: 447 LDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRL-VISAFSKLQVLRMFDCGGSKI 505
           LD+S   + ++      + +L+ L+L +    N F  L V   F  L  L       +K 
Sbjct: 105 LDVSHNRLQNISCC--PMASLRHLDLSF----NDFDVLPVCKEFGNLTKLTFLGLSAAKF 158

Query: 506 ERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFN 565
            +L    +   H  L   L+ +          + LQ     ++       + F       
Sbjct: 159 RQLDLLPVAHLH--LSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVN-- 214

Query: 566 DSKSLDIFCLACLHNLN-KLYVAGCKHLEDFQMIIQRSSLSVHNLF--INKNYIHTNQLS 622
               + +  L  L   N KL    C+ L  F   + R    ++     I   +  + +L 
Sbjct: 215 ----MSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLF 270

Query: 623 ILLGINRLPHFTKSN 637
                  + +    N
Sbjct: 271 QFFWPRPVEYLNIYN 285

>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 = 45.6 bits (108), Expect = 4e-05
 Identities = 22/128 (17%), Positives = 37/128 (28%), Gaps = 17/128 (13%)

Query: 396 NVRRMSLMKNKIENLSELQPA-LTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTA 453
            +    L  +    +  + P   + F F N + N           STL  L+ L L    
Sbjct: 330 EMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFT-DSVFQGCSTLKRLQTLILQRNG 388

Query: 454 ITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAF----SKLQVLRM---------FDC 500
           + +         N+  L    +  LN                + VL +         F C
Sbjct: 389 LKNFFKVALMTKNMSSLETLDVS-LNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRC 447

Query: 501 GGSKIERL 508
              K++ L
Sbjct: 448 LPPKVKVL 455

>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 = 42.9 bits (101), Expect = 3e-04
 Identities = 26/116 (22%), Positives = 44/116 (37%), Gaps = 24/116 (20%)

Query: 396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHL----LWKLPLGISTLVSLEHLDLSS 451
           +V   SL  +  +       ++      N+S+N L       LP        ++ LDL +
Sbjct: 409 DVSLNSLNSHAYDRTCAWAESILVL---NLSSNMLTGSVFRCLP------PKVKVLDLHN 459

Query: 452 TAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM-------FDC 500
             I  +P D+  L  L+ LN+      NQ   +    F +L  L+        +DC
Sbjct: 460 NRIMSIPKDVTHLQALQELNVAS----NQLKSVPDGVFDRLTSLQYIWLHDNPWDC 511

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 51.4 bits (123), Expect = 8e-07
 Identities = 30/124 (24%), Positives = 47/124 (37%), Gaps = 20/124 (16%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           LT  P       ++ +S+  N++ +L  L   L         NN L   LP+  S    L
Sbjct: 133 LTSLPV--LPPGLQELSVSDNQLASLPALPSELCKL---WAYNNQL-TSLPMLPS---GL 183

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSK 504
           + L +S   +  LP    +L  L   N +    L   P L     S L+ L      G++
Sbjct: 184 QELSVSDNQLASLPTLPSELYKLWAYNNR----LTSLPALP----SGLKEL---IVSGNR 232

Query: 505 IERL 508
           +  L
Sbjct: 233 LTSL 236

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 47.2 bits (112), Expect = 1e-05
 Identities = 21/100 (21%), Positives = 38/100 (38%), Gaps = 11/100 (11%)

Query: 396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT 455
            ++ + +  N++ +L  L   L       +S N L   LP+  S    L  L +    +T
Sbjct: 222 GLKELIVSGNRLTSLPVLPSELKEL---MVSGNRLT-SLPMLPS---GLLSLSVYRNQLT 274

Query: 456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL 495
            LP  L  L +   +NL+     N      + A  ++   
Sbjct: 275 RLPESLIHLSSETTVNLEG----NPLSERTLQALREITSA 310

>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 = 46.8 bits (111), Expect = 2e-05
 Identities = 23/115 (20%), Positives = 42/115 (36%), Gaps = 19/115 (16%)

Query: 395 RNVRRMSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTA 453
                +++ ++ +  L   L   +T      + +N+L   LP        L  L++S   
Sbjct: 40  NGNAVLNVGESGLTTLPDCLPAHITTL---VIPDNNLT-SLPALPP---ELRTLEVSGNQ 92

Query: 454 ITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 508
           +T LP+    L+ L   +      L   P L     S L  L      G+++  L
Sbjct: 93  LTSLPVLPPGLLELSIFSNP----LTHLPAL----PSGLCKL---WIFGNQLTSL 136

>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 = 45.3 bits (107), Expect = 5e-05
 Identities = 26/115 (22%), Positives = 41/115 (35%), Gaps = 17/115 (14%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           LT  P       +R + +  N++ +L  L P L     F+    HL        +    L
Sbjct: 73  LTSLPA--LPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHL-------PALPSGL 123

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD 499
             L +    +T LP+    L  L   + Q    L   P L     S+L  L  ++
Sbjct: 124 CKLWIFGNQLTSLPVLPPGLQELSVSDNQ----LASLPAL----PSELCKLWAYN 170

>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 = 3e-04
 Identities = 30/124 (24%), Positives = 46/124 (37%), Gaps = 20/124 (16%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           LT  P       ++ +S+  N++ +L  L   L         NN L   LP   S    L
Sbjct: 173 LTSLPM--LPSGLQELSVSDNQLASLPTLPSELYKL---WAYNNRLT-SLPALPS---GL 223

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSK 504
           + L +S   +T LP+   +L  L     +    L   P L     S L  L       ++
Sbjct: 224 KELIVSGNRLTSLPVLPSELKELMVSGNR----LTSLPML----PSGLLSL---SVYRNQ 272

Query: 505 IERL 508
           + RL
Sbjct: 273 LTRL 276

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 22/124 (17%), Positives = 49/124 (39%), Gaps = 13/124 (10%)

Query: 391 IQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDL 449
           +++   +  +S+ +N+++NL+ +    L+      + NN L       +  L +LE L +
Sbjct: 81  LKDLTKLEELSVNRNRLKNLNGIPSACLSRL---FLDNNELR-DTD-SLIHLKNLEILSI 135

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 509
            +  +  +   L  L  L+ L+L      N+         ++L+ +   D  G K     
Sbjct: 136 RNNKLKSIV-MLGFLSKLEVLDLHG----NEITN--TGGLTRLKKVNWIDLTGQKCVNEP 188

Query: 510 SNVL 513
               
Sbjct: 189 VKYQ 192

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 45.8 bits (109), Expect = 2e-05
 Identities = 27/215 (12%), Positives = 61/215 (28%), Gaps = 49/215 (22%)

Query: 437 GISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQY-----MYNLNQFPRLV------ 485
               L +    +L   ++T L    ++L  ++  N        +  +  F  L       
Sbjct: 14  PDPGLANAVKQNLGKQSVTDLV-SQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSH 72

Query: 486 -----ISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT---- 536
                +S    L  L       ++++ L      G     +  L    +L    +     
Sbjct: 73  NQISDLSPLKDLTKLEELSVNRNRLKNLN-----GIPSACLSRL----FLDNNELRDTDS 123

Query: 537 LKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ 596
           L  L+ L+ L I                 ++K   I  L  L  L  L + G + + +  
Sbjct: 124 LIHLKNLEILSIR----------------NNKLKSIVMLGFLSKLEVLDLHGNE-ITNTG 166

Query: 597 MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLP 631
            + +   ++   + +         +     +    
Sbjct: 167 GLTRLKKVNW--IDLTGQKCVNEPVKYQPELYITN 199

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 21/127 (16%), Positives = 49/127 (38%), Gaps = 11/127 (8%)

Query: 384 GLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS 443
            +T+    +    V+  +   + I++L+ +Q   T     ++S+N +   L   +  L  
Sbjct: 30  SVTDLVSQKELSGVQNFNGDNSNIQSLAGMQF-FTNLKELHLSHNQIS-DLS-PLKDLTK 86

Query: 444 LEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGS 503
           LE L ++   + +L   +     L  L L      N+       +   L+ L +     +
Sbjct: 87  LEELSVNRNRLKNLN-GIPSA-CLSRLFLDN----NELRD--TDSLIHLKNLEILSIRNN 138

Query: 504 KIERLKS 510
           K++ +  
Sbjct: 139 KLKSIVM 145

>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 = 49.6 bits (119), Expect = 1e-06
 Identities = 21/94 (22%), Positives = 37/94 (39%), Gaps = 7/94 (7%)

Query: 424 NMSNNHLLWKLPLGI-STLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQF 481
           ++    L  +L  G+   L +L++L L   A+  LP D  + L NL  L L      N+ 
Sbjct: 111 HLDRCGL-QELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG----NRI 165

Query: 482 PRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFG 515
             +   AF  L  L       +++  +  +    
Sbjct: 166 SSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRD 199

>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 = 47.3 bits (113), Expect = 7e-06
 Identities = 27/131 (20%), Positives = 42/131 (32%), Gaps = 15/131 (11%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPALTFF-----LFFNMSNNHLLWKLPLGI-STLVSLE 445
           +  RN+  + L  N +  +     A  F         ++S+N  L  +       L  L 
Sbjct: 53  RACRNLTILWLHSNVLARI----DAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLH 108

Query: 446 HLDLSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSK 504
            L L    +  L     + L  L+ L LQ     N    L    F  L  L      G++
Sbjct: 109 TLHLDRCGLQELGPGLFRGLAALQYLYLQD----NALQALPDDTFRDLGNLTHLFLHGNR 164

Query: 505 IERLKSNVLFG 515
           I  +      G
Sbjct: 165 ISSVPERAFRG 175

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

 Score = 48.5 bits (116), Expect = 3e-06
 Identities = 19/120 (15%), Positives = 43/120 (35%), Gaps = 24/120 (20%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFFLFFN-----MSNNHLLWKLPLGI-STLVSLEHLD 448
             +  + L  NKI+ +           +       + +N +   +  G  S L +L  L 
Sbjct: 193 ETLNELHLDHNKIQAI----ELEDLLRYSKLYRLGLGHNQI-RMIENGSLSFLPTLRELH 247

Query: 449 LSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAF---------SKLQVLRMFD 499
           L +  ++ +P  L  L  L+ + L      N   ++ ++ F         +    + +F+
Sbjct: 248 LDNNKLSRVPAGLPDLKLLQVVYLHT----NNITKVGVNDFCPVGFGVKRAYYNGISLFN 303

>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 = 30/162 (18%), Positives = 57/162 (35%), Gaps = 17/162 (10%)

Query: 395 RNVRRMSLMKNKIENLSELQ----PALTFFLFFNMSNNHL-LWKLPLGISTLVSLEHLDL 449
            ++  + +  N+I  + +        +       M  N L       G    + L +L +
Sbjct: 123 SSLVELRIHDNRIRKVPKGVFSGLRNMNCI---EMGGNPLENSGFEPGAFDGLKLNYLRI 179

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 509
           S   +T +P DL     L  L+L +    N+   + +    +   L     G ++I  ++
Sbjct: 180 SEAKLTGIPKDL--PETLNELHLDH----NKIQAIELEDLLRYSKLYRLGLGHNQIRMIE 233

Query: 510 SNVLFGGHQVLVE-ELIGMKYLMAVTITLKRLQALQELLISQ 550
           +         L E  L   K L  V   L  L+ LQ + +  
Sbjct: 234 NGS-LSFLPTLRELHLDNNK-LSRVPAGLPDLKLLQVVYLHT 273

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

 Score = 49.0 bits (117), Expect = 4e-06
 Identities = 23/123 (18%), Positives = 48/123 (39%), Gaps = 7/123 (5%)

Query: 395 RNVRRMSLMKNKIENLSELQPA-LTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSST 452
             ++ + L  N IE++       +      ++     L  +  G    L +L +L+L+  
Sbjct: 136 SKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC 195

Query: 453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNV 512
            +  +P +L  L+ L  L+L      N    +   +F  L  L+      S+I+ ++ N 
Sbjct: 196 NLREIP-NLTPLIKLDELDLSG----NHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNA 250

Query: 513 LFG 515
              
Sbjct: 251 FDN 253

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

 Score = 48.2 bits (115), Expect = 6e-06
 Identities = 35/204 (17%), Positives = 65/204 (31%), Gaps = 45/204 (22%)

Query: 427 NNHLLWKLPLGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLV 485
               L ++P GIST  +   L+L    I  + +   + L +L+ L L      N    + 
Sbjct: 51  VRKNLREVPDGIST--NTRLLNLHENQIQIIKVNSFKHLRHLEILQLSR----NHIRTIE 104

Query: 486 ISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQE 545
           I AF+ L  L   +   +++  + +                             L  L+E
Sbjct: 105 IGAFNGLANLNTLELFDNRLTTIPNGAFVY------------------------LSKLKE 140

Query: 546 LLIS----QELQRCT-------QFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLED 594
           L +     + +           + L L        +       L NL  L +A C  L +
Sbjct: 141 LWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN-LRE 199

Query: 595 FQMIIQRSSLSVHNLFINKNYIHT 618
              +     L    L ++ N++  
Sbjct: 200 IPNLTPLIKLDE--LDLSGNHLSA 221

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

 Score = 43.6 bits (103), Expect = 2e-04
 Identities = 41/257 (15%), Positives = 83/257 (32%), Gaps = 57/257 (22%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPALTFFLFFNM-----SNNHLLWKLPLGI-STLVSLE 445
           ++ R++  + L +N I  +        F    N+      +N L   +P G    L  L+
Sbjct: 85  KHLRHLEILQLSRNHIRTI----EIGAFNGLANLNTLELFDNRLT-TIPNGAFVYLSKLK 139

Query: 446 HLDLSSTAITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSK 504
            L L +  I  +P     ++ +L+ L+L     L +   +   AF  L  LR  +     
Sbjct: 140 ELWLRNNPIESIPSYAFNRIPSLRRLDLG---ELKRLSYISEGAFEGLSNLRYLNLAMCN 196

Query: 505 IERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCF 564
           +  +                            L  L  L EL +S               
Sbjct: 197 LREIP--------------------------NLTPLIKLDELDLSG-------------- 216

Query: 565 NDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSIL 624
           N   ++       L +L KL++     ++  +     +  S+  + +  N +      + 
Sbjct: 217 NHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLF 275

Query: 625 LGINRLPHFT-KSNPYH 640
             ++ L       NP++
Sbjct: 276 TPLHHLERIHLHHNPWN 292

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 48.3 bits (115), Expect = 4e-06
 Identities = 28/133 (21%), Positives = 46/133 (34%), Gaps = 16/133 (12%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFFLFFN-----MSNNHLLWKLPLGI-STLVSLEHLD 448
                + L  N +   S L+   T     N     +S+NHL   +       + +L +LD
Sbjct: 39  SYTALLDLSHNNL---SRLRAEWTPTRLTNLHSLLLSHNHL-NFISSEAFVPVPNLRYLD 94

Query: 449 LSSTAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIER 507
           LSS  +  L       L  L+ L L      N    +  +AF  +  L+      ++I R
Sbjct: 95  LSSNHLHTLDEFLFSDLQALEVLLLYN----NHIVVVDRNAFEDMAQLQKLYLSQNQISR 150

Query: 508 LKSNVLFGGHQVL 520
               +       L
Sbjct: 151 FPVEL-IKDGNKL 162

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 26/114 (22%), Positives = 40/114 (35%), Gaps = 23/114 (20%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTF-------FLFFNMSNNHLLWKLPLGI-STLVSLEH 446
            N+R + L  N +  L        F        L   + NNH+   +       +  L+ 
Sbjct: 88  PNLRYLDLSSNHLHTL----DEFLFSDLQALEVL--LLYNNHI-VVVDRNAFEDMAQLQK 140

Query: 447 LDLSSTAITHLP----IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLR 496
           L LS   I+  P     D  KL  L  L+L      N+  +L ++   KL    
Sbjct: 141 LYLSQNQISRFPVELIKDGNKLPKLMLLDLSS----NKLKKLPLTDLQKLPAWV 190

>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 = 46.6 bits (111), Expect = 6e-06
 Identities = 29/119 (24%), Positives = 47/119 (39%), Gaps = 14/119 (11%)

Query: 396 NVRRMSLMKNKIENLSELQP----ALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLS 450
            +  + L +N I     + P            ++SNN +  +L       L SL  L L 
Sbjct: 33  TITEIRLEQNTI---KVIPPGAFSPYKKLRRIDLSNNQI-SELAPDAFQGLRSLNSLVLY 88

Query: 451 STAITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 508
              IT LP  L + L +L+ L L      N+   L + AF  L  L +     +K++ +
Sbjct: 89  GNKITELPKSLFEGLFSLQLLLLNA----NKINCLRVDAFQDLHNLNLLSLYDNKLQTI 143

>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 = 27/104 (25%), Positives = 41/104 (39%), Gaps = 7/104 (6%)

Query: 396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTAI 454
               + L KN I+ +       T     N+S+N+ L +LP  +         LD+S T I
Sbjct: 155 ESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRI 214

Query: 455 THLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM 497
             LP   L+ L  L+  +    YNL + P L       L    +
Sbjct: 215 HSLPSYGLENLKKLRARST---YNLKKLPTL--EKLVALMEASL 253

>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 = 41.0 bits (96), Expect = 8e-04
 Identities = 31/169 (18%), Positives = 63/169 (37%), Gaps = 24/169 (14%)

Query: 395 RNVRRMSLMKNKI---------ENLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSL 444
            ++ ++ + +N +          NL +L       +    +NN  L  +       L +L
Sbjct: 54  GDLEKIEISQNDVLEVIEADVFSNLPKLH-----EIRIEKANN--LLYINPEAFQNLPNL 106

Query: 445 EHLDLSSTAITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQV-LRMFDCGG 502
           ++L +S+T I HLP       +    L++Q   N++   R   ++F  L     +     
Sbjct: 107 QYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIER---NSFVGLSFESVILWLNK 163

Query: 503 SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTI-TLKRLQALQELLISQ 550
           + I+ + ++  F G Q+    L     L  +             L IS+
Sbjct: 164 NGIQEIHNSA-FNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR 211

>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 = 44.7 bits (106), Expect = 2e-05
 Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 5/105 (4%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI 454
            N+  +SL+   + ++S L P L       +S N +   L +    L +L HL+LS   +
Sbjct: 49  VNLEFLSLINVGLISVSNL-PKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKL 107

Query: 455 THLP--IDLQKLVNLKCLNLQY--MYNLNQFPRLVISAFSKLQVL 495
             +     L+KL  LK L+L    + NLN +   V     +L  L
Sbjct: 108 KDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYL 152

>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 = 42.0 bits (99), Expect = 1e-04
 Identities = 24/105 (22%), Positives = 41/105 (39%), Gaps = 11/105 (10%)

Query: 401 SLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID 460
              K+    +  L        F ++ N  L+  +   +  L  L+ L+LS   I      
Sbjct: 32  DNCKSNDGKIEGLTAEFVNLEFLSLINVGLI-SVS-NLPKLPKLKKLELSENRIFGGLDM 89

Query: 461 L-QKLVNLKCLNLQYMYNLNQFPRL----VISAFSKLQVLRMFDC 500
           L +KL NL  LNL    + N+   +     +     L+ L +F+C
Sbjct: 90  LAEKLPNLTHLNL----SGNKLKDISTLEPLKKLECLKSLDLFNC 130

>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 = 45.1 bits (107), Expect = 2e-05
 Identities = 38/139 (27%), Positives = 58/139 (41%), Gaps = 27/139 (19%)

Query: 395 RNVRRMSLMKNKI---ENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSS 451
            N+R +SL +N I   ENL  +   L       +S N +   L  GI  LV+L  L +S+
Sbjct: 70  ENLRILSLGRNLIKKIENLDAVADTLE---ELWISYNQIA-SLS-GIEKLVNLRVLYMSN 124

Query: 452 TAITHLPI--DLQKLVNLKCLNL---------QYMYNLNQFPRLVISAFSKLQVLRMFDC 500
             IT+      L  L  L+ L L         +     +++   V+     L+ L   D 
Sbjct: 125 NKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKL---D- 180

Query: 501 GGSKI---ERLKSNVLFGG 516
            G  +   ER ++NV  GG
Sbjct: 181 -GMPVDVDEREQANVARGG 198

>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 = 42.7 bits (101), Expect = 9e-05
 Identities = 33/185 (17%), Positives = 58/185 (31%), Gaps = 50/185 (27%)

Query: 406 KIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLV 465
             E    +       +  +     +  K+   +STL + +HL LS+  I  +   L  + 
Sbjct: 13  IFEERKSVVATEAEKVELHGMIPPIE-KMDATLSTLKACKHLALSTNNIEKI-SSLSGME 70

Query: 466 NLKCLNLQYMYNLNQFPRLVISAFSKL-QVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL 524
           NL+ L+L      N   +  I     +   L       ++I  L                
Sbjct: 71  NLRILSLGR----NLIKK--IENLDAVADTLEELWISYNQIASLSG-------------- 110

Query: 525 IGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSL-DIFCLACLHNLNK 583
                       +++L  L+ L +S               N   +  +I  LA L  L  
Sbjct: 111 ------------IEKLVNLRVLYMS--------------NNKITNWGEIDKLAALDKLED 144

Query: 584 LYVAG 588
           L +AG
Sbjct: 145 LLLAG 149

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 45.7 bits (108), Expect = 4e-05
 Identities = 20/128 (15%), Positives = 42/128 (32%), Gaps = 18/128 (14%)

Query: 385 LTEAPE--IQNWRNVRRMSLMKNKIENLSELQPA--LTFFLFFNMSNNHLLWKLPLGIST 440
           ++         W    + +L          L     +  F    ++  +L   LP  +  
Sbjct: 22  ISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNL-SSLPDNLPP 80

Query: 441 LVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC 500
              +  L+++  A+  LP     L  L   + +    L+  P L     + L+ L   D 
Sbjct: 81  --QITVLEITQNALISLPELPASLEYLDACDNR----LSTLPEL----PASLKHL---DV 127

Query: 501 GGSKIERL 508
             +++  L
Sbjct: 128 DNNQLTML 135

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 45.7 bits (108), Expect = 4e-05
 Identities = 29/178 (16%), Positives = 58/178 (32%), Gaps = 18/178 (10%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           LT  PE+     +  ++   N++  L EL  +L      ++ NN L   LP       SL
Sbjct: 132 LTMLPEL--PALLEYINADNNQLTMLPELPTSLEVL---SVRNNQL-TFLP---ELPESL 182

Query: 445 EHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG-- 502
           E LD+S+  +  LP    +  + +   + +    N+   +  +    L            
Sbjct: 183 EALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRITHIPEN-ILSLDPTCTIILEDNP 241

Query: 503 ------SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQR 554
                   + +  +   + G ++      G +  +   +         E   S   Q 
Sbjct: 242 LSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQNTLHRPLADAVTAWFPENKQSDVSQI 299

>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 = 45.4 bits (108), Expect = 4e-05
 Identities = 26/155 (16%), Positives = 59/155 (38%), Gaps = 10/155 (6%)

Query: 395 RNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHL-LWKLPLGI-STLVSLEHLDLSS 451
           + ++ + + +N+I  + +     L   +   +  N L    +  G    +  L ++ ++ 
Sbjct: 121 KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIAD 180

Query: 452 TAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN 511
           T IT +P  L    +L  L+L      N+  ++  ++   L  L       + I  + + 
Sbjct: 181 TNITTIPQGL--PPSLTELHLDG----NKITKVDAASLKGLNNLAKLGLSFNSISAVDNG 234

Query: 512 VLFGGHQVLVEELIGMKYLMAVTITLKRLQALQEL 546
            L     +    L   K L+ V   L   + +Q +
Sbjct: 235 SLANTPHLRELHLNNNK-LVKVPGGLADHKYIQVV 268

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

 Score = 44.2 bits (105), Expect = 7e-05
 Identities = 17/119 (14%), Positives = 37/119 (31%), Gaps = 22/119 (18%)

Query: 395 RNVRRMSLMKNKIENLSEL----QPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDL 449
            ++  + L  NKI  +          L       +S N +   +  G  +    L  L L
Sbjct: 192 PSLTELHLDGNKITKVDAASLKGLNNLAKL---GLSFNSIS-AVDNGSLANTPHLRELHL 247

Query: 450 SSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAF---------SKLQVLRMFD 499
           ++  +  +P  L     ++ + L      N    +  + F         +    + +F 
Sbjct: 248 NNNKLVKVPGGLADHKYIQVVYLHN----NNISAIGSNDFCPPGYNTKKASYSGVSLFS 302

>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 = 28/126 (22%), Positives = 53/126 (42%), Gaps = 12/126 (9%)

Query: 384 GLTEAPE-IQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLPLGI-ST 440
           GL + P+ +    +   + L  NKI  + +     L       + NN +  K+  G  + 
Sbjct: 42  GLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKIS-KISPGAFAP 98

Query: 441 LVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC 500
           LV LE L LS   +  LP  +     L+ L +      N+  ++  S F+ L  + + + 
Sbjct: 99  LVKLERLYLSKNQLKELPEKM--PKTLQELRVHE----NEITKVRKSVFNGLNQMIVVEL 152

Query: 501 GGSKIE 506
           G + ++
Sbjct: 153 GTNPLK 158

>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 = 44.2 bits (105), Expect = 6e-05
 Identities = 26/109 (23%), Positives = 48/109 (44%), Gaps = 11/109 (10%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQ----PALTFFLFFNMSNNHLLWKLPL-GI-STLVSLE 445
               +++++  ++  + +L          L      N+++N +     L    S L +LE
Sbjct: 97  SGLSSLQKLVAVETNLASLENFPIGHLKTLKEL---NVAHNLIQ-SFKLPEYFSNLTNLE 152

Query: 446 HLDLSSTAITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQ 493
           HLDLSS  I  +   DL+ L  +  LNL    +LN    +   AF +++
Sbjct: 153 HLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIR 201

>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 = 42.7 bits (101), Expect = 2e-04
 Identities = 24/95 (25%), Positives = 36/95 (37%), Gaps = 8/95 (8%)

Query: 424 NMSNNHLLWKLPLGI-STLVSLEHLDLSSTAITHLPIDL-QKLVNLKCLNLQYMYNLNQF 481
           ++S N L   L      +   L+ LDLS   I  +     Q L +L  L L      N  
Sbjct: 34  DLSFNPLR-HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG----NPI 88

Query: 482 PRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGG 516
             L + AFS L  L+      + +  L++    G 
Sbjct: 89  QSLALGAFSGLSSLQKLVAVETNLASLENFP-IGH 122

>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 = 43.9 bits (104), Expect = 6e-05
 Identities = 26/123 (21%), Positives = 48/123 (39%), Gaps = 23/123 (18%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPA-----LTFFLFFNMSNNHLLWKLPLGI-STLVSLE 445
           +    +R+++   NKI ++            +      +++N L   +   +   L SL+
Sbjct: 54  KKLPQLRKINFSNNKITDI----EEGAFEGASGVNEILLTSNRLE-NVQHKMFKGLESLK 108

Query: 446 HLDLSSTAITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAF---SKLQVLRM---- 497
            L L S  IT +  D    L +++ L+L      NQ   +   AF     L  L +    
Sbjct: 109 TLMLRSNRITCVGNDSFIGLSSVRLLSLYD----NQITTVAPGAFDTLHSLSTLNLLANP 164

Query: 498 FDC 500
           F+C
Sbjct: 165 FNC 167

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 43.0 bits (102), Expect = 1e-04
 Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 8/121 (6%)

Query: 395 RNVRRMSLMKNKIENLSELQPA-LTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSST 452
             +R + L  NK++ L       L       +++N L   LP+G+   LV+L  L L   
Sbjct: 61  TKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKL-QALPIGVFDQLVNLAELRLDRN 119

Query: 453 AITHLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN 511
            +  LP  +   L  L  L+L Y    N+   L    F KL  L+      ++++R+   
Sbjct: 120 QLKSLPPRVFDSLTKLTYLSLGY----NELQSLPKGVFDKLTSLKELRLYNNQLKRVPEG 175

Query: 512 V 512
            
Sbjct: 176 A 176

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 43.3 bits (103), Expect = 1e-04
 Identities = 27/131 (20%), Positives = 45/131 (34%), Gaps = 32/131 (24%)

Query: 389 PEIQNWRNVRRMSLMKNKIE--------NLSELQPALTFFLFFNMSNNHLLWKLPLGIST 440
           P   N  N+  + L +N +E        +    Q         +++ N L + L   +  
Sbjct: 192 PTFANL-NLAFVDLSRNMLEGDASVLFGSDKNTQ-------KIHLAKNSLAFDLG-KVGL 242

Query: 441 LVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNLNQF----PRLVISAFSKLQVL 495
             +L  LDL +  I   LP  L +L  L  LN+ +    N      P+       +  V 
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSF----NNLCGEIPQ--GGNLQRFDVS 296

Query: 496 RMFD----CGG 502
              +    CG 
Sbjct: 297 AYANNKCLCGS 307

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 41.0 bits (97), Expect = 8e-04
 Identities = 22/117 (18%), Positives = 43/117 (36%), Gaps = 14/117 (11%)

Query: 390 EIQNWRNVRRMSLMKNKIENLSELQPA---LTFFLFFNMSN-NHLLWKLPLGISTLVSLE 445
                  V  + L    +     +  +   L +  F  +   N+L+  +P  I+ L  L 
Sbjct: 45  TDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLH 104

Query: 446 HLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNLNQF----PRLVISAFSKLQVLRM 497
           +L ++ T ++  +P  L ++  L  L+  Y    N      P   IS+   L  +  
Sbjct: 105 YLYITHTNVSGAIPDFLSQIKTLVTLDFSY----NALSGTLPP-SISSLPNLVGITF 156

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 41.1 bits (97), Expect = 3e-04
 Identities = 22/102 (21%), Positives = 38/102 (37%), Gaps = 7/102 (6%)

Query: 396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSSTAI 454
           +V  + L  N+   + +           ++SNN +   L     S +  L  L LS   +
Sbjct: 32  DVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRIS-TLSNQSFSNMTQLLTLILSYNRL 90

Query: 455 THLPIDL-QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL 495
             +P      L +L+ L+L      N    +   AF+ L  L
Sbjct: 91  RCIPPRTFDGLKSLRLLSLHG----NDISVVPEGAFNDLSAL 128

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.4 bits (95), Expect = 4e-04
 Identities = 28/105 (26%), Positives = 46/105 (43%), Gaps = 5/105 (4%)

Query: 395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI 454
             +  +S +   + +++ L P L       +S+N +   L +      +L HL+LS   I
Sbjct: 42  EELEFLSTINVGLTSIANL-PKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKI 100

Query: 455 THLPI--DLQKLVNLKCLNLQY--MYNLNQFPRLVISAFSKLQVL 495
             L     L+KL NLK L+L    + NLN +   V     +L  L
Sbjct: 101 KDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYL 145

>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 = 41.5 bits (98), Expect = 4e-04
 Identities = 17/162 (10%), Positives = 48/162 (29%), Gaps = 31/162 (19%)

Query: 382 GFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQ----PALTF-FLFFN------------ 424
              +   P +    + + + L++  +  +        P ++  ++  +            
Sbjct: 20  CKDIQRIPSLP--PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFY 77

Query: 425 ---------MSNNHLLWKLPLGI-STLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQY 474
                    + N   L  +       L  L+ L + +T +   P DL K+ +     +  
Sbjct: 78  NLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFP-DLTKVYSTDIFFILE 136

Query: 475 MYNLNQFPRLVISAFSKLQ-VLRMFDCGGSKIERLKSNVLFG 515
           + +      + ++AF  L           +    ++     G
Sbjct: 137 ITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNG 178

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	647
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.98
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.97
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.96
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.85
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.8
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.79
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.78
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.78
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.78
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.78
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.77
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.77
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.77
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.77
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.76
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.76
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.76
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.75
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.75
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.75
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.75
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.75
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.74
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.74
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.74
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.74
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.74
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.74
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.73
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.73
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.72
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.72
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.72
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.72
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.71
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.71
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.71
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.71
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.71
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.71
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.71
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.7
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.7
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.7
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.7
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.7
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.69
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.69
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.69
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.68
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.68
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.68
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.68
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.68
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.68
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.67
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.67
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.66
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.65
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.65
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.65
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.65
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.64
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.64
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.64
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.64
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.64
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.63
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.62
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.62
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.61
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.61
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.61
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.6
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.6
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.59
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.58
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.58
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.58
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.58
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.57
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.56
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.56
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.55
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.53
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.52
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.5
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.49
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.48
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.48
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.46
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.45
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.44
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.43
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.43
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.42
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.42
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.41
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.41
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.41
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.4
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.39
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.39
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.39
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.36
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.36
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.35
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.35
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.34
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.34
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.33
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.32
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.32
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.31
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.3
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.28
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.28
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.27
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.25
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.23
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.22
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.22
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.21
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.21
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.2
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.2
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.16
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.15
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.13
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.13
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.12
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.12
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.11
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.06
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.05
2fna_A	357	Conserved hypothetical protein; structural genomic	99.04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.03
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.0
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.97
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.91
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.86
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.84
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.78
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.69
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.69
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.68
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.63
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.61
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.57
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.56
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.5
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.46
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.15
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.14
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.08
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.98
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.96
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.78
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.73
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.7
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.58
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.54
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.44
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.28
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.28
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.27
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.24
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.14
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.05
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.98
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.97
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.78
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.73
2chq_A	319	Replication factor C small subunit; DNA-binding pr	96.72
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.51
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.44
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.25
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.2
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.81
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.58
3bos_A	242	Putative DNA replication factor; P-loop containing	95.5
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.31
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.3
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.28
3pvs_A	447	Replication-associated recombination protein A; ma	95.22
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.19
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.01
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.98
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	94.87
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	94.87
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	94.85
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	94.81
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	94.66
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	94.41
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.3
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.3
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.24
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	93.98
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	93.97
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	93.75
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	93.69
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	93.63
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	93.62
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	93.54
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	93.44
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	93.26
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	93.12
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	92.85
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	92.81
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	92.52
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	92.03
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	91.29
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	90.89
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	90.88
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	90.78
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	90.55
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	90.2
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	90.19
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	89.93
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	89.69
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	88.77
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	88.68
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	86.58
3co5_A	143	Putative two-component system transcriptional RES	86.47
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	86.25
1xp8_A	366	RECA protein, recombinase A; recombination, radior	86.04
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	85.93
1u94_A	356	RECA protein, recombinase A; homologous recombinat	85.65
3fwy_A	314	Light-independent protochlorophyllide reductase I	85.38
2cvh_A	220	DNA repair and recombination protein RADB; filamen	85.06
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	84.62
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	84.38
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	84.26
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	84.24
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	84.07
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	83.93
2z43_A	324	DNA repair and recombination protein RADA; archaea	83.81
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	83.74
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	81.3
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	81.01
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	80.86
3io5_A	333	Recombination and repair protein; storage dimer, i	80.57

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=5.7e-38  Score=345.16  Aligned_cols=269  Identities=18%  Similarity=0.120  Sum_probs=211.1

Q ss_pred             ccchHHHHHHHHHhhhC---CceEEEEEccCccCCC--------------CCCcceEEEEEEcCcc--CHHHHHHHHHHH
Q 039519           79 VGLESTFDKVRRCLREE---QVGIIGLYGMGGLLGA--------------PNDFDVVIWMVVSKDL--QLEKIQERIGRR  139 (647)
Q Consensus        79 vGr~~~~~~i~~~L~~~---~~~vi~I~G~gGiGKT--------------~~~F~~~~wv~~s~~~--~~~~~~~~i~~~  139 (647)
                      |||++++++|.++|..+   +.++|+|+||||+|||              +.+|+.++||++++.+  ++..++..|+.+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            69999999999999753   6899999999999999              3679999999999985  899999999999


Q ss_pred             hCCCCc-----CCCCCCHHHHHHHHHHHhccC-CeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhcc-c
Q 039519          140 IGFLDE-----SWKNGSLEDKASDIFRILSKK-KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQ-A  212 (647)
Q Consensus       140 l~~~~~-----~~~~~~~~~~~~~l~~~l~~~-r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~~-~  212 (647)
                      ++....     .....+..+....+++.|+++ ||||||||||+.+++ .+.     ...||+||||||++.++..++ .
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~~~v~~~~~~~  284 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRDVEISNAASQT  284 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESBGGGGGGCCSC
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCCHHHHHHcCCC
Confidence            986421     112345677889999999996 999999999998764 221     126999999999999998776 4


Q ss_pred             ceeEec-------------cccccCC--CChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhcccCCC
Q 039519          213 HEFLKV-------------EDVLKNH--PNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASEFP  277 (647)
Q Consensus       213 ~~~~~~-------------~~~~~~~--~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~~~~  277 (647)
                      ...|.+             ..++...  +++++++++|+++|+|+||||+++|+.++. .+ ++|.   +.+....+...
T Consensus       285 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~-~~-w~~~---~~l~~~l~~~~  359 (549)
T 2a5y_B          285 CEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KT-FEKM---AQLNNKLESRG  359 (549)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SS-HHHH---HHHHHHHHHHC
T ss_pred             CeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhcc-ch-HHHH---HHhHHHhhccc
Confidence            456777             1122222  566789999999999999999999999976 32 3333   34433322211


Q ss_pred             CCCcchhhHHHHhhcCCCchhhhhHHh-----------hhcCCCCCCcccHHHHHHHhhhc--CCccccC-ccchHHHHH
Q 039519          278 GMGKEVYPLLKYSYDSLPDETIRSCLL-----------YCGLFPEDYRTRKSELIDCWIGE--GFLDQYD-RSGAYDEGY  343 (647)
Q Consensus       278 ~~~~~i~~~l~~sy~~L~~~~~k~~fl-----------~~a~fp~~~~i~~~~Li~~w~a~--g~~~~~~-~~~~~~~~~  343 (647)
                        ...+..++.+||+.||+ ++|.||+           |||+||+++.|+    +++|+|+  ||+...+ ....++.++
T Consensus       360 --~~~i~~~l~~Sy~~L~~-~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~~  432 (549)
T 2a5y_B          360 --LVGVECITPYSYKSLAM-ALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVAD  432 (549)
T ss_dssp             --SSTTCCCSSSSSSSHHH-HHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHHH
T ss_pred             --HHHHHHHHhcccccccH-HHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHHH
Confidence              24789999999999999 9999999           999999999999    8999999  9998766 566777777


Q ss_pred             HHHHHHHHhccccccC---CCeeEEe
Q 039519          344 YIIGILLHACLLEEEW---GDIGEEE  366 (647)
Q Consensus       344 ~~~~~L~~~~ll~~~~---~~~~~mh  366 (647)
                       ++++|+++||++...   ...|+||
T Consensus       433 -~l~~L~~rsLl~~~~~~~~~~~~mH  457 (549)
T 2a5y_B          433 -RLKRLSKRGALLSGKRMPVLTFKID  457 (549)
T ss_dssp             -HHHHTTTBSSCSEEECSSSCEEECC
T ss_pred             -HHHHHHHcCCeeEecCCCceEEEeC
Confidence             999999999999862   3579999

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

Probab=99.98  E-value=1.1e-32  Score=306.82  Aligned_cols=256  Identities=16%  Similarity=0.175  Sum_probs=197.8

Q ss_pred             CcccchHHHHHHHHHhhh-CCceEEEEEccCccCCC------------CCCcce-EEEEEEcCccCHHHHHHHHHHHhCC
Q 039519           77 PTVGLESTFDKVRRCLRE-EQVGIIGLYGMGGLLGA------------PNDFDV-VIWMVVSKDLQLEKIQERIGRRIGF  142 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~-~~~~vi~I~G~gGiGKT------------~~~F~~-~~wv~~s~~~~~~~~~~~i~~~l~~  142 (647)
                      ..|||++++++|.++|.+ ++.++|+|+||||+|||            +.+|+. ++|+++++.++...++..|+..++.
T Consensus       129 ~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~  208 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ  208 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhh
Confidence            359999999999999986 56899999999999999            357875 9999999999988888888776432


Q ss_pred             CCcC----CC-----CCCHHHHHHHHHHHh---ccCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhc
Q 039519          143 LDES----WK-----NGSLEDKASDIFRIL---SKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAM  210 (647)
Q Consensus       143 ~~~~----~~-----~~~~~~~~~~l~~~l---~~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~  210 (647)
                      ....    .+     ..+.++....+++.|   .++|+||||||||+.++|+.+.       .||+||||||++.++..+
T Consensus       209 i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~l  281 (1221)
T 1vt4_I          209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDFL  281 (1221)
T ss_dssp             HCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHHH
T ss_pred             cCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHhc
Confidence            1100    01     112345566777766   6799999999999998888752       689999999999998644


Q ss_pred             ccceeEecc--c---cccC-----------CCChHHHHHHHHHHhcCCchhHHHHhhHhhcC-CCHhHHHHHHHHHhhcc
Q 039519          211 QAHEFLKVE--D---VLKN-----------HPNIPELARSVAQECAGLPLALITIGRVMACK-KTPQEWHYAIQVLRISA  273 (647)
Q Consensus       211 ~~~~~~~~~--~---~~~~-----------~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~-~~~~~w~~~~~~l~~~~  273 (647)
                      .....|.+.  .   .+..           .....+++.+   .|+|+||||+++|++|+.+ .+.++|...        
T Consensus       282 ~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~~eeL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW~~~--------  350 (1221)
T 1vt4_I          282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE---VLTTNPRRLSIIAESIRDGLATWDNWKHV--------  350 (1221)
T ss_dssp             HHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCCTTTHHHH---HCCCCHHHHHHHHHHHHHSCSSHHHHHHC--------
T ss_pred             CCCeEEEecCccccCCcCHHHHHHHHHHHcCCCHHHHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHHhcC--------
Confidence            433233332  1   1100           0112233333   3999999999999999985 267888752        


Q ss_pred             cCCCCCCcchhhHHHHhhcCCCchhh-hhHHhhhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHHHHHHh
Q 039519          274 SEFPGMGKEVYPLLKYSYDSLPDETI-RSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILLHA  352 (647)
Q Consensus       274 ~~~~~~~~~i~~~l~~sy~~L~~~~~-k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~~L~~~  352 (647)
                           ....+..++++||+.||+ +. |.||++||+||+++.|++..++.+|+++|          ++.++.++++|+++
T Consensus       351 -----~~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~~I~~elLa~LW~aeG----------eedAe~~L~eLvdR  414 (1221)
T 1vt4_I          351 -----NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI----------KSDVMVVVNKLHKY  414 (1221)
T ss_dssp             -----SCHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC----------SHHHHHHHHHHHTS
T ss_pred             -----ChhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC----------HHHHHHHHHHHHhh
Confidence                 125899999999999999 78 99999999999999999999999999887          13478899999999


Q ss_pred             cccccc-CCCeeEEe
Q 039519          353 CLLEEE-WGDIGEEE  366 (647)
Q Consensus       353 ~ll~~~-~~~~~~mh  366 (647)
                      ||++.. ....|+||
T Consensus       415 SLLq~d~~~~rYrMH  429 (1221)
T 1vt4_I          415 SLVEKQPKESTISIP  429 (1221)
T ss_dssp             SSSSBCSSSSEEBCC
T ss_pred             CCEEEeCCCCEEEeh
Confidence            999986 45689999

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.97  E-value=1.6e-31  Score=324.06  Aligned_cols=273  Identities=20%  Similarity=0.268  Sum_probs=216.9

Q ss_pred             CCCCCcccchHHHHHHHHHhhh--CCceEEEEEccCccCCC-------------CCCc-ceEEEEEEcCccC--HHHHHH
Q 039519           73 RPCEPTVGLESTFDKVRRCLRE--EQVGIIGLYGMGGLLGA-------------PNDF-DVVIWMVVSKDLQ--LEKIQE  134 (647)
Q Consensus        73 ~~~~~~vGr~~~~~~i~~~L~~--~~~~vi~I~G~gGiGKT-------------~~~F-~~~~wv~~s~~~~--~~~~~~  134 (647)
                      .+.+.||||++++++|.+.|..  ++.++|+|+||||+|||             ..+| +.++||++++..+  ....+.
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  200 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQ  200 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHH
Confidence            3346799999999999999963  57899999999999999             2235 5788999998543  455577


Q ss_pred             HHHHHhCCCCc--CCCCCCHHHHHHHHHHHhccC--CeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhh-
Q 039519          135 RIGRRIGFLDE--SWKNGSLEDKASDIFRILSKK--KLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSA-  209 (647)
Q Consensus       135 ~i~~~l~~~~~--~~~~~~~~~~~~~l~~~l~~~--r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~-  209 (647)
                      .++..+.....  .....+.++....+++.+.++  |+||||||||+.++|+.+       ++||+||||||++.++.. 
T Consensus       201 ~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~  273 (1249)
T 3sfz_A          201 NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSV  273 (1249)
T ss_dssp             HHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTC
T ss_pred             HHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhh
Confidence            78887765432  123457888899999999877  999999999999887764       468999999999999854 


Q ss_pred             cccceeEeccc--------------cccCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhcccC
Q 039519          210 MQAHEFLKVED--------------VLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISASE  275 (647)
Q Consensus       210 ~~~~~~~~~~~--------------~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~~  275 (647)
                      ++....+.+..              +....+++++.+++|+++|+|+||||+++|++|+.+ . ..|...++.+....+.
T Consensus       274 ~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~-~-~~~~~~l~~l~~~~~~  351 (1249)
T 3sfz_A          274 MGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDF-P-NRWAYYLRQLQNKQFK  351 (1249)
T ss_dssp             CSCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHS-S-SCHHHHHHHHHSCCCC
T ss_pred             cCCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcC-h-hHHHHHHHHHhhhhhh
Confidence            44445555421              112345567889999999999999999999999873 3 5799999888765433


Q ss_pred             CC-----CCCcchhhHHHHhhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHHHHH
Q 039519          276 FP-----GMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGILL  350 (647)
Q Consensus       276 ~~-----~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~~L~  350 (647)
                      ..     ...+.+..++.+||+.||+ +.|.||++||+||+++.|++..++.+|.++           ++.+++++++|+
T Consensus       352 ~~~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~-----------~~~~~~~l~~L~  419 (1249)
T 3sfz_A          352 RIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCVLWDLE-----------TEEVEDILQEFV  419 (1249)
T ss_dssp             CSSCTTCTTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTTCCEEHHHHHHHHTCC-----------HHHHHHHHHHHH
T ss_pred             hcccccccchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCCCeeCHHHHHHHhCCC-----------HHHHHHHHHHHH
Confidence            21     1113689999999999999 899999999999999999999999999664           356788999999


Q ss_pred             HhccccccCCC---eeEEe
Q 039519          351 HACLLEEEWGD---IGEEE  366 (647)
Q Consensus       351 ~~~ll~~~~~~---~~~mh  366 (647)
                      ++||++....+   .|+||
T Consensus       420 ~~sl~~~~~~~~~~~~~~h  438 (1249)
T 3sfz_A          420 NKSLLFCNRNGKSFCYYLH  438 (1249)
T ss_dssp             HTTSCEEEESSSSEEEECC
T ss_pred             hccceEEecCCCceEEEec
Confidence            99999976443   49999

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.96  E-value=7.6e-29  Score=276.41  Aligned_cols=270  Identities=19%  Similarity=0.249  Sum_probs=203.3

Q ss_pred             CCCCcccchHHHHHHHHHhhh--CCceEEEEEccCccCCC-------------CCCc-ceEEEEEEcCccCHHHHHHH--
Q 039519           74 PCEPTVGLESTFDKVRRCLRE--EQVGIIGLYGMGGLLGA-------------PNDF-DVVIWMVVSKDLQLEKIQER--  135 (647)
Q Consensus        74 ~~~~~vGr~~~~~~i~~~L~~--~~~~vi~I~G~gGiGKT-------------~~~F-~~~~wv~~s~~~~~~~~~~~--  135 (647)
                      ..+.||||+.++++|.+.|..  ++.++|+|+||||+|||             ..+| +.++|++++.. +...+...  
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            346799999999999999974  56899999999999999             2357 48999999875 33333333  


Q ss_pred             -HHHHhCCCC--cCCCCCCHHHHHHHHHHHhcc--CCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhc
Q 039519          136 -IGRRIGFLD--ESWKNGSLEDKASDIFRILSK--KKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAM  210 (647)
Q Consensus       136 -i~~~l~~~~--~~~~~~~~~~~~~~l~~~l~~--~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~  210 (647)
                       ++..++...  ......+.+.....+++.+.+  +++||||||||+.++++.+       +.|++||||||+..++..+
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~  273 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSV  273 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTC
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhc
Confidence             344554211  112445677888889988876  7999999999998766543       4689999999999987654


Q ss_pred             ccceeEecc----------------ccccCCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhccc
Q 039519          211 QAHEFLKVE----------------DVLKNHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISAS  274 (647)
Q Consensus       211 ~~~~~~~~~----------------~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~  274 (647)
                      . ...+.+.                ..........+.+++|+++|+|+||||+++|++++..  ...|...++.+.....
T Consensus       274 ~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~~~~  350 (591)
T 1z6t_A          274 M-GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQF  350 (591)
T ss_dssp             C-SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHSCCC
T ss_pred             C-CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHHhHH
Confidence            3 2233331                0111122345788999999999999999999999873  3479988888876532


Q ss_pred             CC-----CCCCcchhhHHHHhhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCccccCccchHHHHHHHHHHH
Q 039519          275 EF-----PGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFLDQYDRSGAYDEGYYIIGIL  349 (647)
Q Consensus       275 ~~-----~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~~~~L  349 (647)
                      ..     ......+..++..||+.||+ +.|.||+++|+||+++.|+...+..+|.++           .+.+.++++.|
T Consensus       351 ~~~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-----------~~~~~~~l~~L  418 (591)
T 1z6t_A          351 KRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCILWDME-----------TEEVEDILQEF  418 (591)
T ss_dssp             CCSSCCCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-----------HHHHHHHHHHH
T ss_pred             HHhhhccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCCCccCHHHHHHHhccC-----------HHHHHHHHHHH
Confidence            21     11224789999999999999 899999999999999999999999999653           23467889999


Q ss_pred             HHhccccccC---CCeeEEe
Q 039519          350 LHACLLEEEW---GDIGEEE  366 (647)
Q Consensus       350 ~~~~ll~~~~---~~~~~mh  366 (647)
                      +++||++...   ...|+||
T Consensus       419 ~~~~Ll~~~~~~~~~~~~~H  438 (591)
T 1z6t_A          419 VNKSLLFCDRNGKSFRYYLH  438 (591)
T ss_dssp             HHTTSSEEEEETTEEEEECC
T ss_pred             HhCcCeEEecCCCccEEEEc
Confidence            9999998642   2379999

>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=99.85  E-value=2.7e-21  Score=198.54  Aligned_cols=219  Identities=18%  Similarity=0.183  Sum_probs=175.3

Q ss_pred             ccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecc
Q 039519          395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQY  474 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~  474 (647)
                      .+++.|++++|.+..+|..+.++++|++|++++| .+..+|..++.+++|++|+|++|.++.+|..++++++|++|++++
T Consensus        81 ~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n-~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~~  159 (328)
T 4fcg_A           81 PGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA-GLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRA  159 (328)
T ss_dssp             TTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESS-CCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEEE
T ss_pred             cceeEEEccCCCchhcChhhhhCCCCCEEECCCC-CccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECCC
Confidence            5788999999999999888888899999999999 666899889999999999999999999999999999999999999


Q ss_pred             cccCCcCchhhhc---------CCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHH
Q 039519          475 MYNLNQFPRLVIS---------AFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQE  545 (647)
Q Consensus       475 ~~~l~~lp~~~i~---------~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~  545 (647)
                      |..+..+|.. ++         .+++|++|++.++.   +.            ..+..++.+++|+.|+++.|.++.+  
T Consensus       160 n~~~~~~p~~-~~~~~~~~~~~~l~~L~~L~L~~n~---l~------------~lp~~l~~l~~L~~L~L~~N~l~~l--  221 (328)
T 4fcg_A          160 CPELTELPEP-LASTDASGEHQGLVNLQSLRLEWTG---IR------------SLPASIANLQNLKSLKIRNSPLSAL--  221 (328)
T ss_dssp             ETTCCCCCSC-SEEEC-CCCEEESTTCCEEEEEEEC---CC------------CCCGGGGGCTTCCEEEEESSCCCCC--
T ss_pred             CCCccccChh-HhhccchhhhccCCCCCEEECcCCC---cC------------cchHhhcCCCCCCEEEccCCCCCcC--
Confidence            8788888876 44         38899999887643   32            3334577889999999998887754  


Q ss_pred             HhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccchhhh
Q 039519          546 LLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQLSIL  624 (647)
Q Consensus       546 l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l  624 (647)
                       +.....+++|+.|++++++....++ ..+..+++|++|+|++|...+.+| .++.+++|++|+|++|+  .....+..+
T Consensus       222 -~~~l~~l~~L~~L~Ls~n~~~~~~p-~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~--~~~~iP~~l  297 (328)
T 4fcg_A          222 -GPAIHHLPKLEELDLRGCTALRNYP-PIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCV--NLSRLPSLI  297 (328)
T ss_dssp             -CGGGGGCTTCCEEECTTCTTCCBCC-CCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCT--TCCCCCGGG
T ss_pred             -chhhccCCCCCEEECcCCcchhhhH-HHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCC--chhhccHHH
Confidence             2334455678888888755444433 447889999999999998888877 58999999999999964  334455678


Q ss_pred             hhhcCCCCcccC
Q 039519          625 LGINRLPHFTKS  636 (647)
Q Consensus       625 ~~l~~L~~L~~~  636 (647)
                      +.+++|+.+...
T Consensus       298 ~~L~~L~~l~l~  309 (328)
T 4fcg_A          298 AQLPANCIILVP  309 (328)
T ss_dssp             GGSCTTCEEECC
T ss_pred             hhccCceEEeCC
Confidence            888888877554

>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=99.80  E-value=1.7e-19  Score=185.13  Aligned_cols=215  Identities=19%  Similarity=0.248  Sum_probs=173.9

Q ss_pred             eEEecCCCcccCcc-ccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCC-C
Q 039519          377 FLVHAGFGLTEAPE-IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTA-I  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~-~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~-l  454 (647)
                      .+...+..+..+|. +..+++|++|++++|.+..+|..+.++++|++|++++| .+..+|..++.+++|++|++++|+ +
T Consensus        85 ~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n-~l~~lp~~l~~l~~L~~L~L~~n~~~  163 (328)
T 4fcg_A           85 ALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALPASIASLNRLRELSIRACPEL  163 (328)
T ss_dssp             EEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESC-CCCCCCGGGGGCTTCCEEEEEEETTC
T ss_pred             EEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCC-ccccCcHHHhcCcCCCEEECCCCCCc
Confidence            45555556666654 77789999999999999999988899999999999999 677999999999999999999975 5


Q ss_pred             Cccccchhc---------CccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhh
Q 039519          455 THLPIDLQK---------LVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELI  525 (647)
Q Consensus       455 ~~lp~~~~~---------l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~  525 (647)
                      ..+|..++.         +++|++|++++| .+..+|.. ++.+++|++|++.++   .+..            .+..++
T Consensus       164 ~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~lp~~-l~~l~~L~~L~L~~N---~l~~------------l~~~l~  226 (328)
T 4fcg_A          164 TELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPAS-IANLQNLKSLKIRNS---PLSA------------LGPAIH  226 (328)
T ss_dssp             CCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCCCCCGG-GGGCTTCCEEEEESS---CCCC------------CCGGGG
T ss_pred             cccChhHhhccchhhhccCCCCCEEECcCC-CcCcchHh-hcCCCCCCEEEccCC---CCCc------------Cchhhc
Confidence            588887765         999999999999 77899987 899999999988764   4422            233578


Q ss_pred             CCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCC
Q 039519          526 GMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSL  604 (647)
Q Consensus       526 ~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L  604 (647)
                      .+++|+.|+++.|.....  ++.....+.+|+.|++++++.+..++ ..+..+++|++|+|++|+..+.+| +++++++|
T Consensus       227 ~l~~L~~L~Ls~n~~~~~--~p~~~~~l~~L~~L~L~~n~~~~~~p-~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L  303 (328)
T 4fcg_A          227 HLPKLEELDLRGCTALRN--YPPIFGGRAPLKRLILKDCSNLLTLP-LDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPAN  303 (328)
T ss_dssp             GCTTCCEEECTTCTTCCB--CCCCTTCCCCCCEEECTTCTTCCBCC-TTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTT
T ss_pred             cCCCCCEEECcCCcchhh--hHHHhcCCCCCCEEECCCCCchhhcc-hhhhcCCCCCEEeCCCCCchhhccHHHhhccCc
Confidence            899999999997665432  23333445678888888866655554 348899999999999999988887 59999999


Q ss_pred             ceEEeecc
Q 039519          605 SVHNLFIN  612 (647)
Q Consensus       605 ~~L~L~~~  612 (647)
                      +.+++..+
T Consensus       304 ~~l~l~~~  311 (328)
T 4fcg_A          304 CIILVPPH  311 (328)
T ss_dssp             CEEECCGG
T ss_pred             eEEeCCHH
Confidence            99999873

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.79  E-value=1.2e-19  Score=185.20  Aligned_cols=227  Identities=16%  Similarity=0.163  Sum_probs=151.9

Q ss_pred             CccccccccEEEEEeec-cccc-ccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcC
Q 039519          388 APEIQNWRNVRRMSLMK-NKIE-NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKL  464 (647)
Q Consensus       388 ~~~~~~~~~l~~L~l~~-n~i~-~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l  464 (647)
                      ++.+..+++|++|++++ |.+. .+|..+.++++|++|++++|.....+|..++++++|++|++++|.++ .+|..++.+
T Consensus        69 ~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l  148 (313)
T 1ogq_A           69 PSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL  148 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGC
T ss_pred             ChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcC
Confidence            34566777788888873 6665 36666677777888888877444467777778888888888888777 677777778


Q ss_pred             ccCcEEeecccccCC-cCchhhhcCCC-CCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          465 VNLKCLNLQYMYNLN-QFPRLVISAFS-KLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       465 ~~L~~L~l~~~~~l~-~lp~~~i~~l~-~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      ++|++|++++| .+. .+|.. ++.+. +|+.|++.+   |.+           .+..+..++.++ |+.|+++.|.++.
T Consensus       149 ~~L~~L~L~~N-~l~~~~p~~-l~~l~~~L~~L~L~~---N~l-----------~~~~~~~~~~l~-L~~L~Ls~N~l~~  211 (313)
T 1ogq_A          149 PNLVGITFDGN-RISGAIPDS-YGSFSKLFTSMTISR---NRL-----------TGKIPPTFANLN-LAFVDLSRNMLEG  211 (313)
T ss_dssp             TTCCEEECCSS-CCEEECCGG-GGCCCTTCCEEECCS---SEE-----------EEECCGGGGGCC-CSEEECCSSEEEE
T ss_pred             CCCCeEECcCC-cccCcCCHH-HhhhhhcCcEEECcC---Cee-----------eccCChHHhCCc-ccEEECcCCcccC
Confidence            88888888877 344 67765 66676 777776654   444           233344456665 8888888776654


Q ss_pred             HHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccch
Q 039519          543 LQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQL  621 (647)
Q Consensus       543 l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~  621 (647)
                      .  .+.....+++|+.|++++ +++... +..+..+++|++|+|++|.+.+.+| ++..+++|++|+|++|  .+... +
T Consensus       212 ~--~~~~~~~l~~L~~L~L~~-N~l~~~-~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N--~l~~~-i  284 (313)
T 1ogq_A          212 D--ASVLFGSDKNTQKIHLAK-NSLAFD-LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFN--NLCGE-I  284 (313)
T ss_dssp             C--CGGGCCTTSCCSEEECCS-SEECCB-GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSS--EEEEE-C
T ss_pred             c--CCHHHhcCCCCCEEECCC-Cceeee-cCcccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCC--ccccc-C
Confidence            2  112222334555555554 222211 1226778999999999998875666 5899999999999995  34433 2


Q ss_pred             hhhhhhcCCCCcccCCC
Q 039519          622 SILLGINRLPHFTKSNP  638 (647)
Q Consensus       622 ~~l~~l~~L~~L~~~~~  638 (647)
                      +..+.+++|+.|...++
T Consensus       285 p~~~~l~~L~~l~l~~N  301 (313)
T 1ogq_A          285 PQGGNLQRFDVSAYANN  301 (313)
T ss_dssp             CCSTTGGGSCGGGTCSS
T ss_pred             CCCccccccChHHhcCC
Confidence            33477888888877654

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.78  E-value=2.6e-19  Score=182.14  Aligned_cols=241  Identities=21%  Similarity=0.138  Sum_probs=155.1

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccC---ccccccccCCCeeeecC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKL---PLGISTLVSLEHLDLSS  451 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~l---p~~~~~L~~L~~L~L~~  451 (647)
                      ..+.+.+.+++.+|. .-.+++++|++++|.+..+|.. +.++++|++|++++| .+..+   |..+..+++|++|++++
T Consensus        10 ~~l~c~~~~l~~ip~-~~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~   87 (306)
T 2z66_A           10 TEIRCNSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSN-GLSFKGCCSQSDFGTTSLKYLDLSF   87 (306)
T ss_dssp             TEEECCSSCCSSCCS-CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCEEEEEEHHHHSCSCCCEEECCS
T ss_pred             CEEEcCCCCcccCCC-CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCC-ccCcccCcccccccccccCEEECCC
Confidence            356777777887776 2346899999999999888876 478889999999998 55443   56677788999999999


Q ss_pred             CCCCccccchhcCccCcEEeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCC
Q 039519          452 TAITHLPIDLQKLVNLKCLNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYL  530 (647)
Q Consensus       452 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L  530 (647)
                      |.++.+|..+..+++|++|++++| .+..++. ..+..+++|++|++.++   .+.           ...+..++.+++|
T Consensus        88 n~i~~l~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n---~l~-----------~~~~~~~~~l~~L  152 (306)
T 2z66_A           88 NGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHT---HTR-----------VAFNGIFNGLSSL  152 (306)
T ss_dssp             CSEEEEEEEEETCTTCCEEECTTS-EEESSTTTTTTTTCTTCCEEECTTS---CCE-----------ECSTTTTTTCTTC
T ss_pred             CccccChhhcCCCCCCCEEECCCC-cccccccchhhhhccCCCEEECCCC---cCC-----------ccchhhcccCcCC
Confidence            998888888888999999999988 6667764 33778888888877653   332           2223335566677


Q ss_pred             cEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEe
Q 039519          531 MAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNL  609 (647)
Q Consensus       531 ~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L  609 (647)
                      +.|+++.|.+... .++.....+++|+.|++++ +++..+....+..+++|++|+|++|.....++ .+..+++|++|+|
T Consensus       153 ~~L~l~~n~l~~~-~~~~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  230 (306)
T 2z66_A          153 EVLKMAGNSFQEN-FLPDIFTELRNLTFLDLSQ-CQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDY  230 (306)
T ss_dssp             CEEECTTCEEGGG-EECSCCTTCTTCCEEECTT-SCCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEEC
T ss_pred             CEEECCCCccccc-cchhHHhhCcCCCEEECCC-CCcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeEC
Confidence            7777765554320 0111222334556666655 34444433345566666666666665544444 3556666666666


Q ss_pred             ecccccccccchhhhhhhc-CCCCcccCC
Q 039519          610 FINKNYIHTNQLSILLGIN-RLPHFTKSN  637 (647)
Q Consensus       610 ~~~~~~~~~~~~~~l~~l~-~L~~L~~~~  637 (647)
                      ++|  .+.......+..++ +|+.|+..+
T Consensus       231 ~~N--~l~~~~~~~~~~~~~~L~~L~L~~  257 (306)
T 2z66_A          231 SLN--HIMTSKKQELQHFPSSLAFLNLTQ  257 (306)
T ss_dssp             TTS--CCCBCSSSSCCCCCTTCCEEECTT
T ss_pred             CCC--CCcccCHHHHHhhhccCCEEEccC
Confidence            663  34333334445553 555555444

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

Probab=99.78  E-value=4.7e-19  Score=190.51  Aligned_cols=238  Identities=18%  Similarity=0.190  Sum_probs=148.3

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+.+.+++.+|.- -.++++.|++++|.+..++ ..+.++++|++|++++| .+..+ |..|.++++|++|+|++|.+
T Consensus        58 ~v~c~~~~l~~iP~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~n~l  135 (452)
T 3zyi_A           58 KVVCTRRGLSEVPQG-IPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLELFDNWL  135 (452)
T ss_dssp             EEECCSSCCSSCCSC-CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             EEEECCCCcCccCCC-CCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCC-ccCCcChhhccCcccCCEEECCCCcC
Confidence            456666677776652 2367888888888887764 44577888888888888 44444 45677888888888888888


Q ss_pred             Cccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEE
Q 039519          455 THLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAV  533 (647)
Q Consensus       455 ~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  533 (647)
                      +.+|.. ++.+++|++|++++| .+..+|...+..+++|+.|++.++  |.+..++.           ..+..+++|+.|
T Consensus       136 ~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~~--~~l~~i~~-----------~~~~~l~~L~~L  201 (452)
T 3zyi_A          136 TVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGEL--KKLEYISE-----------GAFEGLFNLKYL  201 (452)
T ss_dssp             SBCCTTTSSSCTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCC--TTCCEECT-----------TTTTTCTTCCEE
T ss_pred             CccChhhhcccCCCCEEECCCC-CcceeCHhHHhcCCcccEEeCCCC--CCccccCh-----------hhccCCCCCCEE
Confidence            877754 677888888888887 667777766777888888877653  22322222           225566677777


Q ss_pred             EEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecc
Q 039519          534 TITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFIN  612 (647)
Q Consensus       534 ~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~  612 (647)
                      +++.|.++.++.    ...+.+|+.|+|++ +++..+....+..+++|++|+|++|......+ .|..+++|+.|+|++|
T Consensus       202 ~L~~n~l~~~~~----~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N  276 (452)
T 3zyi_A          202 NLGMCNIKDMPN----LTPLVGLEELEMSG-NHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHN  276 (452)
T ss_dssp             ECTTSCCSSCCC----CTTCTTCCEEECTT-SCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             ECCCCccccccc----ccccccccEEECcC-CcCcccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCC
Confidence            776666554321    22334556666655 34554443445666666666666665444433 2566666666666663


Q ss_pred             cccccccchhhhhhhcCCCCcccCC
Q 039519          613 KNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       613 ~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                        .+...+...+..+++|+.|+..+
T Consensus       277 --~l~~~~~~~~~~l~~L~~L~L~~  299 (452)
T 3zyi_A          277 --NLSSLPHDLFTPLRYLVELHLHH  299 (452)
T ss_dssp             --CCSCCCTTSSTTCTTCCEEECCS
T ss_pred             --cCCccChHHhccccCCCEEEccC
Confidence              34434444455556665554443

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

Probab=99.78  E-value=4.2e-19  Score=190.22  Aligned_cols=235  Identities=17%  Similarity=0.184  Sum_probs=131.4

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+.+.+++.+|... .++++.|+|++|.+..++ ..+.++++|++|++++| .+..++ ..|.++++|++|+|++|.+
T Consensus        47 ~v~c~~~~l~~iP~~~-~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~i~~~~~~~l~~L~~L~L~~n~l  124 (440)
T 3zyj_A           47 KVICVRKNLREVPDGI-STNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN-HIRTIEIGAFNGLANLNTLELFDNRL  124 (440)
T ss_dssp             EEECCSCCCSSCCSCC-CTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSS-CCCEECGGGGTTCSSCCEEECCSSCC
T ss_pred             EEEeCCCCcCcCCCCC-CCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCC-cCCccChhhccCCccCCEEECCCCcC
Confidence            4556666676666522 357777777777777765 34577777777777777 444443 4567777777777777777


Q ss_pred             Ccccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEE
Q 039519          455 THLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAV  533 (647)
Q Consensus       455 ~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  533 (647)
                      +.+|. .+..+++|++|++++| .+..+|...+..+++|++|++.++.  .+..++.           ..+..+++|+.|
T Consensus       125 ~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~l~~~~--~l~~i~~-----------~~~~~l~~L~~L  190 (440)
T 3zyj_A          125 TTIPNGAFVYLSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLGELK--RLSYISE-----------GAFEGLSNLRYL  190 (440)
T ss_dssp             SSCCTTTSCSCSSCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCT--TCCEECT-----------TTTTTCSSCCEE
T ss_pred             CeeCHhHhhccccCceeeCCCC-cccccCHHHhhhCcccCEeCCCCCC--CcceeCc-----------chhhcccccCee
Confidence            77764 4677777777777777 5666766556777777777666432  2222222           124455566666


Q ss_pred             EEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecc
Q 039519          534 TITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFIN  612 (647)
Q Consensus       534 ~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~  612 (647)
                      +++.|.++.++.    ...+.+|+.|+|++ +++..+....+..+++|++|+|++|......+ .|..+++|+.|+|++|
T Consensus       191 ~L~~n~l~~~~~----~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N  265 (440)
T 3zyj_A          191 NLAMCNLREIPN----LTPLIKLDELDLSG-NHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHN  265 (440)
T ss_dssp             ECTTSCCSSCCC----CTTCSSCCEEECTT-SCCCEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTS
T ss_pred             cCCCCcCccccc----cCCCcccCEEECCC-CccCccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCC
Confidence            666555443321    12233455555554 23444333334445555555555544333333 2444555555555542


Q ss_pred             cccccccchhhhhhhcCCCCcc
Q 039519          613 KNYIHTNQLSILLGINRLPHFT  634 (647)
Q Consensus       613 ~~~~~~~~~~~l~~l~~L~~L~  634 (647)
                        .+...+...+..+++|+.|+
T Consensus       266 --~l~~~~~~~~~~l~~L~~L~  285 (440)
T 3zyj_A          266 --NLTLLPHDLFTPLHHLERIH  285 (440)
T ss_dssp             --CCCCCCTTTTSSCTTCCEEE
T ss_pred             --CCCccChhHhccccCCCEEE
Confidence              23333333344444444443

>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=99.78  E-value=2.8e-18  Score=177.80  Aligned_cols=247  Identities=19%  Similarity=0.222  Sum_probs=123.5

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      +.+...+..+..++.+..++++++|++++|.+..++. +.++++|++|++++| .+..+| .+..+++|++|++++|.++
T Consensus        47 ~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~L~~n-~i~~~~-~~~~l~~L~~L~l~~n~i~  123 (347)
T 4fmz_A           47 TKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTN-KITDIS-ALQNLTNLRELYLNEDNIS  123 (347)
T ss_dssp             SEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCG-GGTTCTTCSEEECTTSCCC
T ss_pred             cEEEEeCCccccchhhhhcCCccEEEccCCccccchh-hhcCCcCCEEEccCC-cccCch-HHcCCCcCCEEECcCCccc
Confidence            3444455555556666666666666666666666655 556666666666666 555554 4666666666666666666


Q ss_pred             ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCC-------------------Cccccccccc----
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG-------------------SKIERLKSNV----  512 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~-------------------n~~~~~~~~~----  512 (647)
                      .+|. +..+++|++|++++|..+..++.  +..+++|++|++.++..                   |.+..++.-.    
T Consensus       124 ~~~~-~~~l~~L~~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~  200 (347)
T 4fmz_A          124 DISP-LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLASLTS  200 (347)
T ss_dssp             CCGG-GTTCTTCCEEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCCCCGGGGGCTT
T ss_pred             Cchh-hccCCceeEEECCCCCCcccccc--hhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCcccccccccCCCc
Confidence            6654 55666666666666544444443  45555555554443322                   1121111100    


Q ss_pred             -----ccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEc
Q 039519          513 -----LFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVA  587 (647)
Q Consensus       513 -----~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~  587 (647)
                           ...........+..+++|+.|+++.|.++.+..    ....++|+.|+++++ ++..+  ..+..+++|++|+++
T Consensus       201 L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~~~----~~~l~~L~~L~l~~n-~l~~~--~~~~~l~~L~~L~l~  273 (347)
T 4fmz_A          201 LHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDLSP----LANLSQLTWLEIGTN-QISDI--NAVKDLTKLKMLNVG  273 (347)
T ss_dssp             CCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG----GTTCTTCCEEECCSS-CCCCC--GGGTTCTTCCEEECC
T ss_pred             cceeecccCCCCCCchhhcCCcCCEEEccCCccCCCcc----hhcCCCCCEEECCCC-ccCCC--hhHhcCCCcCEEEcc
Confidence                 000000001114455555555555554443321    122234444444431 22221  124555666666666


Q ss_pred             CCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCC
Q 039519          588 GCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNP  638 (647)
Q Consensus       588 ~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~  638 (647)
                      +|.. ..++.+..+++|+.|++++|  .+.......++++++|+.|+..+.
T Consensus       274 ~n~l-~~~~~~~~l~~L~~L~L~~n--~l~~~~~~~l~~l~~L~~L~L~~n  321 (347)
T 4fmz_A          274 SNQI-SDISVLNNLSQLNSLFLNNN--QLGNEDMEVIGGLTNLTTLFLSQN  321 (347)
T ss_dssp             SSCC-CCCGGGGGCTTCSEEECCSS--CCCGGGHHHHHTCTTCSEEECCSS
T ss_pred             CCcc-CCChhhcCCCCCCEEECcCC--cCCCcChhHhhccccCCEEEccCC
Confidence            6533 23345556666666666653  233344445555566655554443

>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=99.78  E-value=1.8e-18  Score=187.53  Aligned_cols=100  Identities=20%  Similarity=0.345  Sum_probs=42.9

Q ss_pred             cEEEEEeecccccccc-cCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCCccccc-hhcCccCcEEee
Q 039519          396 NVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNL  472 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l  472 (647)
                      +++.|++++|.+..++ ..+.++++|++|++++| .+..+ |..|+++++|++|+|++|.++.+|.. ++++++|++|++
T Consensus        33 ~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  111 (477)
T 2id5_A           33 ETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDI  111 (477)
T ss_dssp             TCSEEECCSSCCCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEEC
T ss_pred             CCcEEECCCCccceECHhHccCCCCCCEEECCCC-ccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEEC
Confidence            4444444444444432 22344444444444444 22222 33444444444444444444444432 344444444444


Q ss_pred             cccccCCcCchhhhcCCCCCcEEec
Q 039519          473 QYMYNLNQFPRLVISAFSKLQVLRM  497 (647)
Q Consensus       473 ~~~~~l~~lp~~~i~~l~~L~~L~l  497 (647)
                      ++| .+..++...+..+++|++|++
T Consensus       112 s~n-~i~~~~~~~~~~l~~L~~L~l  135 (477)
T 2id5_A          112 SEN-KIVILLDYMFQDLYNLKSLEV  135 (477)
T ss_dssp             TTS-CCCEECTTTTTTCTTCCEEEE
T ss_pred             CCC-ccccCChhHccccccCCEEEC
Confidence            444 233332222444444444433

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.77  E-value=3.3e-19  Score=181.88  Aligned_cols=224  Identities=18%  Similarity=0.170  Sum_probs=170.9

Q ss_pred             ccEEEEEeeccccc---ccccCCCCcceeeEEeccC-ccccccCccccccccCCCeeeecCCCCC-ccccchhcCccCcE
Q 039519          395 RNVRRMSLMKNKIE---NLSELQPALTFFLFFNMSN-NHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKC  469 (647)
Q Consensus       395 ~~l~~L~l~~n~i~---~l~~~~~~l~~L~~L~l~~-~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~  469 (647)
                      .+++.|++++|.+.   .+|..+.++++|++|++++ |.....+|..++.+++|++|++++|.++ .+|..++++++|++
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~  129 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCE
Confidence            47899999999987   4777788889999999994 6566678888999999999999999998 88888999999999


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCC-CCcEEEEEecchhhHHHHhh
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMK-YLMAVTITLKRLQALQELLI  548 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~~~l~~l~~  548 (647)
                      |++++|.....+|.. ++.+++|++|++.+   |.+           .+..+..++.++ +|+.|+++.|.+++.  ++.
T Consensus       130 L~Ls~N~l~~~~p~~-~~~l~~L~~L~L~~---N~l-----------~~~~p~~l~~l~~~L~~L~L~~N~l~~~--~~~  192 (313)
T 1ogq_A          130 LDFSYNALSGTLPPS-ISSLPNLVGITFDG---NRI-----------SGAIPDSYGSFSKLFTSMTISRNRLTGK--IPP  192 (313)
T ss_dssp             EECCSSEEESCCCGG-GGGCTTCCEEECCS---SCC-----------EEECCGGGGCCCTTCCEEECCSSEEEEE--CCG
T ss_pred             EeCCCCccCCcCChH-HhcCCCCCeEECcC---Ccc-----------cCcCCHHHhhhhhcCcEEECcCCeeecc--CCh
Confidence            999998443477876 88899999997765   443           334555677787 899999987776531  111


Q ss_pred             hhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhc
Q 039519          549 SQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGIN  628 (647)
Q Consensus       549 ~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~  628 (647)
                      ....+. |+.|++++ +++.......+..+++|+.|+|++|...+.+|.+..+++|++|+|++|  .+....+..+..++
T Consensus       193 ~~~~l~-L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N--~l~~~~p~~l~~l~  268 (313)
T 1ogq_A          193 TFANLN-LAFVDLSR-NMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNN--RIYGTLPQGLTQLK  268 (313)
T ss_dssp             GGGGCC-CSEEECCS-SEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSS--CCEECCCGGGGGCT
T ss_pred             HHhCCc-ccEEECcC-CcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCC--cccCcCChHHhcCc
Confidence            222222 77777776 344433334478899999999999987777777888999999999985  45555566788889


Q ss_pred             CCCCcccCCCC
Q 039519          629 RLPHFTKSNPY  639 (647)
Q Consensus       629 ~L~~L~~~~~~  639 (647)
                      +|+.|+..+..
T Consensus       269 ~L~~L~Ls~N~  279 (313)
T 1ogq_A          269 FLHSLNVSFNN  279 (313)
T ss_dssp             TCCEEECCSSE
T ss_pred             CCCEEECcCCc
Confidence            99988776553

>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=99.77  E-value=2.2e-18  Score=173.29  Aligned_cols=233  Identities=18%  Similarity=0.166  Sum_probs=179.0

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~  453 (647)
                      ..+.+.+.+++.+|. .-++++++|++++|.+..++. .+.++++|++|++++| .+..+ |..+..+++|++|++++|.
T Consensus        14 ~~~~c~~~~l~~ip~-~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~   91 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPV-GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNA   91 (285)
T ss_dssp             CEEECCSSCCSSCCT-TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCT
T ss_pred             eEEEcCcCCcccCCc-CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCC-ccceeCHhhcCCccCCCEEeCCCCC
Confidence            456777778888875 335799999999999999875 4688999999999999 55555 7789999999999999997


Q ss_pred             -CCcc-ccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCc
Q 039519          454 -ITHL-PIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM  531 (647)
Q Consensus       454 -l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~  531 (647)
                       ++.+ |..+..+++|++|++++| .+..++...+..+++|++|++.+   |.+..++           ...++.+++|+
T Consensus        92 ~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~---n~l~~~~-----------~~~~~~l~~L~  156 (285)
T 1ozn_A           92 QLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQD---NALQALP-----------DDTFRDLGNLT  156 (285)
T ss_dssp             TCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECCS---SCCCCCC-----------TTTTTTCTTCC
T ss_pred             CccccCHHHhcCCcCCCEEECCCC-cCCEECHhHhhCCcCCCEEECCC---CcccccC-----------HhHhccCCCcc
Confidence             8877 678999999999999999 67777655588999999997775   4443333           23367889999


Q ss_pred             EEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEEee
Q 039519          532 AVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLF  610 (647)
Q Consensus       532 ~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~  610 (647)
                      .|+++.|.++.+..  .....+.+|+.|++++ +++..+....+..+++|++|+|++|.....++. +..+++|++|+|+
T Consensus       157 ~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  233 (285)
T 1ozn_A          157 HLFLHGNRISSVPE--RAFRGLHSLDRLLLHQ-NRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN  233 (285)
T ss_dssp             EEECCSSCCCEECT--TTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECC
T ss_pred             EEECCCCcccccCH--HHhcCccccCEEECCC-CcccccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEecc
Confidence            99999887765421  1123346788888887 567776556688899999999999977776654 8999999999999


Q ss_pred             cccccccccchhhhhhhc
Q 039519          611 INKNYIHTNQLSILLGIN  628 (647)
Q Consensus       611 ~~~~~~~~~~~~~l~~l~  628 (647)
                      +|+-............+.
T Consensus       234 ~N~~~c~~~~~~~~~~l~  251 (285)
T 1ozn_A          234 DNPWVCDCRARPLWAWLQ  251 (285)
T ss_dssp             SSCEECSGGGHHHHHHHH
T ss_pred             CCCccCCCCcHHHHHHHH
Confidence            976433333333333343

>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=99.77  E-value=2.1e-18  Score=177.39  Aligned_cols=214  Identities=20%  Similarity=0.203  Sum_probs=142.9

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSST  452 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~  452 (647)
                      .+.+.+.+.+++.+|... .++++.|++++|.+..++. .+.++++|++|++++| .+..+ |..++.+++|++|++++|
T Consensus        33 l~~l~~~~~~l~~lp~~~-~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n  110 (330)
T 1xku_A           33 LRVVQCSDLGLEKVPKDL-PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSKN  110 (330)
T ss_dssp             TTEEECTTSCCCSCCCSC-CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSS
T ss_pred             CeEEEecCCCccccCccC-CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCC-cCCeeCHHHhcCCCCCCEEECCCC
Confidence            345677777777777532 3689999999999999876 4688999999999999 55555 778999999999999999


Q ss_pred             CCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcE
Q 039519          453 AITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA  532 (647)
Q Consensus       453 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  532 (647)
                      .++.+|..+.  ++|++|++++| .+..++...+..+++|++|++.++..   ..         .+..+..++.+++|+.
T Consensus       111 ~l~~l~~~~~--~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l---~~---------~~~~~~~~~~l~~L~~  175 (330)
T 1xku_A          111 QLKELPEKMP--KTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPL---KS---------SGIENGAFQGMKKLSY  175 (330)
T ss_dssp             CCSBCCSSCC--TTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCC---CG---------GGBCTTGGGGCTTCCE
T ss_pred             cCCccChhhc--ccccEEECCCC-cccccCHhHhcCCccccEEECCCCcC---Cc---------cCcChhhccCCCCcCE
Confidence            9999987665  78999999998 67788877688899999997775433   11         1233345677778888


Q ss_pred             EEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeec
Q 039519          533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFI  611 (647)
Q Consensus       533 L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~  611 (647)
                      |+++.|.++.++.     ....+|+.|++++ +++..+....+..+++|++|+|++|.....++ .+..+++|++|+|++
T Consensus       176 L~l~~n~l~~l~~-----~~~~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~  249 (330)
T 1xku_A          176 IRIADTNITTIPQ-----GLPPSLTELHLDG-NKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNN  249 (330)
T ss_dssp             EECCSSCCCSCCS-----SCCTTCSEEECTT-SCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCS
T ss_pred             EECCCCccccCCc-----cccccCCEEECCC-CcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCC
Confidence            8887766554321     1114556666554 23443332334444445555554444333333 244444455555444

>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=99.77  E-value=1.5e-18  Score=186.82  Aligned_cols=97  Identities=23%  Similarity=0.194  Sum_probs=49.4

Q ss_pred             eEEecCCCcccCccccccccEEEEEeeccccccc-ccCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l-~~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+.+.+++.+|.  -.+++++|++++|.+..+ |..+.++++|++|++++|.....+ |..+.++++|++|++++|.+
T Consensus        14 ~~~c~~~~l~~lp~--l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l   91 (455)
T 3v47_A           14 NAICINRGLHQVPE--LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQF   91 (455)
T ss_dssp             EEECCSSCCSSCCC--CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTT
T ss_pred             ccCcCCCCcccCCC--CCCccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCcc
Confidence            34445555555555  224555666665555554 333455555555555555222233 23355555555555555555


Q ss_pred             Ccc-ccchhcCccCcEEeeccc
Q 039519          455 THL-PIDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       455 ~~l-p~~~~~l~~L~~L~l~~~  475 (647)
                      +.+ |..++++++|++|++++|
T Consensus        92 ~~~~~~~~~~l~~L~~L~L~~n  113 (455)
T 3v47_A           92 LQLETGAFNGLANLEVLTLTQC  113 (455)
T ss_dssp             CEECTTTTTTCTTCCEEECTTS
T ss_pred             CccChhhccCcccCCEEeCCCC
Confidence            533 444555555555555554

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.76  E-value=3.5e-18  Score=180.08  Aligned_cols=123  Identities=19%  Similarity=0.245  Sum_probs=78.8

Q ss_pred             cceEEecCCCcccCcc--ccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeec
Q 039519          375 ENFLVHAGFGLTEAPE--IQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~--~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~  450 (647)
                      .+.+...+..+..+|.  +..+++|++|++++|.+..++. .+..+++|++|++++| .+..+ |..++.+++|++|+++
T Consensus        47 l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~  125 (390)
T 3o6n_A           47 QKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLE  125 (390)
T ss_dssp             CSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECC
T ss_pred             ceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCC-CCCcCCHHHhcCCCCCCEEECC
Confidence            3445555555555554  4556677777777777776654 4566677777777777 44444 3346677777777777


Q ss_pred             CCCCCccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          451 STAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       451 ~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +|.++.+|.. ++++++|++|++++| .+..++...++.+++|++|++.+
T Consensus       126 ~n~l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~  174 (390)
T 3o6n_A          126 RNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSS  174 (390)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTSSCTTCCEEECCS
T ss_pred             CCccCcCCHHHhcCCCCCcEEECCCC-ccCccChhhccCCCCCCEEECCC
Confidence            7777777655 366777777777776 55556554466677777776654

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

Probab=99.76  E-value=1.1e-18  Score=181.26  Aligned_cols=227  Identities=20%  Similarity=0.175  Sum_probs=128.9

Q ss_pred             EecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCCc
Q 039519          379 VHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAITH  456 (647)
Q Consensus       379 ~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~~  456 (647)
                      ...+..++.+|.- -.+++++|++++|.++.++. .+.++++|++|++++| .+..+ |..++++++|++|++++|.++.
T Consensus        37 ~~~~~~l~~iP~~-~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~  114 (353)
T 2z80_A           37 KGSSGSLNSIPSG-LTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYNYLSN  114 (353)
T ss_dssp             ECCSTTCSSCCTT-CCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCSS
T ss_pred             eCCCCCccccccc-ccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCC-ccCccCHhhcCCCCCCCEEECCCCcCCc
Confidence            3344455555541 12456666666666666554 3455666666666666 33333 3345666666666666666666


Q ss_pred             cccc-hhcCccCcEEeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccc-------------cCCccccH
Q 039519          457 LPID-LQKLVNLKCLNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVL-------------FGGHQVLV  521 (647)
Q Consensus       457 lp~~-~~~l~~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~-------------~~~~~~~~  521 (647)
                      +|.. ++++++|++|++++| .+..+|. ..++.+++|++|++.++.  .+..+++..+             .......+
T Consensus       115 ~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~~l~~L~~L~l~~n~--~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  191 (353)
T 2z80_A          115 LSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQILRVGNMD--TFTKIQRKDFAGLTFLEELEIDASDLQSYEP  191 (353)
T ss_dssp             CCHHHHTTCTTCSEEECTTC-CCSSSCSSCSCTTCTTCCEEEEEESS--SCCEECTTTTTTCCEEEEEEEEETTCCEECT
T ss_pred             CCHhHhCCCccCCEEECCCC-CCcccCchhhhccCCCCcEEECCCCc--cccccCHHHccCCCCCCEEECCCCCcCccCH
Confidence            6544 556666666666665 4555554 335556666666555431  1222211100             00123334


Q ss_pred             HHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCc-----------------eEEEec----------
Q 039519          522 EELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSK-----------------SLDIFC----------  574 (647)
Q Consensus       522 ~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~-----------------~L~l~~----------  574 (647)
                      ..++.+++|+.|+++.|.+..+....  ....++|+.|++++. ++.                 .+.+..          
T Consensus       192 ~~l~~l~~L~~L~l~~n~l~~~~~~~--~~~~~~L~~L~L~~n-~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~  268 (353)
T 2z80_A          192 KSLKSIQNVSHLILHMKQHILLLEIF--VDVTSSVECLELRDT-DLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQ  268 (353)
T ss_dssp             TTTTTCSEEEEEEEECSCSTTHHHHH--HHHTTTEEEEEEESC-BCTTCCCC------CCCCCCEEEEESCBCCHHHHHH
T ss_pred             HHHhccccCCeecCCCCccccchhhh--hhhcccccEEECCCC-ccccccccccccccccchhhccccccccccCcchhh
Confidence            56777888888888888776654322  223457888887762 332                 233321          


Q ss_pred             ----ccccCCccEEEEcCCCCCCCChh-hccccCCceEEeeccc
Q 039519          575 ----LACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINK  613 (647)
Q Consensus       575 ----~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~  613 (647)
                          +..+++|++|+|++|.....++. ++.+++|++|+|++|+
T Consensus       269 l~~~l~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~  312 (353)
T 2z80_A          269 VMKLLNQISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLHTNP  312 (353)
T ss_dssp             HHHHHHTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             hHHHHhcccCCCEEECCCCCCCccCHHHHhcCCCCCEEEeeCCC
Confidence                45677888888888866544444 5788888888888865

>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=99.76  E-value=3.9e-18  Score=189.89  Aligned_cols=121  Identities=19%  Similarity=0.241  Sum_probs=66.6

Q ss_pred             eEEecCCCcccCcc--ccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCC
Q 039519          377 FLVHAGFGLTEAPE--IQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSST  452 (647)
Q Consensus       377 ~l~~~~~~~~~~~~--~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~  452 (647)
                      .+...+..+..+|.  +..+++|+.|++++|.+..++. .+..+++|++|++++| .+..+|+ .++.+++|++|+|++|
T Consensus        55 ~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n  133 (597)
T 3oja_B           55 IVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLERN  133 (597)
T ss_dssp             EEEESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             EEEeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCC-cCCCCCHHHHcCCCCCCEEEeeCC
Confidence            34444444444443  3445566666666666665543 4455666666666666 3433333 3456666666666666


Q ss_pred             CCCccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          453 AITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       453 ~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      .++.+|.. ++++++|++|++++| .+..+++..++.+++|++|++.+
T Consensus       134 ~l~~l~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~  180 (597)
T 3oja_B          134 DLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSS  180 (597)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTTTCTTCCEEECTT
T ss_pred             CCCCCCHHHhccCCCCCEEEeeCC-cCCCCChhhhhcCCcCcEEECcC
Confidence            66666544 356666666666665 44444443355666666665543

>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=99.75  E-value=8.9e-18  Score=174.42  Aligned_cols=217  Identities=18%  Similarity=0.150  Sum_probs=154.8

Q ss_pred             cceEEecCCCcccCcc--ccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCccc-cccccCCCeeeec
Q 039519          375 ENFLVHAGFGLTEAPE--IQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~--~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~  450 (647)
                      -+.+...+..++.++.  +..+++|+.|++++|.+..++. .+.++++|++|++++| .+..+|.. ++.+++|++|+++
T Consensus        54 L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~  132 (353)
T 2z80_A           54 VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYN-YLSNLSSSWFKPLSSLTFLNLL  132 (353)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSSCCHHHHTTCTTCSEEECT
T ss_pred             CcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCC-cCCcCCHhHhCCCccCCEEECC
Confidence            4456666666666654  7888999999999999988754 4688899999999999 67777766 7889999999999


Q ss_pred             CCCCCcccc--chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccc------------cCC
Q 039519          451 STAITHLPI--DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVL------------FGG  516 (647)
Q Consensus       451 ~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~------------~~~  516 (647)
                      +|.++.+|.  .++++++|++|++++|..+..++...++.+++|++|++.++   .+..+++..+            ...
T Consensus       133 ~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n---~l~~~~~~~l~~l~~L~~L~l~~n~  209 (353)
T 2z80_A          133 GNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS---DLQSYEPKSLKSIQNVSHLILHMKQ  209 (353)
T ss_dssp             TCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEET---TCCEECTTTTTTCSEEEEEEEECSC
T ss_pred             CCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCC---CcCccCHHHHhccccCCeecCCCCc
Confidence            999998886  68889999999999985577776555788888888877653   3433322211            111


Q ss_pred             ccccHH-HhhCCCCCcEEEEEecchhhH-----------------------------HHHhhhhhhhhccceeeeeccCC
Q 039519          517 HQVLVE-ELIGMKYLMAVTITLKRLQAL-----------------------------QELLISQELQRCTQFLFLRCFND  566 (647)
Q Consensus       517 ~~~~~~-~l~~l~~L~~L~l~~~~~~~l-----------------------------~~l~~~~~~~~~l~~l~L~~~~~  566 (647)
                      ....+. .+..+++|+.|+++.|.++..                             ..++......++|+.|++++ ++
T Consensus       210 l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~-N~  288 (353)
T 2z80_A          210 HILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSR-NQ  288 (353)
T ss_dssp             STTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCS-SC
T ss_pred             cccchhhhhhhcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCC-CC
Confidence            111222 244688999999998776542                             12232333445677777776 46


Q ss_pred             CceEEEecccccCCccEEEEcCCCCCCCCh
Q 039519          567 SKSLDIFCLACLHNLNKLYVAGCKHLEDFQ  596 (647)
Q Consensus       567 L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~  596 (647)
                      +..++-..+..+++|++|+|++|+.....|
T Consensus       289 l~~i~~~~~~~l~~L~~L~L~~N~~~~~~~  318 (353)
T 2z80_A          289 LKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  318 (353)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCBCCCHH
T ss_pred             CCccCHHHHhcCCCCCEEEeeCCCccCcCC
Confidence            665553336889999999999998877665

>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=99.75  E-value=8e-18  Score=182.31  Aligned_cols=245  Identities=20%  Similarity=0.202  Sum_probs=187.6

Q ss_pred             cceEEecCCCcccC--ccccccccEEEEEeeccccccc-ccCCCCcceeeEEeccCccccccCccc-cccccCCCeeeec
Q 039519          375 ENFLVHAGFGLTEA--PEIQNWRNVRRMSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~~~--~~~~~~~~l~~L~l~~n~i~~l-~~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~  450 (647)
                      .+.+...+..++.+  ..+..+++|++|++++|.+..+ |..+.++++|++|++++| .+..+|.. +.++++|++|+|+
T Consensus        34 l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls  112 (477)
T 2id5_A           34 TRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDIS  112 (477)
T ss_dssp             CSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCSCCTTSSTTCTTCCEEECT
T ss_pred             CcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCC-cCCccCcccccCCCCCCEEECC
Confidence            44566666666665  3578899999999999999987 566799999999999999 67777764 7899999999999


Q ss_pred             CCCCCcc-ccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCC
Q 039519          451 STAITHL-PIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKY  529 (647)
Q Consensus       451 ~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~  529 (647)
                      +|.++.+ |..+.++++|++|++++| .+..++...++.+++|++|++.++   .+           .......+..+++
T Consensus       113 ~n~i~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n---~l-----------~~~~~~~l~~l~~  177 (477)
T 2id5_A          113 ENKIVILLDYMFQDLYNLKSLEVGDN-DLVYISHRAFSGLNSLEQLTLEKC---NL-----------TSIPTEALSHLHG  177 (477)
T ss_dssp             TSCCCEECTTTTTTCTTCCEEEECCT-TCCEECTTSSTTCTTCCEEEEESC---CC-----------SSCCHHHHTTCTT
T ss_pred             CCccccCChhHccccccCCEEECCCC-ccceeChhhccCCCCCCEEECCCC---cC-----------cccChhHhcccCC
Confidence            9999965 567899999999999998 667776655889999999988764   33           3344456889999


Q ss_pred             CcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEE
Q 039519          530 LMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHN  608 (647)
Q Consensus       530 L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~  608 (647)
                      |+.|+++.|.+..+..  .....+.+|+.|++++++.+..+... .....+|++|+|++|.....++ .+..+++|+.|+
T Consensus       178 L~~L~l~~n~i~~~~~--~~~~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  254 (477)
T 2id5_A          178 LIVLRLRHLNINAIRD--YSFKRLYRLKVLEISHWPYLDTMTPN-CLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLN  254 (477)
T ss_dssp             CCEEEEESCCCCEECT--TCSCSCTTCCEEEEECCTTCCEECTT-TTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEE
T ss_pred             CcEEeCCCCcCcEeCh--hhcccCcccceeeCCCCccccccCcc-cccCccccEEECcCCcccccCHHHhcCccccCeeE
Confidence            9999999887665321  11223446667777766555555432 2334599999999997665554 389999999999


Q ss_pred             eecccccccccchhhhhhhcCCCCcccCCCCc
Q 039519          609 LFINKNYIHTNQLSILLGINRLPHFTKSNPYH  640 (647)
Q Consensus       609 L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~  640 (647)
                      |++|  .+.......+.++++|+.|...+..+
T Consensus       255 Ls~n--~l~~~~~~~~~~l~~L~~L~L~~n~l  284 (477)
T 2id5_A          255 LSYN--PISTIEGSMLHELLRLQEIQLVGGQL  284 (477)
T ss_dssp             CCSS--CCCEECTTSCTTCTTCCEEECCSSCC
T ss_pred             CCCC--cCCccChhhccccccCCEEECCCCcc
Confidence            9995  45555666788899999998776544

>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=99.75  E-value=1.7e-17  Score=171.93  Aligned_cols=244  Identities=17%  Similarity=0.222  Sum_probs=162.0

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      +.+...+..+..++.+..+++|++|++++|.+..++. +..+++|++|++++|.....++ .+..+++|++|++++|.+.
T Consensus        91 ~~L~L~~n~i~~~~~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~-~~~~l~~L~~L~l~~~~~~  168 (347)
T 4fmz_A           91 TNLYIGTNKITDISALQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLS-PLSNMTGLNYLTVTESKVK  168 (347)
T ss_dssp             CEEECCSSCCCCCGGGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCG-GGTTCTTCCEEECCSSCCC
T ss_pred             CEEEccCCcccCchHHcCCCcCCEEECcCCcccCchh-hccCCceeEEECCCCCCccccc-chhhCCCCcEEEecCCCcC
Confidence            3445555556666667777777777777777776655 4666677777777774444333 4667777777777777776


Q ss_pred             ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCccccccc-----c-----cccCCccccHHHhh
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKS-----N-----VLFGGHQVLVEELI  525 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~-----~-----~~~~~~~~~~~~l~  525 (647)
                      .++. ++.+++|++|++++| .+..++.  +..+++|+.|++.++.   +..++.     .     +.+. .-.....+.
T Consensus       169 ~~~~-~~~l~~L~~L~l~~n-~l~~~~~--~~~l~~L~~L~l~~n~---l~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~  240 (347)
T 4fmz_A          169 DVTP-IANLTDLYSLSLNYN-QIEDISP--LASLTSLHYFTAYVNQ---ITDITPVANMTRLNSLKIGNN-KITDLSPLA  240 (347)
T ss_dssp             CCGG-GGGCTTCSEEECTTS-CCCCCGG--GGGCTTCCEEECCSSC---CCCCGGGGGCTTCCEEECCSS-CCCCCGGGT
T ss_pred             Cchh-hccCCCCCEEEccCC-ccccccc--ccCCCccceeecccCC---CCCCchhhcCCcCCEEEccCC-ccCCCcchh
Confidence            6654 667777777777776 5566665  5566666666555432   222211     0     0000 111112288


Q ss_pred             CCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCC
Q 039519          526 GMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSL  604 (647)
Q Consensus       526 ~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L  604 (647)
                      .+++|+.|+++.|.++.++    ....+++|+.|+++++ ++..+  ..+..+++|++|+|++|......+ .++.+++|
T Consensus       241 ~l~~L~~L~l~~n~l~~~~----~~~~l~~L~~L~l~~n-~l~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L  313 (347)
T 4fmz_A          241 NLSQLTWLEIGTNQISDIN----AVKDLTKLKMLNVGSN-QISDI--SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNL  313 (347)
T ss_dssp             TCTTCCEEECCSSCCCCCG----GGTTCTTCCEEECCSS-CCCCC--GGGGGCTTCSEEECCSSCCCGGGHHHHHTCTTC
T ss_pred             cCCCCCEEECCCCccCCCh----hHhcCCCcCEEEccCC-ccCCC--hhhcCCCCCCEEECcCCcCCCcChhHhhccccC
Confidence            8999999999988877653    2334567888888874 66665  458899999999999998776666 48999999


Q ss_pred             ceEEeecccccccccchhhhhhhcCCCCcccCCCCc
Q 039519          605 SVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPYH  640 (647)
Q Consensus       605 ~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~  640 (647)
                      ++|+|++|+  +...  +.+..+++|+.|+..+..+
T Consensus       314 ~~L~L~~n~--l~~~--~~~~~l~~L~~L~l~~N~i  345 (347)
T 4fmz_A          314 TTLFLSQNH--ITDI--RPLASLSKMDSADFANQVI  345 (347)
T ss_dssp             SEEECCSSS--CCCC--GGGGGCTTCSEESSSCC--
T ss_pred             CEEEccCCc--cccc--cChhhhhccceeehhhhcc
Confidence            999999974  3322  2388899999998877543

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

Probab=99.75  E-value=5.7e-18  Score=174.29  Aligned_cols=218  Identities=19%  Similarity=0.191  Sum_probs=140.6

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~  453 (647)
                      +.+.+.+..++.+|... .++++.|++++|.+..++. .+.++++|++|++++| .+..+ |..++.+++|++|++++|.
T Consensus        36 ~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~  113 (332)
T 2ft3_A           36 RVVQCSDLGLKAVPKEI-SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNN-KISKIHEKAFSPLRKLQKLYISKNH  113 (332)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECGGGSTTCTTCCEEECCSSC
T ss_pred             CEEECCCCCccccCCCC-CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCC-ccCccCHhHhhCcCCCCEEECCCCc
Confidence            45667777777777533 4789999999999998755 5689999999999999 45554 7789999999999999999


Q ss_pred             CCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEE
Q 039519          454 ITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAV  533 (647)
Q Consensus       454 l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  533 (647)
                      ++.+|..+.  ++|++|++++| .+..+|...++.+++|++|++.++   .+...         +..+..++.+ +|+.|
T Consensus       114 l~~l~~~~~--~~L~~L~l~~n-~i~~~~~~~~~~l~~L~~L~l~~n---~l~~~---------~~~~~~~~~l-~L~~L  177 (332)
T 2ft3_A          114 LVEIPPNLP--SSLVELRIHDN-RIRKVPKGVFSGLRNMNCIEMGGN---PLENS---------GFEPGAFDGL-KLNYL  177 (332)
T ss_dssp             CCSCCSSCC--TTCCEEECCSS-CCCCCCSGGGSSCSSCCEEECCSC---CCBGG---------GSCTTSSCSC-CCSCC
T ss_pred             CCccCcccc--ccCCEEECCCC-ccCccCHhHhCCCccCCEEECCCC---ccccC---------CCCcccccCC-ccCEE
Confidence            999998766  79999999998 778888776889999999977753   33210         1111223333 44444


Q ss_pred             EEEecchhhHHH------------------H-hhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCC
Q 039519          534 TITLKRLQALQE------------------L-LISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLED  594 (647)
Q Consensus       534 ~l~~~~~~~l~~------------------l-~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~  594 (647)
                      +++.|.++.++.                  + +.....+.+|+.|++++ +++..+....+..+++|++|+|++|.....
T Consensus       178 ~l~~n~l~~l~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l  256 (332)
T 2ft3_A          178 RISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGH-NQIRMIENGSLSFLPTLRELHLDNNKLSRV  256 (332)
T ss_dssp             BCCSSBCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCS-SCCCCCCTTGGGGCTTCCEEECCSSCCCBC
T ss_pred             ECcCCCCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCC-CcCCcCChhHhhCCCCCCEEECCCCcCeec
Confidence            544444333210                  0 00111222344444443 233333222355566666666666654433


Q ss_pred             ChhhccccCCceEEeecc
Q 039519          595 FQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       595 ~~~~~~l~~L~~L~L~~~  612 (647)
                      ++++..+++|+.|++++|
T Consensus       257 p~~l~~l~~L~~L~l~~N  274 (332)
T 2ft3_A          257 PAGLPDLKLLQVVYLHTN  274 (332)
T ss_dssp             CTTGGGCTTCCEEECCSS
T ss_pred             ChhhhcCccCCEEECCCC
Confidence            334666666666666663

>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=99.75  E-value=5.4e-18  Score=194.37  Aligned_cols=233  Identities=15%  Similarity=0.153  Sum_probs=157.4

Q ss_pred             cccccccEEEEEeecccccc-cccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcCccC
Q 039519          390 EIQNWRNVRRMSLMKNKIEN-LSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNL  467 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~-l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L  467 (647)
                      .+..+++|+.|++++|.+.+ +|..+.++++|++|++++|.....+|..++.+++|++|++++|.++ .+|..++++++|
T Consensus       413 ~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L  492 (768)
T 3rgz_A          413 TLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNL  492 (768)
T ss_dssp             GGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTC
T ss_pred             HHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCC
Confidence            45667777777777777764 5556677777777777777555567777777777888888877777 667777777888


Q ss_pred             cEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh-HHHH
Q 039519          468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA-LQEL  546 (647)
Q Consensus       468 ~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~-l~~l  546 (647)
                      ++|++++|.....+|.. ++.+++|+.|++.++   ++           .+..+..++.+++|+.|+++.|.+.+ ++.-
T Consensus       493 ~~L~L~~N~l~~~~p~~-~~~l~~L~~L~L~~N---~l-----------~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~  557 (768)
T 3rgz_A          493 NWISLSNNRLTGEIPKW-IGRLENLAILKLSNN---SF-----------SGNIPAELGDCRSLIWLDLNTNLFNGTIPAA  557 (768)
T ss_dssp             CEEECCSSCCCSCCCGG-GGGCTTCCEEECCSS---CC-----------EEECCGGGGGCTTCCEEECCSSEEESBCCGG
T ss_pred             CEEEccCCccCCcCChH-HhcCCCCCEEECCCC---cc-----------cCcCCHHHcCCCCCCEEECCCCccCCcCChH
Confidence            88888777444466765 777777777766653   33           45566678888899999988776542 1100


Q ss_pred             hhhh-------------------------------------------hhhhccc-------------eeeeeccCCCceE
Q 039519          547 LISQ-------------------------------------------ELQRCTQ-------------FLFLRCFNDSKSL  570 (647)
Q Consensus       547 ~~~~-------------------------------------------~~~~~l~-------------~l~L~~~~~L~~L  570 (647)
                      ....                                           ..+..+.             .-.+..+.+|+.|
T Consensus       558 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~L  637 (768)
T 3rgz_A          558 MFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFL  637 (768)
T ss_dssp             GGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEE
T ss_pred             HhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEE
Confidence            0000                                           0000000             0012223455555


Q ss_pred             EEec----------ccccCCccEEEEcCCCCCCCChh-hccccCCceEEeecccccccccchhhhhhhcCCCCcccCCCC
Q 039519          571 DIFC----------LACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       571 ~l~~----------~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                      +++.          ++.+++|+.|+|++|.+.+.+|. ++.+++|+.|+|++  |.+.+..+..++++++|+.|+.+++.
T Consensus       638 dLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~--N~l~g~ip~~l~~l~~L~~L~ls~N~  715 (768)
T 3rgz_A          638 DMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSS--NKLDGRIPQAMSALTMLTEIDLSNNN  715 (768)
T ss_dssp             ECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCS--SCCEECCCGGGGGCCCCSEEECCSSE
T ss_pred             ECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCC--CcccCcCChHHhCCCCCCEEECcCCc
Confidence            5532          77888999999999988877774 89999999999998  44666667788888888888777653

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

Probab=99.74  E-value=6.5e-18  Score=195.70  Aligned_cols=122  Identities=21%  Similarity=0.235  Sum_probs=85.7

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccc-ccCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l-~~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~  453 (647)
                      ..+.+.+.+++.+|.  -++++++|+|++|.+..+ |..+.++++|++|++++|.....+ |..|+++++|++|+|++|.
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~   84 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSK   84 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCC
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCc
Confidence            456667777787777  557888888888888775 445677788888888877555555 5567778888888888887


Q ss_pred             CCcc-ccchhcCccCcEEeecccccCCc-Cch-hhhcCCCCCcEEecccc
Q 039519          454 ITHL-PIDLQKLVNLKCLNLQYMYNLNQ-FPR-LVISAFSKLQVLRMFDC  500 (647)
Q Consensus       454 l~~l-p~~~~~l~~L~~L~l~~~~~l~~-lp~-~~i~~l~~L~~L~l~~~  500 (647)
                      ++.+ |..++++++|++|+|++| .+.. +|. ..++.+++|++|++.++
T Consensus        85 l~~~~p~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~~~L~~L~~L~Ls~N  133 (844)
T 3j0a_A           85 IYFLHPDAFQGLFHLFELRLYFC-GLSDAVLKDGYFRNLKALTRLDLSKN  133 (844)
T ss_dssp             CCEECTTSSCSCSSCCCEECTTC-CCSSCCSTTCCCSSCSSCCEEEEESC
T ss_pred             CcccCHhHccCCcccCEeeCcCC-CCCcccccCccccccCCCCEEECCCC
Confidence            7755 667777778888888777 3433 333 23567777777766653

>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=99.74  E-value=1.2e-18  Score=177.30  Aligned_cols=241  Identities=20%  Similarity=0.210  Sum_probs=181.0

Q ss_pred             cceEEecCCCcccCcc--ccccccEEEEEeeccccccc---ccCCCCcceeeEEeccCccccccCccccccccCCCeeee
Q 039519          375 ENFLVHAGFGLTEAPE--IQNWRNVRRMSLMKNKIENL---SELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDL  449 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~--~~~~~~l~~L~l~~n~i~~l---~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L  449 (647)
                      -+.+...+..+..+|.  +..+++|+.|++++|.+..+   +..+..+++|++|++++| .+..+|..+..+++|++|++
T Consensus        30 l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n-~i~~l~~~~~~l~~L~~L~l  108 (306)
T 2z66_A           30 ATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNFLGLEQLEHLDF  108 (306)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSC-SEEEEEEEEETCTTCCEEEC
T ss_pred             CCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCC-ccccChhhcCCCCCCCEEEC
Confidence            4456666677777765  67899999999999998865   344466889999999999 77789988999999999999


Q ss_pred             cCCCCCcccc--chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCC
Q 039519          450 SSTAITHLPI--DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGM  527 (647)
Q Consensus       450 ~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l  527 (647)
                      ++|.++.+|.  .+..+++|++|++++| .+..++...+..+++|++|++.+   |.+..          ...+..++.+
T Consensus       109 ~~n~l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~---n~l~~----------~~~~~~~~~l  174 (306)
T 2z66_A          109 QHSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAG---NSFQE----------NFLPDIFTEL  174 (306)
T ss_dssp             TTSEEESSTTTTTTTTCTTCCEEECTTS-CCEECSTTTTTTCTTCCEEECTT---CEEGG----------GEECSCCTTC
T ss_pred             CCCcccccccchhhhhccCCCEEECCCC-cCCccchhhcccCcCCCEEECCC---Ccccc----------ccchhHHhhC
Confidence            9999998874  7889999999999998 55555554588899999997765   44421          1233457788


Q ss_pred             CCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hcccc-CCc
Q 039519          528 KYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRS-SLS  605 (647)
Q Consensus       528 ~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~-~L~  605 (647)
                      ++|+.|+++.|.++.+.  +.....+++|+.|++++ +.+..+....+..+++|++|+|++|...+.+|. +..++ +|+
T Consensus       175 ~~L~~L~Ls~n~l~~~~--~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~  251 (306)
T 2z66_A          175 RNLTFLDLSQCQLEQLS--PTAFNSLSSLQVLNMSH-NNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLA  251 (306)
T ss_dssp             TTCCEEECTTSCCCEEC--TTTTTTCTTCCEEECTT-SCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCC
T ss_pred             cCCCEEECCCCCcCCcC--HHHhcCCCCCCEEECCC-CccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCC
Confidence            99999999988776531  12233456788888887 567666554578899999999999988777764 77775 999


Q ss_pred             eEEeecccccccccchhhhhhhcCCCCc
Q 039519          606 VHNLFINKNYIHTNQLSILLGINRLPHF  633 (647)
Q Consensus       606 ~L~L~~~~~~~~~~~~~~l~~l~~L~~L  633 (647)
                      +|+|++|+-...+.......++..++.+
T Consensus       252 ~L~L~~N~~~~~c~~~~~~~~l~~~~~~  279 (306)
T 2z66_A          252 FLNLTQNDFACTCEHQSFLQWIKDQRQL  279 (306)
T ss_dssp             EEECTTCCEECSGGGHHHHHHHHHTGGG
T ss_pred             EEEccCCCeecccChHHHHHHHHhhhhh
Confidence            9999997533333333334455544443

>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=99.74  E-value=7.9e-18  Score=180.94  Aligned_cols=223  Identities=15%  Similarity=0.128  Sum_probs=178.9

Q ss_pred             cceEEecCCCcccC--ccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCccc-cccccCCCeeeec
Q 039519          375 ENFLVHAGFGLTEA--PEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~~~--~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~  450 (647)
                      .+.+...+..+..+  ..+..+++|+.|++++|.+..++ ..+.++++|++|++++| .+..+|.. +..+++|++|+|+
T Consensus        77 l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~  155 (452)
T 3zyi_A           77 TRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDN-WLTVIPSGAFEYLSKLRELWLR  155 (452)
T ss_dssp             CSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSBCCTTTSSSCTTCCEEECC
T ss_pred             ccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCC-cCCccChhhhcccCCCCEEECC
Confidence            34566666666654  45788999999999999999976 45688999999999999 67777655 8899999999999


Q ss_pred             CCCCCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCC
Q 039519          451 STAITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKY  529 (647)
Q Consensus       451 ~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~  529 (647)
                      +|.++.+|. .+.++++|++|++++|..+..+|.+.+..+++|+.|++.+   |.+..+|             .+..+++
T Consensus       156 ~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~---n~l~~~~-------------~~~~l~~  219 (452)
T 3zyi_A          156 NNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM---CNIKDMP-------------NLTPLVG  219 (452)
T ss_dssp             SCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTT---SCCSSCC-------------CCTTCTT
T ss_pred             CCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCC---Ccccccc-------------ccccccc
Confidence            999998875 6889999999999998789999987789999999997775   4443322             3678899


Q ss_pred             CcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEE
Q 039519          530 LMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHN  608 (647)
Q Consensus       530 L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~  608 (647)
                      |+.|+++.|.++.+.  +.....+.+|+.|++++ +++..+....+..+++|++|+|++|.+...++. +..+++|+.|+
T Consensus       220 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          220 LEELEMSGNHFPEIR--PGSFHGLSSLKKLWVMN-SQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELH  296 (452)
T ss_dssp             CCEEECTTSCCSEEC--GGGGTTCTTCCEEECTT-SCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEE
T ss_pred             ccEEECcCCcCcccC--cccccCccCCCEEEeCC-CcCceECHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEE
Confidence            999999988876542  22334456788888887 577777666688999999999999977665554 78999999999


Q ss_pred             eeccccccc
Q 039519          609 LFINKNYIH  617 (647)
Q Consensus       609 L~~~~~~~~  617 (647)
                      |++|+-...
T Consensus       297 L~~Np~~Cd  305 (452)
T 3zyi_A          297 LHHNPWNCD  305 (452)
T ss_dssp             CCSSCEECS
T ss_pred             ccCCCcCCC
Confidence            999874333

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.74  E-value=1.2e-17  Score=175.94  Aligned_cols=135  Identities=18%  Similarity=0.273  Sum_probs=110.3

Q ss_pred             cccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCCCccc-cchhcCccCc
Q 039519          392 QNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAITHLP-IDLQKLVNLK  468 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~lp-~~~~~l~~L~  468 (647)
                      ..+++++.|++.+|.+..+|... ..+++|++|++++| .+..+| ..+..+++|++|++++|.++.+| ..++++++|+
T Consensus        42 ~~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  120 (390)
T 3o6n_A           42 ITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLT  120 (390)
T ss_dssp             GGGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             cccCCceEEEecCCchhhCChhHhcccccCcEEECCCC-cccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCC
Confidence            34689999999999999998864 77899999999999 566665 47899999999999999999776 5589999999


Q ss_pred             EEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          469 CLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       469 ~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      +|++++| .+..+|.+.++.+++|++|++.+   |.+..++           +..++.+++|+.|+++.|.++.
T Consensus       121 ~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~---n~l~~~~-----------~~~~~~l~~L~~L~l~~n~l~~  179 (390)
T 3o6n_A          121 VLVLERN-DLSSLPRGIFHNTPKLTTLSMSN---NNLERIE-----------DDTFQATTSLQNLQLSSNRLTH  179 (390)
T ss_dssp             EEECCSS-CCCCCCTTTTTTCTTCCEEECCS---SCCCBCC-----------TTTTSSCTTCCEEECCSSCCSB
T ss_pred             EEECCCC-ccCcCCHHHhcCCCCCcEEECCC---CccCccC-----------hhhccCCCCCCEEECCCCcCCc
Confidence            9999999 78899988668999999998775   4443332           3336677788888887776654

>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=99.74  E-value=2.5e-17  Score=177.79  Aligned_cols=245  Identities=18%  Similarity=0.226  Sum_probs=153.5

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+...+..+..+|.+..+++|++|++++|.+..++. +.++++|++|++++| .+..+|. ++.+++|++|++++|.+
T Consensus        48 l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n-~l~~~~~-~~~l~~L~~L~L~~n~l  124 (466)
T 1o6v_A           48 VTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADITP-LANLTNLTGLTLFNNQI  124 (466)
T ss_dssp             CCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCC
T ss_pred             ccEEecCCCCCccCcchhhhcCCCEEECCCCccCCchh-hhccccCCEEECCCC-ccccChh-hcCCCCCCEEECCCCCC
Confidence            34555666677777888888899999999998888776 688888999999988 6666765 88889999999999988


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccc--------c-ccCCccccHHHhh
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN--------V-LFGGHQVLVEELI  525 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~--------~-~~~~~~~~~~~l~  525 (647)
                      +.+|. ++++++|++|++++| .+..+|.  ++.+++|+.|++.+    .+..+++-        + .....-..+..+.
T Consensus       125 ~~~~~-~~~l~~L~~L~l~~n-~l~~~~~--~~~l~~L~~L~l~~----~~~~~~~~~~l~~L~~L~l~~n~l~~~~~l~  196 (466)
T 1o6v_A          125 TDIDP-LKNLTNLNRLELSSN-TISDISA--LSGLTSLQQLSFGN----QVTDLKPLANLTTLERLDISSNKVSDISVLA  196 (466)
T ss_dssp             CCCGG-GTTCTTCSEEEEEEE-EECCCGG--GTTCTTCSEEEEEE----SCCCCGGGTTCTTCCEEECCSSCCCCCGGGG
T ss_pred             CCChH-HcCCCCCCEEECCCC-ccCCChh--hccCCcccEeecCC----cccCchhhccCCCCCEEECcCCcCCCChhhc
Confidence            88875 888889999999888 5677765  67777777776642    11111100        0 0000011122356


Q ss_pred             CCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeec-----------cCCCceEEEec--------ccccCCccEEEE
Q 039519          526 GMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRC-----------FNDSKSLDIFC--------LACLHNLNKLYV  586 (647)
Q Consensus       526 ~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~-----------~~~L~~L~l~~--------~~~l~~L~~L~L  586 (647)
                      .+++|+.|+++.|.+..+..    ...+++|+.|++++           +++|+.|++..        +..+++|++|+|
T Consensus       197 ~l~~L~~L~l~~n~l~~~~~----~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l  272 (466)
T 1o6v_A          197 KLTNLESLIATNNQISDITP----LGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKL  272 (466)
T ss_dssp             GCTTCSEEECCSSCCCCCGG----GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEEC
T ss_pred             cCCCCCEEEecCCccccccc----ccccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchhhhcCCCCCEEEC
Confidence            66777777777666554322    22344566665554           23444444422        445556666666


Q ss_pred             cCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCCC
Q 039519          587 AGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       587 ~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                      ++|..... +.+..+++|+.|++++|.  +.  .++.++.+++|+.|+..+..
T Consensus       273 ~~n~l~~~-~~~~~l~~L~~L~L~~n~--l~--~~~~~~~l~~L~~L~L~~n~  320 (466)
T 1o6v_A          273 GANQISNI-SPLAGLTALTNLELNENQ--LE--DISPISNLKNLTYLTLYFNN  320 (466)
T ss_dssp             CSSCCCCC-GGGTTCTTCSEEECCSSC--CS--CCGGGGGCTTCSEEECCSSC
T ss_pred             CCCccCcc-ccccCCCccCeEEcCCCc--cc--CchhhcCCCCCCEEECcCCc
Confidence            66644333 335666666666666642  22  12235666667666655443

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

Probab=99.74  E-value=8.1e-18  Score=180.23  Aligned_cols=224  Identities=16%  Similarity=0.147  Sum_probs=179.5

Q ss_pred             ceEEecCCCcccC--ccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecC
Q 039519          376 NFLVHAGFGLTEA--PEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSS  451 (647)
Q Consensus       376 ~~l~~~~~~~~~~--~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~  451 (647)
                      +.+...+..+..+  ..+..+++|+.|+|++|.+..++. .+.++++|++|++++| .+..+|. .+..+++|++|+|++
T Consensus        67 ~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~  145 (440)
T 3zyj_A           67 RLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDN-RLTTIPNGAFVYLSKLKELWLRN  145 (440)
T ss_dssp             SEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSS-CCSSCCTTTSCSCSSCCEEECCS
T ss_pred             cEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCC-cCCeeCHhHhhccccCceeeCCC
Confidence            4455555555554  457889999999999999998764 4688999999999999 6777775 589999999999999


Q ss_pred             CCCCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCC
Q 039519          452 TAITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYL  530 (647)
Q Consensus       452 ~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L  530 (647)
                      |.++.+|. .+.++++|++|++++|..+..++.+.+..+++|++|++.+   |.+..+|             .+..+++|
T Consensus       146 N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~---n~l~~~~-------------~~~~l~~L  209 (440)
T 3zyj_A          146 NPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAM---CNLREIP-------------NLTPLIKL  209 (440)
T ss_dssp             CCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTT---SCCSSCC-------------CCTTCSSC
T ss_pred             CcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCC---CcCcccc-------------ccCCCccc
Confidence            99998875 6889999999999998788899987789999999997775   4443332             36788999


Q ss_pred             cEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEEe
Q 039519          531 MAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNL  609 (647)
Q Consensus       531 ~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L  609 (647)
                      +.|+++.|.++.+.  +.....+.+|+.|+|++ +++..+....+..+++|++|+|++|.+...++. +..+++|+.|+|
T Consensus       210 ~~L~Ls~N~l~~~~--~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  286 (440)
T 3zyj_A          210 DELDLSGNHLSAIR--PGSFQGLMHLQKLWMIQ-SQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHL  286 (440)
T ss_dssp             CEEECTTSCCCEEC--TTTTTTCTTCCEEECTT-CCCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEEC
T ss_pred             CEEECCCCccCccC--hhhhccCccCCEEECCC-CceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEc
Confidence            99999988776542  22334456788888887 577777666688999999999999977666654 789999999999


Q ss_pred             eccccccccc
Q 039519          610 FINKNYIHTN  619 (647)
Q Consensus       610 ~~~~~~~~~~  619 (647)
                      ++|+-..++.
T Consensus       287 ~~Np~~CdC~  296 (440)
T 3zyj_A          287 HHNPWNCNCD  296 (440)
T ss_dssp             CSSCEECSST
T ss_pred             CCCCccCCCC
Confidence            9987444433

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.73  E-value=2.2e-18  Score=193.05  Aligned_cols=202  Identities=17%  Similarity=0.160  Sum_probs=131.0

Q ss_pred             cccccccEEEEEeecccccc------------------cccCCC--CcceeeEEeccCccccccCccccccccCCCeeee
Q 039519          390 EIQNWRNVRRMSLMKNKIEN------------------LSELQP--ALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDL  449 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~------------------l~~~~~--~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L  449 (647)
                      .+.++++|++|++++|.+..                  +|..+.  ++++|++|++++|...+.+|..++++++|++|++
T Consensus       201 ~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  280 (636)
T 4eco_A          201 AVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINV  280 (636)
T ss_dssp             GGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEEC
T ss_pred             HHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEEC
Confidence            46778888888888888888                  888877  8888888888888667788888888888888888


Q ss_pred             cCCC-CC--ccccchhcC------ccCcEEeecccccCCcCch--hhhcCCCCCcEEeccccCCCccc-ccccccccCCc
Q 039519          450 SSTA-IT--HLPIDLQKL------VNLKCLNLQYMYNLNQFPR--LVISAFSKLQVLRMFDCGGSKIE-RLKSNVLFGGH  517 (647)
Q Consensus       450 ~~~~-l~--~lp~~~~~l------~~L~~L~l~~~~~l~~lp~--~~i~~l~~L~~L~l~~~~~n~~~-~~~~~~~~~~~  517 (647)
                      ++|. ++  .+|..++++      ++|++|++++| .+..+|.  . ++.+++|++|++.+   |.+. .+|        
T Consensus       281 s~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n-~l~~ip~~~~-l~~l~~L~~L~L~~---N~l~g~ip--------  347 (636)
T 4eco_A          281 ACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NLKTFPVETS-LQKMKKLGMLECLY---NQLEGKLP--------  347 (636)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSS-CCSSCCCHHH-HTTCTTCCEEECCS---CCCEEECC--------
T ss_pred             cCCCCCccccchHHHHhhhccccCCCCCEEECCCC-cCCccCchhh-hccCCCCCEEeCcC---CcCccchh--------
Confidence            8887 77  488888776      88888888888 6668887  5 78888888887664   4443 222        


Q ss_pred             cccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhc-cceeeeecc--------------CCCceEEEe---------
Q 039519          518 QVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRC-TQFLFLRCF--------------NDSKSLDIF---------  573 (647)
Q Consensus       518 ~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~-l~~l~L~~~--------------~~L~~L~l~---------  573 (647)
                           .++.+++|+.|+++.|.++.+   +.....+.+ |+.|++++.              .+|+.|++.         
T Consensus       348 -----~~~~l~~L~~L~L~~N~l~~l---p~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p  419 (636)
T 4eco_A          348 -----AFGSEIKLASLNLAYNQITEI---PANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDG  419 (636)
T ss_dssp             -----CCEEEEEESEEECCSSEEEEC---CTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTT
T ss_pred             -----hhCCCCCCCEEECCCCccccc---cHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcch
Confidence                 233444444444444433311   111222223 444444331              022222221         


Q ss_pred             -ccc-------ccCCccEEEEcCCCCCCCChh-hccccCCceEEeecc
Q 039519          574 -CLA-------CLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFIN  612 (647)
Q Consensus       574 -~~~-------~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~  612 (647)
                       .+.       .+++|++|+|++|.....++. +..+++|++|+|++|
T Consensus       420 ~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N  467 (636)
T 4eco_A          420 KNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGN  467 (636)
T ss_dssp             CSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSS
T ss_pred             hhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCC
Confidence             123       455777777777765544443 455777777777774

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

Probab=99.73  E-value=2.3e-17  Score=188.53  Aligned_cols=235  Identities=15%  Similarity=0.129  Sum_probs=112.0

Q ss_pred             cEEEEEeeccccccccc--CCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCcc-CcEEee
Q 039519          396 NVRRMSLMKNKIENLSE--LQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVN-LKCLNL  472 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~--~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~-L~~L~l  472 (647)
                      +|+.|++++|.+..+|.  .+.++++|+.|++++| .+..+| .++.+++|++|+|++|.++.+|..+.++++ |++|++
T Consensus       549 ~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N-~l~~lp-~~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~L  626 (876)
T 4ecn_A          549 KIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN-KVRHLE-AFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGF  626 (876)
T ss_dssp             TCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTS-CCCBCC-CCCTTSEESEEECCSSCCSCCCTTSCEECTTCCEEEC
T ss_pred             CccEEEeeCCcCCccCChhhhhcCCCCCEEECCCC-Ccccch-hhcCCCcceEEECcCCccccchHHHhhccccCCEEEC
Confidence            55555555555555554  4455555555555555 333555 555555555555555555555555555555 555555


Q ss_pred             cccccCCcCchhhhcCCCC--CcEEeccccCCCccccccccc-----------------ccCCccccHHH-hhCCCCCcE
Q 039519          473 QYMYNLNQFPRLVISAFSK--LQVLRMFDCGGSKIERLKSNV-----------------LFGGHQVLVEE-LIGMKYLMA  532 (647)
Q Consensus       473 ~~~~~l~~lp~~~i~~l~~--L~~L~l~~~~~n~~~~~~~~~-----------------~~~~~~~~~~~-l~~l~~L~~  532 (647)
                      ++| .+..+|.. +..+..  |+.|++.+   |.+...++.+                 ........+.. +..+++|+.
T Consensus       627 s~N-~L~~lp~~-~~~~~~~~L~~L~Ls~---N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~  701 (876)
T 4ecn_A          627 SHN-KLKYIPNI-FNAKSVYVMGSVDFSY---NKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPIST  701 (876)
T ss_dssp             CSS-CCCSCCSC-CCTTCSSCEEEEECCS---SCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSE
T ss_pred             cCC-CCCcCchh-hhccccCCCCEEECcC---CcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCE
Confidence            555 34455542 333322  44443332   2221111000                 00000112222 235666666


Q ss_pred             EEEEecchhhHHHHhhhh-----hhhhccceeeeeccCCCceEEEeccc--ccCCccEEEEcCCCCCCCChhhccccCCc
Q 039519          533 VTITLKRLQALQELLISQ-----ELQRCTQFLFLRCFNDSKSLDIFCLA--CLHNLNKLYVAGCKHLEDFQMIIQRSSLS  605 (647)
Q Consensus       533 L~l~~~~~~~l~~l~~~~-----~~~~~l~~l~L~~~~~L~~L~l~~~~--~l~~L~~L~L~~~~~~~~~~~~~~l~~L~  605 (647)
                      |+++.|.++.++......     ..+++|+.|+|++ +++..++ ..+.  .+++|+.|+|++|.+.+.++.+..+++|+
T Consensus       702 L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~-N~L~~lp-~~l~~~~l~~L~~L~Ls~N~L~~lp~~l~~L~~L~  779 (876)
T 4ecn_A          702 IILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRF-NKLTSLS-DDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLK  779 (876)
T ss_dssp             EECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCS-SCCCCCC-GGGSTTTCTTCCEEECCSSCCSSCCCGGGGCTTCC
T ss_pred             EECCCCcCCccChHHhccccccccccCCccEEECCC-CCCccch-HHhhhccCCCcCEEEeCCCCCCccchhhhcCCCCC
Confidence            666666554322100000     0112555666655 3444333 2233  66677777777665555333466667777


Q ss_pred             eEEeeccc----ccccccchhhhhhhcCCCCcccCCCC
Q 039519          606 VHNLFINK----NYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       606 ~L~L~~~~----~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                      .|+|++|+    |.+....+..+..+++|+.|+..+..
T Consensus       780 ~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~  817 (876)
T 4ecn_A          780 AFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSND  817 (876)
T ss_dssp             EEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC
T ss_pred             EEECCCCCCcccccccccChHHHhcCCCCCEEECCCCC
Confidence            77776644    33333444456666666666555443

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.72  E-value=1.2e-17  Score=187.10  Aligned_cols=96  Identities=14%  Similarity=0.243  Sum_probs=53.1

Q ss_pred             EEecCCCcccCcc---ccccccEEEEEeeccccc-ccccCCCCcceeeEEeccCccccccCccccccccC-CCeeeecCC
Q 039519          378 LVHAGFGLTEAPE---IQNWRNVRRMSLMKNKIE-NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVS-LEHLDLSST  452 (647)
Q Consensus       378 l~~~~~~~~~~~~---~~~~~~l~~L~l~~n~i~-~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~-L~~L~L~~~  452 (647)
                      +...+..+..+|.   +..+++|+.|++++|.+. .+| .+..+++|++|++++| .+..+|..++.+++ |++|++++|
T Consensus       310 L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~~L~~L~Ls~N  387 (636)
T 4eco_A          310 IYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLAYN-QITEIPANFCGFTEQVENLSFAHN  387 (636)
T ss_dssp             EECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEECCSS-EEEECCTTSEEECTTCCEEECCSS
T ss_pred             EECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEECCCC-ccccccHhhhhhcccCcEEEccCC
Confidence            3334444444443   555556666666666665 455 4455556666666666 44455555666665 666666666


Q ss_pred             CCCccccchhcCc--cCcEEeeccc
Q 039519          453 AITHLPIDLQKLV--NLKCLNLQYM  475 (647)
Q Consensus       453 ~l~~lp~~~~~l~--~L~~L~l~~~  475 (647)
                      .++.+|..++.++  +|++|++++|
T Consensus       388 ~l~~lp~~~~~~~l~~L~~L~Ls~N  412 (636)
T 4eco_A          388 KLKYIPNIFDAKSVSVMSAIDFSYN  412 (636)
T ss_dssp             CCSSCCSCCCTTCSSCEEEEECCSS
T ss_pred             cCcccchhhhhcccCccCEEECcCC
Confidence            6655555544433  5555555555

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

Probab=99.72  E-value=5.4e-18  Score=193.76  Aligned_cols=228  Identities=15%  Similarity=0.101  Sum_probs=149.5

Q ss_pred             ccccccccEEEEEeecccccc------------------cccCCC--CcceeeEEeccCccccccCccccccccCCCeee
Q 039519          389 PEIQNWRNVRRMSLMKNKIEN------------------LSELQP--ALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLD  448 (647)
Q Consensus       389 ~~~~~~~~l~~L~l~~n~i~~------------------l~~~~~--~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~  448 (647)
                      +.+.++++|+.|+|++|.+..                  +|..+.  ++++|++|++++|...+.+|..+++|++|++|+
T Consensus       442 ~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~  521 (876)
T 4ecn_A          442 KAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLN  521 (876)
T ss_dssp             GGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEE
T ss_pred             HHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEE
Confidence            357788899999999999988                  888877  889999999999877888898899999999999


Q ss_pred             ecCCC-CC--ccccchhcCc-------cCcEEeecccccCCcCch--hhhcCCCCCcEEeccccCCCcccccccccccCC
Q 039519          449 LSSTA-IT--HLPIDLQKLV-------NLKCLNLQYMYNLNQFPR--LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGG  516 (647)
Q Consensus       449 L~~~~-l~--~lp~~~~~l~-------~L~~L~l~~~~~l~~lp~--~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~  516 (647)
                      |++|. ++  .+|..+++++       +|++|++++| .+..+|.  . ++.+++|+.|++.+   |.+..+|       
T Consensus       522 Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~-l~~L~~L~~L~Ls~---N~l~~lp-------  589 (876)
T 4ecn_A          522 IACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPASAS-LQKMVKLGLLDCVH---NKVRHLE-------  589 (876)
T ss_dssp             CTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSS-CCCBCCCHHH-HTTCTTCCEEECTT---SCCCBCC-------
T ss_pred             CcCCCCcccccchHHHHhhhhcccccCCccEEEeeCC-cCCccCChhh-hhcCCCCCEEECCC---CCcccch-------
Confidence            99997 87  4888777766       8999999998 6678887  5 88899999987765   4443333       


Q ss_pred             ccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhc-cceeeeeccC--------------CCceEEEec-------
Q 039519          517 HQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRC-TQFLFLRCFN--------------DSKSLDIFC-------  574 (647)
Q Consensus       517 ~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~-l~~l~L~~~~--------------~L~~L~l~~-------  574 (647)
                            .++.+++|+.|+++.|.+..   ++.....+.+ |+.|+|+++.              +|+.|++..       
T Consensus       590 ------~~~~L~~L~~L~Ls~N~l~~---lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~i  660 (876)
T 4ecn_A          590 ------AFGTNVKLTDLKLDYNQIEE---IPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEG  660 (876)
T ss_dssp             ------CCCTTSEESEEECCSSCCSC---CCTTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTS
T ss_pred             ------hhcCCCcceEEECcCCcccc---chHHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCcc
Confidence                  34455555555555554442   2222222333 5555554411              123333211       


Q ss_pred             ------cc--ccCCccEEEEcCCCCCCCChh-hccccCCceEEeecccccccccchhhh-------hhhcCCCCcccCCC
Q 039519          575 ------LA--CLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINKNYIHTNQLSIL-------LGINRLPHFTKSNP  638 (647)
Q Consensus       575 ------~~--~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~~~~~~~~~~~l-------~~l~~L~~L~~~~~  638 (647)
                            +.  .+++|+.|+|++|.+...++. +..+++|+.|+|++|.  +...+...+       .++++|+.|+..+.
T Consensus       661 p~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~--L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N  738 (876)
T 4ecn_A          661 RNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNL--MTSIPENSLKPKDGNYKNTYLLTTIDLRFN  738 (876)
T ss_dssp             SSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCC--CSCCCTTSSSCTTSCCTTGGGCCEEECCSS
T ss_pred             ccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCc--CCccChHHhccccccccccCCccEEECCCC
Confidence                  01  233777888887766544444 4577888888888753  332222122       23347777766554


Q ss_pred             C
Q 039519          639 Y  639 (647)
Q Consensus       639 ~  639 (647)
                      .
T Consensus       739 ~  739 (876)
T 4ecn_A          739 K  739 (876)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.72  E-value=1.4e-17  Score=188.69  Aligned_cols=123  Identities=16%  Similarity=0.142  Sum_probs=89.6

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      ..+.+.+.+++.+|... .+++++|++++|.+..++.. +.++++|++|++++|......|..++++++|++|++++|.+
T Consensus         7 ~~~~cs~~~L~~ip~~~-~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l   85 (680)
T 1ziw_A            7 EVADCSHLKLTQVPDDL-PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL   85 (680)
T ss_dssp             SEEECCSSCCSSCCSCS-CTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCC
T ss_pred             CeeECCCCCcccccccc-CCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCcc
Confidence            45667777777777532 36788888888888876653 57778888888888843333456677888888888888888


Q ss_pred             Ccccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEecccc
Q 039519          455 THLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC  500 (647)
Q Consensus       455 ~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~  500 (647)
                      +.+|. .++++++|++|++++| .+..+|+..++.+++|++|++.++
T Consensus        86 ~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n  131 (680)
T 1ziw_A           86 SQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHN  131 (680)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCCEEECCSS
T ss_pred             CccChhhhccCCCCCEEECCCC-ccCccChhHccccCCCCEEECCCC
Confidence            88775 4788888888888887 566776544777888888866653

>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=99.72  E-value=2.1e-17  Score=166.14  Aligned_cols=220  Identities=16%  Similarity=0.137  Sum_probs=173.4

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCCCcc-ccchhcCccCcEEeeccc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~  475 (647)
                      +.++..++.++.+|..+  .+.|+.|++++| .+..+| ..+..+++|++|++++|.++.+ |..++.+++|++|++++|
T Consensus        14 ~~~~c~~~~l~~ip~~~--~~~l~~L~l~~n-~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n   90 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVGI--PAASQRIFLHGN-RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (285)
T ss_dssp             CEEECCSSCCSSCCTTC--CTTCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             eEEEcCcCCcccCCcCC--CCCceEEEeeCC-cCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCC
Confidence            56788888898888654  357999999999 566665 4689999999999999999977 678999999999999999


Q ss_pred             ccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhc
Q 039519          476 YNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRC  555 (647)
Q Consensus       476 ~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~  555 (647)
                      ..+..++...+..+++|++|++.++   .+           ....+..++.+++|+.|+++.|.++.+..  .....+++
T Consensus        91 ~~l~~~~~~~~~~l~~L~~L~l~~n---~l-----------~~~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~~~l~~  154 (285)
T 1ozn_A           91 AQLRSVDPATFHGLGRLHTLHLDRC---GL-----------QELGPGLFRGLAALQYLYLQDNALQALPD--DTFRDLGN  154 (285)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTS---CC-----------CCCCTTTTTTCTTCCEEECCSSCCCCCCT--TTTTTCTT
T ss_pred             CCccccCHHHhcCCcCCCEEECCCC---cC-----------CEECHhHhhCCcCCCEEECCCCcccccCH--hHhccCCC
Confidence            5488885555889999999987764   44           22333447789999999999887765421  11234567


Q ss_pred             cceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccchhhhhhhcCCCCcc
Q 039519          556 TQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFT  634 (647)
Q Consensus       556 l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~  634 (647)
                      |+.|++++ +++..+....+..+++|++|+|++|......| +++.+++|+.|+|++|  .+...+...+..+++|+.|+
T Consensus       155 L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n--~l~~~~~~~~~~l~~L~~L~  231 (285)
T 1ozn_A          155 LTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN--NLSALPTEALAPLRALQYLR  231 (285)
T ss_dssp             CCEEECCS-SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS--CCSCCCHHHHTTCTTCCEEE
T ss_pred             ccEEECCC-CcccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCC--cCCcCCHHHcccCcccCEEe
Confidence            88888887 57777665558889999999999998777655 5899999999999995  46555666788999999987


Q ss_pred             cCCCC
Q 039519          635 KSNPY  639 (647)
Q Consensus       635 ~~~~~  639 (647)
                      ..++.
T Consensus       232 l~~N~  236 (285)
T 1ozn_A          232 LNDNP  236 (285)
T ss_dssp             CCSSC
T ss_pred             ccCCC
Confidence            76653

>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=99.71  E-value=2.9e-17  Score=182.89  Aligned_cols=134  Identities=18%  Similarity=0.269  Sum_probs=109.4

Q ss_pred             ccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCCCcccc-chhcCccCcE
Q 039519          393 NWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKC  469 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~  469 (647)
                      .+.+++.+++.+|.+..+|... .++++|++|++++| .+..+| ..|+.+++|++|+|++|.++.+|+ .++++++|++
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  127 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTV  127 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCC-CCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCE
Confidence            4678999999999999998764 77899999999999 555554 489999999999999999998875 5699999999


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      |+|++| .+..+|...++.+++|++|++.+   |.+..+           .+..++.+++|+.|+++.|.++.
T Consensus       128 L~L~~n-~l~~l~~~~~~~l~~L~~L~Ls~---N~l~~~-----------~~~~~~~l~~L~~L~L~~N~l~~  185 (597)
T 3oja_B          128 LVLERN-DLSSLPRGIFHNTPKLTTLSMSN---NNLERI-----------EDDTFQATTSLQNLQLSSNRLTH  185 (597)
T ss_dssp             EECCSS-CCCCCCTTTTTTCTTCCEEECCS---SCCCBC-----------CTTTTTTCTTCCEEECTTSCCSB
T ss_pred             EEeeCC-CCCCCCHHHhccCCCCCEEEeeC---CcCCCC-----------ChhhhhcCCcCcEEECcCCCCCC
Confidence            999999 78899988678999999998775   444333           33346677778888877666554

>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=99.71  E-value=3.6e-17  Score=182.76  Aligned_cols=122  Identities=14%  Similarity=0.182  Sum_probs=86.7

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      ..+.+.+.+++.+|.-. .+.+++|++++|.++.++ ..+.++++|++|++++|......|..|+++++|++|++++|.+
T Consensus        15 ~~~~c~~~~l~~iP~~l-~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l   93 (606)
T 3t6q_A           15 KTYNCENLGLNEIPGTL-PNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPL   93 (606)
T ss_dssp             TEEECTTSCCSSCCTTS-CTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC
T ss_pred             ceEECCCCCcccCcCCC-CCcCcEEEccCCccCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCCcc
Confidence            35666677777776522 357888888888887764 4567788888888888843344466778888888888888887


Q ss_pred             Ccc-ccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          455 THL-PIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       455 ~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +.+ |..++++++|++|++++| .+..++...++.+++|++|++.+
T Consensus        94 ~~~~~~~~~~l~~L~~L~L~~n-~i~~l~~~~~~~l~~L~~L~L~~  138 (606)
T 3t6q_A           94 IFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGS  138 (606)
T ss_dssp             SEECTTTTSSCTTCCEEECTTS-CCSCGGGSCCTTCTTCCEEECCS
T ss_pred             cccChhhhcccccccEeecccc-CcccCCcchhccCCcccEEECCC
Confidence            755 567778888888888887 56666443467777888876654

>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=99.71  E-value=3.3e-17  Score=176.30  Aligned_cols=124  Identities=15%  Similarity=0.211  Sum_probs=89.7

Q ss_pred             cceEEecCCCcccC--ccccccccEEEEEeeccccc-ccc-cCCCCcceeeEEeccCccccccCccccccccCCCeeeec
Q 039519          375 ENFLVHAGFGLTEA--PEIQNWRNVRRMSLMKNKIE-NLS-ELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~~~--~~~~~~~~l~~L~l~~n~i~-~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~  450 (647)
                      -+.+...+..+...  ..+..+++|++|++++|.+. .++ ..+.++++|++|++++|......|..++++++|++|+++
T Consensus        32 l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  111 (455)
T 3v47_A           32 VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLT  111 (455)
T ss_dssp             CCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECT
T ss_pred             cCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhhccCcccCCEEeCC
Confidence            44555555555554  35777888888888888875 453 446788888888888884444447778888888888888


Q ss_pred             CCCCCc-cccc--hhcCccCcEEeecccccCCcC-chhhhcCCCCCcEEeccc
Q 039519          451 STAITH-LPID--LQKLVNLKCLNLQYMYNLNQF-PRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       451 ~~~l~~-lp~~--~~~l~~L~~L~l~~~~~l~~l-p~~~i~~l~~L~~L~l~~  499 (647)
                      +|.++. .|..  ++++++|++|++++| .+..+ |...++.+++|++|++.+
T Consensus       112 ~n~l~~~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~l~~L~~L~L~~  163 (455)
T 3v47_A          112 QCNLDGAVLSGNFFKPLTSLEMLVLRDN-NIKKIQPASFFLNMRRFHVLDLTF  163 (455)
T ss_dssp             TSCCBTHHHHSSTTTTCTTCCEEECCSS-BCCSCCCCGGGGGCTTCCEEECTT
T ss_pred             CCCCCccccCcccccCcccCCEEECCCC-ccCccCcccccCCCCcccEEeCCC
Confidence            888874 4444  788888888888888 45555 544467888888887664

>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=99.71  E-value=7.2e-17  Score=161.43  Aligned_cols=226  Identities=15%  Similarity=0.081  Sum_probs=168.7

Q ss_pred             eEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+.+..+..+|... .+++++|++++|.+..++. .+.++++|++|++++| .+..++. .+..+++|++|++++|.+
T Consensus        11 ~~~c~~~~l~~ip~~l-~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l   88 (276)
T 2z62_A           11 TYQCMELNFYKIPDNL-PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPI   88 (276)
T ss_dssp             EEECTTSCCSSCCSSS-CTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCC
T ss_pred             eEEecCCCccccCCCC-CCCccEEECCCCcccccCHhHhccccCCcEEECCCC-cCCccCHHHccCCcCCCEEECCCCcc
Confidence            4566777777777632 3689999999999999876 5688999999999999 5666554 689999999999999999


Q ss_pred             Cccc-cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEE
Q 039519          455 THLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAV  533 (647)
Q Consensus       455 ~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  533 (647)
                      +.++ ..+.++++|++|++++| .+..++...++.+++|++|++.+   |.+..          ...+..++.+++|+.|
T Consensus        89 ~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~---n~l~~----------~~l~~~~~~l~~L~~L  154 (276)
T 2z62_A           89 QSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH---NLIQS----------FKLPEYFSNLTNLEHL  154 (276)
T ss_dssp             CEECTTTTTTCTTCCEEECTTS-CCCCSTTCCCTTCTTCCEEECCS---SCCCC----------CCCCGGGGGCTTCCEE
T ss_pred             CccChhhhcCCccccEEECCCC-CccccCchhcccCCCCCEEECcC---Cccce----------ecCchhhccCCCCCEE
Confidence            9776 67899999999999998 67777774488899999997775   44321          1234568889999999


Q ss_pred             EEEecchhhHHHHhhhhhhhhccc----eeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEE
Q 039519          534 TITLKRLQALQELLISQELQRCTQ----FLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHN  608 (647)
Q Consensus       534 ~l~~~~~~~l~~l~~~~~~~~~l~----~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~  608 (647)
                      +++.|.++.+..  .....+..++    .+++++ +.+..+....+. ..+|++|+|++|.....++. +..+++|+.|+
T Consensus       155 ~Ls~N~l~~~~~--~~~~~l~~L~~l~l~L~ls~-n~l~~~~~~~~~-~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  230 (276)
T 2z62_A          155 DLSSNKIQSIYC--TDLRVLHQMPLLNLSLDLSL-NPMNFIQPGAFK-EIRLKELALDTNQLKSVPDGIFDRLTSLQKIW  230 (276)
T ss_dssp             ECCSSCCCEECG--GGGHHHHTCTTCCEEEECCS-SCCCEECTTSSC-SCCEEEEECCSSCCSCCCTTTTTTCCSCCEEE
T ss_pred             ECCCCCCCcCCH--HHhhhhhhccccceeeecCC-CcccccCccccC-CCcccEEECCCCceeecCHhHhcccccccEEE
Confidence            999887765321  1122233444    667766 566666533233 44899999999987666665 78999999999


Q ss_pred             eecccccccccchh
Q 039519          609 LFINKNYIHTNQLS  622 (647)
Q Consensus       609 L~~~~~~~~~~~~~  622 (647)
                      |++|+-...++.+.
T Consensus       231 l~~N~~~c~c~~l~  244 (276)
T 2z62_A          231 LHTNPWDCSCPRID  244 (276)
T ss_dssp             CCSSCBCCCTTTTH
T ss_pred             ccCCcccccCCchH
Confidence            99976443433333

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

Probab=99.71  E-value=5.1e-17  Score=174.26  Aligned_cols=200  Identities=19%  Similarity=0.192  Sum_probs=143.0

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      -+.+...+..+..+|.+..+++|++|++++|.+..+|  +..+++|++|++++| .+..+|  ++.+++|++|++++|.+
T Consensus        44 L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N-~l~~~~--~~~l~~L~~L~L~~N~l  118 (457)
T 3bz5_A           44 LTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSN-KLTNLD--VTPLTKLTYLNCDTNKL  118 (457)
T ss_dssp             CCEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSS-CCSCCC--CTTCTTCCEEECCSSCC
T ss_pred             CCEEEccCCCcccChhhcccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCC-CCceee--cCCCCcCCEEECCCCcC
Confidence            3456666667777788888899999999999998875  678888999999999 666665  88899999999999999


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                      +.+|  ++.+++|++|++++| .+..+|   ++.+++|+.|++.++..  +            +..  .++.+++|+.|+
T Consensus       119 ~~l~--~~~l~~L~~L~l~~N-~l~~l~---l~~l~~L~~L~l~~n~~--~------------~~~--~~~~l~~L~~L~  176 (457)
T 3bz5_A          119 TKLD--VSQNPLLTYLNCARN-TLTEID---VSHNTQLTELDCHLNKK--I------------TKL--DVTPQTQLTTLD  176 (457)
T ss_dssp             SCCC--CTTCTTCCEEECTTS-CCSCCC---CTTCTTCCEEECTTCSC--C------------CCC--CCTTCTTCCEEE
T ss_pred             Ceec--CCCCCcCCEEECCCC-ccceec---cccCCcCCEEECCCCCc--c------------ccc--ccccCCcCCEEE
Confidence            8886  788899999999988 667774   67888888887765422  1            111  256677788888


Q ss_pred             EEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          535 ITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       535 l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                      ++.|.++.++     ....++|+.|.+++ +++..++   ++.+++|++|+|++|...+ +| ++.+++|++|++++|
T Consensus       177 ls~n~l~~l~-----l~~l~~L~~L~l~~-N~l~~~~---l~~l~~L~~L~Ls~N~l~~-ip-~~~l~~L~~L~l~~N  243 (457)
T 3bz5_A          177 CSFNKITELD-----VSQNKLLNRLNCDT-NNITKLD---LNQNIQLTFLDCSSNKLTE-ID-VTPLTQLTYFDCSVN  243 (457)
T ss_dssp             CCSSCCCCCC-----CTTCTTCCEEECCS-SCCSCCC---CTTCTTCSEEECCSSCCSC-CC-CTTCTTCSEEECCSS
T ss_pred             CCCCccceec-----cccCCCCCEEECcC-CcCCeec---cccCCCCCEEECcCCcccc-cC-ccccCCCCEEEeeCC
Confidence            8777666542     22334566666655 3444442   5566677777777665444 44 666667777777664

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.71  E-value=3.6e-17  Score=163.01  Aligned_cols=199  Identities=22%  Similarity=0.219  Sum_probs=123.5

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~  453 (647)
                      ..+.+.+..++.+|... .++++.|++++|.+..++. .+.++++|++|++++| .+..+|.. +..+++|++|++++|.
T Consensus        19 ~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~i~~~~~~~l~~L~~L~l~~n~   96 (270)
T 2o6q_A           19 NSVDCSSKKLTAIPSNI-PADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDN-KLQTLPAGIFKELKNLETLWVTDNK   96 (270)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSS-CCSCCCTTTTSSCTTCCEEECCSSC
T ss_pred             CEEEccCCCCCccCCCC-CCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCC-ccCeeChhhhcCCCCCCEEECCCCc
Confidence            34555555666655422 2466777777777766654 3466667777777776 45555544 3566777777777777


Q ss_pred             CCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcE
Q 039519          454 ITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA  532 (647)
Q Consensus       454 l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  532 (647)
                      ++.+|. .+..+++|++|++++| .+..+|...++.+++|++|++.+   |.+..++..           .++.+++|+.
T Consensus        97 l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~---n~l~~~~~~-----------~~~~l~~L~~  161 (270)
T 2o6q_A           97 LQALPIGVFDQLVNLAELRLDRN-QLKSLPPRVFDSLTKLTYLSLGY---NELQSLPKG-----------VFDKLTSLKE  161 (270)
T ss_dssp             CCCCCTTTTTTCSSCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCS---SCCCCCCTT-----------TTTTCTTCCE
T ss_pred             CCcCCHhHcccccCCCEEECCCC-ccCeeCHHHhCcCcCCCEEECCC---CcCCccCHh-----------HccCCcccce
Confidence            766653 3466677777777766 55666655456666676665554   333222221           2445556666


Q ss_pred             EEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEEeec
Q 039519          533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFI  611 (647)
Q Consensus       533 L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~  611 (647)
                      |+++.|                           .+..+....+..+++|++|+|++|.....++. +..+++|+.|+|++
T Consensus       162 L~L~~n---------------------------~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~  214 (270)
T 2o6q_A          162 LRLYNN---------------------------QLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQE  214 (270)
T ss_dssp             EECCSS---------------------------CCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             eEecCC---------------------------cCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecC
Confidence            665533                           33333323367788999999999976665554 88899999999999


Q ss_pred             ccccccc
Q 039519          612 NKNYIHT  618 (647)
Q Consensus       612 ~~~~~~~  618 (647)
                      |+-...+
T Consensus       215 N~~~c~c  221 (270)
T 2o6q_A          215 NPWDCTC  221 (270)
T ss_dssp             SCBCCSS
T ss_pred             CCeeCCC
Confidence            7644443

>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=99.71  E-value=3e-17  Score=166.87  Aligned_cols=191  Identities=17%  Similarity=0.207  Sum_probs=113.7

Q ss_pred             cccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEe
Q 039519          392 QNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLN  471 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  471 (647)
                      ..+++++.|++.+|.+..++ .+..+++|++|++++| .+..+|. +..+++|++|++++|.++.+| .+..+++|++|+
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~-~~~~l~~L~~L~L~~n-~i~~~~~-~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~  113 (308)
T 1h6u_A           38 ADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLD  113 (308)
T ss_dssp             HHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEE
T ss_pred             HHcCCcCEEEeeCCCccCch-hhhccCCCCEEEccCC-cCCCChh-HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEE
Confidence            34556666666666666554 3455566666666666 5555554 666666666666666666654 466666666666


Q ss_pred             ecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhh
Q 039519          472 LQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQE  551 (647)
Q Consensus       472 l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~  551 (647)
                      +++| .+..+|.  +..+++|++|++.++   .+..++             .++.+++|+.|+++.|.++.+..    ..
T Consensus       114 l~~n-~l~~~~~--l~~l~~L~~L~l~~n---~l~~~~-------------~l~~l~~L~~L~l~~n~l~~~~~----l~  170 (308)
T 1h6u_A          114 LTST-QITDVTP--LAGLSNLQVLYLDLN---QITNIS-------------PLAGLTNLQYLSIGNAQVSDLTP----LA  170 (308)
T ss_dssp             CTTS-CCCCCGG--GTTCTTCCEEECCSS---CCCCCG-------------GGGGCTTCCEEECCSSCCCCCGG----GT
T ss_pred             CCCC-CCCCchh--hcCCCCCCEEECCCC---ccCcCc-------------cccCCCCccEEEccCCcCCCChh----hc
Confidence            6666 4555554  566666666655442   221111             15556666666666555544322    22


Q ss_pred             hhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccc
Q 039519          552 LQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK  613 (647)
Q Consensus       552 ~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~  613 (647)
                      .+.+|+.|++++ +++..+.  .+..+++|++|+|++|.....+ .+..+++|+.|+|++|+
T Consensus       171 ~l~~L~~L~l~~-n~l~~~~--~l~~l~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          171 NLSKLTTLKADD-NKISDIS--PLASLPNLIEVHLKNNQISDVS-PLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             TCTTCCEEECCS-SCCCCCG--GGGGCTTCCEEECTTSCCCBCG-GGTTCTTCCEEEEEEEE
T ss_pred             CCCCCCEEECCC-CccCcCh--hhcCCCCCCEEEccCCccCccc-cccCCCCCCEEEccCCe
Confidence            233455555554 3444332  2677888999999988655444 58888999999998854

>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=99.70  E-value=1.5e-16  Score=171.61  Aligned_cols=245  Identities=16%  Similarity=0.207  Sum_probs=123.9

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      +.+...+..+...+.+..+++|++|++++|.+..++. +.++++|++|++++| .+..+|. +..+++|++|++++|.++
T Consensus        71 ~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n-~l~~~~~-~~~l~~L~~L~l~~n~l~  147 (466)
T 1o6v_A           71 TQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLFNN-QITDIDP-LKNLTNLNRLELSSNTIS  147 (466)
T ss_dssp             CEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCSEEEEEEEEEC
T ss_pred             CEEECCCCccCCchhhhccccCCEEECCCCccccChh-hcCCCCCCEEECCCC-CCCCChH-HcCCCCCCEEECCCCccC
Confidence            3455555555555556666677777777776666555 566666667777666 5555553 666666666666666655


Q ss_pred             cccc--------------------chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccc----
Q 039519          456 HLPI--------------------DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN----  511 (647)
Q Consensus       456 ~lp~--------------------~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~----  511 (647)
                      .+|.                    .++++++|++|++++| .+..++.  +..+++|++|++.++.   +..+++.    
T Consensus       148 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~l~~n~---l~~~~~~~~l~  221 (466)
T 1o6v_A          148 DISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSN-KVSDISV--LAKLTNLESLIATNNQ---ISDITPLGILT  221 (466)
T ss_dssp             CCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSS-CCCCCGG--GGGCTTCSEEECCSSC---CCCCGGGGGCT
T ss_pred             CChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCC-cCCCChh--hccCCCCCEEEecCCc---ccccccccccC
Confidence            5442                    1344455555555555 3444443  4555555555444322   2111110    


Q ss_pred             -c----ccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeec-----------cCCCceEEEec-
Q 039519          512 -V----LFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRC-----------FNDSKSLDIFC-  574 (647)
Q Consensus       512 -~----~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~-----------~~~L~~L~l~~-  574 (647)
                       +    ..+..-.....+..+++|+.|+++.|.+..+..    ....++|+.|++++           +++|+.|++.. 
T Consensus       222 ~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~----~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n  297 (466)
T 1o6v_A          222 NLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP----LSGLTKLTELKLGANQISNISPLAGLTALTNLELNEN  297 (466)
T ss_dssp             TCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGG----GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSS
T ss_pred             CCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchh----hhcCCCCCEEECCCCccCccccccCCCccCeEEcCCC
Confidence             0    000000111235556666666666555444322    12233455555443           22444444422 


Q ss_pred             -------ccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCC
Q 039519          575 -------LACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNP  638 (647)
Q Consensus       575 -------~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~  638 (647)
                             +..+++|++|+|++|...+.+| ++.+++|+.|++++|+  +..  .+.+..+++|+.|+..+.
T Consensus       298 ~l~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~~n~--l~~--~~~l~~l~~L~~L~l~~n  363 (466)
T 1o6v_A          298 QLEDISPISNLKNLTYLTLYFNNISDISP-VSSLTKLQRLFFYNNK--VSD--VSSLANLTNINWLSAGHN  363 (466)
T ss_dssp             CCSCCGGGGGCTTCSEEECCSSCCSCCGG-GGGCTTCCEEECCSSC--CCC--CGGGTTCTTCCEEECCSS
T ss_pred             cccCchhhcCCCCCCEEECcCCcCCCchh-hccCccCCEeECCCCc--cCC--chhhccCCCCCEEeCCCC
Confidence                   4455566666666664433333 5566666666666642  221  234556666666655443

>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=99.70  E-value=4.9e-17  Score=186.35  Aligned_cols=226  Identities=14%  Similarity=0.070  Sum_probs=170.5

Q ss_pred             cccEEEEEeecccccc-cccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcCccCcEEe
Q 039519          394 WRNVRRMSLMKNKIEN-LSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLN  471 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~-l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~  471 (647)
                      +++++.|++.+|.+.. +|..+.++++|++|++++|.....+|..++.+++|++|++++|.++ .+|..++.+++|++|+
T Consensus       393 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~  472 (768)
T 3rgz_A          393 KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLI  472 (768)
T ss_dssp             TCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEE
T ss_pred             cCCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEE
Confidence            5678888888888874 6666777888888888888555577888888888888888888887 7788888888888888


Q ss_pred             ecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhh
Q 039519          472 LQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQE  551 (647)
Q Consensus       472 l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~  551 (647)
                      +++|.....+|.. ++.+++|+.|++.++.   +           .+..+..++.+++|+.|+++.|.+.+.  ++....
T Consensus       473 L~~N~l~~~~p~~-l~~l~~L~~L~L~~N~---l-----------~~~~p~~~~~l~~L~~L~L~~N~l~~~--~p~~l~  535 (768)
T 3rgz_A          473 LDFNDLTGEIPSG-LSNCTNLNWISLSNNR---L-----------TGEIPKWIGRLENLAILKLSNNSFSGN--IPAELG  535 (768)
T ss_dssp             CCSSCCCSCCCGG-GGGCTTCCEEECCSSC---C-----------CSCCCGGGGGCTTCCEEECCSSCCEEE--CCGGGG
T ss_pred             ecCCcccCcCCHH-HhcCCCCCEEEccCCc---c-----------CCcCChHHhcCCCCCEEECCCCcccCc--CCHHHc
Confidence            8888544467776 7888888888776543   3           455666788899999999998877532  233344


Q ss_pred             hhhccceeeeeccCCCc-eE------------------------------------------------------------
Q 039519          552 LQRCTQFLFLRCFNDSK-SL------------------------------------------------------------  570 (647)
Q Consensus       552 ~~~~l~~l~L~~~~~L~-~L------------------------------------------------------------  570 (647)
                      .+++|+.|++++++ +. .+                                                            
T Consensus       536 ~l~~L~~L~Ls~N~-l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  614 (768)
T 3rgz_A          536 DCRSLIWLDLNTNL-FNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCN  614 (768)
T ss_dssp             GCTTCCEEECCSSE-EESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSC
T ss_pred             CCCCCCEEECCCCc-cCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccc
Confidence            45677777776521 11 00                                                            


Q ss_pred             ----EE-----ecccccCCccEEEEcCCCCCCCChh-hccccCCceEEeecccccccccchhhhhhhcCCCCcccCCCC
Q 039519          571 ----DI-----FCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       571 ----~l-----~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                          .+     ..+..+++|+.|+|++|.+.+.+|. ++.+++|+.|+|++  |.+....+..++++++|+.|+.+++.
T Consensus       615 l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~--N~l~g~ip~~l~~L~~L~~LdLs~N~  691 (768)
T 3rgz_A          615 ITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGH--NDISGSIPDEVGDLRGLNILDLSSNK  691 (768)
T ss_dssp             TTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCS--SCCCSCCCGGGGGCTTCCEEECCSSC
T ss_pred             cccceecccCchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcC--CccCCCCChHHhCCCCCCEEECCCCc
Confidence                00     1145578999999999998888874 99999999999999  55777777889999999999887654

>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=99.70  E-value=5.6e-17  Score=181.18  Aligned_cols=248  Identities=16%  Similarity=0.140  Sum_probs=131.9

Q ss_pred             EEecCCCcccCcc--ccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCC
Q 039519          378 LVHAGFGLTEAPE--IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       378 l~~~~~~~~~~~~--~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l  454 (647)
                      +...+..+..++.  +..+++|++|++++|.+..+|..+.++++|++|++++| .+..+ |..++.+++|++|++++|.+
T Consensus       259 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~~  337 (606)
T 3t6q_A          259 INLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKGNTK  337 (606)
T ss_dssp             EECTTCCCSSCCTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTC-CCSBGGGGCGGGCTTCSEEECCSCSS
T ss_pred             EEeecCccCccCHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccC-CcCcCchhhhhccCcCCEEECCCCCc
Confidence            3334444444433  56667777777777777777777777777777777777 34333 45667777777777777766


Q ss_pred             C-ccccc-hhcCccCcEEeecccccCCcCc--hhhhcCCCCCcEEeccccCCCcccccccccccC------------C-c
Q 039519          455 T-HLPID-LQKLVNLKCLNLQYMYNLNQFP--RLVISAFSKLQVLRMFDCGGSKIERLKSNVLFG------------G-H  517 (647)
Q Consensus       455 ~-~lp~~-~~~l~~L~~L~l~~~~~l~~lp--~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~------------~-~  517 (647)
                      . .+|.. ++.+++|++|++++| .+..++  ...++.+++|++|++.+   |.+..+++..+..            . .
T Consensus       338 ~~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~~l~~L~~L~l~~---n~l~~~~~~~~~~l~~L~~L~l~~n~l~  413 (606)
T 3t6q_A          338 RLELGTGCLENLENLRELDLSHD-DIETSDCCNLQLRNLSHLQSLNLSY---NEPLSLKTEAFKECPQLELLDLAFTRLK  413 (606)
T ss_dssp             CCBCCSSTTTTCTTCCEEECCSS-CCCEEEESTTTTTTCTTCCEEECCS---CSCEEECTTTTTTCTTCSEEECTTCCEE
T ss_pred             ccccchhhhhccCcCCEEECCCC-ccccccCcchhcccCCCCCEEECCC---CcCCcCCHHHhcCCccCCeEECCCCcCC
Confidence            5 55543 666777777777776 444442  11256666777765554   3332222211100            0 0


Q ss_pred             cccH-HHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEE---ecccccCCccEEEEcCCCCCC
Q 039519          518 QVLV-EELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDI---FCLACLHNLNKLYVAGCKHLE  593 (647)
Q Consensus       518 ~~~~-~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l---~~~~~l~~L~~L~L~~~~~~~  593 (647)
                      ...+ ..++.+++|+.|+++.|.+....  +.....+++|+.|+++++ ++....+   ..+..+++|++|+|++|...+
T Consensus       414 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~  490 (606)
T 3t6q_A          414 VKDAQSPFQNLHLLKVLNLSHSLLDISS--EQLFDGLPALQHLNLQGN-HFPKGNIQKTNSLQTLGRLEILVLSFCDLSS  490 (606)
T ss_dssp             CCTTCCTTTTCTTCCEEECTTCCCBTTC--TTTTTTCTTCCEEECTTC-BCGGGEECSSCGGGGCTTCCEEECTTSCCCE
T ss_pred             CcccchhhhCcccCCEEECCCCccCCcC--HHHHhCCCCCCEEECCCC-CCCccccccchhhccCCCccEEECCCCccCc
Confidence            1111 12556667777777665544321  111222345555555542 2322111   124555666666666665544


Q ss_pred             CCh-hhccccCCceEEeecccccccccchhhhhhhcCCCCcccC
Q 039519          594 DFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKS  636 (647)
Q Consensus       594 ~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~  636 (647)
                      .+| .++.+++|+.|+|++|  .+....+..+.+++.| .|+..
T Consensus       491 ~~~~~~~~l~~L~~L~Ls~N--~l~~~~~~~l~~l~~L-~L~L~  531 (606)
T 3t6q_A          491 IDQHAFTSLKMMNHVDLSHN--RLTSSSIEALSHLKGI-YLNLA  531 (606)
T ss_dssp             ECTTTTTTCTTCCEEECCSS--CCCGGGGGGGTTCCSC-EEECC
T ss_pred             cChhhhccccCCCEEECCCC--ccCcCChhHhCccccc-EEECc
Confidence            444 3566666666666663  2333344445555555 44433

>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=99.70  E-value=1.8e-16  Score=177.01  Aligned_cols=122  Identities=20%  Similarity=0.243  Sum_probs=86.4

Q ss_pred             cceEEecCCCcccCc--cccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccC-ccccccccCCCeeeec
Q 039519          375 ENFLVHAGFGLTEAP--EIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~--~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~  450 (647)
                      -+.+...+..++.++  .+.++++|++|++++|.+..++ ..+.++++|++|++++| .+..+ |..|+++++|++|+++
T Consensus        34 l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n-~l~~~~p~~~~~l~~L~~L~L~  112 (606)
T 3vq2_A           34 TKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGN-PIQSFSPGSFSGLTSLENLVAV  112 (606)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC-CCCCCCTTSSTTCTTCCEEECT
T ss_pred             cCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCC-cccccChhhcCCcccCCEEEcc
Confidence            344555555555543  3667778888888888877764 34577788888888888 44444 6677888888888888


Q ss_pred             CCCCCccc-cchhcCccCcEEeecccccCC--cCchhhhcCCCCCcEEeccc
Q 039519          451 STAITHLP-IDLQKLVNLKCLNLQYMYNLN--QFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       451 ~~~l~~lp-~~~~~l~~L~~L~l~~~~~l~--~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +|.++.+| ..++++++|++|++++| .+.  .+|.. ++++++|++|++.+
T Consensus       113 ~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~lp~~-~~~l~~L~~L~Ls~  162 (606)
T 3vq2_A          113 ETKLASLESFPIGQLITLKKLNVAHN-FIHSCKLPAY-FSNLTNLVHVDLSY  162 (606)
T ss_dssp             TSCCCCSSSSCCTTCTTCCEEECCSS-CCCCCCCCGG-GGTCTTCCEEECCS
T ss_pred             CCccccccccccCCCCCCCEEeCCCC-cccceechHh-HhhcCCCCEEEccC
Confidence            88887666 56778888888888887 444  46765 77888888886665

>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=99.70  E-value=1.2e-16  Score=175.04  Aligned_cols=118  Identities=21%  Similarity=0.234  Sum_probs=76.0

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~  453 (647)
                      +.+...+..++.+|.... +++++|++++|.+..++. .+.++++|++|++++| .+..+ |..|+++++|++|++++|.
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~N~   80 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNYISELWTSDILSLSKLRILIISHN-RIQYLDISVFKFNQELEYLDLSHNK   80 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSS-CCCEEEGGGGTTCTTCCEEECCSSC
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCcccccChhhccccccccEEecCCC-ccCCcChHHhhcccCCCEEecCCCc
Confidence            345555666666664222 677777777777766553 4566777777777777 34443 5567777777777777777


Q ss_pred             CCccccchhcCccCcEEeecccccCCc--CchhhhcCCCCCcEEeccc
Q 039519          454 ITHLPIDLQKLVNLKCLNLQYMYNLNQ--FPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       454 l~~lp~~~~~l~~L~~L~l~~~~~l~~--lp~~~i~~l~~L~~L~l~~  499 (647)
                      ++.+|..  .+++|++|++++| .+..  +|.. ++.+++|++|++.+
T Consensus        81 l~~lp~~--~l~~L~~L~L~~N-~l~~~~~p~~-~~~l~~L~~L~L~~  124 (520)
T 2z7x_B           81 LVKISCH--PTVNLKHLDLSFN-AFDALPICKE-FGNMSQLKFLGLST  124 (520)
T ss_dssp             CCEEECC--CCCCCSEEECCSS-CCSSCCCCGG-GGGCTTCCEEEEEE
T ss_pred             eeecCcc--ccCCccEEeccCC-ccccccchhh-hccCCcceEEEecC
Confidence            7777755  6777777777776 4443  4454 66777777776665

>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=99.69  E-value=5.1e-17  Score=163.52  Aligned_cols=197  Identities=21%  Similarity=0.187  Sum_probs=114.3

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      .+.+.+.+++.+|... .++++.|++++|.+..++ ..+.++++|++|++++| .+..+|.. +.+++|++|++++|.++
T Consensus        14 ~l~~~~~~l~~ip~~~-~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~-~~l~~L~~L~Ls~N~l~   90 (290)
T 1p9a_G           14 EVNCDKRNLTALPPDL-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQVD-GTLPVLGTLDLSHNQLQ   90 (290)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEECC-SCCTTCCEEECCSSCCS
T ss_pred             EEECCCCCCCcCCCCC-CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCC-ccCcccCC-CCCCcCCEEECCCCcCC
Confidence            3444455555554322 245666666666665543 23455566666666666 44444432 55666666666666666


Q ss_pred             ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEE
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTI  535 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  535 (647)
                      .+|..+..+++|++|++++| .+..+|.+.+..+++|++|++.+   |++..+++.+           +..+++|+.|++
T Consensus        91 ~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~l~~L~~L~L~~---N~l~~~~~~~-----------~~~l~~L~~L~L  155 (290)
T 1p9a_G           91 SLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKG---NELKTLPPGL-----------LTPTPKLEKLSL  155 (290)
T ss_dssp             SCCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTT---SCCCCCCTTT-----------TTTCTTCCEEEC
T ss_pred             cCchhhccCCCCCEEECCCC-cCcccCHHHHcCCCCCCEEECCC---CCCCccChhh-----------cccccCCCEEEC
Confidence            66655666666666666665 45555544455566666664443   3333332221           334444555544


Q ss_pred             EecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccccc
Q 039519          536 TLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNY  615 (647)
Q Consensus       536 ~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  615 (647)
                      +                          + +++..++...+..+++|++|+|++|.+...++.+..+++|+.|+|++|+-.
T Consensus       156 ~--------------------------~-N~l~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          156 A--------------------------N-NNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             T--------------------------T-SCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCCBC
T ss_pred             C--------------------------C-CcCCccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeCCCCcc
Confidence            4                          3 345544433467789999999999977655556777889999999997744


Q ss_pred             ccc
Q 039519          616 IHT  618 (647)
Q Consensus       616 ~~~  618 (647)
                      ..+
T Consensus       209 C~c  211 (290)
T 1p9a_G          209 CNC  211 (290)
T ss_dssp             CSG
T ss_pred             CcC
Confidence            443

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

Probab=99.69  E-value=9.2e-17  Score=165.11  Aligned_cols=217  Identities=18%  Similarity=0.179  Sum_probs=165.5

Q ss_pred             cEEEEEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCcc-ccchhcCccCcEEeec
Q 039519          396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQ  473 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~  473 (647)
                      +++.++++++.++.+|..++  +.+++|++++| .+..+|. .++.+++|++|++++|.++.+ |..++++++|++|+++
T Consensus        32 ~l~~l~~~~~~l~~lp~~~~--~~l~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls  108 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDLP--PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS  108 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSCC--TTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCeEEEecCCCccccCccCC--CCCeEEECCCC-cCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECC
Confidence            67889999999999887654  57899999999 6666665 689999999999999999977 7889999999999999


Q ss_pred             ccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhh
Q 039519          474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQ  553 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~  553 (647)
                      +| .+..+|.. +  .++|++|++.+   |.+           .......+..+++|+.|+++.|.+......+.....+
T Consensus       109 ~n-~l~~l~~~-~--~~~L~~L~l~~---n~l-----------~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l  170 (330)
T 1xku_A          109 KN-QLKELPEK-M--PKTLQELRVHE---NEI-----------TKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGM  170 (330)
T ss_dssp             SS-CCSBCCSS-C--CTTCCEEECCS---SCC-----------CBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGC
T ss_pred             CC-cCCccChh-h--cccccEEECCC---Ccc-----------cccCHhHhcCCccccEEECCCCcCCccCcChhhccCC
Confidence            98 78899986 3  37999998775   444           3444556889999999999988765422122223344


Q ss_pred             hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccchhhhhhhcCCCC
Q 039519          554 RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPH  632 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~  632 (647)
                      ++|+.|.+++ +++..++.   ..+++|++|+|++|......| .+..+++|++|+|++|  .+.......+..+++|+.
T Consensus       171 ~~L~~L~l~~-n~l~~l~~---~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n--~l~~~~~~~~~~l~~L~~  244 (330)
T 1xku_A          171 KKLSYIRIAD-TNITTIPQ---GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN--SISAVDNGSLANTPHLRE  244 (330)
T ss_dssp             TTCCEEECCS-SCCCSCCS---SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSS--CCCEECTTTGGGSTTCCE
T ss_pred             CCcCEEECCC-CccccCCc---cccccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCC--cCceeChhhccCCCCCCE
Confidence            5667777766 34554442   224899999999997766655 5899999999999995  455555556888888888


Q ss_pred             cccCCCC
Q 039519          633 FTKSNPY  639 (647)
Q Consensus       633 L~~~~~~  639 (647)
                      |+..+..
T Consensus       245 L~L~~N~  251 (330)
T 1xku_A          245 LHLNNNK  251 (330)
T ss_dssp             EECCSSC
T ss_pred             EECCCCc
Confidence            8766554

>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=99.69  E-value=3e-16  Score=173.50  Aligned_cols=98  Identities=24%  Similarity=0.304  Sum_probs=67.9

Q ss_pred             cceEEecCCCcccCc--cccccccEEEEEeeccccccc-ccCCCCcceeeEEeccCccccccCccccccccCCCeeeecC
Q 039519          375 ENFLVHAGFGLTEAP--EIQNWRNVRRMSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSS  451 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~--~~~~~~~l~~L~l~~n~i~~l-~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~  451 (647)
                      -+.+...+..+..++  .+..+++|++|++++|.++.+ |..+.++++|++|++++| .+..+|..  .+++|++|++++
T Consensus        54 L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~--~l~~L~~L~Ls~  130 (562)
T 3a79_B           54 TKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHN-RLQNISCC--PMASLRHLDLSF  130 (562)
T ss_dssp             CCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTS-CCCEECSC--CCTTCSEEECCS
T ss_pred             cCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCC-cCCccCcc--ccccCCEEECCC
Confidence            344555555555554  466777777777777777776 344577777777777777 56677755  677777777777


Q ss_pred             CCCCccc--cchhcCccCcEEeeccc
Q 039519          452 TAITHLP--IDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       452 ~~l~~lp--~~~~~l~~L~~L~l~~~  475 (647)
                      |.++.+|  ..++++++|++|++++|
T Consensus       131 N~l~~l~~p~~~~~l~~L~~L~L~~n  156 (562)
T 3a79_B          131 NDFDVLPVCKEFGNLTKLTFLGLSAA  156 (562)
T ss_dssp             SCCSBCCCCGGGGGCTTCCEEEEECS
T ss_pred             CCccccCchHhhcccCcccEEecCCC
Confidence            7777654  56777777777777776

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

Probab=99.68  E-value=1.3e-17  Score=169.87  Aligned_cols=225  Identities=15%  Similarity=0.095  Sum_probs=161.8

Q ss_pred             cEEEEEeecccccc--cccCCC-------CcceeeEEeccCccccccCcccc--ccccCCCeeeecCCCCCccccchhcC
Q 039519          396 NVRRMSLMKNKIEN--LSELQP-------ALTFFLFFNMSNNHLLWKLPLGI--STLVSLEHLDLSSTAITHLPIDLQKL  464 (647)
Q Consensus       396 ~l~~L~l~~n~i~~--l~~~~~-------~l~~L~~L~l~~~~~~~~lp~~~--~~L~~L~~L~L~~~~l~~lp~~~~~l  464 (647)
                      .++.|++++|.+..  +|....       ++++|++|++++|.....+|..+  +.+++|++|++++|.++.+|..++.+
T Consensus        64 ~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l  143 (312)
T 1wwl_A           64 IIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAEL  143 (312)
T ss_dssp             HHHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHH
T ss_pred             HHhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHH
Confidence            37778888888754  333323       57889999999995445778776  88999999999999999888888877


Q ss_pred             -----ccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHh--hCCCCCcEEEEEe
Q 039519          465 -----VNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL--IGMKYLMAVTITL  537 (647)
Q Consensus       465 -----~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l--~~l~~L~~L~l~~  537 (647)
                           ++|++|++++| .+..++...++.+++|++|++.++   ++.+         ....+..+  +.+++|+.|+++.
T Consensus       144 ~~~~~~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N---~l~~---------~~~~~~~~~~~~l~~L~~L~L~~  210 (312)
T 1wwl_A          144 QQWLKPGLKVLSIAQA-HSLNFSCEQVRVFPALSTLDLSDN---PELG---------ERGLISALCPLKFPTLQVLALRN  210 (312)
T ss_dssp             HTTCCTTCCEEEEESC-SCCCCCTTTCCCCSSCCEEECCSC---TTCH---------HHHHHHHSCTTSCTTCCEEECTT
T ss_pred             HHhhcCCCcEEEeeCC-CCccchHHHhccCCCCCEEECCCC---CcCc---------chHHHHHHHhccCCCCCEEECCC
Confidence                 89999999998 677777545888999999977653   3211         01123334  7888999999998


Q ss_pred             cchhhHHHHhhhh-hhhhccceeeeeccCCCceEE-EecccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccccc
Q 039519          538 KRLQALQELLISQ-ELQRCTQFLFLRCFNDSKSLD-IFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNY  615 (647)
Q Consensus       538 ~~~~~l~~l~~~~-~~~~~l~~l~L~~~~~L~~L~-l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  615 (647)
                      |.++.+..+.... ..+++|+.|++++ +++.... ...+..+++|++|+|++|.+...++++.  ++|++|+|++|  .
T Consensus       211 N~l~~~~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~--~~L~~L~Ls~N--~  285 (312)
T 1wwl_A          211 AGMETPSGVCSALAAARVQLQGLDLSH-NSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLP--AKLSVLDLSYN--R  285 (312)
T ss_dssp             SCCCCHHHHHHHHHHTTCCCSEEECTT-SCCCSSCCCSCCCCCTTCCEEECTTSCCSSCCSSCC--SEEEEEECCSS--C
T ss_pred             CcCcchHHHHHHHHhcCCCCCEEECCC-CcCCcccchhhhhhcCCCCEEECCCCccChhhhhcc--CCceEEECCCC--C
Confidence            8888665544332 3446788888887 5666543 3345668999999999997664444455  88999999995  3


Q ss_pred             ccccchhhhhhhcCCCCcccCCCCc
Q 039519          616 IHTNQLSILLGINRLPHFTKSNPYH  640 (647)
Q Consensus       616 ~~~~~~~~l~~l~~L~~L~~~~~~~  640 (647)
                      +...  +.+..+++|+.|+..++.+
T Consensus       286 l~~~--p~~~~l~~L~~L~L~~N~l  308 (312)
T 1wwl_A          286 LDRN--PSPDELPQVGNLSLKGNPF  308 (312)
T ss_dssp             CCSC--CCTTTSCEEEEEECTTCTT
T ss_pred             CCCC--hhHhhCCCCCEEeccCCCC
Confidence            4433  3377888888887776543

>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=99.68  E-value=3.4e-16  Score=171.42  Aligned_cols=116  Identities=15%  Similarity=0.126  Sum_probs=76.6

Q ss_pred             HHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeec--------------cCCCceEEEec-------cccc-
Q 039519          521 VEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRC--------------FNDSKSLDIFC-------LACL-  578 (647)
Q Consensus       521 ~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~--------------~~~L~~L~l~~-------~~~l-  578 (647)
                      +..++.+++|+.|+++.|.++.+..++.....+++|+.|++++              +++|++|++..       ...+ 
T Consensus       341 ~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~  420 (520)
T 2z7x_B          341 FENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLP  420 (520)
T ss_dssp             TTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSSCCCGGGGGSCC
T ss_pred             hhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCCCCCcchhhhhc
Confidence            4556777888888888888877766655555566777777765              23455555533       1222 


Q ss_pred             CCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCC
Q 039519          579 HNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNP  638 (647)
Q Consensus       579 ~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~  638 (647)
                      ++|+.|+|++|.....++.+..+++|++|+|++|  .+...+...+..+++|+.|+..+.
T Consensus       421 ~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L~~N--~l~~l~~~~~~~l~~L~~L~l~~N  478 (520)
T 2z7x_B          421 PRIKVLDLHSNKIKSIPKQVVKLEALQELNVASN--QLKSVPDGIFDRLTSLQKIWLHTN  478 (520)
T ss_dssp             TTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS--CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             ccCCEEECCCCcccccchhhhcCCCCCEEECCCC--cCCccCHHHhccCCcccEEECcCC
Confidence            5888888888866544445678888888888885  344333334777888887766654

>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=99.68  E-value=7e-17  Score=157.83  Aligned_cols=204  Identities=13%  Similarity=0.111  Sum_probs=143.6

Q ss_pred             cccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecC-CCCCccc-cc
Q 039519          385 LTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSS-TAITHLP-ID  460 (647)
Q Consensus       385 ~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~-~~l~~lp-~~  460 (647)
                      ++.+|.  -..+++.|++++|+++.+|. .+.++++|++|++++|..++.+|. .+.++++|++|++++ |.++.+| ..
T Consensus        23 l~~ip~--~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~  100 (239)
T 2xwt_C           23 IQRIPS--LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDA  100 (239)
T ss_dssp             CSSCCC--CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTS
T ss_pred             ccccCC--CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHH
Confidence            677777  34589999999999999887 468899999999999943777765 688999999999998 8999887 46


Q ss_pred             hhcCccCcEEeecccccCCcCchhhhcCCCCCc---EEeccccCCC-cccccccccccCCccccHHHhhCCCCCc-EEEE
Q 039519          461 LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQ---VLRMFDCGGS-KIERLKSNVLFGGHQVLVEELIGMKYLM-AVTI  535 (647)
Q Consensus       461 ~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~---~L~l~~~~~n-~~~~~~~~~~~~~~~~~~~~l~~l~~L~-~L~l  535 (647)
                      +.++++|++|++++| .+..+|.  ++.+++|+   .|++.+   | .+..++..           .++.+++|+ .|++
T Consensus       101 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          101 LKELPLLKFLGIFNT-GLKMFPD--LTKVYSTDIFFILEITD---NPYMTSIPVN-----------AFQGLCNETLTLKL  163 (239)
T ss_dssp             EECCTTCCEEEEEEE-CCCSCCC--CTTCCBCCSEEEEEEES---CTTCCEECTT-----------TTTTTBSSEEEEEC
T ss_pred             hCCCCCCCEEeCCCC-CCccccc--cccccccccccEEECCC---CcchhhcCcc-----------cccchhcceeEEEc
Confidence            789999999999998 6788987  78888888   776654   5 55444432           366788888 8888


Q ss_pred             EecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEeccccc-CCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          536 TLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACL-HNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       536 ~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l-~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                      +.|.++.++.   ......+|+.|++++..++..+....+..+ ++|+.|+|++|.....++.  .+++|+.|+++++
T Consensus       164 ~~n~l~~i~~---~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l~~~--~~~~L~~L~l~~~  236 (239)
T 2xwt_C          164 YNNGFTSVQG---YAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSK--GLEHLKELIARNT  236 (239)
T ss_dssp             CSCCCCEECT---TTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCCCCT--TCTTCSEEECTTC
T ss_pred             CCCCCcccCH---hhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCccccCChh--HhccCceeeccCc
Confidence            8666554321   111113566666665334665554445556 6666666666644433322  4556666666554

>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=99.68  E-value=1.7e-16  Score=174.97  Aligned_cols=124  Identities=18%  Similarity=0.223  Sum_probs=84.7

Q ss_pred             ceEEecCCCcccC--ccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCccc-cccccCCCeeeecC
Q 039519          376 NFLVHAGFGLTEA--PEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSS  451 (647)
Q Consensus       376 ~~l~~~~~~~~~~--~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~  451 (647)
                      +.+...+..++..  ..+..+++|++|++++|.+..++ ..+.++++|++|++++| .+..+|+. ++++++|++|++++
T Consensus        29 ~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~  107 (549)
T 2z81_A           29 KSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN-HLSSLSSSWFGPLSSLKYLNLMG  107 (549)
T ss_dssp             CEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-CCCSCCHHHHTTCTTCCEEECTT
T ss_pred             cEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCC-ccCccCHHHhccCCCCcEEECCC
Confidence            3444444444443  34667778888888888877765 34577777888888887 55555544 77788888888888


Q ss_pred             CCCCc--cccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEecccc
Q 039519          452 TAITH--LPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC  500 (647)
Q Consensus       452 ~~l~~--lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~  500 (647)
                      |.++.  .|..++++++|++|++++|..+..+|...++.+++|++|++.++
T Consensus       108 n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n  158 (549)
T 2z81_A          108 NPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKAL  158 (549)
T ss_dssp             CCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEET
T ss_pred             CcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCC
Confidence            87774  45667778888888888775466676544677777777766653

>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=99.68  E-value=6.1e-16  Score=171.07  Aligned_cols=119  Identities=20%  Similarity=0.253  Sum_probs=102.0

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~  453 (647)
                      ..+.+.+.+++.+|... ++++++|++++|.+..++. .+.++++|++|++++| .+..+ |..|+++++|++|++++|.
T Consensus        34 ~~l~ls~~~L~~ip~~~-~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~  111 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKDL-PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHN-RIRSLDFHVFLFNQDLEYLDVSHNR  111 (562)
T ss_dssp             CEEECTTSCCCSCCTTS-CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECTTSC
T ss_pred             cEEEcCCCCCccCCCCC-CCCcCEEECCCCCccccChhhhccCCCccEEECCCC-CCCcCCHHHhCCCCCCCEEECCCCc
Confidence            56778888888888632 3799999999999999874 6799999999999999 55555 6779999999999999999


Q ss_pred             CCccccchhcCccCcEEeecccccCCcCc--hhhhcCCCCCcEEecccc
Q 039519          454 ITHLPIDLQKLVNLKCLNLQYMYNLNQFP--RLVISAFSKLQVLRMFDC  500 (647)
Q Consensus       454 l~~lp~~~~~l~~L~~L~l~~~~~l~~lp--~~~i~~l~~L~~L~l~~~  500 (647)
                      ++.+|..  .+++|++|++++| .+..+|  .. ++.+++|++|++.+.
T Consensus       112 l~~lp~~--~l~~L~~L~Ls~N-~l~~l~~p~~-~~~l~~L~~L~L~~n  156 (562)
T 3a79_B          112 LQNISCC--PMASLRHLDLSFN-DFDVLPVCKE-FGNLTKLTFLGLSAA  156 (562)
T ss_dssp             CCEECSC--CCTTCSEEECCSS-CCSBCCCCGG-GGGCTTCCEEEEECS
T ss_pred             CCccCcc--ccccCCEEECCCC-CccccCchHh-hcccCcccEEecCCC
Confidence            9999987  8999999999999 677765  44 899999999988763

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.68  E-value=2.2e-17  Score=178.67  Aligned_cols=226  Identities=15%  Similarity=0.116  Sum_probs=133.1

Q ss_pred             eEEecCCCcccCc--cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAP--EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~--~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      .+...+..+..++  .+..+++|+.|+|++|.+...++ +..+++|++|++++| .+..+|.    .++|++|++++|.+
T Consensus        38 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N-~l~~l~~----~~~L~~L~L~~N~l  111 (487)
T 3oja_A           38 ELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNN-YVQELLV----GPSIETLHAANNNI  111 (487)
T ss_dssp             EEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCSS-EEEEEEE----CTTCCEEECCSSCC
T ss_pred             EEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecCC-cCCCCCC----CCCcCEEECcCCcC
Confidence            3444444444433  45566666666666666665444 566666666666666 4544442    26666777777666


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhh-CCCCCcEE
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELI-GMKYLMAV  533 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~-~l~~L~~L  533 (647)
                      +.+|..  .+++|++|++++| .+..+++..++.+++|++|++.+   |.+           .+..+..+. .+++|+.|
T Consensus       112 ~~~~~~--~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~---N~l-----------~~~~~~~l~~~l~~L~~L  174 (487)
T 3oja_A          112 SRVSCS--RGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKL---NEI-----------DTVNFAELAASSDTLEHL  174 (487)
T ss_dssp             CCEEEC--CCSSCEEEECCSS-CCCSGGGBCGGGGSSEEEEECTT---SCC-----------CEEEGGGGGGGTTTCCEE
T ss_pred             CCCCcc--ccCCCCEEECCCC-CCCCCCchhhcCCCCCCEEECCC---CCC-----------CCcChHHHhhhCCcccEE
Confidence            665532  4567777777776 45555443366667777775554   333           222333343 56777777


Q ss_pred             EEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccc
Q 039519          534 TITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK  613 (647)
Q Consensus       534 ~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~  613 (647)
                      +++.|.++.+..    ...+++|+.|+|++ +++..++. .+..+++|+.|+|++|.+.+.+++++.+++|+.|++++|+
T Consensus       175 ~Ls~N~l~~~~~----~~~l~~L~~L~Ls~-N~l~~~~~-~~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l~~N~  248 (487)
T 3oja_A          175 NLQYNFIYDVKG----QVVFAKLKTLDLSS-NKLAFMGP-EFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNG  248 (487)
T ss_dssp             ECTTSCCCEEEC----CCCCTTCCEEECCS-SCCCEECG-GGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECTTCC
T ss_pred             ecCCCccccccc----cccCCCCCEEECCC-CCCCCCCH-hHcCCCCccEEEecCCcCcccchhhccCCCCCEEEcCCCC
Confidence            777776655411    11245677777776 45665542 3677788888888887666555567777888888888753


Q ss_pred             cccc-ccchhhhhhhcCCCCc
Q 039519          614 NYIH-TNQLSILLGINRLPHF  633 (647)
Q Consensus       614 ~~~~-~~~~~~l~~l~~L~~L  633 (647)
                        +. ......+..++.|..|
T Consensus       249 --l~c~~~~~~~~~l~~L~~l  267 (487)
T 3oja_A          249 --FHCGTLRDFFSKNQRVQTV  267 (487)
T ss_dssp             --BCHHHHHHHHTTCHHHHHH
T ss_pred             --CcCcchHHHHHhCCCCcEE
Confidence              33 2222334445544443

>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=99.68  E-value=5.9e-17  Score=181.01  Aligned_cols=240  Identities=19%  Similarity=0.171  Sum_probs=139.3

Q ss_pred             EEecCCCcccCccccccccEEEEEeeccccccccc--------------------CCCCcceeeEEeccCccccccC---
Q 039519          378 LVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE--------------------LQPALTFFLFFNMSNNHLLWKL---  434 (647)
Q Consensus       378 l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~--------------------~~~~l~~L~~L~l~~~~~~~~l---  434 (647)
                      +...+..+..+|.+..+++++.|++.+|.+..+|.                    .+..+++|++|++++| .+...   
T Consensus       290 L~l~~~~~~~l~~l~~~~~L~~L~l~~n~l~~lp~~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n-~l~~~~~~  368 (606)
T 3vq2_A          290 MSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRN-ALSFSGCC  368 (606)
T ss_dssp             EEEESCCCCCCCCCCTTCCCSEEEEESCCCSSCCCCCCSSCCEEEEESCSSCEECCCCCCTTCCEEECCSS-CEEEEEEC
T ss_pred             EEecCccchhhhhccccccCCEEEcccccCcccccCCCCccceeeccCCcCccchhhccCCCCCEEECcCC-ccCCCcch
Confidence            33344444444445555555555555555544442                    1234455555555555 33322   


Q ss_pred             ccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccc
Q 039519          435 PLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVL  513 (647)
Q Consensus       435 p~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~  513 (647)
                      |..+..+++|++|++++|.++.+|..+..+++|++|++++| .+..++. ..+..+++|++|++.++.   +        
T Consensus       369 ~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~---l--------  436 (606)
T 3vq2_A          369 SYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHS-TLKRVTEFSAFLSLEKLLYLDISYTN---T--------  436 (606)
T ss_dssp             CHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTS-EEESTTTTTTTTTCTTCCEEECTTSC---C--------
T ss_pred             hhhhccCCcccEeECCCCccccchhhccCCCCCCeeECCCC-ccCCccChhhhhccccCCEEECcCCC---C--------
Confidence            44555666666666666666666655666666666666665 3333322 225556666666554432   2        


Q ss_pred             cCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCC
Q 039519          514 FGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLE  593 (647)
Q Consensus       514 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~  593 (647)
                         ....+..++.+++|+.|+++.|.+... .++.....+++|+.|++++ +++..+....+..+++|++|+|++|...+
T Consensus       437 ---~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~  511 (606)
T 3vq2_A          437 ---KIDFDGIFLGLTSLNTLKMAGNSFKDN-TLSNVFANTTNLTFLDLSK-CQLEQISWGVFDTLHRLQLLNMSHNNLLF  511 (606)
T ss_dssp             ---EECCTTTTTTCTTCCEEECTTCEEGGG-EECSCCTTCTTCCEEECTT-SCCCEECTTTTTTCTTCCEEECCSSCCSC
T ss_pred             ---CccchhhhcCCCCCCEEECCCCcCCCc-chHHhhccCCCCCEEECCC-CcCCccChhhhcccccCCEEECCCCcCCC
Confidence               333444567778888888876665431 0122223445677777776 35665554457888899999999887766


Q ss_pred             CCh-hhccccCCceEEeecccccccccchhhhhhhc-CCCCcccCCC
Q 039519          594 DFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGIN-RLPHFTKSNP  638 (647)
Q Consensus       594 ~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~-~L~~L~~~~~  638 (647)
                      .+| .++.+++|+.|+|++|.  +...+. .+..++ +|+.|+..++
T Consensus       512 ~~~~~~~~l~~L~~L~l~~N~--l~~~p~-~~~~l~~~L~~l~l~~N  555 (606)
T 3vq2_A          512 LDSSHYNQLYSLSTLDCSFNR--IETSKG-ILQHFPKSLAFFNLTNN  555 (606)
T ss_dssp             EEGGGTTTCTTCCEEECTTSC--CCCEES-CGGGSCTTCCEEECCSC
T ss_pred             cCHHHccCCCcCCEEECCCCc--CcccCH-hHhhhcccCcEEEccCC
Confidence            655 48888899999998853  442222 267776 5887766554

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.67  E-value=3e-17  Score=167.64  Aligned_cols=228  Identities=15%  Similarity=0.118  Sum_probs=147.3

Q ss_pred             ceEEecCCCcccCc--cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAP--EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~--~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~  453 (647)
                      +.+...+..+...+  .+..+++|+.|++++|.+..++. +..+++|++|++++| .+..+|    ..++|++|++++|.
T Consensus        37 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n-~l~~l~----~~~~L~~L~l~~n~  110 (317)
T 3o53_A           37 KELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNN-YVQELL----VGPSIETLHAANNN  110 (317)
T ss_dssp             SEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCSS-EEEEEE----ECTTCCEEECCSSC
T ss_pred             CEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcCC-cccccc----CCCCcCEEECCCCc
Confidence            34444555555543  46667777777777777776554 567777777777777 555444    33677777777777


Q ss_pred             CCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHh-hCCCCCcE
Q 039519          454 ITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL-IGMKYLMA  532 (647)
Q Consensus       454 l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l-~~l~~L~~  532 (647)
                      ++.+|..  .+++|++|++++| .+..+++..++.+++|++|++.+   |.+..           ..+..+ ..+++|+.
T Consensus       111 l~~~~~~--~~~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~Ls~---N~l~~-----------~~~~~~~~~l~~L~~  173 (317)
T 3o53_A          111 ISRVSCS--RGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKL---NEIDT-----------VNFAELAASSDTLEH  173 (317)
T ss_dssp             CSEEEEC--CCSSCEEEECCSS-CCCSGGGBCTGGGSSEEEEECTT---SCCCE-----------EEGGGGGGGTTTCCE
T ss_pred             cCCcCcc--ccCCCCEEECCCC-CCCCccchhhhccCCCCEEECCC---CCCCc-----------ccHHHHhhccCcCCE
Confidence            7766543  3677888888887 66666654466777777776654   44422           222333 35778888


Q ss_pred             EEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       533 L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                      |+++.|.++.+..    ...+.+|+.|++++ +++..+.. .+..+++|++|+|++|.....++.+..+++|+.|+|++|
T Consensus       174 L~L~~N~l~~~~~----~~~l~~L~~L~Ls~-N~l~~l~~-~~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L~~L~l~~N  247 (317)
T 3o53_A          174 LNLQYNFIYDVKG----QVVFAKLKTLDLSS-NKLAFMGP-EFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGN  247 (317)
T ss_dssp             EECTTSCCCEEEC----CCCCTTCCEEECCS-SCCCEECG-GGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECTTC
T ss_pred             EECCCCcCccccc----ccccccCCEEECCC-CcCCcchh-hhcccCcccEEECcCCcccchhhHhhcCCCCCEEEccCC
Confidence            8888777665421    11255677777776 56666542 377788888888888866654445788888888888885


Q ss_pred             ccccc-ccchhhhhhhcCCCCcc
Q 039519          613 KNYIH-TNQLSILLGINRLPHFT  634 (647)
Q Consensus       613 ~~~~~-~~~~~~l~~l~~L~~L~  634 (647)
                      +  +. ......+..++.|+.|.
T Consensus       248 ~--~~~~~~~~~~~~~~~L~~l~  268 (317)
T 3o53_A          248 G--FHCGTLRDFFSKNQRVQTVA  268 (317)
T ss_dssp             C--CBHHHHHHHHHTCHHHHHHH
T ss_pred             C--ccCcCHHHHHhccccceEEE
Confidence            4  33 23334455555555543

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

Probab=99.67  E-value=1.8e-16  Score=163.11  Aligned_cols=251  Identities=17%  Similarity=0.192  Sum_probs=175.1

Q ss_pred             cceEEecCCCcccCc--cccccccEEEEEeeccccccc-ccCCCCcceeeEEeccCccccccCccccccccCCCeeeecC
Q 039519          375 ENFLVHAGFGLTEAP--EIQNWRNVRRMSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSS  451 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~--~~~~~~~l~~L~l~~n~i~~l-~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~  451 (647)
                      -+.+...+..+..++  .+..+++|++|++++|.+..+ |..+.++++|++|++++| .+..+|..+.  ++|++|++++
T Consensus        56 l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~--~~L~~L~l~~  132 (332)
T 2ft3_A           56 TTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKN-HLVEIPPNLP--SSLVELRIHD  132 (332)
T ss_dssp             CCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSS-CCCSCCSSCC--TTCCEEECCS
T ss_pred             CeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCC-cCCccCcccc--ccCCEEECCC
Confidence            344555555665553  477888999999999999886 556788899999999999 7778887765  7899999999


Q ss_pred             CCCCcccc-chhcCccCcEEeecccccCCc--CchhhhcCCCCCcEEeccccCCCccccccccccc----------CCcc
Q 039519          452 TAITHLPI-DLQKLVNLKCLNLQYMYNLNQ--FPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLF----------GGHQ  518 (647)
Q Consensus       452 ~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~--lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~----------~~~~  518 (647)
                      |.++.+|. .++.+++|++|++++| .+..  ++...+..+ +|+.|++.   .|.+..+|.....          ....
T Consensus       133 n~i~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~~l-~L~~L~l~---~n~l~~l~~~~~~~L~~L~l~~n~i~~  207 (332)
T 2ft3_A          133 NRIRKVPKGVFSGLRNMNCIEMGGN-PLENSGFEPGAFDGL-KLNYLRIS---EAKLTGIPKDLPETLNELHLDHNKIQA  207 (332)
T ss_dssp             SCCCCCCSGGGSSCSSCCEEECCSC-CCBGGGSCTTSSCSC-CCSCCBCC---SSBCSSCCSSSCSSCSCCBCCSSCCCC
T ss_pred             CccCccCHhHhCCCccCCEEECCCC-ccccCCCCcccccCC-ccCEEECc---CCCCCccCccccCCCCEEECCCCcCCc
Confidence            99998875 4788999999999988 4432  222225555 66666554   3555555543210          0122


Q ss_pred             ccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-
Q 039519          519 VLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-  597 (647)
Q Consensus       519 ~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-  597 (647)
                      ..+..+..+++|+.|+++.|.++.+..  .....+.+|+.|++++ +++..++ ..+..+++|++|+|++|.....++. 
T Consensus       208 ~~~~~l~~l~~L~~L~L~~N~l~~~~~--~~~~~l~~L~~L~L~~-N~l~~lp-~~l~~l~~L~~L~l~~N~l~~~~~~~  283 (332)
T 2ft3_A          208 IELEDLLRYSKLYRLGLGHNQIRMIEN--GSLSFLPTLRELHLDN-NKLSRVP-AGLPDLKLLQVVYLHTNNITKVGVND  283 (332)
T ss_dssp             CCTTSSTTCTTCSCCBCCSSCCCCCCT--TGGGGCTTCCEEECCS-SCCCBCC-TTGGGCTTCCEEECCSSCCCBCCTTS
T ss_pred             cCHHHhcCCCCCCEEECCCCcCCcCCh--hHhhCCCCCCEEECCC-CcCeecC-hhhhcCccCCEEECCCCCCCccChhH
Confidence            233557788999999999887765421  1233456788888887 5677554 3378899999999999976655543 


Q ss_pred             hcc------ccCCceEEeecccccccccchhhhhhhcCCCCcccCC
Q 039519          598 IIQ------RSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       598 ~~~------l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                      +..      .++|+.|++++|+..........+..+++|+.++..+
T Consensus       284 ~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~  329 (332)
T 2ft3_A          284 FCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGN  329 (332)
T ss_dssp             SSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC--
T ss_pred             ccccccccccccccceEeecCcccccccCcccccccchhhhhhccc
Confidence            433      4779999999976433344455678888888886654

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.66  E-value=9.3e-17  Score=173.78  Aligned_cols=215  Identities=16%  Similarity=0.125  Sum_probs=167.5

Q ss_pred             ccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEe
Q 039519          393 NWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLN  471 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  471 (647)
                      .+++|+.|++++|.+..++ ..+.++++|++|++++| .+...++ ++.+++|++|+|++|.++.+|.    .++|++|+
T Consensus        32 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~~----~~~L~~L~  105 (487)
T 3oja_A           32 SAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD-LESLSTLRTLDLNNNYVQELLV----GPSIETLH  105 (487)
T ss_dssp             TGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTS-CCEEEEE-CTTCTTCCEEECCSSEEEEEEE----CTTCCEEE
T ss_pred             cCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCC-CCCCCcc-cccCCCCCEEEecCCcCCCCCC----CCCcCEEE
Confidence            4458999999999999875 46689999999999999 5655554 9999999999999999998874    38999999


Q ss_pred             ecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhh-
Q 039519          472 LQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ-  550 (647)
Q Consensus       472 l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~-  550 (647)
                      +++| .+..+|.   ..+++|+.|++.+   |.+           .+..+..++.+++|+.|+++.|.++...  +... 
T Consensus       106 L~~N-~l~~~~~---~~l~~L~~L~L~~---N~l-----------~~~~~~~~~~l~~L~~L~Ls~N~l~~~~--~~~l~  165 (487)
T 3oja_A          106 AANN-NISRVSC---SRGQGKKNIYLAN---NKI-----------TMLRDLDEGCRSRVQYLDLKLNEIDTVN--FAELA  165 (487)
T ss_dssp             CCSS-CCCCEEE---CCCSSCEEEECCS---SCC-----------CSGGGBCGGGGSSEEEEECTTSCCCEEE--GGGGG
T ss_pred             CcCC-cCCCCCc---cccCCCCEEECCC---CCC-----------CCCCchhhcCCCCCCEEECCCCCCCCcC--hHHHh
Confidence            9998 6777775   3578899997765   444           2333334677899999999988876532  1111 


Q ss_pred             hhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCC
Q 039519          551 ELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRL  630 (647)
Q Consensus       551 ~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L  630 (647)
                      ..+++|+.|+|++ +.+..+.  ....+++|++|+|++|.+.+.+|.+..+++|+.|+|++|.  +.. .+..++.+++|
T Consensus       166 ~~l~~L~~L~Ls~-N~l~~~~--~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~N~--l~~-lp~~l~~l~~L  239 (487)
T 3oja_A          166 ASSDTLEHLNLQY-NFIYDVK--GQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNK--LVL-IEKALRFSQNL  239 (487)
T ss_dssp             GGTTTCCEEECTT-SCCCEEE--CCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSC--CCE-ECTTCCCCTTC
T ss_pred             hhCCcccEEecCC-Ccccccc--ccccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEecCCc--Ccc-cchhhccCCCC
Confidence            2456899999988 5677664  3556999999999999888777789999999999999963  443 23347778888


Q ss_pred             CCcccCCCC
Q 039519          631 PHFTKSNPY  639 (647)
Q Consensus       631 ~~L~~~~~~  639 (647)
                      +.|+..++.
T Consensus       240 ~~L~l~~N~  248 (487)
T 3oja_A          240 EHFDLRGNG  248 (487)
T ss_dssp             CEEECTTCC
T ss_pred             CEEEcCCCC
Confidence            888776654

>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=99.65  E-value=1.9e-16  Score=158.33  Aligned_cols=217  Identities=18%  Similarity=0.097  Sum_probs=162.4

Q ss_pred             EEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCcccc-chhcCccCcEEeeccccc
Q 039519          400 MSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYMYN  477 (647)
Q Consensus       400 L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~  477 (647)
                      ++-.+..+..+|..++  +.|++|++++| .+..+|. .+.++++|++|++++|.++.+|. .++++++|++|++++| .
T Consensus        12 ~~c~~~~l~~ip~~l~--~~l~~L~ls~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n-~   87 (276)
T 2z62_A           12 YQCMELNFYKIPDNLP--FSTKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-P   87 (276)
T ss_dssp             EECTTSCCSSCCSSSC--TTCCEEECTTC-CCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTC-C
T ss_pred             EEecCCCccccCCCCC--CCccEEECCCC-cccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCC-c
Confidence            3444556677776544  46899999999 6666655 78999999999999999998774 7899999999999998 6


Q ss_pred             CCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccc
Q 039519          478 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQ  557 (647)
Q Consensus       478 l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~  557 (647)
                      +..++...+..+++|++|++.++   .+..++           ...++.+++|+.|+++.|.++.+. ++.....+++|+
T Consensus        88 l~~~~~~~~~~l~~L~~L~l~~n---~l~~~~-----------~~~~~~l~~L~~L~l~~n~l~~~~-l~~~~~~l~~L~  152 (276)
T 2z62_A           88 IQSLALGAFSGLSSLQKLVAVET---NLASLE-----------NFPIGHLKTLKELNVAHNLIQSFK-LPEYFSNLTNLE  152 (276)
T ss_dssp             CCEECTTTTTTCTTCCEEECTTS---CCCCST-----------TCCCTTCTTCCEEECCSSCCCCCC-CCGGGGGCTTCC
T ss_pred             cCccChhhhcCCccccEEECCCC---CccccC-----------chhcccCCCCCEEECcCCccceec-CchhhccCCCCC
Confidence            77777655899999999987754   432222           223678899999999988776521 122334456788


Q ss_pred             eeeeeccCCCceEEEecccccCCcc----EEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCc
Q 039519          558 FLFLRCFNDSKSLDIFCLACLHNLN----KLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHF  633 (647)
Q Consensus       558 ~l~L~~~~~L~~L~l~~~~~l~~L~----~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L  633 (647)
                      .|++++ +++..+....+..+.+|+    +|++++|.....++......+|+.|+|++|  .+...+...+..+++|+.|
T Consensus       153 ~L~Ls~-N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n--~l~~~~~~~~~~l~~L~~L  229 (276)
T 2z62_A          153 HLDLSS-NKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTN--QLKSVPDGIFDRLTSLQKI  229 (276)
T ss_dssp             EEECCS-SCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSS--CCSCCCTTTTTTCCSCCEE
T ss_pred             EEECCC-CCCCcCCHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECCCC--ceeecCHhHhcccccccEE
Confidence            888887 567776655566677777    899999977666665545568999999995  4555555667889999988


Q ss_pred             ccCCC
Q 039519          634 TKSNP  638 (647)
Q Consensus       634 ~~~~~  638 (647)
                      +..++
T Consensus       230 ~l~~N  234 (276)
T 2z62_A          230 WLHTN  234 (276)
T ss_dssp             ECCSS
T ss_pred             EccCC
Confidence            77654

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

Probab=99.65  E-value=3e-16  Score=173.83  Aligned_cols=60  Identities=12%  Similarity=0.083  Sum_probs=28.7

Q ss_pred             cccCCccEEEEcCCCCCCCCh--hhccccCCceEEeecccccccccchhhhhhhcCCCCcccCC
Q 039519          576 ACLHNLNKLYVAGCKHLEDFQ--MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       576 ~~l~~L~~L~L~~~~~~~~~~--~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                      ..+++|++|++++|.....+|  .+..+++|++|++++|  .+.......+.++++|+.|+..+
T Consensus       393 ~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n--~l~~~~~~~~~~l~~L~~L~l~~  454 (570)
T 2z63_A          393 LGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT--HTRVAFNGIFNGLSSLEVLKMAG  454 (570)
T ss_dssp             ETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTS--CCEECCTTTTTTCTTCCEEECTT
T ss_pred             cccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCC--cccccchhhhhcCCcCcEEECcC
Confidence            344455555555544433333  2455555555555553  23333333455555666555444

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

Probab=99.65  E-value=3.6e-16  Score=181.07  Aligned_cols=125  Identities=12%  Similarity=0.127  Sum_probs=91.6

Q ss_pred             cceEEecCCCcccC--ccccccccEEEEEeeccc-cccc-ccCCCCcceeeEEeccCccccccCccccccccCCCeeeec
Q 039519          375 ENFLVHAGFGLTEA--PEIQNWRNVRRMSLMKNK-IENL-SELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~~~--~~~~~~~~l~~L~l~~n~-i~~l-~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~  450 (647)
                      -+.+...+..++.+  ..+..+++|++|++++|. +..+ |..+.++++|++|++++|......|..|+++++|++|+|+
T Consensus        26 l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls  105 (844)
T 3j0a_A           26 TERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLY  105 (844)
T ss_dssp             CCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECT
T ss_pred             cCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCc
Confidence            34455555555543  467788899999999884 4455 5566888899999999884444447788899999999999


Q ss_pred             CCCCCc-cccc--hhcCccCcEEeecccccCCcCc-hhhhcCCCCCcEEecccc
Q 039519          451 STAITH-LPID--LQKLVNLKCLNLQYMYNLNQFP-RLVISAFSKLQVLRMFDC  500 (647)
Q Consensus       451 ~~~l~~-lp~~--~~~l~~L~~L~l~~~~~l~~lp-~~~i~~l~~L~~L~l~~~  500 (647)
                      +|.++. +|..  ++++++|++|++++| .+..++ ...++++++|++|++.++
T Consensus       106 ~n~l~~~~~~~~~~~~L~~L~~L~Ls~N-~l~~~~~~~~~~~L~~L~~L~Ls~N  158 (844)
T 3j0a_A          106 FCGLSDAVLKDGYFRNLKALTRLDLSKN-QIRSLYLHPSFGKLNSLKSIDFSSN  158 (844)
T ss_dssp             TCCCSSCCSTTCCCSSCSSCCEEEEESC-CCCCCCCCGGGGTCSSCCEEEEESS
T ss_pred             CCCCCcccccCccccccCCCCEEECCCC-cccccccchhHhhCCCCCEEECCCC
Confidence            998874 5554  888999999999988 455543 223788889998877753

>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=99.65  E-value=1.6e-15  Score=170.13  Aligned_cols=63  Identities=22%  Similarity=0.101  Sum_probs=43.4

Q ss_pred             ccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCCC
Q 039519          575 LACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       575 ~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                      +..+++|++|+|++|...+.+| .|+.+++|++|+|++|  .+...+...+.++++|+.|+.+++.
T Consensus       490 ~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L~Ls~N--~l~~l~~~~~~~l~~L~~L~Ls~N~  553 (635)
T 4g8a_A          490 FTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN--NFFSLDTFPYKCLNSLQVLDYSLNH  553 (635)
T ss_dssp             CTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS--CCCBCCCGGGTTCTTCCEEECTTSC
T ss_pred             hhhccccCEEECCCCccCCcChHHHcCCCCCCEEECCCC--cCCCCChhHHhCCCCCCEEECCCCc
Confidence            4556777888888776665555 3778888888888874  3555555567777888877666554

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.64  E-value=1.1e-16  Score=163.47  Aligned_cols=218  Identities=17%  Similarity=0.120  Sum_probs=166.3

Q ss_pred             cccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEE
Q 039519          392 QNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCL  470 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L  470 (647)
                      ..++++++|++++|.+..++ ..+.++++|++|++++| .+...++ +..+++|++|++++|.++.+|.    +++|++|
T Consensus        31 ~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~-~~~l~~L~~L~Ls~n~l~~l~~----~~~L~~L  104 (317)
T 3o53_A           31 QSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD-LESLSTLRTLDLNNNYVQELLV----GPSIETL  104 (317)
T ss_dssp             TTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTS-CCEEEEE-ETTCTTCCEEECCSSEEEEEEE----CTTCCEE
T ss_pred             ccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCC-cCCcchh-hhhcCCCCEEECcCCccccccC----CCCcCEE
Confidence            34568999999999999876 45688999999999999 6665654 8999999999999999988773    4899999


Q ss_pred             eecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhh
Q 039519          471 NLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQ  550 (647)
Q Consensus       471 ~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~  550 (647)
                      ++++| .+..++.   ..+++|++|++.+   |.+..++           ...++.+++|+.|+++.|.++.+.. ....
T Consensus       105 ~l~~n-~l~~~~~---~~~~~L~~L~l~~---N~l~~~~-----------~~~~~~l~~L~~L~Ls~N~l~~~~~-~~~~  165 (317)
T 3o53_A          105 HAANN-NISRVSC---SRGQGKKNIYLAN---NKITMLR-----------DLDEGCRSRVQYLDLKLNEIDTVNF-AELA  165 (317)
T ss_dssp             ECCSS-CCSEEEE---CCCSSCEEEECCS---SCCCSGG-----------GBCTGGGSSEEEEECTTSCCCEEEG-GGGG
T ss_pred             ECCCC-ccCCcCc---cccCCCCEEECCC---CCCCCcc-----------chhhhccCCCCEEECCCCCCCcccH-HHHh
Confidence            99998 6777775   3478899997765   4543332           2336678999999999887765321 1111


Q ss_pred             hhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCC
Q 039519          551 ELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRL  630 (647)
Q Consensus       551 ~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L  630 (647)
                      ..+.+|+.|++++ +.+..+.  ....+++|++|+|++|.....++.+..+++|+.|+|++|.  +... ...+..+++|
T Consensus       166 ~~l~~L~~L~L~~-N~l~~~~--~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~--l~~l-~~~~~~l~~L  239 (317)
T 3o53_A          166 ASSDTLEHLNLQY-NFIYDVK--GQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNK--LVLI-EKALRFSQNL  239 (317)
T ss_dssp             GGTTTCCEEECTT-SCCCEEE--CCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSC--CCEE-CTTCCCCTTC
T ss_pred             hccCcCCEEECCC-CcCcccc--cccccccCCEEECCCCcCCcchhhhcccCcccEEECcCCc--ccch-hhHhhcCCCC
Confidence            2346789999988 5677764  3456999999999999877766779999999999999963  4422 3357788899


Q ss_pred             CCcccCCCCc
Q 039519          631 PHFTKSNPYH  640 (647)
Q Consensus       631 ~~L~~~~~~~  640 (647)
                      +.|+..+..+
T Consensus       240 ~~L~l~~N~~  249 (317)
T 3o53_A          240 EHFDLRGNGF  249 (317)
T ss_dssp             CEEECTTCCC
T ss_pred             CEEEccCCCc
Confidence            9888776543

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.64  E-value=4e-16  Score=172.58  Aligned_cols=95  Identities=23%  Similarity=0.224  Sum_probs=50.2

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      ..+...+..++.+|.  .+++|+.|++++|.++.+|.   .+++|++|++++| .+..+|.   .+++|++|++++|.++
T Consensus        64 ~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N-~l~~l~~---~l~~L~~L~L~~N~l~  134 (622)
T 3g06_A           64 TTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPV---LPPGLLELSIFSN-PLTHLPA---LPSGLCKLWIFGNQLT  134 (622)
T ss_dssp             SEEEECSCCCSCCCC--CCTTCCEEEECSCCCSCCCC---CCTTCCEEEECSC-CCCCCCC---CCTTCCEEECCSSCCS
T ss_pred             cEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECcCC-cCCCCCC---CCCCcCEEECCCCCCC
Confidence            344444445555544  34555555555555555544   3445555555555 4445543   3455555555555555


Q ss_pred             ccccchhcCccCcEEeecccccCCcCch
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPR  483 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~  483 (647)
                      .+|..   +++|++|++++| .+..+|.
T Consensus       135 ~lp~~---l~~L~~L~Ls~N-~l~~l~~  158 (622)
T 3g06_A          135 SLPVL---PPGLQELSVSDN-QLASLPA  158 (622)
T ss_dssp             CCCCC---CTTCCEEECCSS-CCSCCCC
T ss_pred             cCCCC---CCCCCEEECcCC-cCCCcCC
Confidence            55542   255666666665 4455543

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

Probab=99.64  E-value=4.4e-16  Score=166.99  Aligned_cols=210  Identities=18%  Similarity=0.151  Sum_probs=165.3

Q ss_pred             cCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCcc
Q 039519          387 EAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVN  466 (647)
Q Consensus       387 ~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~  466 (647)
                      ....+..++++++|++++|.+.++| .+..+++|++|++++| .+..+|  ++.+++|++|++++|.++.+|  ++++++
T Consensus        34 ~~~~~~~l~~L~~L~Ls~n~l~~~~-~l~~l~~L~~L~Ls~n-~l~~~~--~~~l~~L~~L~Ls~N~l~~~~--~~~l~~  107 (457)
T 3bz5_A           34 DTISEEQLATLTSLDCHNSSITDMT-GIEKLTGLTKLICTSN-NITTLD--LSQNTNLTYLACDSNKLTNLD--VTPLTK  107 (457)
T ss_dssp             SEEEHHHHTTCCEEECCSSCCCCCT-TGGGCTTCSEEECCSS-CCSCCC--CTTCTTCSEEECCSSCCSCCC--CTTCTT
T ss_pred             cccChhHcCCCCEEEccCCCcccCh-hhcccCCCCEEEccCC-cCCeEc--cccCCCCCEEECcCCCCceee--cCCCCc
Confidence            3345677889999999999999987 5688899999999999 677776  899999999999999999986  899999


Q ss_pred             CcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecc-hhhHHH
Q 039519          467 LKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKR-LQALQE  545 (647)
Q Consensus       467 L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~l~~  545 (647)
                      |++|++++| .+..+|   ++.+++|++|++.+   |.+..+              .++.+++|+.|+++.|. +..+  
T Consensus       108 L~~L~L~~N-~l~~l~---~~~l~~L~~L~l~~---N~l~~l--------------~l~~l~~L~~L~l~~n~~~~~~--  164 (457)
T 3bz5_A          108 LTYLNCDTN-KLTKLD---VSQNPLLTYLNCAR---NTLTEI--------------DVSHNTQLTELDCHLNKKITKL--  164 (457)
T ss_dssp             CCEEECCSS-CCSCCC---CTTCTTCCEEECTT---SCCSCC--------------CCTTCTTCCEEECTTCSCCCCC--
T ss_pred             CCEEECCCC-cCCeec---CCCCCcCCEEECCC---Ccccee--------------ccccCCcCCEEECCCCCccccc--
Confidence            999999999 777776   68899999997775   444221              26788999999998763 2222  


Q ss_pred             HhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhh
Q 039519          546 LLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILL  625 (647)
Q Consensus       546 l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~  625 (647)
                         ....+++|+.|++++ +++..++   +..+++|+.|++++|...+.  .++.+++|++|++++|.  +..  ++ ++
T Consensus       165 ---~~~~l~~L~~L~ls~-n~l~~l~---l~~l~~L~~L~l~~N~l~~~--~l~~l~~L~~L~Ls~N~--l~~--ip-~~  230 (457)
T 3bz5_A          165 ---DVTPQTQLTTLDCSF-NKITELD---VSQNKLLNRLNCDTNNITKL--DLNQNIQLTFLDCSSNK--LTE--ID-VT  230 (457)
T ss_dssp             ---CCTTCTTCCEEECCS-SCCCCCC---CTTCTTCCEEECCSSCCSCC--CCTTCTTCSEEECCSSC--CSC--CC-CT
T ss_pred             ---ccccCCcCCEEECCC-Cccceec---cccCCCCCEEECcCCcCCee--ccccCCCCCEEECcCCc--ccc--cC-cc
Confidence               123345788888877 4677765   67899999999999976554  38899999999999963  443  23 66


Q ss_pred             hhcCCCCcccCCCC
Q 039519          626 GINRLPHFTKSNPY  639 (647)
Q Consensus       626 ~l~~L~~L~~~~~~  639 (647)
                      .+++|+.|+..+..
T Consensus       231 ~l~~L~~L~l~~N~  244 (457)
T 3bz5_A          231 PLTQLTYFDCSVNP  244 (457)
T ss_dssp             TCTTCSEEECCSSC
T ss_pred             ccCCCCEEEeeCCc
Confidence            77888877665443

>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=99.64  E-value=1.4e-15  Score=167.72  Aligned_cols=120  Identities=23%  Similarity=0.225  Sum_probs=98.5

Q ss_pred             EEecCCCcccCccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCC
Q 039519          378 LVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       378 l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~  455 (647)
                      +...+.+++.+|... .+++++|++++|.+..++ ..+.++++|++|++++| .+..+ |..++.+++|++|++++|.++
T Consensus        10 c~~~~~~l~~ip~~~-~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~Ls~n~l~   87 (549)
T 2z81_A           10 CDGRSRSFTSIPSGL-TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSS-RINTIEGDAFYSLGSLEHLDLSDNHLS   87 (549)
T ss_dssp             EECTTSCCSSCCSCC-CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTSCCC
T ss_pred             EECCCCccccccccC-CCCccEEECcCCccCccChhhhhcCCcccEEECCCC-CcCccChhhccccccCCEEECCCCccC
Confidence            344556777777632 479999999999999875 56799999999999999 55554 467999999999999999999


Q ss_pred             ccccc-hhcCccCcEEeecccccCCc--CchhhhcCCCCCcEEeccccC
Q 039519          456 HLPID-LQKLVNLKCLNLQYMYNLNQ--FPRLVISAFSKLQVLRMFDCG  501 (647)
Q Consensus       456 ~lp~~-~~~l~~L~~L~l~~~~~l~~--lp~~~i~~l~~L~~L~l~~~~  501 (647)
                      .+|.. ++++++|++|++++| .+..  +|.. ++.+++|++|++.++.
T Consensus        88 ~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~-~~~l~~L~~L~L~~n~  134 (549)
T 2z81_A           88 SLSSSWFGPLSSLKYLNLMGN-PYQTLGVTSL-FPNLTNLQTLRIGNVE  134 (549)
T ss_dssp             SCCHHHHTTCTTCCEEECTTC-CCSSSCSSCS-CTTCTTCCEEEEEESS
T ss_pred             ccCHHHhccCCCCcEEECCCC-cccccchhhh-hhccCCccEEECCCCc
Confidence            88765 999999999999999 5664  3554 8899999999888753

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.64  E-value=9.3e-16  Score=152.93  Aligned_cols=105  Identities=21%  Similarity=0.311  Sum_probs=59.6

Q ss_pred             ccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccc-hhcCccCcE
Q 039519          391 IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKC  469 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~  469 (647)
                      ...+++++.|++.+|.+..++. +..+++|++|++++| .+..++ .++.+++|++|++++|.++.+|.. ++++++|++
T Consensus        37 ~~~l~~L~~L~l~~~~i~~~~~-l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  113 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIKSVQG-IQYLPNVRYLALGGN-KLHDIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKE  113 (272)
T ss_dssp             HHHHTTCCEEECTTSCCCCCTT-GGGCTTCCEEECTTS-CCCCCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             cccccceeeeeeCCCCcccccc-cccCCCCcEEECCCC-CCCCch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCE
Confidence            3445556666666666555442 345556666666666 444443 556666666666666666655433 456666666


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      |++++| .+..+|...++.+++|++|++.+
T Consensus       114 L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~  142 (272)
T 3rfs_A          114 LVLVEN-QLQSLPDGVFDKLTNLTYLNLAH  142 (272)
T ss_dssp             EECTTS-CCCCCCTTTTTTCTTCCEEECCS
T ss_pred             EECCCC-cCCccCHHHhccCCCCCEEECCC
Confidence            666665 45555554455566666665543

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.63  E-value=5.9e-16  Score=171.21  Aligned_cols=107  Identities=26%  Similarity=0.270  Sum_probs=62.0

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCc
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITH  456 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~  456 (647)
                      .+...+..++.+|.... ++++.|++++|.++.+|.   .+++|++|++++| .+..+|.   .+++|++|++++|.++.
T Consensus        44 ~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~l~~lp~---~l~~L~~L~Ls~N-~l~~lp~---~l~~L~~L~Ls~N~l~~  115 (622)
T 3g06_A           44 VLNVGESGLTTLPDCLP-AHITTLVIPDNNLTSLPA---LPPELRTLEVSGN-QLTSLPV---LPPGLLELSIFSNPLTH  115 (622)
T ss_dssp             EEECCSSCCSCCCSCCC-TTCSEEEECSCCCSCCCC---CCTTCCEEEECSC-CCSCCCC---CCTTCCEEEECSCCCCC
T ss_pred             EEEecCCCcCccChhhC-CCCcEEEecCCCCCCCCC---cCCCCCEEEcCCC-cCCcCCC---CCCCCCEEECcCCcCCC
Confidence            44455555555554222 566666666666666554   3455666666666 4555654   45666666666666666


Q ss_pred             cccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          457 LPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       457 lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +|.   .+++|+.|++++| .+..+|..    +++|++|++.+
T Consensus       116 l~~---~l~~L~~L~L~~N-~l~~lp~~----l~~L~~L~Ls~  150 (622)
T 3g06_A          116 LPA---LPSGLCKLWIFGN-QLTSLPVL----PPGLQELSVSD  150 (622)
T ss_dssp             CCC---CCTTCCEEECCSS-CCSCCCCC----CTTCCEEECCS
T ss_pred             CCC---CCCCcCEEECCCC-CCCcCCCC----CCCCCEEECcC
Confidence            665   4556666666666 45556542    35566665543

>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=99.62  E-value=8.3e-16  Score=174.14  Aligned_cols=122  Identities=21%  Similarity=0.216  Sum_probs=68.7

Q ss_pred             ceEEecCCCcccCc--cccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecC
Q 039519          376 NFLVHAGFGLTEAP--EIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSS  451 (647)
Q Consensus       376 ~~l~~~~~~~~~~~--~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~  451 (647)
                      +.+...+..++.++  .+..+++|++|++++|.+..+++ .+.++++|++|++++| .+..+|. .|+++++|++|++++
T Consensus        28 ~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~  106 (680)
T 1ziw_A           28 TVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELHLMS  106 (680)
T ss_dssp             SEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSS-CCCCCCTTTTTTCTTCSEEECCS
T ss_pred             cEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCC-ccCccChhhhccCCCCCEEECCC
Confidence            34444444444443  25556666666666666665432 2355566666666666 4555554 366666666666666


Q ss_pred             CCCCccc-cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          452 TAITHLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       452 ~~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      |.++.+| ..++++++|++|++++| .+..++.+.++.+++|++|++.+
T Consensus       107 n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~  154 (680)
T 1ziw_A          107 NSIQKIKNNPFVKQKNLITLDLSHN-GLSSTKLGTQVQLENLQELLLSN  154 (680)
T ss_dssp             SCCCCCCSCTTTTCTTCCEEECCSS-CCSCCCCCSSSCCTTCCEEECCS
T ss_pred             CccCccChhHccccCCCCEEECCCC-cccccCchhhcccccCCEEEccC
Confidence            6666554 34666666666666666 33443333355566666665543

>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=99.62  E-value=1.1e-15  Score=153.84  Aligned_cols=172  Identities=19%  Similarity=0.258  Sum_probs=122.0

Q ss_pred             CccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccC
Q 039519          388 APEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNL  467 (647)
Q Consensus       388 ~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L  467 (647)
                      ......+++++.|++++|.+..++. +..+++|++|++++| .+..++. ++.+++|++|++++|.++.+|. ++.+++|
T Consensus        39 ~~~~~~l~~L~~L~l~~~~i~~~~~-~~~l~~L~~L~L~~n-~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L  114 (291)
T 1h6t_A           39 AVTQNELNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGN-KLTDIKP-LANLKNLGWLFLDENKVKDLSS-LKDLKKL  114 (291)
T ss_dssp             EECHHHHHTCCEEECTTSCCCCCTT-GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCCGGG-GTTCTTC
T ss_pred             ccchhhcCcccEEEccCCCcccChh-HhcCCCCCEEEccCC-ccCCCcc-cccCCCCCEEECCCCcCCCChh-hccCCCC
Confidence            3344566788888888888887754 567788888888888 6667765 8888888888888888888764 8888888


Q ss_pred             cEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHh
Q 039519          468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELL  547 (647)
Q Consensus       468 ~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~  547 (647)
                      ++|++++| .+..++.  +..+++|+.|++.++   .+..           .  ..++.+++|+.|+++.|.++.+.   
T Consensus       115 ~~L~L~~n-~i~~~~~--l~~l~~L~~L~l~~n---~l~~-----------~--~~l~~l~~L~~L~L~~N~l~~~~---  172 (291)
T 1h6t_A          115 KSLSLEHN-GISDING--LVHLPQLESLYLGNN---KITD-----------I--TVLSRLTKLDTLSLEDNQISDIV---  172 (291)
T ss_dssp             CEEECTTS-CCCCCGG--GGGCTTCCEEECCSS---CCCC-----------C--GGGGGCTTCSEEECCSSCCCCCG---
T ss_pred             CEEECCCC-cCCCChh--hcCCCCCCEEEccCC---cCCc-----------c--hhhccCCCCCEEEccCCccccch---
Confidence            88888888 6777764  778888888877653   3311           1  34667777777777755443321   


Q ss_pred             hhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          548 ISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       548 ~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                                                .+..+++|++|+|++|.. ..++.+..+++|+.|++++|
T Consensus       173 --------------------------~l~~l~~L~~L~L~~N~i-~~l~~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          173 --------------------------PLAGLTKLQNLYLSKNHI-SDLRALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             --------------------------GGTTCTTCCEEECCSSCC-CBCGGGTTCTTCSEEEEEEE
T ss_pred             --------------------------hhcCCCccCEEECCCCcC-CCChhhccCCCCCEEECcCC
Confidence                                      034566777777777744 34555777777777777775

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.61  E-value=1.5e-15  Score=151.31  Aligned_cols=196  Identities=18%  Similarity=0.186  Sum_probs=152.0

Q ss_pred             cEEEEEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCccccc-hhcCccCcEEeec
Q 039519          396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQ  473 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~  473 (647)
                      +.+.++++++.++.+|..++  +.++.|++++| .+..+|. .+..+++|++|++++|.++.+|.. +.++++|++|+++
T Consensus        17 ~~~~l~~~~~~l~~ip~~~~--~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~   93 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSNIP--ADTKKLDLQSN-KLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVT   93 (270)
T ss_dssp             TTTEEECTTSCCSSCCSCCC--TTCSEEECCSS-CCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECC
T ss_pred             CCCEEEccCCCCCccCCCCC--CCCCEEECcCC-CCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECC
Confidence            45679999999999887654  57899999999 6666664 689999999999999999999865 4789999999999


Q ss_pred             ccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhh
Q 039519          474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQ  553 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~  553 (647)
                      +| .+..+|...+..+++|++|++.+   |.+..++           +..++.+++|+.|+++.|.++            
T Consensus        94 ~n-~l~~~~~~~~~~l~~L~~L~l~~---n~l~~~~-----------~~~~~~l~~L~~L~Ls~n~l~------------  146 (270)
T 2o6q_A           94 DN-KLQALPIGVFDQLVNLAELRLDR---NQLKSLP-----------PRVFDSLTKLTYLSLGYNELQ------------  146 (270)
T ss_dssp             SS-CCCCCCTTTTTTCSSCCEEECCS---SCCCCCC-----------TTTTTTCTTCCEEECCSSCCC------------
T ss_pred             CC-cCCcCCHhHcccccCCCEEECCC---CccCeeC-----------HHHhCcCcCCCEEECCCCcCC------------
Confidence            98 78888877678899999997765   4443333           233567788888888744332            


Q ss_pred             hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEEeecccccccccchhhhhhhcCCCC
Q 039519          554 RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPH  632 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~  632 (647)
                                     .+....+..+++|++|+|++|.....++. |..+++|++|+|++|  .+...+...+..+++|+.
T Consensus       147 ---------------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N--~l~~~~~~~~~~l~~L~~  209 (270)
T 2o6q_A          147 ---------------SLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNN--QLKRVPEGAFDSLEKLKM  209 (270)
T ss_dssp             ---------------CCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSS--CCSCCCTTTTTTCTTCCE
T ss_pred             ---------------ccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCC--cCCcCCHHHhccccCCCE
Confidence                           22222367789999999999977666664 899999999999995  455555556788899998


Q ss_pred             cccCCC
Q 039519          633 FTKSNP  638 (647)
Q Consensus       633 L~~~~~  638 (647)
                      |...++
T Consensus       210 L~l~~N  215 (270)
T 2o6q_A          210 LQLQEN  215 (270)
T ss_dssp             EECCSS
T ss_pred             EEecCC
Confidence            876654

>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=99.61  E-value=2.1e-15  Score=153.23  Aligned_cols=191  Identities=23%  Similarity=0.253  Sum_probs=156.8

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      -+.+...+..+..++.+..+++|++|++++|.+..++. +..+++|++|++++| .+..+| .+..+++|++|++++|.+
T Consensus        43 L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n-~l~~~~-~~~~l~~L~~L~l~~n~l  119 (308)
T 1h6u_A           43 ITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGN-PLKNVS-AIAGLQSIKTLDLTSTQI  119 (308)
T ss_dssp             CCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSC-CCSCCG-GGTTCTTCCEEECTTSCC
T ss_pred             cCEEEeeCCCccCchhhhccCCCCEEEccCCcCCCChh-HccCCCCCEEEccCC-cCCCch-hhcCCCCCCEEECCCCCC
Confidence            44566677778888889999999999999999999887 789999999999999 677776 799999999999999999


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                      +.+|. +..+++|++|++++| .+..++.  ++.+++|+.|++.++   .+..+           .  .+..+++|+.|+
T Consensus       120 ~~~~~-l~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~l~~n---~l~~~-----------~--~l~~l~~L~~L~  179 (308)
T 1h6u_A          120 TDVTP-LAGLSNLQVLYLDLN-QITNISP--LAGLTNLQYLSIGNA---QVSDL-----------T--PLANLSKLTTLK  179 (308)
T ss_dssp             CCCGG-GTTCTTCCEEECCSS-CCCCCGG--GGGCTTCCEEECCSS---CCCCC-----------G--GGTTCTTCCEEE
T ss_pred             CCchh-hcCCCCCCEEECCCC-ccCcCcc--ccCCCCccEEEccCC---cCCCC-----------h--hhcCCCCCCEEE
Confidence            99885 999999999999999 7788887  789999999988764   33111           1  178899999999


Q ss_pred             EEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCC
Q 039519          535 ITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDF  595 (647)
Q Consensus       535 l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~  595 (647)
                      ++.|.++.+..    ...+++|+.|++++ +++..+.  .+..+++|+.|+|++|+....+
T Consensus       180 l~~n~l~~~~~----l~~l~~L~~L~L~~-N~l~~~~--~l~~l~~L~~L~l~~N~i~~~~  233 (308)
T 1h6u_A          180 ADDNKISDISP----LASLPNLIEVHLKN-NQISDVS--PLANTSNLFIVTLTNQTITNQP  233 (308)
T ss_dssp             CCSSCCCCCGG----GGGCTTCCEEECTT-SCCCBCG--GGTTCTTCCEEEEEEEEEECCC
T ss_pred             CCCCccCcChh----hcCCCCCCEEEccC-CccCccc--cccCCCCCCEEEccCCeeecCC
Confidence            99888876543    33455788888877 4565554  3788999999999999765433

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

Probab=99.61  E-value=4e-16  Score=158.95  Aligned_cols=202  Identities=14%  Similarity=0.070  Sum_probs=151.5

Q ss_pred             ccccEEEEEeecccccc-cccCC--CCcceeeEEeccCccccccCccccccc-----cCCCeeeecCCCCCccc-cchhc
Q 039519          393 NWRNVRRMSLMKNKIEN-LSELQ--PALTFFLFFNMSNNHLLWKLPLGISTL-----VSLEHLDLSSTAITHLP-IDLQK  463 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~-l~~~~--~~l~~L~~L~l~~~~~~~~lp~~~~~L-----~~L~~L~L~~~~l~~lp-~~~~~  463 (647)
                      .+++|++|++++|.+.+ +|..+  ..+++|++|++++| .+...|..++.+     ++|++|++++|.++.+| ..++.
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~  171 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNV-SWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRV  171 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESC-BCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCC-CCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhcc
Confidence            46899999999999985 77765  88899999999999 666678888887     89999999999999777 78999


Q ss_pred             CccCcEEeecccccCCc--Cchhhh--cCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecc
Q 039519          464 LVNLKCLNLQYMYNLNQ--FPRLVI--SAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKR  539 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~--lp~~~i--~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  539 (647)
                      +++|++|++++|.....  +|.. +  +.+++|++|++.++   .+..++        ......+..+++|+.|+++.|.
T Consensus       172 l~~L~~L~Ls~N~l~~~~~~~~~-~~~~~l~~L~~L~L~~N---~l~~~~--------~~~~~~~~~l~~L~~L~Ls~N~  239 (312)
T 1wwl_A          172 FPALSTLDLSDNPELGERGLISA-LCPLKFPTLQVLALRNA---GMETPS--------GVCSALAAARVQLQGLDLSHNS  239 (312)
T ss_dssp             CSSCCEEECCSCTTCHHHHHHHH-SCTTSCTTCCEEECTTS---CCCCHH--------HHHHHHHHTTCCCSEEECTTSC
T ss_pred             CCCCCEEECCCCCcCcchHHHHH-HHhccCCCCCEEECCCC---cCcchH--------HHHHHHHhcCCCCCEEECCCCc
Confidence            99999999999843332  2333 3  78899999977764   442111        1112234678999999999887


Q ss_pred             hhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccc
Q 039519          540 LQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK  613 (647)
Q Consensus       540 ~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~  613 (647)
                      ++..... .....+.+|+.|++++ +++..++- .+.  ++|++|+|++|...+. |.+..+++|++|+|++|+
T Consensus       240 l~~~~~~-~~~~~l~~L~~L~Ls~-N~l~~ip~-~~~--~~L~~L~Ls~N~l~~~-p~~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          240 LRDAAGA-PSCDWPSQLNSLNLSF-TGLKQVPK-GLP--AKLSVLDLSYNRLDRN-PSPDELPQVGNLSLKGNP  307 (312)
T ss_dssp             CCSSCCC-SCCCCCTTCCEEECTT-SCCSSCCS-SCC--SEEEEEECCSSCCCSC-CCTTTSCEEEEEECTTCT
T ss_pred             CCcccch-hhhhhcCCCCEEECCC-CccChhhh-hcc--CCceEEECCCCCCCCC-hhHhhCCCCCEEeccCCC
Confidence            7653210 1112245788888887 56665542 122  8999999999976665 558999999999999953

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.60  E-value=1.4e-15  Score=151.53  Aligned_cols=202  Identities=20%  Similarity=0.248  Sum_probs=148.7

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTA  453 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~  453 (647)
                      -..+...+..+..++.+..+++|++|++++|.+..++ .+..+++|++|++++| .+..+|.. ++.+++|++|++++|.
T Consensus        43 L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~  120 (272)
T 3rfs_A           43 IDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTGN-QLQSLPNGVFDKLTNLKELVLVENQ  120 (272)
T ss_dssp             CCEEECTTSCCCCCTTGGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             eeeeeeCCCCcccccccccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCCC-ccCccChhHhcCCcCCCEEECCCCc
Confidence            3456667777888888999999999999999999875 5588899999999999 66666654 6899999999999999


Q ss_pred             CCccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcE
Q 039519          454 ITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA  532 (647)
Q Consensus       454 l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  532 (647)
                      ++.+|.. ++.+++|++|++++| .+..+|...++.+++|+.|++.+   |.+..++           ...++.+++|+.
T Consensus       121 l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~---n~l~~~~-----------~~~~~~l~~L~~  185 (272)
T 3rfs_A          121 LQSLPDGVFDKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSY---NQLQSLP-----------EGVFDKLTQLKD  185 (272)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCS---SCCCCCC-----------TTTTTTCTTCCE
T ss_pred             CCccCHHHhccCCCCCEEECCCC-ccCccCHHHhccCccCCEEECCC---CCcCccC-----------HHHhcCCccCCE
Confidence            9988755 789999999999999 78888887678899999997776   4443332           233567788888


Q ss_pred             EEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       533 L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                      |+++.|.++.+                           ....+..+++|++|+|++|+..      +.+++|++|+++.|
T Consensus       186 L~L~~N~l~~~---------------------------~~~~~~~l~~L~~L~l~~N~~~------~~~~~l~~l~~~~n  232 (272)
T 3rfs_A          186 LRLYQNQLKSV---------------------------PDGVFDRLTSLQYIWLHDNPWD------CTCPGIRYLSEWIN  232 (272)
T ss_dssp             EECCSSCCSCC---------------------------CTTTTTTCTTCCEEECCSSCBC------CCTTTTHHHHHHHH
T ss_pred             EECCCCcCCcc---------------------------CHHHHhCCcCCCEEEccCCCcc------ccCcHHHHHHHHHH
Confidence            88875544321                           1122456777888888877543      33456777777663


Q ss_pred             cccccccchhhhhhhc
Q 039519          613 KNYIHTNQLSILLGIN  628 (647)
Q Consensus       613 ~~~~~~~~~~~l~~l~  628 (647)
                        .+.+.....++.++
T Consensus       233 --~~~g~ip~~~~~~~  246 (272)
T 3rfs_A          233 --KHSGVVRNSAGSVA  246 (272)
T ss_dssp             --HTGGGBBCTTSCBC
T ss_pred             --hCCCcccCcccccC
Confidence              34433333444443

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

Probab=99.60  E-value=1.2e-15  Score=156.97  Aligned_cols=203  Identities=17%  Similarity=0.097  Sum_probs=153.5

Q ss_pred             ccEEEEEeecccccccccCCCCcceeeEEeccCcccccc-CccccccccCCCeeeecCCCCC-ccccchhcCccCcEEee
Q 039519          395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWK-LPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNL  472 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~-lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l  472 (647)
                      ++++.|++.+|.+...+.....+++|++|++++|..... +|..+..+++|++|++++|.++ ..|..++.+++|++|++
T Consensus        70 ~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L  149 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNL  149 (336)
T ss_dssp             TTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEEC
T ss_pred             ccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEEC
Confidence            688999999999988777677889999999999943323 7777889999999999999988 67888899999999999


Q ss_pred             cccccCCc--CchhhhcCCCCCcEEecccc-CCCcccccccccccCCccccHHHhhCCC-CCcEEEEEecc--hhhHHHH
Q 039519          473 QYMYNLNQ--FPRLVISAFSKLQVLRMFDC-GGSKIERLKSNVLFGGHQVLVEELIGMK-YLMAVTITLKR--LQALQEL  546 (647)
Q Consensus       473 ~~~~~l~~--lp~~~i~~l~~L~~L~l~~~-~~n~~~~~~~~~~~~~~~~~~~~l~~l~-~L~~L~l~~~~--~~~l~~l  546 (647)
                      ++|..+..  ++.. +..+++|++|++.++ ...             .......++.++ +|+.|+++.+.  ++. ..+
T Consensus       150 ~~~~~l~~~~l~~~-~~~~~~L~~L~l~~~~~l~-------------~~~~~~~~~~l~~~L~~L~l~~~~~~~~~-~~l  214 (336)
T 2ast_B          150 SGCSGFSEFALQTL-LSSCSRLDELNLSWCFDFT-------------EKHVQVAVAHVSETITQLNLSGYRKNLQK-SDL  214 (336)
T ss_dssp             TTCBSCCHHHHHHH-HHHCTTCCEEECCCCTTCC-------------HHHHHHHHHHSCTTCCEEECCSCGGGSCH-HHH
T ss_pred             CCCCCCCHHHHHHH-HhcCCCCCEEcCCCCCCcC-------------hHHHHHHHHhcccCCCEEEeCCCcccCCH-HHH
Confidence            99854552  5554 788999999988876 331             122455678889 99999999774  321 223


Q ss_pred             hhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCC--ChhhccccCCceEEeecc
Q 039519          547 LISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLED--FQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       547 ~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~--~~~~~~l~~L~~L~L~~~  612 (647)
                      +......++|+.|+++++..+..-.+..+..+++|++|+|++|.....  +..++.+++|++|++++|
T Consensus       215 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          215 STLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             HHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             HHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc
Confidence            333344568888999886545544444578899999999999963221  124788999999999996

>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=99.59  E-value=4.2e-15  Score=146.27  Aligned_cols=97  Identities=18%  Similarity=0.209  Sum_probs=47.1

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCCcccc-chhcCccCcEEeeccc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYM  475 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~  475 (647)
                      +.++++++.++.+|..++  +.++.|++++| .+..+ |..+.++++|++|+|++|.++.++. .+..+++|++|++++|
T Consensus        17 ~~l~~~~~~l~~~p~~~~--~~l~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n   93 (251)
T 3m19_A           17 KEVDCQGKSLDSVPSGIP--ADTEKLDLQST-GLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANN   93 (251)
T ss_dssp             TEEECTTCCCSSCCSCCC--TTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             eEEecCCCCccccCCCCC--CCCCEEEccCC-CcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCC
Confidence            345555555555554332  24555555555 23232 2234555555555555555554432 2455555555555555


Q ss_pred             ccCCcCchhhhcCCCCCcEEecc
Q 039519          476 YNLNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       476 ~~l~~lp~~~i~~l~~L~~L~l~  498 (647)
                       .+..+|...++.+++|++|++.
T Consensus        94 -~l~~~~~~~~~~l~~L~~L~L~  115 (251)
T 3m19_A           94 -QLASLPLGVFDHLTQLDKLYLG  115 (251)
T ss_dssp             -CCCCCCTTTTTTCTTCCEEECC
T ss_pred             -cccccChhHhcccCCCCEEEcC
Confidence             4445544434555555555443

>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=99.58  E-value=3.2e-15  Score=154.77  Aligned_cols=238  Identities=15%  Similarity=0.065  Sum_probs=170.3

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCcc-ccccccCCCe-eeecCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEH-LDLSST  452 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~-L~L~~~  452 (647)
                      +.+.+.+.+++.+|.-. ++++++|+|++|+|+.+|.. +.++++|++|++++|...+.+|. .|.++++|+. +.+++|
T Consensus        12 ~~v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N   90 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL-PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN   90 (350)
T ss_dssp             TEEEEESTTCCSCCTTC-CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEET
T ss_pred             CEEEecCCCCCccCcCc-CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCC
Confidence            45778888898888632 46899999999999999875 68999999999999955566764 4688988775 566778


Q ss_pred             CCCccc-cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCC-CCC
Q 039519          453 AITHLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGM-KYL  530 (647)
Q Consensus       453 ~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l-~~L  530 (647)
                      +++.+| ..+..+++|++|++++| .+..+|...+....++..|++.+  .+.+..++...           +..+ ..+
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~l~~n-~l~~~~~~~~~~~~~l~~l~l~~--~~~i~~l~~~~-----------f~~~~~~l  156 (350)
T 4ay9_X           91 NLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQD--NINIHTIERNS-----------FVGLSFES  156 (350)
T ss_dssp             TCCEECTTSBCCCTTCCEEEEEEE-CCSSCCCCTTCCBSSCEEEEEES--CTTCCEECTTS-----------STTSBSSC
T ss_pred             cccccCchhhhhcccccccccccc-ccccCCchhhcccchhhhhhhcc--ccccccccccc-----------hhhcchhh
Confidence            999885 56889999999999998 77888874344555666665543  34555555433           2333 357


Q ss_pred             cEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEee
Q 039519          531 MAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLF  610 (647)
Q Consensus       531 ~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~  610 (647)
                      +.|+++.|.++.+.   .......++..+.+.+.+.+..++-..|..+++|+.|+|++|.+...++.  .+.+|+.|.+.
T Consensus       157 ~~L~L~~N~i~~i~---~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~--~~~~L~~L~~l  231 (350)
T 4ay9_X          157 VILWLNKNGIQEIH---NSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY--GLENLKKLRAR  231 (350)
T ss_dssp             EEEECCSSCCCEEC---TTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSS--SCTTCCEEECT
T ss_pred             hhhccccccccCCC---hhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChh--hhccchHhhhc
Confidence            88999888776543   22223356888888877888888866688999999999999865444432  35566777666


Q ss_pred             cccccccccchhhhhhhcCCCCcccC
Q 039519          611 INKNYIHTNQLSILLGINRLPHFTKS  636 (647)
Q Consensus       611 ~~~~~~~~~~~~~l~~l~~L~~L~~~  636 (647)
                      +|.+...   ++.+.++++|+.+...
T Consensus       232 ~~~~l~~---lP~l~~l~~L~~l~l~  254 (350)
T 4ay9_X          232 STYNLKK---LPTLEKLVALMEASLT  254 (350)
T ss_dssp             TCTTCCC---CCCTTTCCSCCEEECS
T ss_pred             cCCCcCc---CCCchhCcChhhCcCC
Confidence            6644433   3345566667666544

>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=99.58  E-value=2e-15  Score=147.49  Aligned_cols=208  Identities=14%  Similarity=0.146  Sum_probs=151.2

Q ss_pred             EeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCC-CCcccc-chhcCccCcEEeeccccc
Q 039519          401 SLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTA-ITHLPI-DLQKLVNLKCLNLQYMYN  477 (647)
Q Consensus       401 ~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~-l~~lp~-~~~~l~~L~~L~l~~~~~  477 (647)
                      .+..+.++.+|. ++  +.+++|++++| .+..+|. .+..+++|++|++++|. ++.+|. .+.++++|++|++++|+.
T Consensus        17 ~v~c~~l~~ip~-~~--~~l~~L~l~~n-~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~   92 (239)
T 2xwt_C           17 RVTCKDIQRIPS-LP--PSTQTLKLIET-HLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRN   92 (239)
T ss_dssp             EEEECSCSSCCC-CC--TTCCEEEEESC-CCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETT
T ss_pred             eeEccCccccCC-CC--CcccEEEEeCC-cceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCC
Confidence            344445777776 43  37899999999 6777765 68899999999999997 998885 788999999999998338


Q ss_pred             CCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCc---EEEEEec-chhhHHHHhhhhhhh
Q 039519          478 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM---AVTITLK-RLQALQELLISQELQ  553 (647)
Q Consensus       478 l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~---~L~l~~~-~~~~l~~l~~~~~~~  553 (647)
                      +..+|...+..+++|++|++.++   .+..+|.             ++.+++|+   .|+++.| .++.+..  .....+
T Consensus        93 l~~i~~~~f~~l~~L~~L~l~~n---~l~~lp~-------------~~~l~~L~~L~~L~l~~N~~l~~i~~--~~~~~l  154 (239)
T 2xwt_C           93 LTYIDPDALKELPLLKFLGIFNT---GLKMFPD-------------LTKVYSTDIFFILEITDNPYMTSIPV--NAFQGL  154 (239)
T ss_dssp             CCEECTTSEECCTTCCEEEEEEE---CCCSCCC-------------CTTCCBCCSEEEEEEESCTTCCEECT--TTTTTT
T ss_pred             eeEcCHHHhCCCCCCCEEeCCCC---CCccccc-------------cccccccccccEEECCCCcchhhcCc--ccccch
Confidence            88998766889999999988864   3322221             55666666   9999988 6655421  112334


Q ss_pred             hccc-eeeeeccCCCceEEEecccccCCccEEEEcCCC-CCCCCh-hhccc-cCCceEEeecccccccccchhhhhhhcC
Q 039519          554 RCTQ-FLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCK-HLEDFQ-MIIQR-SSLSVHNLFINKNYIHTNQLSILLGINR  629 (647)
Q Consensus       554 ~~l~-~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~-~~~~~~-~~~~l-~~L~~L~L~~~~~~~~~~~~~~l~~l~~  629 (647)
                      .+|+ .+++++ +++..++...+.. ++|++|+|++|. ....++ .|..+ ++|+.|+|++|  .+...+..   .+++
T Consensus       155 ~~L~~~L~l~~-n~l~~i~~~~~~~-~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N--~l~~l~~~---~~~~  227 (239)
T 2xwt_C          155 CNETLTLKLYN-NGFTSVQGYAFNG-TKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQT--SVTALPSK---GLEH  227 (239)
T ss_dssp             BSSEEEEECCS-CCCCEECTTTTTT-CEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTC--CCCCCCCT---TCTT
T ss_pred             hcceeEEEcCC-CCCcccCHhhcCC-CCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCC--ccccCChh---Hhcc
Confidence            5777 888876 5677665444555 899999999995 544444 38889 99999999995  34432222   5677


Q ss_pred             CCCcccCC
Q 039519          630 LPHFTKSN  637 (647)
Q Consensus       630 L~~L~~~~  637 (647)
                      |+.|+..+
T Consensus       228 L~~L~l~~  235 (239)
T 2xwt_C          228 LKELIARN  235 (239)
T ss_dssp             CSEEECTT
T ss_pred             CceeeccC
Confidence            77776554

>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=99.58  E-value=2.2e-15  Score=166.44  Aligned_cols=171  Identities=19%  Similarity=0.265  Sum_probs=112.4

Q ss_pred             ccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCc
Q 039519          389 PEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLK  468 (647)
Q Consensus       389 ~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~  468 (647)
                      .....+++|+.|++++|.+..++. +..+++|+.|+|++| .+..+|+ +..+++|++|+|++|.++.+| .+..+++|+
T Consensus        37 ~~~~~L~~L~~L~l~~n~i~~l~~-l~~l~~L~~L~Ls~N-~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~  112 (605)
T 1m9s_A           37 VTQNELNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGN-KLTDIKP-LTNLKNLGWLFLDENKIKDLS-SLKDLKKLK  112 (605)
T ss_dssp             ECHHHHTTCCCCBCTTCCCCCCTT-GGGCTTCCEEECTTS-CCCCCGG-GGGCTTCCEEECCSSCCCCCT-TSTTCTTCC
T ss_pred             cchhcCCCCCEEECcCCCCCCChH-HccCCCCCEEEeeCC-CCCCChh-hccCCCCCEEECcCCCCCCCh-hhccCCCCC
Confidence            344556677777888887777763 466777888888887 5666664 777888888888888877766 577788888


Q ss_pred             EEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhh
Q 039519          469 CLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLI  548 (647)
Q Consensus       469 ~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~  548 (647)
                      +|+|++| .+..+|.  +..+++|+.|++.++   .+.           ..  ..++.+++|+.|+++.|.+..+..   
T Consensus       113 ~L~Ls~N-~l~~l~~--l~~l~~L~~L~Ls~N---~l~-----------~l--~~l~~l~~L~~L~Ls~N~l~~~~~---  170 (605)
T 1m9s_A          113 SLSLEHN-GISDING--LVHLPQLESLYLGNN---KIT-----------DI--TVLSRLTKLDTLSLEDNQISDIVP---  170 (605)
T ss_dssp             EEECTTS-CCCCCGG--GGGCTTCSEEECCSS---CCC-----------CC--GGGGSCTTCSEEECCSSCCCCCGG---
T ss_pred             EEEecCC-CCCCCcc--ccCCCccCEEECCCC---ccC-----------Cc--hhhcccCCCCEEECcCCcCCCchh---
Confidence            8888887 5666664  677788888766653   321           11  346677777777776554433211   


Q ss_pred             hhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          549 SQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       549 ~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                                                +..+++|+.|+|++|.+. .+|.+..+++|+.|+|++|
T Consensus       171 --------------------------l~~l~~L~~L~Ls~N~i~-~l~~l~~l~~L~~L~L~~N  207 (605)
T 1m9s_A          171 --------------------------LAGLTKLQNLYLSKNHIS-DLRALAGLKNLDVLELFSQ  207 (605)
T ss_dssp             --------------------------GTTCTTCCEEECCSSCCC-BCGGGTTCTTCSEEECCSE
T ss_pred             --------------------------hccCCCCCEEECcCCCCC-CChHHccCCCCCEEEccCC
Confidence                                      344556666666666433 3455666666666666664

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

Probab=99.58  E-value=3.6e-15  Score=165.22  Aligned_cols=202  Identities=21%  Similarity=0.129  Sum_probs=107.7

Q ss_pred             ccccEEEEEeecccccccccCCCCcceeeEEeccCccccccC---ccccccccCCCeeeecCCCCCccccchhcCccCcE
Q 039519          393 NWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKL---PLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC  469 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~l---p~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~  469 (647)
                      .+++++.|++.+|.+...... ..+++|++|++++| .+...   |..+..+++|++|++++|.++.+|..+..+++|++
T Consensus       323 ~l~~L~~L~l~~n~~~~~~~~-~~~~~L~~L~l~~n-~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~  400 (570)
T 2z63_A          323 KLKSLKRLTFTSNKGGNAFSE-VDLPSLEFLDLSRN-GLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEH  400 (570)
T ss_dssp             BCSSCCEEEEESCBSCCBCCC-CBCTTCCEEECCSS-CCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCE
T ss_pred             cccccCEEeCcCCcccccccc-ccCCCCCEEeCcCC-ccCccccccccccccCccCEEECCCCccccccccccccCCCCE
Confidence            344555555555544332222 44555666666666 33332   44555666666666666666666555666666666


Q ss_pred             EeecccccCCcC-chhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhh
Q 039519          470 LNLQYMYNLNQF-PRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLI  548 (647)
Q Consensus       470 L~l~~~~~l~~l-p~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~  548 (647)
                      |++++| .+..+ |...+..+++|++|++.++..              ....+..++.+++|+.|+++.|.+... .++.
T Consensus       401 L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~l--------------~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~p~  464 (570)
T 2z63_A          401 LDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHT--------------RVAFNGIFNGLSSLEVLKMAGNSFQEN-FLPD  464 (570)
T ss_dssp             EECTTS-EEESCTTSCTTTTCTTCCEEECTTSCC--------------EECCTTTTTTCTTCCEEECTTCEEGGG-EECS
T ss_pred             EEccCC-ccccccchhhhhcCCCCCEEeCcCCcc--------------cccchhhhhcCCcCcEEECcCCcCccc-cchh
Confidence            666665 33333 212255566666665554322              222333455666777777765554310 0112


Q ss_pred             hhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEEeeccc
Q 039519          549 SQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINK  613 (647)
Q Consensus       549 ~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~  613 (647)
                      ....+++|+.|++++ +++..+....+..+++|++|+|++|...+.+|. +..+++|+.|++++|+
T Consensus       465 ~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          465 IFTELRNLTFLDLSQ-CQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             CCTTCTTCCEEECTT-SCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             hhhcccCCCEEECCC-CccccCChhhhhcccCCCEEeCCCCcCCCCCHHHhhcccCCcEEEecCCc
Confidence            223334556666655 345444334466667777777777765555543 6667777777777754

>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=99.57  E-value=6.8e-15  Score=147.96  Aligned_cols=151  Identities=23%  Similarity=0.283  Sum_probs=125.0

Q ss_pred             ccceEEecCCCcccCc--cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecC
Q 039519          374 KENFLVHAGFGLTEAP--EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSS  451 (647)
Q Consensus       374 ~~~~l~~~~~~~~~~~--~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~  451 (647)
                      ....+...+..+..++  .+..+++|+.|++++|.+..++.. ..+++|++|++++| .+..+|..+..+++|++|++++
T Consensus        32 ~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~L~~L~l~~  109 (290)
T 1p9a_G           32 DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVLDVSF  109 (290)
T ss_dssp             TCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEEECCSS-CCSSCCCCTTTCTTCCEEECCS
T ss_pred             CCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEEECCCC-cCCcCchhhccCCCCCEEECCC
Confidence            3445666666666553  578889999999999999998876 78899999999999 7889999899999999999999


Q ss_pred             CCCCccc-cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCC
Q 039519          452 TAITHLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYL  530 (647)
Q Consensus       452 ~~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L  530 (647)
                      |.++.+| ..+..+++|++|++++| .+..+|.+.+..+++|+.|++.+   |++..++..+           +..+++|
T Consensus       110 N~l~~l~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~---N~l~~l~~~~-----------~~~l~~L  174 (290)
T 1p9a_G          110 NRLTSLPLGALRGLGELQELYLKGN-ELKTLPPGLLTPTPKLEKLSLAN---NNLTELPAGL-----------LNGLENL  174 (290)
T ss_dssp             SCCCCCCSSTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTT---SCCSCCCTTT-----------TTTCTTC
T ss_pred             CcCcccCHHHHcCCCCCCEEECCCC-CCCccChhhcccccCCCEEECCC---CcCCccCHHH-----------hcCcCCC
Confidence            9999887 56899999999999999 78899988778999999997764   6665555433           5678888


Q ss_pred             cEEEEEecchh
Q 039519          531 MAVTITLKRLQ  541 (647)
Q Consensus       531 ~~L~l~~~~~~  541 (647)
                      +.|+++.|.++
T Consensus       175 ~~L~L~~N~l~  185 (290)
T 1p9a_G          175 DTLLLQENSLY  185 (290)
T ss_dssp             CEEECCSSCCC
T ss_pred             CEEECCCCcCC
Confidence            88888866544

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.56  E-value=1.7e-15  Score=159.12  Aligned_cols=232  Identities=16%  Similarity=0.136  Sum_probs=133.2

Q ss_pred             ccccccEEEEEeecccccc-----cccCCCCcceeeEEeccCccccc----cCcccc-------ccccCCCeeeecCCCC
Q 039519          391 IQNWRNVRRMSLMKNKIEN-----LSELQPALTFFLFFNMSNNHLLW----KLPLGI-------STLVSLEHLDLSSTAI  454 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n~i~~-----l~~~~~~l~~L~~L~l~~~~~~~----~lp~~~-------~~L~~L~~L~L~~~~l  454 (647)
                      +..+++++.|++++|.+..     ++..+..+++|++|++++| .+.    .+|..+       ..+++|++|+|++|.+
T Consensus        28 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~-~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l  106 (386)
T 2ca6_A           28 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF  106 (386)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC
T ss_pred             HhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCccc-ccCccccchhHHHHHHHHHHhhCCcccEEECCCCcC
Confidence            4456778888888887765     3334567788888888876 332    334443       6778888888888887


Q ss_pred             Cc-----cccchhcCccCcEEeecccccCCcCchhh----hcCC---------CCCcEEeccccCCCcccccccccccCC
Q 039519          455 TH-----LPIDLQKLVNLKCLNLQYMYNLNQFPRLV----ISAF---------SKLQVLRMFDCGGSKIERLKSNVLFGG  516 (647)
Q Consensus       455 ~~-----lp~~~~~l~~L~~L~l~~~~~l~~lp~~~----i~~l---------~~L~~L~l~~~~~n~~~~~~~~~~~~~  516 (647)
                      ..     +|..+..+++|++|+|++| .+...+...    +..+         ++|++|++.++..... .         
T Consensus       107 ~~~~~~~l~~~l~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~-~---------  175 (386)
T 2ca6_A          107 GPTAQEPLIDFLSKHTPLEHLYLHNN-GLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENG-S---------  175 (386)
T ss_dssp             CTTTHHHHHHHHHHCTTCCEEECCSS-CCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGG-G---------
T ss_pred             CHHHHHHHHHHHHhCCCCCEEECcCC-CCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcH-H---------
Confidence            75     6777888888888888887 443222111    2233         7888887665432100 0         


Q ss_pred             ccccHHHhhCCCCCcEEEEEecchh--hHHHHhh-hhhhhhccceeeeeccCCCc-----eEEEecccccCCccEEEEcC
Q 039519          517 HQVLVEELIGMKYLMAVTITLKRLQ--ALQELLI-SQELQRCTQFLFLRCFNDSK-----SLDIFCLACLHNLNKLYVAG  588 (647)
Q Consensus       517 ~~~~~~~l~~l~~L~~L~l~~~~~~--~l~~l~~-~~~~~~~l~~l~L~~~~~L~-----~L~l~~~~~l~~L~~L~L~~  588 (647)
                      .......+..+++|+.|+++.|.++  ++..+.. .....++|+.|+|+++ .+.     .+. ..+..+++|++|+|++
T Consensus       176 ~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n-~l~~~g~~~l~-~~l~~~~~L~~L~L~~  253 (386)
T 2ca6_A          176 MKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDN-TFTHLGSSALA-IALKSWPNLRELGLND  253 (386)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSS-CCHHHHHHHHH-HHGGGCTTCCEEECTT
T ss_pred             HHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCC-CCCcHHHHHHH-HHHccCCCcCEEECCC
Confidence            0111135666777777777777665  2222222 3333445666666552 231     111 1255667777777777


Q ss_pred             CCCCCC----Ch-hh--ccccCCceEEeeccccccccc----chhhh-hhhcCCCCcccCCC
Q 039519          589 CKHLED----FQ-MI--IQRSSLSVHNLFINKNYIHTN----QLSIL-LGINRLPHFTKSNP  638 (647)
Q Consensus       589 ~~~~~~----~~-~~--~~l~~L~~L~L~~~~~~~~~~----~~~~l-~~l~~L~~L~~~~~  638 (647)
                      |.+...    ++ .+  +.+++|++|+|++|.  +...    ....+ .++++|++|+..+.
T Consensus       254 n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~--i~~~g~~~l~~~l~~~l~~L~~L~l~~N  313 (386)
T 2ca6_A          254 CLLSARGAAAVVDAFSKLENIGLQTLRLQYNE--IELDAVRTLKTVIDEKMPDLLFLELNGN  313 (386)
T ss_dssp             CCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC--CBHHHHHHHHHHHHHHCTTCCEEECTTS
T ss_pred             CCCchhhHHHHHHHHhhccCCCeEEEECcCCc--CCHHHHHHHHHHHHhcCCCceEEEccCC
Confidence            754332    12 23  236777777777742  3331    12223 44667776665544

>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=99.56  E-value=1.2e-14  Score=155.60  Aligned_cols=114  Identities=20%  Similarity=0.283  Sum_probs=84.7

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      -+.+...+..+..+|.+..+++|++|++++|.+..+|..+   ..|++|++++| .+..+| .++.+++|++|++++|.+
T Consensus       133 L~~L~L~~n~l~~lp~~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~L~L~~n-~l~~l~-~~~~l~~L~~L~l~~N~l  207 (454)
T 1jl5_A          133 LEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAGNN-QLEELP-ELQNLPFLTAIYADNNSL  207 (454)
T ss_dssp             CCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECCSS-CCSSCC-CCTTCTTCCEEECCSSCC
T ss_pred             CCEEECcCCCCCCCcccCCCCCCCEEECCCCcCcccCCCc---ccccEEECcCC-cCCcCc-cccCCCCCCEEECCCCcC
Confidence            4456666667777778888888888888888888776543   46788888888 666677 688888888888888888


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +.+|...   ++|++|++++| .+..+|.  ++.+++|++|++.+
T Consensus       208 ~~l~~~~---~~L~~L~l~~n-~l~~lp~--~~~l~~L~~L~l~~  246 (454)
T 1jl5_A          208 KKLPDLP---LSLESIVAGNN-ILEELPE--LQNLPFLTTIYADN  246 (454)
T ss_dssp             SSCCCCC---TTCCEEECCSS-CCSSCCC--CTTCTTCCEEECCS
T ss_pred             CcCCCCc---CcccEEECcCC-cCCcccc--cCCCCCCCEEECCC
Confidence            7777532   47788888877 5667774  67777888876654

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.55  E-value=7.8e-15  Score=149.21  Aligned_cols=225  Identities=14%  Similarity=0.046  Sum_probs=144.4

Q ss_pred             ccEEEEEeecccccc--cccCC--CCcceeeEEeccCccccccCcccc--ccccCCCeeeecCCCCCc-cc----cchhc
Q 039519          395 RNVRRMSLMKNKIEN--LSELQ--PALTFFLFFNMSNNHLLWKLPLGI--STLVSLEHLDLSSTAITH-LP----IDLQK  463 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~--l~~~~--~~l~~L~~L~l~~~~~~~~lp~~~--~~L~~L~~L~L~~~~l~~-lp----~~~~~  463 (647)
                      ..++.+.+.++.+..  +....  ..++.|++|++++|......|..+  ..+++|++|++++|.++. .|    ..+..
T Consensus        64 ~~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~  143 (310)
T 4glp_A           64 LRVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWL  143 (310)
T ss_dssp             CCCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTB
T ss_pred             cceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhh
Confidence            346667777665542  11111  223458888888885555666666  788888888888888774 22    23456


Q ss_pred             CccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccc---cccccccCCccccHHHhhCCCCCcEEEEEecch
Q 039519          464 LVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIER---LKSNVLFGGHQVLVEELIGMKYLMAVTITLKRL  540 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~---~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  540 (647)
                      +++|++|++++| .+..++...++.+++|++|++.++   ++.+   ++.          ...++.+++|++|+++.|.+
T Consensus       144 ~~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~N---~l~~~~~~~~----------~~~~~~l~~L~~L~Ls~N~l  209 (310)
T 4glp_A          144 KPGLKVLSIAQA-HSPAFSCEQVRAFPALTSLDLSDN---PGLGERGLMA----------ALCPHKFPAIQNLALRNTGM  209 (310)
T ss_dssp             CSCCCEEEEECC-SSCCCCTTSCCCCTTCCEEECCSC---TTCHHHHHHT----------TSCTTSSCCCCSCBCCSSCC
T ss_pred             ccCCCEEEeeCC-CcchhhHHHhccCCCCCEEECCCC---CCccchhhhH----------HHhhhcCCCCCEEECCCCCC
Confidence            788888888887 566666544778888888866653   3211   111          01135677888888888887


Q ss_pred             hhHHHHhhh-hhhhhccceeeeeccCCCceEEEecccc---cCCccEEEEcCCCCCCCChhhccccCCceEEeecccccc
Q 039519          541 QALQELLIS-QELQRCTQFLFLRCFNDSKSLDIFCLAC---LHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYI  616 (647)
Q Consensus       541 ~~l~~l~~~-~~~~~~l~~l~L~~~~~L~~L~l~~~~~---l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  616 (647)
                      +.+...... ...+.+|+.|+|++ +++..+....+..   +++|++|+|++|.+...++.+.  ++|+.|+|++|  .+
T Consensus       210 ~~l~~~~~~l~~~l~~L~~L~Ls~-N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~--~~L~~L~Ls~N--~l  284 (310)
T 4glp_A          210 ETPTGVCAALAAAGVQPHSLDLSH-NSLRATVNPSAPRCMWSSALNSLNLSFAGLEQVPKGLP--AKLRVLDLSSN--RL  284 (310)
T ss_dssp             CCHHHHHHHHHHHTCCCSSEECTT-SCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSCCSCCC--SCCSCEECCSC--CC
T ss_pred             CchHHHHHHHHhcCCCCCEEECCC-CCCCccchhhHHhccCcCcCCEEECCCCCCCchhhhhc--CCCCEEECCCC--cC
Confidence            766554332 23456788888887 5666653222333   3799999999987664444453  79999999985  34


Q ss_pred             cccchhhhhhhcCCCCcccCCCCc
Q 039519          617 HTNQLSILLGINRLPHFTKSNPYH  640 (647)
Q Consensus       617 ~~~~~~~l~~l~~L~~L~~~~~~~  640 (647)
                      ...  +.+..+++|+.|+..++.+
T Consensus       285 ~~~--~~~~~l~~L~~L~L~~N~l  306 (310)
T 4glp_A          285 NRA--PQPDELPEVDNLTLDGNPF  306 (310)
T ss_dssp             CSC--CCTTSCCCCSCEECSSTTT
T ss_pred             CCC--chhhhCCCccEEECcCCCC
Confidence            422  3357788888887776543

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

Probab=99.53  E-value=3.2e-15  Score=153.86  Aligned_cols=223  Identities=17%  Similarity=0.144  Sum_probs=162.7

Q ss_pred             EEEEEeecccccccccCCCCc--ceeeEEeccCccccccCccccccccCCCeeeecCCCCC-c-cccchhcCccCcEEee
Q 039519          397 VRRMSLMKNKIENLSELQPAL--TFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-H-LPIDLQKLVNLKCLNL  472 (647)
Q Consensus       397 l~~L~l~~n~i~~l~~~~~~l--~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~-lp~~~~~l~~L~~L~l  472 (647)
                      .+.++++++.+.  +..+..+  +.++.|++++| .+...+..+..+++|++|++++|.++ . +|..+..+++|++|++
T Consensus        49 ~~~l~l~~~~~~--~~~~~~~~~~~l~~L~l~~n-~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L  125 (336)
T 2ast_B           49 WQTLDLTGKNLH--PDVTGRLLSQGVIAFRCPRS-FMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSL  125 (336)
T ss_dssp             SSEEECTTCBCC--HHHHHHHHHTTCSEEECTTC-EECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEEC
T ss_pred             heeeccccccCC--HHHHHhhhhccceEEEcCCc-cccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeC
Confidence            556788877765  2333444  67899999999 66666667888999999999999987 3 8888999999999999


Q ss_pred             cccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCcc-ccHHHhhCCCCCcEEEEEec-chhhHHHHhhhh
Q 039519          473 QYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQ-VLVEELIGMKYLMAVTITLK-RLQALQELLISQ  550 (647)
Q Consensus       473 ~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~-~~~~~l~~l~~L~~L~l~~~-~~~~l~~l~~~~  550 (647)
                      ++|......|.. ++.+++|++|++.++..  +           .. .....+..+++|+.|+++.+ .++... +....
T Consensus       126 ~~~~l~~~~~~~-l~~~~~L~~L~L~~~~~--l-----------~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~  190 (336)
T 2ast_B          126 EGLRLSDPIVNT-LAKNSNLVRLNLSGCSG--F-----------SEFALQTLLSSCSRLDELNLSWCFDFTEKH-VQVAV  190 (336)
T ss_dssp             TTCBCCHHHHHH-HTTCTTCSEEECTTCBS--C-----------CHHHHHHHHHHCTTCCEEECCCCTTCCHHH-HHHHH
T ss_pred             cCcccCHHHHHH-HhcCCCCCEEECCCCCC--C-----------CHHHHHHHHhcCCCCCEEcCCCCCCcChHH-HHHHH
Confidence            999432345555 88899999999887632  1           22 24455788999999999988 666421 22223


Q ss_pred             hhhh-ccceeeeeccC-CCceEEE-ecccccCCccEEEEcCCCCC--CCChhhccccCCceEEeecccccccccchhhhh
Q 039519          551 ELQR-CTQFLFLRCFN-DSKSLDI-FCLACLHNLNKLYVAGCKHL--EDFQMIIQRSSLSVHNLFINKNYIHTNQLSILL  625 (647)
Q Consensus       551 ~~~~-~l~~l~L~~~~-~L~~L~l-~~~~~l~~L~~L~L~~~~~~--~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~  625 (647)
                      ...+ +|+.|+++++. ++..-.+ ..+..+++|++|+|++|...  ..++.++.+++|++|+|++|. .+....+..++
T Consensus       191 ~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~~l~  269 (336)
T 2ast_B          191 AHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCY-DIIPETLLELG  269 (336)
T ss_dssp             HHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCT-TCCGGGGGGGG
T ss_pred             HhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCC-CCCHHHHHHHh
Confidence            3455 78888888754 3332111 12567999999999999743  234568999999999999985 34444455688


Q ss_pred             hhcCCCCcccCCC
Q 039519          626 GINRLPHFTKSNP  638 (647)
Q Consensus       626 ~l~~L~~L~~~~~  638 (647)
                      ++++|+.|+..+.
T Consensus       270 ~~~~L~~L~l~~~  282 (336)
T 2ast_B          270 EIPTLKTLQVFGI  282 (336)
T ss_dssp             GCTTCCEEECTTS
T ss_pred             cCCCCCEEeccCc
Confidence            8999998877654

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.52  E-value=2.1e-14  Score=156.89  Aligned_cols=189  Identities=19%  Similarity=0.172  Sum_probs=103.6

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCc
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITH  456 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~  456 (647)
                      .+...+..+..+|... +++|+.|++++|.++.+|   ..+++|++|++++| .+..+|. +++  +|++|++++|.++.
T Consensus        63 ~L~Ls~n~L~~lp~~l-~~~L~~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N-~l~~ip~-l~~--~L~~L~Ls~N~l~~  134 (571)
T 3cvr_A           63 ELQLNRLNLSSLPDNL-PPQITVLEITQNALISLP---ELPASLEYLDACDN-RLSTLPE-LPA--SLKHLDVDNNQLTM  134 (571)
T ss_dssp             EEECCSSCCSCCCSCC-CTTCSEEECCSSCCSCCC---CCCTTCCEEECCSS-CCSCCCC-CCT--TCCEEECCSSCCSC
T ss_pred             EEEeCCCCCCccCHhH-cCCCCEEECcCCCCcccc---cccCCCCEEEccCC-CCCCcch-hhc--CCCEEECCCCcCCC
Confidence            3444444454444421 245666666666666555   23455666666666 4444554 443  56666666666666


Q ss_pred             cccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          457 LPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       457 lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      +|.   .+++|++|++++| .+..+|.    .+++|+.|++.+   |++..+|.             +.  ++|+.|+++
T Consensus       135 lp~---~l~~L~~L~Ls~N-~l~~lp~----~l~~L~~L~Ls~---N~L~~lp~-------------l~--~~L~~L~Ls  188 (571)
T 3cvr_A          135 LPE---LPALLEYINADNN-QLTMLPE----LPTSLEVLSVRN---NQLTFLPE-------------LP--ESLEALDVS  188 (571)
T ss_dssp             CCC---CCTTCCEEECCSS-CCSCCCC----CCTTCCEEECCS---SCCSCCCC-------------CC--TTCCEEECC
T ss_pred             CCC---cCccccEEeCCCC-ccCcCCC----cCCCcCEEECCC---CCCCCcch-------------hh--CCCCEEECc
Confidence            655   4556666666665 4455554    245555554443   33322221             11  455555555


Q ss_pred             ecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecc-----cccCCccEEEEcCCCCCCCChhhccccCCceEEeec
Q 039519          537 LKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCL-----ACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFI  611 (647)
Q Consensus       537 ~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~-----~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~  611 (647)
                      .|.+                           ..++.  +     .....|+.|+|++|.+...++.+..+++|+.|+|++
T Consensus       189 ~N~L---------------------------~~lp~--~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~  239 (571)
T 3cvr_A          189 TNLL---------------------------ESLPA--VPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILED  239 (571)
T ss_dssp             SSCC---------------------------SSCCC--CC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCS
T ss_pred             CCCC---------------------------Cchhh--HHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeC
Confidence            4443                           32221  1     122334889999887665555577789999999988


Q ss_pred             ccccccccchhhhhhhcCC
Q 039519          612 NKNYIHTNQLSILLGINRL  630 (647)
Q Consensus       612 ~~~~~~~~~~~~l~~l~~L  630 (647)
                      |  .+....+..+..+...
T Consensus       240 N--~l~~~~p~~l~~l~~~  256 (571)
T 3cvr_A          240 N--PLSSRIRESLSQQTAQ  256 (571)
T ss_dssp             S--SCCHHHHHHHHHHHHS
T ss_pred             C--cCCCcCHHHHHHhhcC
Confidence            4  4665666666666543

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.50  E-value=7.4e-15  Score=149.37  Aligned_cols=201  Identities=12%  Similarity=0.023  Sum_probs=140.9

Q ss_pred             ccccEEEEEeecccccc-cccCC--CCcceeeEEeccCccccccCc----cccccccCCCeeeecCCCCCccc-cchhcC
Q 039519          393 NWRNVRRMSLMKNKIEN-LSELQ--PALTFFLFFNMSNNHLLWKLP----LGISTLVSLEHLDLSSTAITHLP-IDLQKL  464 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~-l~~~~--~~l~~L~~L~l~~~~~~~~lp----~~~~~L~~L~~L~L~~~~l~~lp-~~~~~l  464 (647)
                      .++++++|++++|.+.. .|..+  ..+++|++|++++|......|    ..+..+++|++|++++|.+..+| ..++.+
T Consensus        89 ~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l  168 (310)
T 4glp_A           89 AYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAF  168 (310)
T ss_dssp             HHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCC
T ss_pred             ccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccC
Confidence            34679999999999876 55555  788999999999994333333    23457899999999999998665 678899


Q ss_pred             ccCcEEeecccccCCc---Cchh-hhcCCCCCcEEeccccCCCcccccccccccCCccccHH-HhhCCCCCcEEEEEecc
Q 039519          465 VNLKCLNLQYMYNLNQ---FPRL-VISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVE-ELIGMKYLMAVTITLKR  539 (647)
Q Consensus       465 ~~L~~L~l~~~~~l~~---lp~~-~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~  539 (647)
                      ++|++|++++|. +..   ++.. .++.+++|++|++.+   |++..++         ..+. -++.+++|+.|+++.|.
T Consensus       169 ~~L~~L~Ls~N~-l~~~~~~~~~~~~~~l~~L~~L~Ls~---N~l~~l~---------~~~~~l~~~l~~L~~L~Ls~N~  235 (310)
T 4glp_A          169 PALTSLDLSDNP-GLGERGLMAALCPHKFPAIQNLALRN---TGMETPT---------GVCAALAAAGVQPHSLDLSHNS  235 (310)
T ss_dssp             TTCCEEECCSCT-TCHHHHHHTTSCTTSSCCCCSCBCCS---SCCCCHH---------HHHHHHHHHTCCCSSEECTTSC
T ss_pred             CCCCEEECCCCC-CccchhhhHHHhhhcCCCCCEEECCC---CCCCchH---------HHHHHHHhcCCCCCEEECCCCC
Confidence            999999999983 322   3222 136788888887765   4432211         1122 25788999999999887


Q ss_pred             hhhHHHHhhhhhh---hhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeeccc
Q 039519          540 LQALQELLISQEL---QRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINK  613 (647)
Q Consensus       540 ~~~l~~l~~~~~~---~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~  613 (647)
                      +....  +.....   .++|+.|++++ +++..++- .+  +++|++|+|++|...+. |.+..+++|+.|+|++|+
T Consensus       236 l~~~~--p~~~~~~~~~~~L~~L~Ls~-N~l~~lp~-~~--~~~L~~L~Ls~N~l~~~-~~~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          236 LRATV--NPSAPRCMWSSALNSLNLSF-AGLEQVPK-GL--PAKLRVLDLSSNRLNRA-PQPDELPEVDNLTLDGNP  305 (310)
T ss_dssp             CCCCC--CSCCSSCCCCTTCCCEECCS-SCCCSCCS-CC--CSCCSCEECCSCCCCSC-CCTTSCCCCSCEECSSTT
T ss_pred             CCccc--hhhHHhccCcCcCCEEECCC-CCCCchhh-hh--cCCCCEEECCCCcCCCC-chhhhCCCccEEECcCCC
Confidence            76531  111111   24788888876 56665542 12  38999999999966544 557889999999999963

>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=99.49  E-value=6.8e-15  Score=157.59  Aligned_cols=174  Identities=16%  Similarity=0.176  Sum_probs=72.2

Q ss_pred             ccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCC-------------CeeeecCCCCCccccch
Q 039519          395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL-------------EHLDLSSTAITHLPIDL  461 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L-------------~~L~L~~~~l~~lp~~~  461 (647)
                      +.+++|++++|.+..+|..+.++++|++|++++|...+.+|..++.+.+|             ++|++++|.++.+|.. 
T Consensus        11 ~~L~~L~l~~n~l~~iP~~i~~L~~L~~L~l~~n~~~~~~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~lp~~-   89 (454)
T 1jl5_A           11 TFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSSLPEL-   89 (454)
T ss_dssp             -----------------------CCHHHHHHHHHHHHHTSCTTSCCCHHHHHHHHHHHHHHTCSEEECTTSCCSCCCSC-
T ss_pred             ccchhhhcccCchhhCChhHhcccchhhhhccCCcccccCCcccccchhcchhhhhhhhccCCCEEEecCCccccCCCC-
Confidence            45666666666665566555666666666666654444555555555443             5555555555555541 


Q ss_pred             hcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCccccccc---cc-----ccCCccccHHHhhCCCCCcEE
Q 039519          462 QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKS---NV-----LFGGHQVLVEELIGMKYLMAV  533 (647)
Q Consensus       462 ~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~---~~-----~~~~~~~~~~~l~~l~~L~~L  533 (647)
                        .++|++|++++| .+..+|..    +++|++|++.+   |++..++.   .+     ........+ .++.+++|+.|
T Consensus        90 --~~~L~~L~l~~n-~l~~lp~~----~~~L~~L~l~~---n~l~~l~~~~~~L~~L~L~~n~l~~lp-~~~~l~~L~~L  158 (454)
T 1jl5_A           90 --PPHLESLVASCN-SLTELPEL----PQSLKSLLVDN---NNLKALSDLPPLLEYLGVSNNQLEKLP-ELQNSSFLKII  158 (454)
T ss_dssp             --CTTCSEEECCSS-CCSSCCCC----CTTCCEEECCS---SCCSCCCSCCTTCCEEECCSSCCSSCC-CCTTCTTCCEE
T ss_pred             --cCCCCEEEccCC-cCCccccc----cCCCcEEECCC---CccCcccCCCCCCCEEECcCCCCCCCc-ccCCCCCCCEE
Confidence              244555555554 34444431    24444444332   22222111   00     000001112 47788888888


Q ss_pred             EEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCC
Q 039519          534 TITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGC  589 (647)
Q Consensus       534 ~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~  589 (647)
                      +++.|.++.++.      ...+|+.|++++ +++..++  .++.+++|++|++++|
T Consensus       159 ~l~~N~l~~lp~------~~~~L~~L~L~~-n~l~~l~--~~~~l~~L~~L~l~~N  205 (454)
T 1jl5_A          159 DVDNNSLKKLPD------LPPSLEFIAAGN-NQLEELP--ELQNLPFLTAIYADNN  205 (454)
T ss_dssp             ECCSSCCSCCCC------CCTTCCEEECCS-SCCSSCC--CCTTCTTCCEEECCSS
T ss_pred             ECCCCcCcccCC------CcccccEEECcC-CcCCcCc--cccCCCCCCEEECCCC
Confidence            888777665321      123667776665 2333322  2444444444444444

>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=99.48  E-value=1.9e-13  Score=134.33  Aligned_cols=175  Identities=20%  Similarity=0.267  Sum_probs=132.2

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccCc-cccccccCCCeeeecCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~  453 (647)
                      ..+.+.+..++.+|... .++++.|++++|.+..++. .+.++++|++|++++| .+..++ ..+..+++|++|++++|.
T Consensus        17 ~~l~~~~~~l~~~p~~~-~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~   94 (251)
T 3m19_A           17 KEVDCQGKSLDSVPSGI-PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYN-QLQTLSAGVFDDLTELGTLGLANNQ   94 (251)
T ss_dssp             TEEECTTCCCSSCCSCC-CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             eEEecCCCCccccCCCC-CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCC-cCCccCHhHhccCCcCCEEECCCCc
Confidence            45777788888887633 3689999999999999766 4688999999999999 555554 458999999999999999


Q ss_pred             CCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcE
Q 039519          454 ITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMA  532 (647)
Q Consensus       454 l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  532 (647)
                      ++.+|. .++.+++|++|++++| .+..+|...++.+++|+.|++.+   |.+..+++           ..++.+++|+.
T Consensus        95 l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~---N~l~~~~~-----------~~~~~l~~L~~  159 (251)
T 3m19_A           95 LASLPLGVFDHLTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLNT---NQLQSIPA-----------GAFDKLTNLQT  159 (251)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCS---SCCCCCCT-----------TTTTTCTTCCE
T ss_pred             ccccChhHhcccCCCCEEEcCCC-cCCCcChhHhccCCcccEEECcC---CcCCccCH-----------HHcCcCcCCCE
Confidence            998874 5689999999999999 78899987678899999997765   55533332           23566777777


Q ss_pred             EEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCC
Q 039519          533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLED  594 (647)
Q Consensus       533 L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~  594 (647)
                      |+++.|.++.                           +....+..+++|++|+|++|+....
T Consensus       160 L~L~~N~l~~---------------------------~~~~~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          160 LSLSTNQLQS---------------------------VPHGAFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             EECCSSCCSC---------------------------CCTTTTTTCTTCCEEECCSCCBCTT
T ss_pred             EECCCCcCCc---------------------------cCHHHHhCCCCCCEEEeeCCceeCC
Confidence            7776443332                           2212355677788888888876544

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.48  E-value=1.3e-14  Score=143.73  Aligned_cols=165  Identities=22%  Similarity=0.275  Sum_probs=94.7

Q ss_pred             cccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeec
Q 039519          394 WRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ  473 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~  473 (647)
                      +.++..+.+.++.+++++ .+..+++|++|++++| .+..+| .+..+++|++|++++|.++.+|. ++++++|++|+++
T Consensus        18 l~~l~~l~l~~~~i~~~~-~~~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~   93 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTDLV-SQKELSGVQNFNGDNS-NIQSLA-GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVN   93 (263)
T ss_dssp             HHHHHHHHHTCSCTTSEE-CHHHHTTCSEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECC
T ss_pred             HHHHHHHHhcCCCccccc-chhhcCcCcEEECcCC-Ccccch-HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECC
Confidence            344555566666666655 3355666777777777 566666 56677777777777777776665 6677777777777


Q ss_pred             ccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhh
Q 039519          474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQ  553 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~  553 (647)
                      +| .+..+|.  +.. .+|++|++.++   .+..             +..++.+++|+.|+++.|.++.+          
T Consensus        94 ~N-~l~~l~~--~~~-~~L~~L~L~~N---~l~~-------------~~~l~~l~~L~~L~Ls~N~i~~~----------  143 (263)
T 1xeu_A           94 RN-RLKNLNG--IPS-ACLSRLFLDNN---ELRD-------------TDSLIHLKNLEILSIRNNKLKSI----------  143 (263)
T ss_dssp             SS-CCSCCTT--CCC-SSCCEEECCSS---CCSB-------------SGGGTTCTTCCEEECTTSCCCBC----------
T ss_pred             CC-ccCCcCc--ccc-CcccEEEccCC---ccCC-------------ChhhcCcccccEEECCCCcCCCC----------
Confidence            76 5666665  233 66666655543   2211             12355666666666654433322          


Q ss_pred             hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          554 RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                                         ..+..+++|++|+|++|..... +.+..+++|+.|++++|
T Consensus       144 -------------------~~l~~l~~L~~L~L~~N~i~~~-~~l~~l~~L~~L~l~~N  182 (263)
T 1xeu_A          144 -------------------VMLGFLSKLEVLDLHGNEITNT-GGLTRLKKVNWIDLTGQ  182 (263)
T ss_dssp             -------------------GGGGGCTTCCEEECTTSCCCBC-TTSTTCCCCCEEEEEEE
T ss_pred             -------------------hHHccCCCCCEEECCCCcCcch-HHhccCCCCCEEeCCCC
Confidence                               1133455555555555543333 44555555555555553

>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=99.46  E-value=1.4e-13  Score=138.49  Aligned_cols=145  Identities=20%  Similarity=0.312  Sum_probs=121.1

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      -+.+...+..+..++.+..+++|+.|++++|.+..++. +.++++|++|++++| .+..+| .+..+++|++|++++|.+
T Consensus        48 L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~L~~n~i  124 (291)
T 1h6t_A           48 IDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDEN-KVKDLS-SLKDLKKLKSLSLEHNGI  124 (291)
T ss_dssp             CCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCGG-GGTTCTTCCEEECTTSCC
T ss_pred             ccEEEccCCCcccChhHhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCC-cCCCCh-hhccCCCCCEEECCCCcC
Confidence            34566677778888889999999999999999999887 788999999999999 677776 599999999999999999


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                      +.++ .+..+++|++|++++| .+..++.  ++.+++|++|++.++   .+.           ...+  +..+++|+.|+
T Consensus       125 ~~~~-~l~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~L~~N---~l~-----------~~~~--l~~l~~L~~L~  184 (291)
T 1h6t_A          125 SDIN-GLVHLPQLESLYLGNN-KITDITV--LSRLTKLDTLSLEDN---QIS-----------DIVP--LAGLTKLQNLY  184 (291)
T ss_dssp             CCCG-GGGGCTTCCEEECCSS-CCCCCGG--GGGCTTCSEEECCSS---CCC-----------CCGG--GTTCTTCCEEE
T ss_pred             CCCh-hhcCCCCCCEEEccCC-cCCcchh--hccCCCCCEEEccCC---ccc-----------cchh--hcCCCccCEEE
Confidence            9885 6899999999999999 7788854  899999999988764   332           2111  78899999999


Q ss_pred             EEecchhh
Q 039519          535 ITLKRLQA  542 (647)
Q Consensus       535 l~~~~~~~  542 (647)
                      ++.|.++.
T Consensus       185 L~~N~i~~  192 (291)
T 1h6t_A          185 LSKNHISD  192 (291)
T ss_dssp             CCSSCCCB
T ss_pred             CCCCcCCC
Confidence            98666543

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

Probab=99.45  E-value=2.6e-13  Score=128.07  Aligned_cols=37  Identities=22%  Similarity=0.146  Sum_probs=26.1

Q ss_pred             ccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          575 LACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       575 ~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                      +..+++|++|++++|... .++.+..+++|++|++++|
T Consensus       155 l~~l~~L~~L~l~~n~i~-~~~~l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          155 LKTLPELKSLNIQFDGVH-DYRGIEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             GGGCSSCCEEECTTBCCC-CCTTGGGCSSCCEEEECBC
T ss_pred             hcCCCCCCEEECCCCCCc-ChHHhccCCCCCEEEeeCc
Confidence            445677777778777543 3556777888888888875

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.44  E-value=3.5e-13  Score=129.51  Aligned_cols=97  Identities=21%  Similarity=0.293  Sum_probs=62.3

Q ss_pred             EEEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCcc-ccchhcCccCcEEeecccc
Q 039519          399 RMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQYMY  476 (647)
Q Consensus       399 ~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~  476 (647)
                      .++..++.++.+|..++  +.++.|++++| .+..+|. .+..+++|++|+|++|.++.+ |..+.++++|++|+|++| 
T Consensus        15 ~v~c~~~~l~~iP~~l~--~~l~~L~l~~n-~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N-   90 (220)
T 2v9t_B           15 IVDCRGKGLTEIPTNLP--ETITEIRLEQN-TIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN-   90 (220)
T ss_dssp             EEECTTSCCSSCCSSCC--TTCCEEECCSS-CCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS-
T ss_pred             EEEcCCCCcCcCCCccC--cCCCEEECCCC-cCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC-
Confidence            45566666666665443  45667777777 4444443 566677777777777777755 556777777777777776 


Q ss_pred             cCCcCchhhhcCCCCCcEEeccc
Q 039519          477 NLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       477 ~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      .+..+|.+.+..+++|+.|++.+
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~L~~  113 (220)
T 2v9t_B           91 KITELPKSLFEGLFSLQLLLLNA  113 (220)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCS
T ss_pred             cCCccCHhHccCCCCCCEEECCC
Confidence            56667666556666676665543

>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=99.43  E-value=1.7e-13  Score=151.29  Aligned_cols=144  Identities=20%  Similarity=0.321  Sum_probs=120.0

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      ..+...+..+..++.+..+++|+.|+|++|.+..++. +..+++|+.|+|++| .+..+| .++.+++|++|+|++|.++
T Consensus        46 ~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N-~l~~l~-~l~~l~~L~~L~Ls~N~l~  122 (605)
T 1m9s_A           46 DQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDEN-KIKDLS-SLKDLKKLKSLSLEHNGIS  122 (605)
T ss_dssp             CCCBCTTCCCCCCTTGGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCSS-CCCCCT-TSTTCTTCCEEECTTSCCC
T ss_pred             CEEECcCCCCCCChHHccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcCC-CCCCCh-hhccCCCCCEEEecCCCCC
Confidence            3455566677788889999999999999999999877 688899999999999 777776 7999999999999999999


Q ss_pred             ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEE
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTI  535 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  535 (647)
                      .+| .+..+++|+.|+|++| .+..++.  ++.+++|+.|++.++   .+           ....+  +..+++|+.|++
T Consensus       123 ~l~-~l~~l~~L~~L~Ls~N-~l~~l~~--l~~l~~L~~L~Ls~N---~l-----------~~~~~--l~~l~~L~~L~L  182 (605)
T 1m9s_A          123 DIN-GLVHLPQLESLYLGNN-KITDITV--LSRLTKLDTLSLEDN---QI-----------SDIVP--LAGLTKLQNLYL  182 (605)
T ss_dssp             CCG-GGGGCTTCSEEECCSS-CCCCCGG--GGSCTTCSEEECCSS---CC-----------CCCGG--GTTCTTCCEEEC
T ss_pred             CCc-cccCCCccCEEECCCC-ccCCchh--hcccCCCCEEECcCC---cC-----------CCchh--hccCCCCCEEEC
Confidence            886 5899999999999999 7788854  899999999988764   33           22222  788999999999


Q ss_pred             Eecchhh
Q 039519          536 TLKRLQA  542 (647)
Q Consensus       536 ~~~~~~~  542 (647)
                      +.|.++.
T Consensus       183 s~N~i~~  189 (605)
T 1m9s_A          183 SKNHISD  189 (605)
T ss_dssp             CSSCCCB
T ss_pred             cCCCCCC
Confidence            8776654

>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=99.43  E-value=1.4e-13  Score=142.32  Aligned_cols=215  Identities=15%  Similarity=0.131  Sum_probs=149.0

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCC-cccc-chhcCccCcEEeecc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAIT-HLPI-DLQKLVNLKCLNLQY  474 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~-~lp~-~~~~l~~L~~L~l~~  474 (647)
                      +.++-++++++.+|..++  ++++.|+|++| .++.+|. .|.+|++|++|+|++|.+. .+|. .+.++++|+++...+
T Consensus        12 ~~v~C~~~~Lt~iP~~l~--~~l~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~   88 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDLP--RNAIELRFVLT-KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   88 (350)
T ss_dssp             TEEEEESTTCCSCCTTCC--TTCSEEEEESC-CCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEE
T ss_pred             CEEEecCCCCCccCcCcC--CCCCEEEccCC-cCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhccc
Confidence            356778888999987653  57899999999 7888886 4899999999999999975 5664 578899988765554


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEe-cchhhHHHHhhhhhhh
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITL-KRLQALQELLISQELQ  553 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~-~~~~~l~~l~~~~~~~  553 (647)
                      ++.+..+|++.+..+++|++|++.+   |.+..++...           +....++..|++.. +.+..+.. .......
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~l~~---n~l~~~~~~~-----------~~~~~~l~~l~l~~~~~i~~l~~-~~f~~~~  153 (350)
T 4ay9_X           89 ANNLLYINPEAFQNLPNLQYLLISN---TGIKHLPDVH-----------KIHSLQKVLLDIQDNINIHTIER-NSFVGLS  153 (350)
T ss_dssp             ETTCCEECTTSBCCCTTCCEEEEEE---ECCSSCCCCT-----------TCCBSSCEEEEEESCTTCCEECT-TSSTTSB
T ss_pred             CCcccccCchhhhhccccccccccc---cccccCCchh-----------hcccchhhhhhhccccccccccc-cchhhcc
Confidence            4488999877789999999998876   4444433321           22334566666653 22322211 0011222


Q ss_pred             hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh--hccccCCceEEeecccccccccchhhhhhhcCCC
Q 039519          554 RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM--IIQRSSLSVHNLFINKNYIHTNQLSILLGINRLP  631 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~--~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~  631 (647)
                      ..++.|+|++ ++++++.-..+ ...+|++|.+.+|+.++.+|.  |+.+++|+.|+|++|  .+...+...+.++++|+
T Consensus       154 ~~l~~L~L~~-N~i~~i~~~~f-~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N--~l~~lp~~~~~~L~~L~  229 (350)
T 4ay9_X          154 FESVILWLNK-NGIQEIHNSAF-NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT--RIHSLPSYGLENLKKLR  229 (350)
T ss_dssp             SSCEEEECCS-SCCCEECTTSS-TTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTS--CCCCCCSSSCTTCCEEE
T ss_pred             hhhhhhcccc-ccccCCChhhc-cccchhHHhhccCCcccCCCHHHhccCcccchhhcCCC--CcCccChhhhccchHhh
Confidence            3567788877 67887764333 456899999987767777774  899999999999995  35444444566666665


Q ss_pred             Ccc
Q 039519          632 HFT  634 (647)
Q Consensus       632 ~L~  634 (647)
                      .+.
T Consensus       230 ~l~  232 (350)
T 4ay9_X          230 ARS  232 (350)
T ss_dssp             CTT
T ss_pred             hcc
Confidence            543

>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=99.42  E-value=7.1e-13  Score=127.39  Aligned_cols=149  Identities=22%  Similarity=0.318  Sum_probs=122.3

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSST  452 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~  452 (647)
                      ...+.+.+.+++.+|... .++++.|++++|.+..++. .+..+++|++|++++| .+..+ |..|.++++|++|+|++|
T Consensus        13 ~~~v~c~~~~l~~iP~~l-~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N-~i~~~~~~~~~~l~~L~~L~Ls~N   90 (220)
T 2v9t_B           13 NNIVDCRGKGLTEIPTNL-PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNN-QISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TTEEECTTSCCSSCCSSC-CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSS-CCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CCEEEcCCCCcCcCCCcc-CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCC-cCCCcCHHHhhCCcCCCEEECCCC
Confidence            346777888888887633 3789999999999999876 4688999999999999 55554 778999999999999999


Q ss_pred             CCCccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCc
Q 039519          453 AITHLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM  531 (647)
Q Consensus       453 ~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~  531 (647)
                      .++.+|.. +..+++|++|+|++| .+..++...+..+++|++|++.+   |.+..++.           ..+..+++|+
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~---N~l~~~~~-----------~~~~~l~~L~  155 (220)
T 2v9t_B           91 KITELPKSLFEGLFSLQLLLLNAN-KINCLRVDAFQDLHNLNLLSLYD---NKLQTIAK-----------GTFSPLRAIQ  155 (220)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCS---SCCSCCCT-----------TTTTTCTTCC
T ss_pred             cCCccCHhHccCCCCCCEEECCCC-CCCEeCHHHcCCCCCCCEEECCC---CcCCEECH-----------HHHhCCCCCC
Confidence            99999865 588999999999999 77888766688999999997765   66644443           2366788999


Q ss_pred             EEEEEecch
Q 039519          532 AVTITLKRL  540 (647)
Q Consensus       532 ~L~l~~~~~  540 (647)
                      .|+++.|.+
T Consensus       156 ~L~L~~N~~  164 (220)
T 2v9t_B          156 TMHLAQNPF  164 (220)
T ss_dssp             EEECCSSCE
T ss_pred             EEEeCCCCc
Confidence            999997765

>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=99.42  E-value=8.7e-13  Score=124.43  Aligned_cols=147  Identities=14%  Similarity=0.189  Sum_probs=100.7

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      ..+...+..+..+|.+..+++|+.|++++|.+..++ .+..+++|++|++++|......|..++.+++|++|++++|.++
T Consensus        47 ~~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~  125 (197)
T 4ezg_A           47 TYITLANINVTDLTGIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHD  125 (197)
T ss_dssp             CEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCB
T ss_pred             cEEeccCCCccChHHHhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccC
Confidence            345555566667677777788888888888776655 3466777888888887333335667778888888888888877


Q ss_pred             -ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          456 -HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       456 -~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                       ..|..++.+++|++|++++|..+..+|.  +..+++|+.|++.++..   ..             +..+..+++|+.|+
T Consensus       126 ~~~~~~l~~l~~L~~L~L~~n~~i~~~~~--l~~l~~L~~L~l~~n~i---~~-------------~~~l~~l~~L~~L~  187 (197)
T 4ezg_A          126 DSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDGV---HD-------------YRGIEDFPKLNQLY  187 (197)
T ss_dssp             GGGHHHHTTCSSCCEEECCSCTBCCCCGG--GGGCSSCCEEECTTBCC---CC-------------CTTGGGCSSCCEEE
T ss_pred             cHhHHHHhhCCCCCEEEccCCCCccccHh--hcCCCCCCEEECCCCCC---cC-------------hHHhccCCCCCEEE
Confidence             4666777888888888888744777774  77788888887665433   11             11466777788888


Q ss_pred             EEecchh
Q 039519          535 ITLKRLQ  541 (647)
Q Consensus       535 l~~~~~~  541 (647)
                      ++.|.+.
T Consensus       188 l~~N~i~  194 (197)
T 4ezg_A          188 AFSQTIG  194 (197)
T ss_dssp             ECBC---
T ss_pred             eeCcccC
Confidence            8766543

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.41  E-value=4.3e-14  Score=148.49  Aligned_cols=225  Identities=13%  Similarity=0.081  Sum_probs=153.3

Q ss_pred             EeecccccccccCCCCcceeeEEeccCcccccc----CccccccccCCCeeeecCCCCC----ccccch-------hcCc
Q 039519          401 SLMKNKIENLSELQPALTFFLFFNMSNNHLLWK----LPLGISTLVSLEHLDLSSTAIT----HLPIDL-------QKLV  465 (647)
Q Consensus       401 ~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~----lp~~~~~L~~L~~L~L~~~~l~----~lp~~~-------~~l~  465 (647)
                      .+....+..++..+..+++|+.|++++|.....    ++..+..+++|++|+|++|.+.    .+|..+       ..++
T Consensus        15 ~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~   94 (386)
T 2ca6_A           15 AITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCP   94 (386)
T ss_dssp             SCCSHHHHTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCT
T ss_pred             CCCHHHHHHHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCC
Confidence            334444555555556778899999999933322    3445778999999999998655    445554       6889


Q ss_pred             cCcEEeecccccCCc-----CchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCC---------CCCc
Q 039519          466 NLKCLNLQYMYNLNQ-----FPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGM---------KYLM  531 (647)
Q Consensus       466 ~L~~L~l~~~~~l~~-----lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l---------~~L~  531 (647)
                      +|++|+|++| .+..     +|.. +..+++|++|++.++..   .....       ......+..+         ++|+
T Consensus        95 ~L~~L~Ls~n-~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l---~~~~~-------~~l~~~l~~l~~~~~~~~~~~L~  162 (386)
T 2ca6_A           95 KLHTVRLSDN-AFGPTAQEPLIDF-LSKHTPLEHLYLHNNGL---GPQAG-------AKIARALQELAVNKKAKNAPPLR  162 (386)
T ss_dssp             TCCEEECCSC-CCCTTTHHHHHHH-HHHCTTCCEEECCSSCC---HHHHH-------HHHHHHHHHHHHHHHHHTCCCCC
T ss_pred             cccEEECCCC-cCCHHHHHHHHHH-HHhCCCCCEEECcCCCC---CHHHH-------HHHHHHHHHHhhhhhcccCCCCc
Confidence            9999999998 5555     6665 78899999998876543   11110       1122234444         8999


Q ss_pred             EEEEEecchh--hHHHHhhhhhhhhccceeeeeccCCCceEE----Ee-cccccCCccEEEEcCCCCC----CCCh-hhc
Q 039519          532 AVTITLKRLQ--ALQELLISQELQRCTQFLFLRCFNDSKSLD----IF-CLACLHNLNKLYVAGCKHL----EDFQ-MII  599 (647)
Q Consensus       532 ~L~l~~~~~~--~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~----l~-~~~~l~~L~~L~L~~~~~~----~~~~-~~~  599 (647)
                      .|+++.|.++  .+..+.......++|+.|.++++ ++..-.    +. .+..+++|++|+|++|.+.    ..+| .+.
T Consensus       163 ~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n-~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~  241 (386)
T 2ca6_A          163 SIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQN-GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALK  241 (386)
T ss_dssp             EEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSS-CCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGG
T ss_pred             EEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCC-CCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHc
Confidence            9999998875  55544444445567888888874 444211    12 4778999999999999753    4444 588


Q ss_pred             cccCCceEEeecccccccccch----hhh--hhhcCCCCcccCCCCc
Q 039519          600 QRSSLSVHNLFINKNYIHTNQL----SIL--LGINRLPHFTKSNPYH  640 (647)
Q Consensus       600 ~l~~L~~L~L~~~~~~~~~~~~----~~l--~~l~~L~~L~~~~~~~  640 (647)
                      .+++|++|+|++|.  +.....    ..+  +.+++|+.|+..+..+
T Consensus       242 ~~~~L~~L~L~~n~--i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i  286 (386)
T 2ca6_A          242 SWPNLRELGLNDCL--LSARGAAAVVDAFSKLENIGLQTLRLQYNEI  286 (386)
T ss_dssp             GCTTCCEEECTTCC--CCHHHHHHHHHHHHTCSSCCCCEEECCSSCC
T ss_pred             cCCCcCEEECCCCC--CchhhHHHHHHHHhhccCCCeEEEECcCCcC
Confidence            99999999999964  443322    233  2378899888776544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.41  E-value=4e-13  Score=139.61  Aligned_cols=174  Identities=18%  Similarity=0.222  Sum_probs=99.2

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCccc-cc-cccCCCeeeecCCCCCccc-cchhcCccCcEEeecc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLG-IS-TLVSLEHLDLSSTAITHLP-IDLQKLVNLKCLNLQY  474 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~-~~-~L~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~  474 (647)
                      +.++++++.++.+|..++.  .++.|+|++| .+..+|.. +. .+++|++|+|++|.|+.+| ..+.++++|++|+|++
T Consensus        21 ~~l~c~~~~l~~iP~~~~~--~l~~L~Ls~N-~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   97 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSLPS--YTALLDLSHN-NLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS   97 (361)
T ss_dssp             TEEECCSSCCSSCCSSCCT--TCSEEECCSS-CCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCCcCccCccCCC--CCCEEECCCC-CCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCC
Confidence            3566666666666654432  3566777777 45555443 33 6777777777777777665 3466777777777777


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhh
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQR  554 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~  554 (647)
                      | .+..+|...+..+++|+.|++.+   |.+..++           +..+..+++|+.|+++.|.++.++.   .     
T Consensus        98 N-~l~~~~~~~~~~l~~L~~L~L~~---N~i~~~~-----------~~~~~~l~~L~~L~L~~N~l~~l~~---~-----  154 (361)
T 2xot_A           98 N-HLHTLDEFLFSDLQALEVLLLYN---NHIVVVD-----------RNAFEDMAQLQKLYLSQNQISRFPV---E-----  154 (361)
T ss_dssp             S-CCCEECTTTTTTCTTCCEEECCS---SCCCEEC-----------TTTTTTCTTCCEEECCSSCCCSCCG---G-----
T ss_pred             C-cCCcCCHHHhCCCcCCCEEECCC---CcccEEC-----------HHHhCCcccCCEEECCCCcCCeeCH---H-----
Confidence            6 56666665566677777775553   4442222           2235566666666666554432110   0     


Q ss_pred             ccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccC--CceEEeeccc
Q 039519          555 CTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSS--LSVHNLFINK  613 (647)
Q Consensus       555 ~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~--L~~L~L~~~~  613 (647)
                           .+.           .+..+++|+.|+|++|.+...++ .+..++.  |+.|+|++|+
T Consensus       155 -----~~~-----------~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~  200 (361)
T 2xot_A          155 -----LIK-----------DGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNP  200 (361)
T ss_dssp             -----GTC---------------CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCSSC
T ss_pred             -----Hhc-----------CcccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEecCCC
Confidence                 000           01346677777777775544443 2566665  3677777755

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.41  E-value=4.7e-13  Score=127.51  Aligned_cols=120  Identities=28%  Similarity=0.345  Sum_probs=77.6

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+.+.+++.+|.. ..+++++|++++|.+..++.. +.++++|++|++++| .+..+|.. +..+++|++|++++|.+
T Consensus        11 ~v~c~~~~l~~~p~~-~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l   88 (208)
T 2o6s_A           11 TVECYSQGRTSVPTG-IPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGN-KLQSLPNGVFNKLTSLTYLNLSTNQL   88 (208)
T ss_dssp             EEECCSSCCSSCCSC-CCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EEEecCCCccCCCCC-CCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCC-ccCccChhhcCCCCCcCEEECCCCcC
Confidence            345555556555532 245677777777777776654 366677777777777 55555543 46677777777777777


Q ss_pred             Cccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          455 THLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       455 ~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +.+|.. ++.+++|++|++++| .+..+|...+..+++|++|++.+
T Consensus        89 ~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~  133 (208)
T 2o6s_A           89 QSLPNGVFDKLTQLKELALNTN-QLQSLPDGVFDKLTQLKDLRLYQ  133 (208)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CccCHhHhcCccCCCEEEcCCC-cCcccCHhHhccCCcCCEEECCC
Confidence            766643 567777777777776 56666665456667777775554

>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=99.40  E-value=1.6e-12  Score=124.97  Aligned_cols=98  Identities=15%  Similarity=0.221  Sum_probs=75.3

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCcc--ccccccCCCeeeecCCCCCcccc-chhcCccCcEEeecc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL--GISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQY  474 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~--~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~  474 (647)
                      +.+++++|.++.+|..++.  .+++|++++| .+..++.  .+..+++|++|+|++|.++.+|. .++++++|++|+|++
T Consensus        14 ~~l~~s~n~l~~iP~~~~~--~~~~L~L~~N-~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   90 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHIPQ--YTAELRLNNN-EFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TEEECCSSCCSSCCSCCCT--TCSEEECCSS-CCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEeEeCCCCcccCccCCCC--CCCEEEcCCC-cCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            3688888888888876543  3578888888 5666532  37888889999999988887765 688888899999988


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccc
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      | .+..+|.+.++.+++|++|++.+
T Consensus        91 N-~l~~~~~~~~~~l~~L~~L~Ls~  114 (220)
T 2v70_A           91 N-RLENVQHKMFKGLESLKTLMLRS  114 (220)
T ss_dssp             S-CCCCCCGGGGTTCSSCCEEECTT
T ss_pred             C-ccCccCHhHhcCCcCCCEEECCC
Confidence            8 67777776677888888886654

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.39  E-value=6.2e-13  Score=126.65  Aligned_cols=178  Identities=17%  Similarity=0.218  Sum_probs=121.3

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCCCCccccc-hhcCccCcEEeeccc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYM  475 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~  475 (647)
                      +.++..++.+..+|..++  ++|++|++++| .+..+|.. +..+++|++|++++|.++.+|.. +..+++|++|++++|
T Consensus        10 ~~v~c~~~~l~~~p~~~~--~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n   86 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTGIP--AQTTYLDLETN-SLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTN   86 (208)
T ss_dssp             TEEECCSSCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEecCCCccCCCCCCC--CCCcEEEcCCC-ccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCC
Confidence            356777788888876543  47899999999 66666654 68999999999999999988764 588999999999998


Q ss_pred             ccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhc
Q 039519          476 YNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRC  555 (647)
Q Consensus       476 ~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~  555 (647)
                       .+..+|...++.+++|++|++.+   |.+..++.           ..++.+++|+.|+++.|.++.+            
T Consensus        87 -~l~~~~~~~~~~l~~L~~L~L~~---N~l~~~~~-----------~~~~~l~~L~~L~l~~N~l~~~------------  139 (208)
T 2o6s_A           87 -QLQSLPNGVFDKLTQLKELALNT---NQLQSLPD-----------GVFDKLTQLKDLRLYQNQLKSV------------  139 (208)
T ss_dssp             -CCCCCCTTTTTTCTTCCEEECCS---SCCCCCCT-----------TTTTTCTTCCEEECCSSCCSCC------------
T ss_pred             -cCCccCHhHhcCccCCCEEEcCC---CcCcccCH-----------hHhccCCcCCEEECCCCcccee------------
Confidence             77888887678899999997765   55533332           2356778888888875544321            


Q ss_pred             cceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhc
Q 039519          556 TQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGIN  628 (647)
Q Consensus       556 l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~  628 (647)
                                     ....+..+++|++|+|++|+..      +.+++|++|+++.|  .+.......++.++
T Consensus       140 ---------------~~~~~~~l~~L~~L~l~~N~~~------~~~~~l~~L~~~~n--~~~g~ip~~~~~l~  189 (208)
T 2o6s_A          140 ---------------PDGVFDRLTSLQYIWLHDNPWD------CTCPGIRYLSEWIN--KHSGVVRNSAGSVA  189 (208)
T ss_dssp             ---------------CTTTTTTCTTCCEEECCSCCBC------CCTTTTHHHHHHHH--HCTTTBBCTTSSBC
T ss_pred             ---------------CHHHhccCCCccEEEecCCCee------cCCCCHHHHHHHHH--hCCceeeccCcccc
Confidence                           1112445666666667666432      33456666666663  23333333444443

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.39  E-value=1.7e-13  Score=147.48  Aligned_cols=83  Identities=18%  Similarity=0.147  Sum_probs=43.7

Q ss_pred             cccccEEEEEeecccccc-----cccCCCCcceeeEEeccCcccccc-Ccccc-cccc----CCCeeeecCCCCC-----
Q 039519          392 QNWRNVRRMSLMKNKIEN-----LSELQPALTFFLFFNMSNNHLLWK-LPLGI-STLV----SLEHLDLSSTAIT-----  455 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~~-----l~~~~~~l~~L~~L~l~~~~~~~~-lp~~~-~~L~----~L~~L~L~~~~l~-----  455 (647)
                      ..++++++|++++|.+..     ++..+..+++|++|++++| .+.. .+..+ ..+.    +|++|++++|.++     
T Consensus        25 ~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~  103 (461)
T 1z7x_W           25 PLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCG  103 (461)
T ss_dssp             HHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHH
T ss_pred             hhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCC-cCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHH
Confidence            345566666666666552     3333344555666666666 2322 12122 1233    4666666666655     


Q ss_pred             ccccchhcCccCcEEeeccc
Q 039519          456 HLPIDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~  475 (647)
                      .+|..+..+++|++|++++|
T Consensus       104 ~l~~~l~~~~~L~~L~Ls~n  123 (461)
T 1z7x_W          104 VLSSTLRTLPTLQELHLSDN  123 (461)
T ss_dssp             HHHHHTTSCTTCCEEECCSS
T ss_pred             HHHHHHccCCceeEEECCCC
Confidence            34555566666666666665

>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=99.39  E-value=2.9e-12  Score=123.95  Aligned_cols=95  Identities=24%  Similarity=0.346  Sum_probs=54.1

Q ss_pred             EEeecccccccccCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCCccccc-hhcCccCcEEeeccccc
Q 039519          400 MSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYMYN  477 (647)
Q Consensus       400 L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~  477 (647)
                      ++.+++.+..+|..++  ++|++|++++| .+..+ |..+..+++|++|+|++|.++.+|.. +..+++|++|+|++| .
T Consensus        24 v~c~~~~l~~ip~~~~--~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N-~   99 (229)
T 3e6j_A           24 VDCRSKRHASVPAGIP--TNAQILYLHDN-QITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN-Q   99 (229)
T ss_dssp             EECTTSCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-C
T ss_pred             eEccCCCcCccCCCCC--CCCCEEEcCCC-ccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCC-c
Confidence            4555555555554332  45666666666 33333 44556666666666666666666533 456666666666666 5


Q ss_pred             CCcCchhhhcCCCCCcEEecc
Q 039519          478 LNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       478 l~~lp~~~i~~l~~L~~L~l~  498 (647)
                      +..+|...+..+++|+.|++.
T Consensus       100 l~~l~~~~~~~l~~L~~L~Ls  120 (229)
T 3e6j_A          100 LTVLPSAVFDRLVHLKELFMC  120 (229)
T ss_dssp             CCCCCTTTTTTCTTCCEEECC
T ss_pred             CCccChhHhCcchhhCeEecc
Confidence            556655545556666666444

>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=99.36  E-value=2e-12  Score=125.08  Aligned_cols=147  Identities=22%  Similarity=0.260  Sum_probs=121.2

Q ss_pred             eEEecCCCcccCccccccccEEEEEeeccccccc-ccCCCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l-~~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~l  454 (647)
                      -+.+.+..+..+|.. -.++++.|++++|.+..+ |..+.++++|++|++++| .+..+|.. +..+++|++|+|++|.+
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 TVDCRSKRHASVPAG-IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSN-QLGALPVGVFDSLTQLTVLDLGTNQL  100 (229)
T ss_dssp             EEECTTSCCSSCCSC-CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EeEccCCCcCccCCC-CCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCC-CCCCcChhhcccCCCcCEEECCCCcC
Confidence            466777788888763 348999999999999997 455688999999999999 67777754 68999999999999999


Q ss_pred             Cccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEE
Q 039519          455 THLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAV  533 (647)
Q Consensus       455 ~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L  533 (647)
                      +.+|.. +..+++|++|++++| .+..+|.. +..+++|++|++.+   |++..++.           ..+..+++|+.|
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 TVLPSAVFDRLVHLKELFMCCN-KLTELPRG-IERLTHLTHLALDQ---NQLKSIPH-----------GAFDRLSSLTHA  164 (229)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSS-CCCSCCTT-GGGCTTCSEEECCS---SCCCCCCT-----------TTTTTCTTCCEE
T ss_pred             CccChhHhCcchhhCeEeccCC-cccccCcc-cccCCCCCEEECCC---CcCCccCH-----------HHHhCCCCCCEE
Confidence            988865 689999999999999 78899987 78999999997765   66644443           336778999999


Q ss_pred             EEEecchh
Q 039519          534 TITLKRLQ  541 (647)
Q Consensus       534 ~l~~~~~~  541 (647)
                      ++..|.+.
T Consensus       165 ~l~~N~~~  172 (229)
T 3e6j_A          165 YLFGNPWD  172 (229)
T ss_dssp             ECTTSCBC
T ss_pred             EeeCCCcc
Confidence            99977643

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.36  E-value=3.3e-13  Score=140.29  Aligned_cols=205  Identities=13%  Similarity=0.058  Sum_probs=117.8

Q ss_pred             ccEEEEEeeccccccccc-----CCCCcc-eeeEEeccCcccccc-Cccccccc-----cCCCeeeecCCCCCccc-cc-
Q 039519          395 RNVRRMSLMKNKIENLSE-----LQPALT-FFLFFNMSNNHLLWK-LPLGISTL-----VSLEHLDLSSTAITHLP-ID-  460 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~-----~~~~l~-~L~~L~l~~~~~~~~-lp~~~~~L-----~~L~~L~L~~~~l~~lp-~~-  460 (647)
                      +++++|++++|.+...+.     .+..++ +|++|++++| .+.. .+..+..+     ++|++|+|++|.++..+ .. 
T Consensus        22 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l  100 (362)
T 3goz_A           22 HGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDEL  100 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHH
T ss_pred             CCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHH
Confidence            458888888888877653     335565 7888888888 4443 34455554     78888888888887443 32 


Q ss_pred             ---hhcC-ccCcEEeecccccCCcCchhhhc----C-CCCCcEEeccccCCCcccccccccccCCccccHHHhhCCC-CC
Q 039519          461 ---LQKL-VNLKCLNLQYMYNLNQFPRLVIS----A-FSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMK-YL  530 (647)
Q Consensus       461 ---~~~l-~~L~~L~l~~~~~l~~lp~~~i~----~-l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~-~L  530 (647)
                         +..+ ++|++|++++| .+...+...+.    . .++|++|++.+   |.+...       ........+..++ +|
T Consensus       101 ~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~---N~l~~~-------~~~~l~~~l~~~~~~L  169 (362)
T 3goz_A          101 VKTLAAIPFTITVLDLGWN-DFSSKSSSEFKQAFSNLPASITSLNLRG---NDLGIK-------SSDELIQILAAIPANV  169 (362)
T ss_dssp             HHHHHTSCTTCCEEECCSS-CGGGSCHHHHHHHHTTSCTTCCEEECTT---SCGGGS-------CHHHHHHHHHTSCTTC
T ss_pred             HHHHHhCCCCccEEECcCC-cCCcHHHHHHHHHHHhCCCceeEEEccC---CcCCHH-------HHHHHHHHHhcCCccc
Confidence               3444 78888888887 55666543232    2 25788886665   333110       0112233445554 77


Q ss_pred             cEEEEEecchhhHH--HHhhhhhhh-hccceeeeeccCCCceEEEe----cccc-cCCccEEEEcCCCCCCCCh-----h
Q 039519          531 MAVTITLKRLQALQ--ELLISQELQ-RCTQFLFLRCFNDSKSLDIF----CLAC-LHNLNKLYVAGCKHLEDFQ-----M  597 (647)
Q Consensus       531 ~~L~l~~~~~~~l~--~l~~~~~~~-~~l~~l~L~~~~~L~~L~l~----~~~~-l~~L~~L~L~~~~~~~~~~-----~  597 (647)
                      +.|+++.|.++...  .+....... .+|+.|+|++ +.+......    .+.. .++|++|+|++|......+     .
T Consensus       170 ~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~-N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~  248 (362)
T 3goz_A          170 NSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSA-NLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLL  248 (362)
T ss_dssp             CEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTT-SCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHT
T ss_pred             cEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCC-CCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHHHH
Confidence            88887777664322  111111111 3566666665 233331111    1222 3577777777775544333     1


Q ss_pred             hccccCCceEEeecc
Q 039519          598 IIQRSSLSVHNLFIN  612 (647)
Q Consensus       598 ~~~l~~L~~L~L~~~  612 (647)
                      +..+++|+.|+|++|
T Consensus       249 ~~~l~~L~~L~L~~n  263 (362)
T 3goz_A          249 KDSLKHLQTVYLDYD  263 (362)
T ss_dssp             TTTTTTCSEEEEEHH
T ss_pred             HhcCCCccEEEeccC
Confidence            356677777777775

>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=99.35  E-value=2e-12  Score=124.21  Aligned_cols=149  Identities=15%  Similarity=0.164  Sum_probs=119.2

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeeccccccccc-C-CCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-L-QPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSST  452 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~-~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~  452 (647)
                      ..+.+.+..++.+|... ...++.|++++|.+..++. . +.++++|++|++++| .+..++. .|..+++|++|+|++|
T Consensus        14 ~~l~~s~n~l~~iP~~~-~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N   91 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI-PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNN-KITDIEEGAFEGASGVNEILLTSN   91 (220)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEeEeCCCCcccCccCC-CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCC-cCCEECHHHhCCCCCCCEEECCCC
Confidence            45677777788877532 4578899999999999843 3 578899999999999 5666654 7999999999999999


Q ss_pred             CCCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCc
Q 039519          453 AITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM  531 (647)
Q Consensus       453 ~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~  531 (647)
                      .++.+|. .++.+++|++|++++| .+..+++..+..+++|+.|++.+   |++..+           .+..+..+++|+
T Consensus        92 ~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~---N~l~~~-----------~~~~~~~l~~L~  156 (220)
T 2v70_A           92 RLENVQHKMFKGLESLKTLMLRSN-RITCVGNDSFIGLSSVRLLSLYD---NQITTV-----------APGAFDTLHSLS  156 (220)
T ss_dssp             CCCCCCGGGGTTCSSCCEEECTTS-CCCCBCTTSSTTCTTCSEEECTT---SCCCCB-----------CTTTTTTCTTCC
T ss_pred             ccCccCHhHhcCCcCCCEEECCCC-cCCeECHhHcCCCccCCEEECCC---CcCCEE-----------CHHHhcCCCCCC
Confidence            9998875 4889999999999999 67777655588999999997765   555333           334477889999


Q ss_pred             EEEEEecchh
Q 039519          532 AVTITLKRLQ  541 (647)
Q Consensus       532 ~L~l~~~~~~  541 (647)
                      .|+++.|.+.
T Consensus       157 ~L~L~~N~l~  166 (220)
T 2v70_A          157 TLNLLANPFN  166 (220)
T ss_dssp             EEECCSCCEE
T ss_pred             EEEecCcCCc
Confidence            9999977654

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.35  E-value=1.1e-12  Score=143.15  Aligned_cols=172  Identities=19%  Similarity=0.207  Sum_probs=126.9

Q ss_pred             ccceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCC
Q 039519          374 KENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       374 ~~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~  453 (647)
                      .-..+...+..+..+|  ..+++|+.|++++|.++.+|. +++  +|++|++++| .+..+|.   .+++|++|++++|.
T Consensus        81 ~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls~N-~l~~lp~---~l~~L~~L~Ls~N~  151 (571)
T 3cvr_A           81 QITVLEITQNALISLP--ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDVDNN-QLTMLPE---LPALLEYINADNNQ  151 (571)
T ss_dssp             TCSEEECCSSCCSCCC--CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEECCSS-CCSCCCC---CCTTCCEEECCSSC
T ss_pred             CCCEEECcCCCCcccc--cccCCCCEEEccCCCCCCcch-hhc--CCCEEECCCC-cCCCCCC---cCccccEEeCCCCc
Confidence            4567777788888888  567899999999999999888 554  8999999999 7777887   68999999999999


Q ss_pred             CCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHh-hCCCCCcE
Q 039519          454 ITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL-IGMKYLMA  532 (647)
Q Consensus       454 l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l-~~l~~L~~  532 (647)
                      ++.+|.   .+++|++|++++| .+..+|.  +.  ++|+.|++.+   |.+..+|. +.    .    .| .....   
T Consensus       152 l~~lp~---~l~~L~~L~Ls~N-~L~~lp~--l~--~~L~~L~Ls~---N~L~~lp~-~~----~----~L~~~~~~---  208 (571)
T 3cvr_A          152 LTMLPE---LPTSLEVLSVRNN-QLTFLPE--LP--ESLEALDVST---NLLESLPA-VP----V----RNHHSEET---  208 (571)
T ss_dssp             CSCCCC---CCTTCCEEECCSS-CCSCCCC--CC--TTCCEEECCS---SCCSSCCC-CC----------------C---
T ss_pred             cCcCCC---cCCCcCEEECCCC-CCCCcch--hh--CCCCEEECcC---CCCCchhh-HH----H----hhhccccc---
Confidence            999997   6789999999999 7888998  54  8999997765   56555443 21    0    01 11122   


Q ss_pred             EEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hcccc
Q 039519          533 VTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRS  602 (647)
Q Consensus       533 L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~  602 (647)
                                             ++.|+|++ +++..++ ..+..+++|+.|+|++|++.+.+|. +..++
T Consensus       209 -----------------------L~~L~Ls~-N~l~~lp-~~l~~l~~L~~L~L~~N~l~~~~p~~l~~l~  254 (571)
T 3cvr_A          209 -----------------------EIFFRCRE-NRITHIP-ENILSLDPTCTIILEDNPLSSRIRESLSQQT  254 (571)
T ss_dssp             -----------------------CEEEECCS-SCCCCCC-GGGGGSCTTEEEECCSSSCCHHHHHHHHHHH
T ss_pred             -----------------------ceEEecCC-CcceecC-HHHhcCCCCCEEEeeCCcCCCcCHHHHHHhh
Confidence                                   34444444 3444443 2245588999999999988776663 65543

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.34  E-value=1.1e-12  Score=141.05  Aligned_cols=157  Identities=14%  Similarity=0.072  Sum_probs=84.1

Q ss_pred             cccccccEEEEEeeccccccc-----ccC-CCCcceeeEEeccCcccccc-----CccccccccCCCeeeecCCCCCcc-
Q 039519          390 EIQNWRNVRRMSLMKNKIENL-----SEL-QPALTFFLFFNMSNNHLLWK-----LPLGISTLVSLEHLDLSSTAITHL-  457 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l-----~~~-~~~l~~L~~L~l~~~~~~~~-----lp~~~~~L~~L~~L~L~~~~l~~l-  457 (647)
                      .+..+++|++|++++|.+...     ... ....++|++|++++| .+..     ++..+..+++|++|++++|.+... 
T Consensus       108 ~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~  186 (461)
T 1z7x_W          108 TLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYC-SLSAASCEPLASVLRAKPDFKELTVSNNDINEAG  186 (461)
T ss_dssp             HTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTS-CCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHH
T ss_pred             HHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCC-CCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHH
Confidence            345566777777777766532     111 122345777777777 3332     344455667777777777766532 


Q ss_pred             ccchh-----cCccCcEEeecccccCCc-----CchhhhcCCCCCcEEeccccCCCcccccccccccCCccccH----HH
Q 039519          458 PIDLQ-----KLVNLKCLNLQYMYNLNQ-----FPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLV----EE  523 (647)
Q Consensus       458 p~~~~-----~l~~L~~L~l~~~~~l~~-----lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~----~~  523 (647)
                      +..+.     .+++|++|++++| .+..     ++.. +..+++|++|++.++.   +           .....    ..
T Consensus       187 ~~~l~~~l~~~~~~L~~L~L~~n-~l~~~~~~~l~~~-l~~~~~L~~L~Ls~n~---l-----------~~~~~~~l~~~  250 (461)
T 1z7x_W          187 VRVLCQGLKDSPCQLEALKLESC-GVTSDNCRDLCGI-VASKASLRELALGSNK---L-----------GDVGMAELCPG  250 (461)
T ss_dssp             HHHHHHHHHHSCCCCCEEECTTS-CCBTTHHHHHHHH-HHHCTTCCEEECCSSB---C-----------HHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCceEEEccCC-CCcHHHHHHHHHH-HHhCCCccEEeccCCc---C-----------ChHHHHHHHHH
Confidence            22222     2457777777776 4444     3443 5566777777665432   2           11111    11


Q ss_pred             h-hCCCCCcEEEEEecchhhH--HHHhhhhhhhhccceeeeec
Q 039519          524 L-IGMKYLMAVTITLKRLQAL--QELLISQELQRCTQFLFLRC  563 (647)
Q Consensus       524 l-~~l~~L~~L~l~~~~~~~l--~~l~~~~~~~~~l~~l~L~~  563 (647)
                      + ..+++|+.|+++.|.++..  ..++......++|+.|++++
T Consensus       251 ~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~  293 (461)
T 1z7x_W          251 LLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAG  293 (461)
T ss_dssp             HTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTT
T ss_pred             HhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCC
Confidence            2 2467788888877666542  12222223344566666654

>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=99.34  E-value=1.5e-12  Score=145.83  Aligned_cols=223  Identities=20%  Similarity=0.193  Sum_probs=142.4

Q ss_pred             cCccccccccEEEEEeeccccccccc---CCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccc--cch
Q 039519          387 EAPEIQNWRNVRRMSLMKNKIENLSE---LQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLP--IDL  461 (647)
Q Consensus       387 ~~~~~~~~~~l~~L~l~~n~i~~l~~---~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp--~~~  461 (647)
                      ..+....+++++.|+++.|.+.....   ....+..|++++++.+ ....++..+..+++|+.++++.++....+  ..+
T Consensus       363 ~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~~~~~-~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~  441 (635)
T 4g8a_A          363 NAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFN-GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVF  441 (635)
T ss_dssp             CBCCCCBCTTCCEEECCSSCCBEEEECCHHHHSCSCCCEEECCSC-SEEEECSCCTTCTTCCEEECTTSEEESTTSSCTT
T ss_pred             CCcccccccccccchhhccccccccccccchhhhhhhhhhhcccc-ccccccccccccccccchhhhhcccccccccccc
Confidence            33444455666677776666544222   1234456667777666 44455556667777777777766544322  345


Q ss_pred             hcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchh
Q 039519          462 QKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       462 ~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  541 (647)
                      ..+++|+.++++.| .+..++...+..+++|+.|++.+   |...          ....+..++.+++|+.|+++.|.++
T Consensus       442 ~~l~~l~~l~ls~n-~l~~~~~~~~~~~~~L~~L~Ls~---N~~~----------~~~~~~~~~~l~~L~~L~Ls~N~L~  507 (635)
T 4g8a_A          442 LSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAG---NSFQ----------ENFLPDIFTELRNLTFLDLSQCQLE  507 (635)
T ss_dssp             TTCTTCCEEECTTS-CCEECCTTTTTTCTTCCEEECTT---CEEG----------GGEECSCCTTCTTCCEEECTTSCCC
T ss_pred             cccccccccccccc-ccccccccccccchhhhhhhhhh---cccc----------cccCchhhhhccccCEEECCCCccC
Confidence            66777777777776 44555444466677777776654   2210          1222334677888999999887776


Q ss_pred             hHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccc-cCCceEEeeccccccccc
Q 039519          542 ALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQR-SSLSVHNLFINKNYIHTN  619 (647)
Q Consensus       542 ~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l-~~L~~L~L~~~~~~~~~~  619 (647)
                      .+.  +.....+++|+.|+|++ +++..++...+..+++|++|+|++|.+.+.+|. +..+ ++|++|+|++|+-..++.
T Consensus       508 ~l~--~~~f~~l~~L~~L~Ls~-N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L~~Np~~C~C~  584 (635)
T 4g8a_A          508 QLS--PTAFNSLSSLQVLNMSH-NNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCE  584 (635)
T ss_dssp             EEC--TTTTTTCTTCCEEECTT-SCCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEECTTCCBCCSGG
T ss_pred             CcC--hHHHcCCCCCCEEECCC-CcCCCCChhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEeeCCCCcccCC
Confidence            542  22234456788888887 677777766688899999999999988777774 7777 589999999987655555


Q ss_pred             chhhhhhh
Q 039519          620 QLSILLGI  627 (647)
Q Consensus       620 ~~~~l~~l  627 (647)
                      ......++
T Consensus       585 ~~~~~~wl  592 (635)
T 4g8a_A          585 HQSFLQWI  592 (635)
T ss_dssp             GHHHHHHH
T ss_pred             cHHHHHHH
Confidence            44433333

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.33  E-value=6.7e-15  Score=161.53  Aligned_cols=101  Identities=18%  Similarity=0.208  Sum_probs=59.7

Q ss_pred             hCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCC--Chhhcccc
Q 039519          525 IGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLED--FQMIIQRS  602 (647)
Q Consensus       525 ~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~--~~~~~~l~  602 (647)
                      +.+++|+.|+++.|.++.+   +.....+++|+.|+|++ +++..++  .++.+++|+.|+|++|.+.+.  |+.++.++
T Consensus       460 ~~l~~L~~L~Ls~N~l~~l---p~~~~~l~~L~~L~Ls~-N~l~~lp--~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~  533 (567)
T 1dce_A          460 EQLLLVTHLDLSHNRLRAL---PPALAALRCLEVLQASD-NALENVD--GVANLPRLQELLLCNNRLQQSAAIQPLVSCP  533 (567)
T ss_dssp             GGGTTCCEEECCSSCCCCC---CGGGGGCTTCCEEECCS-SCCCCCG--GGTTCSSCCEEECCSSCCCSSSTTGGGGGCT
T ss_pred             cccccCcEeecCccccccc---chhhhcCCCCCEEECCC-CCCCCCc--ccCCCCCCcEEECCCCCCCCCCCcHHHhcCC
Confidence            3344444444444443322   22223333444444444 3444443  477889999999999977776  34699999


Q ss_pred             CCceEEeeccccccccc-c-h-hhhhhhcCCCCc
Q 039519          603 SLSVHNLFINKNYIHTN-Q-L-SILLGINRLPHF  633 (647)
Q Consensus       603 ~L~~L~L~~~~~~~~~~-~-~-~~l~~l~~L~~L  633 (647)
                      +|+.|+|++|+  +... + . ..+..+|+|+.|
T Consensus       534 ~L~~L~L~~N~--l~~~~~~~~~l~~~lp~L~~L  565 (567)
T 1dce_A          534 RLVLLNLQGNS--LCQEEGIQERLAEMLPSVSSI  565 (567)
T ss_dssp             TCCEEECTTSG--GGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCCEEEecCCc--CCCCccHHHHHHHHCcccCcc
Confidence            99999999963  3322 2 1 234447777776

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.32  E-value=8e-13  Score=137.42  Aligned_cols=222  Identities=16%  Similarity=0.123  Sum_probs=143.7

Q ss_pred             EEeeccccccc-ccCCCCcceeeEEeccCccccccCc-----ccccccc-CCCeeeecCCCCCcc-ccchhcC-----cc
Q 039519          400 MSLMKNKIENL-SELQPALTFFLFFNMSNNHLLWKLP-----LGISTLV-SLEHLDLSSTAITHL-PIDLQKL-----VN  466 (647)
Q Consensus       400 L~l~~n~i~~l-~~~~~~l~~L~~L~l~~~~~~~~lp-----~~~~~L~-~L~~L~L~~~~l~~l-p~~~~~l-----~~  466 (647)
                      +.++.|.+.+. |......++|++|++++| .+...+     ..+..++ +|++|+|++|.++.. +..+..+     ++
T Consensus         3 ~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~   81 (362)
T 3goz_A            3 YKLTLHPGSNPVEEFTSIPHGVTSLDLSLN-NLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN   81 (362)
T ss_dssp             EECCCCTTCCHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT
T ss_pred             cccccccchHHHHHHHhCCCCceEEEccCC-CCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCC
Confidence            56778888764 443355567999999999 566665     5677888 899999999999855 5566664     89


Q ss_pred             CcEEeecccccCCcCchhhh----cCC-CCCcEEeccccCCCcccccccccccCCccccHHHhhCC-CCCcEEEEEecch
Q 039519          467 LKCLNLQYMYNLNQFPRLVI----SAF-SKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGM-KYLMAVTITLKRL  540 (647)
Q Consensus       467 L~~L~l~~~~~l~~lp~~~i----~~l-~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~~~~  540 (647)
                      |++|++++| .+...+...+    ..+ ++|++|++.+   |.+...+.       ......+..+ ++|+.|+++.|.+
T Consensus        82 L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~---N~l~~~~~-------~~l~~~l~~~~~~L~~L~Ls~N~l  150 (362)
T 3goz_A           82 VTSLNLSGN-FLSYKSSDELVKTLAAIPFTITVLDLGW---NDFSSKSS-------SEFKQAFSNLPASITSLNLRGNDL  150 (362)
T ss_dssp             CCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCS---SCGGGSCH-------HHHHHHHTTSCTTCCEEECTTSCG
T ss_pred             ccEEECcCC-cCChHHHHHHHHHHHhCCCCccEEECcC---CcCCcHHH-------HHHHHHHHhCCCceeEEEccCCcC
Confidence            999999999 5665554323    334 8999997775   44422211       1122234453 6999999998887


Q ss_pred             hh--HHHHhhhhhhh-hccceeeeeccCCCceEEEec----cccc-CCccEEEEcCCCCCCC----Ch-hhcc-ccCCce
Q 039519          541 QA--LQELLISQELQ-RCTQFLFLRCFNDSKSLDIFC----LACL-HNLNKLYVAGCKHLED----FQ-MIIQ-RSSLSV  606 (647)
Q Consensus       541 ~~--l~~l~~~~~~~-~~l~~l~L~~~~~L~~L~l~~----~~~l-~~L~~L~L~~~~~~~~----~~-~~~~-l~~L~~  606 (647)
                      +.  ...+....... .+|+.|+|+++ ++.......    +..+ ++|++|+|++|.....    ++ .+.. .++|++
T Consensus       151 ~~~~~~~l~~~l~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~  229 (362)
T 3goz_A          151 GIKSSDELIQILAAIPANVNSLNLRGN-NLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVS  229 (362)
T ss_dssp             GGSCHHHHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCE
T ss_pred             CHHHHHHHHHHHhcCCccccEeeecCC-CCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceE
Confidence            63  22333222222 37888888873 554433221    3344 6999999999975542    22 3555 459999


Q ss_pred             EEeecccccccccchh----hhhhhcCCCCcccC
Q 039519          607 HNLFINKNYIHTNQLS----ILLGINRLPHFTKS  636 (647)
Q Consensus       607 L~L~~~~~~~~~~~~~----~l~~l~~L~~L~~~  636 (647)
                      |+|++|  .+......    .+..+++|+.|+..
T Consensus       230 L~Ls~N--~l~~~~~~~l~~~~~~l~~L~~L~L~  261 (362)
T 3goz_A          230 LNLCLN--CLHGPSLENLKLLKDSLKHLQTVYLD  261 (362)
T ss_dssp             EECCSS--CCCCCCHHHHHHTTTTTTTCSEEEEE
T ss_pred             EECcCC--CCCcHHHHHHHHHHhcCCCccEEEec
Confidence            999995  35443332    23445666666443

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.32  E-value=3.4e-12  Score=116.95  Aligned_cols=134  Identities=22%  Similarity=0.216  Sum_probs=101.2

Q ss_pred             cccEEEEEeeccccc--ccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCc-cccchhcCccCcEE
Q 039519          394 WRNVRRMSLMKNKIE--NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITH-LPIDLQKLVNLKCL  470 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~--~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~-lp~~~~~l~~L~~L  470 (647)
                      +++++.|++++|.+.  .+|..+..+++|++|++++| .+..+ ..++.+++|++|++++|.++. +|..++++++|++|
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L  100 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINV-GLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHL  100 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESS-CCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEE
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCC-CCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEE
Confidence            467889999999988  78877788888999999998 56666 678889999999999998886 77777779999999


Q ss_pred             eecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchh
Q 039519          471 NLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       471 ~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  541 (647)
                      ++++| .+..+|. ..+..+++|++|++.+   |.+..++.        .....+..+++|+.|+++.+...
T Consensus       101 ~Ls~N-~l~~~~~~~~l~~l~~L~~L~l~~---N~l~~~~~--------~~~~~~~~l~~L~~L~l~~n~~~  160 (168)
T 2ell_A          101 NLSGN-KLKDISTLEPLKKLECLKSLDLFN---CEVTNLND--------YRESVFKLLPQLTYLDGYDREDQ  160 (168)
T ss_dssp             ECBSS-SCCSSGGGGGGSSCSCCCEEECCS---SGGGTSTT--------HHHHHHTTCSSCCEETTEETTSC
T ss_pred             eccCC-ccCcchhHHHHhcCCCCCEEEeeC---CcCcchHH--------HHHHHHHhCccCcEecCCCCChh
Confidence            99988 7777763 2377888888887664   44432221        11135778888888888866543

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.31  E-value=9.7e-12  Score=122.90  Aligned_cols=142  Identities=21%  Similarity=0.243  Sum_probs=93.3

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      +.+...+..+..++.+..+++|+.|++++|.+..++. +.++++|++|++++| .+..+|.. .. ++|++|++++|.++
T Consensus        44 ~~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~  119 (263)
T 1xeu_A           44 QNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVNRN-RLKNLNGI-PS-ACLSRLFLDNNELR  119 (263)
T ss_dssp             SEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCSS-CCSCCTTC-CC-SSCCEEECCSSCCS
T ss_pred             cEEECcCCCcccchHHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECCCC-ccCCcCcc-cc-CcccEEEccCCccC
Confidence            3455555566666666777777777777777777666 566777777777777 56666533 33 77777777777777


Q ss_pred             ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEE
Q 039519          456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTI  535 (647)
Q Consensus       456 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  535 (647)
                      .+| .++.+++|++|++++| .+..+|.  ++.+++|+.|++.+   |.+..           .  ..+..+++|+.|++
T Consensus       120 ~~~-~l~~l~~L~~L~Ls~N-~i~~~~~--l~~l~~L~~L~L~~---N~i~~-----------~--~~l~~l~~L~~L~l  179 (263)
T 1xeu_A          120 DTD-SLIHLKNLEILSIRNN-KLKSIVM--LGFLSKLEVLDLHG---NEITN-----------T--GGLTRLKKVNWIDL  179 (263)
T ss_dssp             BSG-GGTTCTTCCEEECTTS-CCCBCGG--GGGCTTCCEEECTT---SCCCB-----------C--TTSTTCCCCCEEEE
T ss_pred             CCh-hhcCcccccEEECCCC-cCCCChH--HccCCCCCEEECCC---CcCcc-----------h--HHhccCCCCCEEeC
Confidence            765 4777777777777777 5666663  66777777776554   33311           1  34566777777777


Q ss_pred             Eecchh
Q 039519          536 TLKRLQ  541 (647)
Q Consensus       536 ~~~~~~  541 (647)
                      +.|.+.
T Consensus       180 ~~N~~~  185 (263)
T 1xeu_A          180 TGQKCV  185 (263)
T ss_dssp             EEEEEE
T ss_pred             CCCccc
Confidence            766544

>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=99.30  E-value=3.6e-12  Score=117.83  Aligned_cols=141  Identities=20%  Similarity=0.187  Sum_probs=111.7

Q ss_pred             CccccccccEEEEEeecccccccccCCCCc-ceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccch-hcCc
Q 039519          388 APEIQNWRNVRRMSLMKNKIENLSELQPAL-TFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDL-QKLV  465 (647)
Q Consensus       388 ~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l-~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~-~~l~  465 (647)
                      .+.+..+.+++.|++++|.++.+|. +..+ ++|++|++++| .+..+ +.++.+++|++|++++|.++.+|..+ +.++
T Consensus        12 ~~~~~~~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N-~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~   88 (176)
T 1a9n_A           12 AAQYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDN-EIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALP   88 (176)
T ss_dssp             SCEEECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSS-CCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCT
T ss_pred             HHhcCCcCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCC-CCCcc-cccccCCCCCEEECCCCcccccCcchhhcCC
Confidence            4566778899999999999998865 3444 48999999999 67777 58999999999999999999998665 8999


Q ss_pred             cCcEEeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhH
Q 039519          466 NLKCLNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQAL  543 (647)
Q Consensus       466 ~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l  543 (647)
                      +|++|++++| .+..+|. ..++.+++|+.|++.+   |.+..++.        .....++.+++|+.|+++.+.....
T Consensus        89 ~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~l~~---N~i~~~~~--------~~~~~~~~l~~L~~Ld~~~n~~~~~  155 (176)
T 1a9n_A           89 DLTELILTNN-SLVELGDLDPLASLKSLTYLCILR---NPVTNKKH--------YRLYVIYKVPQVRVLDFQKVKLKER  155 (176)
T ss_dssp             TCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCS---SGGGGSTT--------HHHHHHHHCTTCSEETTEECCHHHH
T ss_pred             CCCEEECCCC-cCCcchhhHhhhcCCCCCEEEecC---CCCCCcHh--------HHHHHHHHCCccceeCCCcCCHHHH
Confidence            9999999999 7788886 2278899999997765   55533322        1122477899999999998776543

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.28  E-value=3.8e-12  Score=114.08  Aligned_cols=127  Identities=19%  Similarity=0.249  Sum_probs=94.7

Q ss_pred             cccEEEEEeeccccc--ccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCc-cccchhcCccCcEE
Q 039519          394 WRNVRRMSLMKNKIE--NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITH-LPIDLQKLVNLKCL  470 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~--~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~-lp~~~~~l~~L~~L  470 (647)
                      +++++.|++++|.+.  .+|..+..+++|++|++++| .+..+ ..++.+++|++|++++|.++. +|..++.+++|++|
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L   93 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINV-GLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHL   93 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTS-CCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEE
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCC-CCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEE
Confidence            467888999999888  68877788888999999988 66666 578888999999999998886 77777788899999


Q ss_pred             eecccccCCcCc--hhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEE
Q 039519          471 NLQYMYNLNQFP--RLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTI  535 (647)
Q Consensus       471 ~l~~~~~l~~lp--~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  535 (647)
                      ++++| .+..+|  .. ++.+++|++|++.+   |.+..++.        .....++.+++|+.|++
T Consensus        94 ~ls~N-~i~~~~~~~~-~~~l~~L~~L~l~~---N~l~~~~~--------~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           94 NLSGN-KIKDLSTIEP-LKKLENLKSLDLFN---CEVTNLND--------YRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             ECTTS-CCCSHHHHGG-GGGCTTCCEEECTT---CGGGGSTT--------HHHHHHHHCTTCCEETT
T ss_pred             ECCCC-cCCChHHHHH-HhhCCCCCEEeCcC---CcccchHH--------HHHHHHHHCCCcccccC
Confidence            99988 667765  43 77888888886665   44422221        11134667777777654

>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=7.3e-12  Score=130.04  Aligned_cols=154  Identities=22%  Similarity=0.237  Sum_probs=116.8

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCC-C-CcceeeEEeccCccccccCc-cccccccCCCeeeecCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQ-P-ALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSST  452 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~-~-~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~  452 (647)
                      ..+.+.+..++.+|.. -.+.++.|+|++|.++.++... . ++++|++|++++| .+..+| ..|..+++|++|+|++|
T Consensus        21 ~~l~c~~~~l~~iP~~-~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N   98 (361)
T 2xot_A           21 NILSCSKQQLPNVPQS-LPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSN   98 (361)
T ss_dssp             TEEECCSSCCSSCCSS-CCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCccCcc-CCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCC-cCCccChhhccCCCCCCEEECCCC
Confidence            4677777788888753 2457889999999999987764 4 8899999999999 566665 45889999999999999


Q ss_pred             CCCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCc
Q 039519          453 AITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM  531 (647)
Q Consensus       453 ~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~  531 (647)
                      .++.+|. .+..+++|++|+|++| .+..++...+..+++|+.|++.+   |.+..+|...+        ..+..+++|+
T Consensus        99 ~l~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~L~~---N~l~~l~~~~~--------~~~~~l~~L~  166 (361)
T 2xot_A           99 HLHTLDEFLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQLQKLYLSQ---NQISRFPVELI--------KDGNKLPKLM  166 (361)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCS---SCCCSCCGGGT--------C----CTTCC
T ss_pred             cCCcCCHHHhCCCcCCCEEECCCC-cccEECHHHhCCcccCCEEECCC---CcCCeeCHHHh--------cCcccCCcCC
Confidence            9998875 5788999999999998 67777655588899999996664   66655554332        1235688888


Q ss_pred             EEEEEecchhhH
Q 039519          532 AVTITLKRLQAL  543 (647)
Q Consensus       532 ~L~l~~~~~~~l  543 (647)
                      .|+++.|.++.+
T Consensus       167 ~L~L~~N~l~~l  178 (361)
T 2xot_A          167 LLDLSSNKLKKL  178 (361)
T ss_dssp             EEECCSSCCCCC
T ss_pred             EEECCCCCCCcc
Confidence            888887776654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.27  E-value=2.5e-12  Score=145.53  Aligned_cols=82  Identities=22%  Similarity=0.376  Sum_probs=42.1

Q ss_pred             CCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCc
Q 039519          414 QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQ  493 (647)
Q Consensus       414 ~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~  493 (647)
                      +..++.|+.|+|++| .+..+|..+..+++|++|+|++|.|+.+|..+++|++|++|+|++| .+..+|.. ++.+++|+
T Consensus       220 ~~~l~~L~~L~Ls~n-~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N-~l~~lp~~-~~~l~~L~  296 (727)
T 4b8c_D          220 KYDDQLWHALDLSNL-QIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHN-RLTSLPAE-LGSCFQLK  296 (727)
T ss_dssp             --CCCCCCEEECTTS-CCSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTS-CCSSCCSS-GGGGTTCS
T ss_pred             hccCCCCcEEECCCC-CCCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCC-cCCccChh-hcCCCCCC
Confidence            344455555555555 3445555555555555555555555555555555555555555555 34455554 45555555


Q ss_pred             EEecc
Q 039519          494 VLRMF  498 (647)
Q Consensus       494 ~L~l~  498 (647)
                      +|++.
T Consensus       297 ~L~L~  301 (727)
T 4b8c_D          297 YFYFF  301 (727)
T ss_dssp             EEECC
T ss_pred             EEECC
Confidence            55443

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

Probab=99.25  E-value=2.7e-11  Score=134.55  Aligned_cols=13  Identities=15%  Similarity=0.202  Sum_probs=6.3

Q ss_pred             hhhcCCCCcccCC
Q 039519          625 LGINRLPHFTKSN  637 (647)
Q Consensus       625 ~~l~~L~~L~~~~  637 (647)
                      .++++|+.|+..+
T Consensus       485 ~~~~~L~~L~l~~  497 (592)
T 3ogk_B          485 RGCPNLQKLEMRG  497 (592)
T ss_dssp             TCCTTCCEEEEES
T ss_pred             hcCcccCeeeccC
Confidence            4455555554443

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

Probab=99.23  E-value=2.2e-11  Score=135.32  Aligned_cols=79  Identities=16%  Similarity=0.111  Sum_probs=38.2

Q ss_pred             ceeeEEeccCccccccCccccccccCCCeeeecCCCCC--ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEE
Q 039519          418 TFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT--HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL  495 (647)
Q Consensus       418 ~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L  495 (647)
                      ++|+.|+++++ ....+|..+..+++|++|++++|.++  .++..+..+++|++|+++++-.-..++. +...+++|++|
T Consensus       270 ~~L~~L~l~~~-~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~-~~~~~~~L~~L  347 (592)
T 3ogk_B          270 RKLCRLGLSYM-GPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEV-LAQYCKQLKRL  347 (592)
T ss_dssp             TTCCEEEETTC-CTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHH-HHHHCTTCCEE
T ss_pred             ccccccCcccc-chhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCccCHHHHHH-HHHhCCCCCEE
Confidence            34444444443 33444555555666666666666554  2223345566666666653211111222 23445666666


Q ss_pred             ecc
Q 039519          496 RMF  498 (647)
Q Consensus       496 ~l~  498 (647)
                      ++.
T Consensus       348 ~L~  350 (592)
T 3ogk_B          348 RIE  350 (592)
T ss_dssp             EEE
T ss_pred             Eee
Confidence            665

>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=99.22  E-value=1.3e-11  Score=115.82  Aligned_cols=125  Identities=14%  Similarity=0.249  Sum_probs=66.5

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCccc--cccccCCCeeeecCCCCCcc-ccchhcCccCcEEeecc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLG--ISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQY  474 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~--~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~  474 (647)
                      +.+++++|.++.+|..++.  .+++|++++| .+..+|..  ++.+++|++|+|++|.++.+ |..++++++|++|+|++
T Consensus        11 ~~l~~s~~~l~~ip~~~~~--~l~~L~l~~n-~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~   87 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIPL--HTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCCCT--TCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCcCcCccCCCC--CCCEEECCCC-cCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCC
Confidence            3455556666555554332  4556666666 44444432  55666666666666666644 44556666666666666


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecch
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRL  540 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  540 (647)
                      | .+..++...++.+++|++|++.+   |++..           ..+..+..+++|+.|+++.|.+
T Consensus        88 N-~l~~~~~~~~~~l~~L~~L~L~~---N~l~~-----------~~~~~~~~l~~L~~L~L~~N~l  138 (192)
T 1w8a_A           88 N-KIKEISNKMFLGLHQLKTLNLYD---NQISC-----------VMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             C-CCCEECSSSSTTCTTCCEEECCS---SCCCE-----------ECTTSSTTCTTCCEEECTTCCB
T ss_pred             C-cCCccCHHHhcCCCCCCEEECCC---CcCCe-----------eCHHHhhcCCCCCEEEeCCCCc
Confidence            5 44555544355556666664443   33322           2222344555666666655443

>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=99.22  E-value=3.8e-11  Score=109.89  Aligned_cols=125  Identities=22%  Similarity=0.276  Sum_probs=104.0

Q ss_pred             cceEEecCCCcc--cCccc-cccccEEEEEeecccccccccCCCCcceeeEEeccCcccccc-CccccccccCCCeeeec
Q 039519          375 ENFLVHAGFGLT--EAPEI-QNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWK-LPLGISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~--~~~~~-~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~-lp~~~~~L~~L~~L~L~  450 (647)
                      -..+...+..+.  .+|.. ..+++|++|++++|.+..+ ..+..+++|++|++++| .+.. +|..+..+++|++|+++
T Consensus        26 L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls  103 (168)
T 2ell_A           26 VRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSEN-RIFGGLDMLAEKLPNLTHLNLS  103 (168)
T ss_dssp             CSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESC-CCCSCCCHHHHHCTTCCEEECB
T ss_pred             CCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCC-cCchHHHHHHhhCCCCCEEecc
Confidence            344555566665  55554 7889999999999999988 66788999999999999 5555 77777789999999999


Q ss_pred             CCCCCccc--cchhcCccCcEEeecccccCCcCch---hhhcCCCCCcEEeccccCC
Q 039519          451 STAITHLP--IDLQKLVNLKCLNLQYMYNLNQFPR---LVISAFSKLQVLRMFDCGG  502 (647)
Q Consensus       451 ~~~l~~lp--~~~~~l~~L~~L~l~~~~~l~~lp~---~~i~~l~~L~~L~l~~~~~  502 (647)
                      +|.++.+|  ..++.+++|++|++++| .+..+|.   ..+..+++|++|++.++..
T Consensus       104 ~N~l~~~~~~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A          104 GNKLKDISTLEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             SSSCCSSGGGGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTEETTS
T ss_pred             CCccCcchhHHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCCCCCh
Confidence            99999887  78999999999999999 6778886   4488999999998887544

>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=3.6e-11  Score=112.75  Aligned_cols=123  Identities=18%  Similarity=0.244  Sum_probs=71.9

Q ss_pred             EEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccc-cchhcCccCcEEeeccccc
Q 039519          399 RMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLP-IDLQKLVNLKCLNLQYMYN  477 (647)
Q Consensus       399 ~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~~~~  477 (647)
                      .+++++|.++.+|..++  +.|++|++++| .+..+|..+..+++|++|+|++|.++.++ ..+.++++|++|+|++| .
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-~   89 (193)
T 2wfh_A           14 VVRCSNKGLKVLPKGIP--RDVTELYLDGN-QFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN-R   89 (193)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCCEEECCSS-CCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-C
T ss_pred             EEEcCCCCCCcCCCCCC--CCCCEEECCCC-cCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCC-c
Confidence            45566666666665432  35666666666 55566666666666666666666666555 34666666666666666 5


Q ss_pred             CCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecc
Q 039519          478 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKR  539 (647)
Q Consensus       478 l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  539 (647)
                      +..++...+..+++|++|++.+   |.+..++..           .+..+++|+.|+++.|.
T Consensus        90 l~~i~~~~f~~l~~L~~L~L~~---N~l~~~~~~-----------~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           90 LRCIPPRTFDGLKSLRLLSLHG---NDISVVPEG-----------AFNDLSALSHLAIGANP  137 (193)
T ss_dssp             CCBCCTTTTTTCTTCCEEECCS---SCCCBCCTT-----------TTTTCTTCCEEECCSSC
T ss_pred             cCEeCHHHhCCCCCCCEEECCC---CCCCeeChh-----------hhhcCccccEEEeCCCC
Confidence            5666554466666666665443   444333332           24455666666666554

>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=99.21  E-value=2.7e-11  Score=111.83  Aligned_cols=124  Identities=19%  Similarity=0.229  Sum_probs=105.9

Q ss_pred             cceEEecCCCcccCccccccc-cEEEEEeecccccccccCCCCcceeeEEeccCccccccCcccc-ccccCCCeeeecCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWR-NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLSST  452 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~-~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~-~~L~~L~~L~L~~~  452 (647)
                      ...+...+..++.+|.+..+. +++.|++++|.+..+ ..+..+++|++|++++| .+..+|+.+ +.+++|++|++++|
T Consensus        21 L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N   98 (176)
T 1a9n_A           21 DRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNN-RICRIGEGLDQALPDLTELILTNN   98 (176)
T ss_dssp             CEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSS-CCCEECSCHHHHCTTCCEEECCSC
T ss_pred             ceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCC-cccccCcchhhcCCCCCEEECCCC
Confidence            345666777777778777766 999999999999998 56788999999999999 777888665 89999999999999


Q ss_pred             CCCcccc--chhcCccCcEEeecccccCCcCchh---hhcCCCCCcEEeccccC
Q 039519          453 AITHLPI--DLQKLVNLKCLNLQYMYNLNQFPRL---VISAFSKLQVLRMFDCG  501 (647)
Q Consensus       453 ~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~---~i~~l~~L~~L~l~~~~  501 (647)
                      .++.+|.  .++.+++|++|++++| .+..+|..   .++.+++|+.|++.++.
T Consensus        99 ~i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           99 SLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             CCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             cCCcchhhHhhhcCCCCCEEEecCC-CCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            9999997  8999999999999999 67788874   47899999999777543

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.20  E-value=5.1e-11  Score=111.72  Aligned_cols=121  Identities=21%  Similarity=0.237  Sum_probs=104.8

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l  454 (647)
                      ..+.+.+.+++.+|.. -.++++.|++++|.++.+|..+.++++|++|++++| .+..++ ..|..+++|++|+|++|.+
T Consensus        13 ~~l~~~~~~l~~ip~~-~~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~Ls~N~l   90 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKG-IPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLILSYNRL   90 (193)
T ss_dssp             TEEECTTSCCSSCCSC-CCTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEcCCCCCCcCCCC-CCCCCCEEECCCCcCchhHHHhhcccCCCEEECCCC-cCCEeCHhHccCCCCCCEEECCCCcc
Confidence            4677778888888763 247999999999999999988899999999999999 666665 4689999999999999999


Q ss_pred             Ccccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          455 THLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       455 ~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +.+|. .+..+++|++|+|++| .+..+|.+.+..+++|+.|++.+
T Consensus        91 ~~i~~~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~  135 (193)
T 2wfh_A           91 RCIPPRTFDGLKSLRLLSLHGN-DISVVPEGAFNDLSALSHLAIGA  135 (193)
T ss_dssp             CBCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTTTCTTCCEEECCS
T ss_pred             CEeCHHHhCCCCCCCEEECCCC-CCCeeChhhhhcCccccEEEeCC
Confidence            98874 6899999999999999 78899987788899999997764

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.20  E-value=2.9e-11  Score=108.27  Aligned_cols=121  Identities=21%  Similarity=0.247  Sum_probs=100.8

Q ss_pred             cceEEecCCCcc--cCcc-ccccccEEEEEeecccccccccCCCCcceeeEEeccCcccccc-CccccccccCCCeeeec
Q 039519          375 ENFLVHAGFGLT--EAPE-IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWK-LPLGISTLVSLEHLDLS  450 (647)
Q Consensus       375 ~~~l~~~~~~~~--~~~~-~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~-lp~~~~~L~~L~~L~L~  450 (647)
                      -+.+...+..+.  .+|. +..+++++.|++++|.+..+ ..+..+++|++|++++| .+.. +|..++.+++|++|+++
T Consensus        19 l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~ls   96 (149)
T 2je0_A           19 VKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDN-RVSGGLEVLAEKCPNLTHLNLS   96 (149)
T ss_dssp             CSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSS-CCCSCTHHHHHHCTTCCEEECT
T ss_pred             CeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCC-cccchHHHHhhhCCCCCEEECC
Confidence            344555566665  4444 47789999999999999988 66688999999999999 5555 88777889999999999


Q ss_pred             CCCCCccc--cchhcCccCcEEeecccccCCcCch---hhhcCCCCCcEEecc
Q 039519          451 STAITHLP--IDLQKLVNLKCLNLQYMYNLNQFPR---LVISAFSKLQVLRMF  498 (647)
Q Consensus       451 ~~~l~~lp--~~~~~l~~L~~L~l~~~~~l~~lp~---~~i~~l~~L~~L~l~  498 (647)
                      +|.++.+|  ..++.+++|++|++++| .+..+|.   ..++.+++|+.|++.
T Consensus        97 ~N~i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           97 GNKIKDLSTIEPLKKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             TSCCCSHHHHGGGGGCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CCcCCChHHHHHHhhCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCC
Confidence            99999875  78999999999999999 6778876   458899999999765

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.16  E-value=4.2e-11  Score=131.37  Aligned_cols=123  Identities=20%  Similarity=0.227  Sum_probs=87.7

Q ss_pred             cEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeeccc
Q 039519          396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~  475 (647)
                      .++.|++++|.++.+|. +..+++|+.|++++| .+..+|..++.|++|++|+|++|.++.+| .++++++|++|+|++|
T Consensus       442 ~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNN  518 (567)
T ss_dssp             TCSEEECTTSCCSSCCC-GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSS
T ss_pred             CceEEEecCCCCCCCcC-ccccccCcEeecCcc-cccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCCC
Confidence            46778888888888776 677778888888888 66678888888888888888888888877 7888888888888887


Q ss_pred             ccCCcC--chhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          476 YNLNQF--PRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       476 ~~l~~l--p~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                       .+..+  |.. ++.+++|+.|++.+   |.+.++|+.        ...-+..+++|+.|+
T Consensus       519 -~l~~~~~p~~-l~~l~~L~~L~L~~---N~l~~~~~~--------~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          519 -RLQQSAAIQP-LVSCPRLVLLNLQG---NSLCQEEGI--------QERLAEMLPSVSSIL  566 (567)
T ss_dssp             -CCCSSSTTGG-GGGCTTCCEEECTT---SGGGGSSSC--------TTHHHHHCTTCSEEE
T ss_pred             -CCCCCCCcHH-HhcCCCCCEEEecC---CcCCCCccH--------HHHHHHHCcccCccC
Confidence             66666  555 77788888885553   555444332        112233466666664

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.15  E-value=3.3e-10  Score=116.80  Aligned_cols=263  Identities=13%  Similarity=0.019  Sum_probs=147.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC------CCCcceEEEEEEcCcc------CHHHHHHHHHHHhCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA------PNDFDVVIWMVVSKDL------QLEKIQERIGRRIGFL  143 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT------~~~F~~~~wv~~s~~~------~~~~~~~~i~~~l~~~  143 (647)
                      +.+|||+.+++++.+.+..+  +++.|+|++|+|||      ..... .+|+.+....      +...+.+.+...+...
T Consensus        12 ~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~   88 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNERP-GILIDCRELYAERGHITREELIKELQSTISPF   88 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHSS-EEEEEHHHHHHTTTCBCHHHHHHHHHHHSCSH
T ss_pred             HhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHcC-cEEEEeecccccccCCCHHHHHHHHHHHHHHH
Confidence            56899999999999988764  79999999999999      11122 6777765432      5566666666655320


Q ss_pred             --------------CcC--CCCCCHHHHHHHHHHHhcc-CCeeEEEecCCCccc---------cccccCCCCCCCCCcEE
Q 039519          144 --------------DES--WKNGSLEDKASDIFRILSK-KKLLLLLDDIWERVD---------LTKVGVPFPDPENKSRI  197 (647)
Q Consensus       144 --------------~~~--~~~~~~~~~~~~l~~~l~~-~r~LlVlDdv~~~~~---------~~~l~~~~~~~~~gs~I  197 (647)
                                    ...  ....+..+....+.+.... ++++||+||++....         +..+..... ...+.++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~-~~~~~~~  167 (350)
T 2qen_A           89 QKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD-SLPNLKI  167 (350)
T ss_dssp             HHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH-HCTTEEE
T ss_pred             HhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH-hcCCeEE
Confidence                          000  0123556666667666643 499999999987432         122211111 1146789


Q ss_pred             EEecCchHHhhhc------------ccceeEec------------cccccC--CCChHHHHHHHHHHhcCCchhHHHHhh
Q 039519          198 DFTTRFLEICSAM------------QAHEFLKV------------EDVLKN--HPNIPELARSVAQECAGLPLALITIGR  251 (647)
Q Consensus       198 ivTTR~~~v~~~~------------~~~~~~~~------------~~~~~~--~~~~~~~~~~i~~~c~glPLai~~~g~  251 (647)
                      |+|++...+...+            .....+.+            ...+..  ..--++.+.++++.++|.|+++..++.
T Consensus       168 il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tgG~P~~l~~~~~  247 (350)
T 2qen_A          168 ILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLDGIPGWLVVFGV  247 (350)
T ss_dssp             EEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             EEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Confidence            9998876542211            01123444            111111  112346788999999999999999887


Q ss_pred             HhhcCCCHhHHHHHHHHHhhcccCCCCCCcchhhHH-HHhhcCCCchhhhhHHhhhcCCCCCCcccHHHHHHHhhhcCCc
Q 039519          252 VMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLL-KYSYDSLPDETIRSCLLYCGLFPEDYRTRKSELIDCWIGEGFL  330 (647)
Q Consensus       252 ~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l-~~sy~~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~w~a~g~~  330 (647)
                      .+....+...+..   .+.....      ..+...+ .+.++  ++ ..+..+..+|.   + ..+...+.....+.. -
T Consensus       248 ~~~~~~~~~~~~~---~~~~~~~------~~~~~~l~~l~~~--~~-~~~~~l~~la~---g-~~~~~~l~~~~~~~~-~  310 (350)
T 2qen_A          248 EYLRNGDFGRAMK---RTLEVAK------GLIMGELEELRRR--SP-RYVDILRAIAL---G-YNRWSLIRDYLAVKG-T  310 (350)
T ss_dssp             HHHHHCCHHHHHH---HHHHHHH------HHHHHHHHHHHHH--CH-HHHHHHHHHHT---T-CCSHHHHHHHHHHTT-C
T ss_pred             HHhccccHhHHHH---HHHHHHH------HHHHHHHHHHHhC--Ch-hHHHHHHHHHh---C-CCCHHHHHHHHHHHh-C
Confidence            6532123322221   1111000      0111111 11222  55 78888888887   2 234445444332210 0


Q ss_pred             cccCccchHHHHHHHHHHHHHhccccccCCCeeEE
Q 039519          331 DQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEE  365 (647)
Q Consensus       331 ~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~m  365 (647)
                       .    .......++++.|.+.+++... ...|++
T Consensus       311 -~----~~~~~~~~~l~~L~~~gli~~~-~~~y~~  339 (350)
T 2qen_A          311 -K----IPEPRLYALLENLKKMNWIVEE-DNTYKI  339 (350)
T ss_dssp             -C----CCHHHHHHHHHHHHHTTSEEEE-TTEEEE
T ss_pred             -C----CCHHHHHHHHHHHHhCCCEEec-CCEEEE
Confidence             0    1124466789999999999764 234544

>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=99.13  E-value=1.2e-10  Score=109.26  Aligned_cols=121  Identities=19%  Similarity=0.194  Sum_probs=100.6

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccC--CCCcceeeEEeccCccccccC-ccccccccCCCeeeecCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL--QPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSST  452 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~--~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~  452 (647)
                      ..+...+.+++.+|... ..+++.|++++|.+..++..  +..+++|++|++++| .+..+ |..+..+++|++|+|++|
T Consensus        11 ~~l~~s~~~l~~ip~~~-~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N   88 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDI-PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEcCCCCcCcCccCC-CCCCCEEECCCCcCCccCCccccccCCCCCEEECCCC-CCCCcCHhHcCCcccCCEEECCCC
Confidence            45777788888887632 35999999999999998764  588999999999999 55554 778999999999999999


Q ss_pred             CCCcccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          453 AITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       453 ~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      .++.+|. .++.+++|++|++++| .+..+++..+..+++|++|++.+
T Consensus        89 ~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~  135 (192)
T 1w8a_A           89 KIKEISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLAS  135 (192)
T ss_dssp             CCCEECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTT
T ss_pred             cCCccCHHHhcCCCCCCEEECCCC-cCCeeCHHHhhcCCCCCEEEeCC
Confidence            9997765 4889999999999999 66666444488999999997765

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.13  E-value=7.4e-10  Score=117.07  Aligned_cols=267  Identities=13%  Similarity=0.040  Sum_probs=153.0

Q ss_pred             CCcccchHHHHHHHHHh-hh------CCceEEEE--EccCccCCC----------CC-----Ccc-eEEEEEEcCccCHH
Q 039519           76 EPTVGLESTFDKVRRCL-RE------EQVGIIGL--YGMGGLLGA----------PN-----DFD-VVIWMVVSKDLQLE  130 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L-~~------~~~~vi~I--~G~gGiGKT----------~~-----~F~-~~~wv~~s~~~~~~  130 (647)
                      ..++||+.+++++.+.+ ..      ...+.+.|  +|++|+|||          ..     .|+ .++|+.+....+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            67899999999999988 42      24456666  999999999          11     122 35677766777889


Q ss_pred             HHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCcc--------ccccccCCC---CCCC--CCc
Q 039519          131 KIQERIGRRIGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWERV--------DLTKVGVPF---PDPE--NKS  195 (647)
Q Consensus       131 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~~--------~~~~l~~~~---~~~~--~gs  195 (647)
                      .+...++.+++.... ....+..+....+.+.+.  +++++|||||++...        .+..+...+   +..+  .+.
T Consensus       102 ~~~~~l~~~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQ-VRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHTCCCC-CTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHhCCCCC-CCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            999999999875421 112345666777777775  679999999998632        222221111   1112  345


Q ss_pred             EEEEecCchHHhhhcc---------cceeEec----------------cccccCCCChHHHHHHHHHHhc------CCch
Q 039519          196 RIDFTTRFLEICSAMQ---------AHEFLKV----------------EDVLKNHPNIPELARSVAQECA------GLPL  244 (647)
Q Consensus       196 ~IivTTR~~~v~~~~~---------~~~~~~~----------------~~~~~~~~~~~~~~~~i~~~c~------glPL  244 (647)
                      .||+||+...+...+.         ....+.+                ...+....--++.+..|++.++      |.|.
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~p~  260 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSAR  260 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHH
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCcHH
Confidence            5888887655432111         1112444                0011111223567888999999      9996


Q ss_pred             hHHHHhhHh---h---cC--CCHhHHHHHHHHHhhcccCCCCCCcchhhHHHHhhcCCCchhhhhHHhhhcCCC--CCCc
Q 039519          245 ALITIGRVM---A---CK--KTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFP--EDYR  314 (647)
Q Consensus       245 ai~~~g~~l---~---~~--~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp--~~~~  314 (647)
                      .+..+....   +   +.  -+.+.+..++.....            ...+.-++..||+ ..+.++..++.+.  .+..
T Consensus       261 ~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------------~~~~~~~l~~l~~-~~~~~l~aia~l~~~~~~~  327 (412)
T 1w5s_A          261 RAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------------ASIQTHELEALSI-HELIILRLIAEATLGGMEW  327 (412)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------------CCSSSSSCH-HHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------------cchHHHHHHcCCH-HHHHHHHHHHHHHhcCCCC
Confidence            555443321   1   10  123333333321110            2234456778998 8888888888654  2334


Q ss_pred             ccHHHHHHHhhh-c-CCccccCccchHHHHHHHHHHHHHhcccccc
Q 039519          315 TRKSELIDCWIG-E-GFLDQYDRSGAYDEGYYIIGILLHACLLEEE  358 (647)
Q Consensus       315 i~~~~Li~~w~a-~-g~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  358 (647)
                      ++...+...+.. . ......  .........+++.|.+.+++...
T Consensus       328 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~L~~~gli~~~  371 (412)
T 1w5s_A          328 INAGLLRQRYEDASLTMYNVK--PRGYTQYHIYLKHLTSLGLVDAK  371 (412)
T ss_dssp             BCHHHHHHHHHHHHHHHSCCC--CCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             ccHHHHHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHHhCCCEEee
Confidence            555555444321 1 001000  01124456789999999999764

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

Probab=99.12  E-value=1.6e-10  Score=128.28  Aligned_cols=81  Identities=21%  Similarity=0.276  Sum_probs=44.4

Q ss_pred             ccccEEEEEeecccccc-----cccCCCCcceeeEEeccCcc-cc--ccCccccccccCCCeeeecCC-CCCccccchhc
Q 039519          393 NWRNVRRMSLMKNKIEN-----LSELQPALTFFLFFNMSNNH-LL--WKLPLGISTLVSLEHLDLSST-AITHLPIDLQK  463 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~-----l~~~~~~l~~L~~L~l~~~~-~~--~~lp~~~~~L~~L~~L~L~~~-~l~~lp~~~~~  463 (647)
                      .+++|++|++++|.+..     ++.....+++|+.|++++|. .+  ..++.-+..+++|++|++++| .+..+|..+..
T Consensus       154 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~  233 (594)
T 2p1m_B          154 TCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQR  233 (594)
T ss_dssp             HCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHH
T ss_pred             hCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhc
Confidence            45667777777666543     22222455667777777662 01  111111234567777777766 44455555566


Q ss_pred             CccCcEEeec
Q 039519          464 LVNLKCLNLQ  473 (647)
Q Consensus       464 l~~L~~L~l~  473 (647)
                      +++|++|++.
T Consensus       234 ~~~L~~L~l~  243 (594)
T 2p1m_B          234 APQLEELGTG  243 (594)
T ss_dssp             CTTCSEEECS
T ss_pred             CCcceEcccc
Confidence            6666666543

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.12  E-value=2.4e-10  Score=105.54  Aligned_cols=118  Identities=27%  Similarity=0.350  Sum_probs=65.6

Q ss_pred             EEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCCCC
Q 039519          378 LVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       378 l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~l~  455 (647)
                      +.+.+.+++.+|. ...++++.|++++|.+..++.. +..+++|++|++++| .+..+|.. +..+++|++|++++|.++
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 IRCNSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQN-QIQSLPDGVFDKLTKLTILYLHENKLQ   89 (177)
T ss_dssp             EECCSSCCSSCCT-TCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEecCCCCccCCC-CCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCC-cceEeChhHccCCCccCEEECCCCCcc
Confidence            4444445555542 2234666666666666655543 255566666666666 44444433 456666666666666666


Q ss_pred             ccccc-hhcCccCcEEeecccccCCcCchhhhcCCCCCcEEecc
Q 039519          456 HLPID-LQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       456 ~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~  498 (647)
                      .+|.. ++.+++|++|++++| .+..+|...+..+++|++|++.
T Consensus        90 ~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~  132 (177)
T 2o6r_A           90 SLPNGVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLH  132 (177)
T ss_dssp             CCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECC
T ss_pred             ccCHHHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEec
Confidence            55543 455666666666665 4555655544555566665444

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.11  E-value=5.8e-11  Score=134.37  Aligned_cols=113  Identities=24%  Similarity=0.265  Sum_probs=99.6

Q ss_pred             cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcE
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC  469 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~  469 (647)
                      .+..++.|+.|+|++|.+..+|..+.++++|++|+|++| .+..+|..|+.|++|++|+|++|.|+.+|..+++|++|++
T Consensus       219 ~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~  297 (727)
T 4b8c_D          219 SKYDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGN-SLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKY  297 (727)
T ss_dssp             ---CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTS-CCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSE
T ss_pred             hhccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCC-cCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCE
Confidence            466778999999999999999988888999999999999 6779999999999999999999999999999999999999


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCccccc
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL  508 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~  508 (647)
                      |+|++| .+..+|.+ ++.+++|++|++.+   |.+.+.
T Consensus       298 L~L~~N-~l~~lp~~-~~~l~~L~~L~L~~---N~l~~~  331 (727)
T 4b8c_D          298 FYFFDN-MVTTLPWE-FGNLCNLQFLGVEG---NPLEKQ  331 (727)
T ss_dssp             EECCSS-CCCCCCSS-TTSCTTCCCEECTT---SCCCSH
T ss_pred             EECCCC-CCCccChh-hhcCCCccEEeCCC---CccCCC
Confidence            999999 78899997 89999999997664   565433

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.06  E-value=1.2e-11  Score=116.71  Aligned_cols=63  Identities=25%  Similarity=0.315  Sum_probs=33.2

Q ss_pred             CccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          434 LPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       434 lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +|..++.+++|++|++++|.++.+| .++.+++|++|++++| .+..+|.. +..+++|+.|++.+
T Consensus        40 l~~~~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n-~l~~l~~~-~~~~~~L~~L~L~~  102 (198)
T 1ds9_A           40 MDATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENL-DAVADTLEELWISY  102 (198)
T ss_dssp             CHHHHHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEE-EECSCSSH-HHHHHHCSEEEEEE
T ss_pred             hhHHHhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCC-Ccccccch-hhcCCcCCEEECcC
Confidence            3335555555555555555555555 5555555555555555 44455543 44445555554443

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.05  E-value=5.8e-10  Score=102.92  Aligned_cols=127  Identities=20%  Similarity=0.274  Sum_probs=102.7

Q ss_pred             EEEEEeecccccccccCCCCcceeeEEeccCccccccCccc-cccccCCCeeeecCCCCCccccc-hhcCccCcEEeecc
Q 039519          397 VRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQY  474 (647)
Q Consensus       397 l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~  474 (647)
                      .+.+++.++++..+|...+  +.|+.|++++| .+..+|.. ++.+++|++|++++|.++.+|.. ++.+++|++|++++
T Consensus         9 ~~~l~~~~~~l~~~p~~~~--~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~   85 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTGIP--SSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHE   85 (177)
T ss_dssp             TTEEECCSSCCSSCCTTCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEecCCCCccCCCCCC--CCCcEEEeCCC-cccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCC
Confidence            3568888999998886543  68999999999 56676654 68999999999999999988865 68999999999999


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchh
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  541 (647)
                      | .+..+|...++.+++|++|++.+   |.+..++..           .+..+++|+.|+++.|.+.
T Consensus        86 N-~l~~~~~~~~~~l~~L~~L~l~~---N~l~~~~~~-----------~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A           86 N-KLQSLPNGVFDKLTQLKELALDT---NQLKSVPDG-----------IFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             S-CCCCCCTTTTTTCTTCCEEECCS---SCCSCCCTT-----------TTTTCTTCCEEECCSSCBC
T ss_pred             C-CccccCHHHhhCCcccCEEECcC---CcceEeCHH-----------HhcCCcccCEEEecCCCee
Confidence            9 78888887678899999997765   555444432           2567899999999988754

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.04  E-value=2.4e-09  Score=110.59  Aligned_cols=262  Identities=13%  Similarity=0.066  Sum_probs=138.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC------CCCc-ceEEEEEEcCc-----cCHHHHHHHHHHHhC--
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA------PNDF-DVVIWMVVSKD-----LQLEKIQERIGRRIG--  141 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT------~~~F-~~~~wv~~s~~-----~~~~~~~~~i~~~l~--  141 (647)
                      +.+|||+.+++++.+ +..   +++.|+|++|+|||      .... ...+|+.+...     .+...+...+...+.  
T Consensus        13 ~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~   88 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKL   88 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHHHHHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCCCHHHHHHHHHHHHHHH
Confidence            568999999999999 755   69999999999999      1111 23678887642     244444444444331  


Q ss_pred             ------------CC------C--cCC-----CCCCHHHHHHHHHHHhccCCeeEEEecCCCcc-----ccccccCCCCCC
Q 039519          142 ------------FL------D--ESW-----KNGSLEDKASDIFRILSKKKLLLLLDDIWERV-----DLTKVGVPFPDP  191 (647)
Q Consensus       142 ------------~~------~--~~~-----~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~-----~~~~l~~~~~~~  191 (647)
                                  ..      .  ...     ......+....+.+.-+ ++++||+||++..+     ++..+...+...
T Consensus        89 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~~l~~~~~~  167 (357)
T 2fna_A           89 VKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLPALAYAYDN  167 (357)
T ss_dssp             HHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHHHHHHHHHH
T ss_pred             hhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHHHHHHHHHc
Confidence                        00      0  000     12234444444444322 49999999997632     221111111111


Q ss_pred             CCCcEEEEecCchHHhhhc----------c--cceeEec------------ccccc-CCCChHHHHHHHHHHhcCCchhH
Q 039519          192 ENKSRIDFTTRFLEICSAM----------Q--AHEFLKV------------EDVLK-NHPNIPELARSVAQECAGLPLAL  246 (647)
Q Consensus       192 ~~gs~IivTTR~~~v~~~~----------~--~~~~~~~------------~~~~~-~~~~~~~~~~~i~~~c~glPLai  246 (647)
                      ..+.++|+|++.......+          .  ....+.+            ...+. ........ ..|++.++|.|+++
T Consensus       168 ~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~-~~i~~~t~G~P~~l  246 (357)
T 2fna_A          168 LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDY-EVVYEKIGGIPGWL  246 (357)
T ss_dssp             CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCH-HHHHHHHCSCHHHH
T ss_pred             CCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcH-HHHHHHhCCCHHHH
Confidence            2367899999976542211          0  1123444            01100 00011112 78999999999999


Q ss_pred             HHHhhHhhcCCCHhHHHHHHHHHhhcccCCCCCCcchhhHHH-Hhhc--CCCchhhhhHHhhhcCCCCCCcccHHHHHHH
Q 039519          247 ITIGRVMACKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLK-YSYD--SLPDETIRSCLLYCGLFPEDYRTRKSELIDC  323 (647)
Q Consensus       247 ~~~g~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~-~sy~--~L~~~~~k~~fl~~a~fp~~~~i~~~~Li~~  323 (647)
                      ..++..+....+...|..   .+.....      ..+...+. +.++  .+++ ..+..+..+|+   +.  +...+...
T Consensus       247 ~~~~~~~~~~~~~~~~~~---~~~~~~~------~~~~~~l~~~~~~~~~l~~-~~~~~l~~la~---g~--~~~~l~~~  311 (357)
T 2fna_A          247 TYFGFIYLDNKNLDFAIN---QTLEYAK------KLILKEFENFLHGREIARK-RYLNIMRTLSK---CG--KWSDVKRA  311 (357)
T ss_dssp             HHHHHHHHHHCCHHHHHH---HHHHHHH------HHHHHHHHHHHTTCGGGHH-HHHHHHHHHTT---CB--CHHHHHHH
T ss_pred             HHHHHHHccccchHHHHH---HHHHHHH------HHHHHHHHHHhhccccccH-HHHHHHHHHHc---CC--CHHHHHHH
Confidence            999887653234444432   1111000      01111111 1111  5677 78889988887   22  34444322


Q ss_pred             hh-hcCCccccCccchHHHHHHHHHHHHHhccccccCCCeeEE
Q 039519          324 WI-GEGFLDQYDRSGAYDEGYYIIGILLHACLLEEEWGDIGEE  365 (647)
Q Consensus       324 w~-a~g~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~m  365 (647)
                      .. ..|.      ........++++.|++.+++.... ..|++
T Consensus       312 ~~~~~g~------~~~~~~~~~~L~~L~~~gli~~~~-~~y~f  347 (357)
T 2fna_A          312 LELEEGI------EISDSEIYNYLTQLTKHSWIIKEG-EKYCP  347 (357)
T ss_dssp             HHHHHCS------CCCHHHHHHHHHHHHHTTSEEESS-SCEEE
T ss_pred             HHHhcCC------CCCHHHHHHHHHHHHhCCCEEecC-CEEEe
Confidence            11 1121      011234567899999999997653 34544

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

Probab=99.04  E-value=1.3e-10  Score=129.19  Aligned_cols=109  Identities=11%  Similarity=0.026  Sum_probs=59.0

Q ss_pred             HHHhh-CCCCCcEEEEEe------cchhh---HHHHhhhhhhhhccceeeeec-------------cCCCceEEEec---
Q 039519          521 VEELI-GMKYLMAVTITL------KRLQA---LQELLISQELQRCTQFLFLRC-------------FNDSKSLDIFC---  574 (647)
Q Consensus       521 ~~~l~-~l~~L~~L~l~~------~~~~~---l~~l~~~~~~~~~l~~l~L~~-------------~~~L~~L~l~~---  574 (647)
                      +..+. .+++|+.|++..      +.++.   -..+.......++|+.|++++             +++|+.|++.+   
T Consensus       389 ~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~~l~~~~~~~l~~~~~~L~~L~L~~~~i  468 (594)
T 2p1m_B          389 LITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAGD  468 (594)
T ss_dssp             HHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHCTTCCEEEEESCCS
T ss_pred             HHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecCcccHHHHHHHHHhchhccEeeccCCCC
Confidence            33443 577888888873      22221   011111122334677777654             55677777744   


Q ss_pred             --------ccccCCccEEEEcCCCCCCCCh--hhccccCCceEEeecccccccccchhhh-hhhcCCC
Q 039519          575 --------LACLHNLNKLYVAGCKHLEDFQ--MIIQRSSLSVHNLFINKNYIHTNQLSIL-LGINRLP  631 (647)
Q Consensus       575 --------~~~l~~L~~L~L~~~~~~~~~~--~~~~l~~L~~L~L~~~~~~~~~~~~~~l-~~l~~L~  631 (647)
                              ...+++|++|+|++|.......  ....+++|++|++++|+.  ....+..+ ..+|+|.
T Consensus       469 ~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l~~~~~--~~~~~~~l~~~lp~l~  534 (594)
T 2p1m_B          469 SDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSV--SFGACKLLGQKMPKLN  534 (594)
T ss_dssp             SHHHHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEEESSCC--BHHHHHHHHHHCTTEE
T ss_pred             cHHHHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEeeeCCCC--CHHHHHHHHHhCCCCE
Confidence                    1456778888888776522221  234577788888887642  33333333 3445553

>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=99.03  E-value=7.4e-12  Score=118.11  Aligned_cols=79  Identities=22%  Similarity=0.229  Sum_probs=37.0

Q ss_pred             CCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcE
Q 039519          415 PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQV  494 (647)
Q Consensus       415 ~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~  494 (647)
                      ..+++|++|++++| .+..+| .+..+++|++|++++|.++.+|..+..+++|++|++++| .+..+|.  ++.+++|+.
T Consensus        45 ~~l~~L~~L~ls~n-~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N-~l~~l~~--~~~l~~L~~  119 (198)
T 1ds9_A           45 STLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLSG--IEKLVNLRV  119 (198)
T ss_dssp             HHTTTCSEEECSEE-EESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEE-ECCCHHH--HHHHHHSSE
T ss_pred             hcCCCCCEEECCCC-CCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCC-cCCcCCc--cccCCCCCE
Confidence            34444444555444 333444 444445555555555544444444444444555555544 3444442  444444444


Q ss_pred             Eecc
Q 039519          495 LRMF  498 (647)
Q Consensus       495 L~l~  498 (647)
                      |++.
T Consensus       120 L~l~  123 (198)
T 1ds9_A          120 LYMS  123 (198)
T ss_dssp             EEES
T ss_pred             EECC
Confidence            4443

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.00  E-value=9.4e-10  Score=101.13  Aligned_cols=98  Identities=23%  Similarity=0.332  Sum_probs=72.8

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCCccccc-hhcCccCcEEeeccc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYM  475 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~  475 (647)
                      +.+++++|.+..+|..++  +.|++|++++| .+..+ |..++.+++|++|+|++|.++.+|.. +.++++|++|+|++|
T Consensus        15 ~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP--TDKQRLWLNNN-QITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCC-CccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC
Confidence            567778888877776554  67788888888 45555 55677888888888888888887765 467888888888887


Q ss_pred             ccCCcCchhhhcCCCCCcEEeccc
Q 039519          476 YNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       476 ~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                       .+..+|.+.+..+++|++|++.+
T Consensus        92 -~l~~l~~~~~~~l~~L~~L~L~~  114 (174)
T 2r9u_A           92 -HLKSIPRGAFDNLKSLTHIYLYN  114 (174)
T ss_dssp             -CCCCCCTTTTTTCTTCSEEECCS
T ss_pred             -ccceeCHHHhccccCCCEEEeCC
Confidence             67777776577777888776654

>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=98.97  E-value=1.4e-09  Score=99.64  Aligned_cols=98  Identities=23%  Similarity=0.337  Sum_probs=69.3

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCCccccc-hhcCccCcEEeeccc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAITHLPID-LQKLVNLKCLNLQYM  475 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~  475 (647)
                      +.+++++|.++.+|..++  +.|++|++++| .+..+ |..|..+++|++|+|++|.++.+|.. +..+++|++|+|++|
T Consensus        12 ~~l~~s~n~l~~ip~~~~--~~l~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   88 (170)
T 3g39_A           12 TTVDCSGKSLASVPTGIP--TTTQVLYLYDN-QITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN   88 (170)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCccCccCC--CCCcEEEcCCC-cCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC
Confidence            467777777777776543  56777888877 55555 55577778888888888887777754 467778888888777


Q ss_pred             ccCCcCchhhhcCCCCCcEEeccc
Q 039519          476 YNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       476 ~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                       .+..+|.+.+..+++|++|++.+
T Consensus        89 -~l~~~~~~~~~~l~~L~~L~L~~  111 (170)
T 3g39_A           89 -QLKSIPRGAFDNLKSLTHIWLLN  111 (170)
T ss_dssp             -CCCCCCTTTTTTCTTCCEEECCS
T ss_pred             -ccCEeCHHHhcCCCCCCEEEeCC
Confidence             66777765567777777776554

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.91  E-value=2.8e-09  Score=97.95  Aligned_cols=106  Identities=21%  Similarity=0.269  Sum_probs=89.4

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccc-cCCCCcceeeEEeccCccccccCccc-cccccCCCeeeecCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLS-ELQPALTFFLFFNMSNNHLLWKLPLG-ISTLVSLEHLDLSST  452 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~-~~~~~l~~L~~L~l~~~~~~~~lp~~-~~~L~~L~~L~L~~~  452 (647)
                      ...+...+..+..+|.-. .+++++|++++|.+..++ ..+.++++|++|+|++| .+..+|.. +..+++|++|+|++|
T Consensus        14 ~~~l~~~~n~l~~iP~~~-~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGI-PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SSEEECCSSCCSSCCSCC-CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CcEEEeCCCCCCccCCCc-CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEEECCCC
Confidence            356777888888887633 389999999999999975 45689999999999999 77788876 589999999999999


Q ss_pred             CCCccccc-hhcCccCcEEeecccccCCcCch
Q 039519          453 AITHLPID-LQKLVNLKCLNLQYMYNLNQFPR  483 (647)
Q Consensus       453 ~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~  483 (647)
                      .++.+|.. +..+++|++|++++| .+.-.+.
T Consensus        92 ~l~~l~~~~~~~l~~L~~L~L~~N-~~~c~~~  122 (174)
T 2r9u_A           92 HLKSIPRGAFDNLKSLTHIYLYNN-PWDCECR  122 (174)
T ss_dssp             CCCCCCTTTTTTCTTCSEEECCSS-CBCTTBG
T ss_pred             ccceeCHHHhccccCCCEEEeCCC-Ccccccc
Confidence            99999875 889999999999998 4555554

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.86  E-value=2.5e-09  Score=109.35  Aligned_cols=99  Identities=14%  Similarity=0.126  Sum_probs=65.2

Q ss_pred             cccEEEEEeecccccccccCCCCcceeeEEeccCccccccCcc-cccc--------ccCCCeeeecCCCCCcccc-chhc
Q 039519          394 WRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GIST--------LVSLEHLDLSSTAITHLPI-DLQK  463 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~--------L~~L~~L~L~~~~l~~lp~-~~~~  463 (647)
                      +++|+.|+|++|++.........++.++.+.+..+    .+|. .|.+        +.+|+.|+|.. .++.++. .|.+
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~----~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~~~aF~~  122 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMAN----FVPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIEDAAFKG  122 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTT----EECTTTTEEEETTEEEECTTCCC-CBCT-TCCEECTTTTTT
T ss_pred             hccCeEEecCcceeEEecCcccccccccccccccc----ccCHHHhcccccccccccCCCcEEECCc-cccchhHHHhhc
Confidence            56788888888887722111122222444554444    2332 3556        89999999988 8888874 5788


Q ss_pred             CccCcEEeecccccCCcCchhhhcCCCCCcEEecc
Q 039519          464 LVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       464 l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~  498 (647)
                      |++|+.+++.+| .+..++...+..+.++..+...
T Consensus       123 ~~~L~~l~l~~n-~i~~i~~~aF~~~~~l~~l~~~  156 (329)
T 3sb4_A          123 CDNLKICQIRKK-TAPNLLPEALADSVTAIFIPLG  156 (329)
T ss_dssp             CTTCCEEEBCCS-SCCEECTTSSCTTTCEEEECTT
T ss_pred             CcccceEEcCCC-CccccchhhhcCCCceEEecCc
Confidence            999999999987 6677887777776666665443

>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=98.84  E-value=5.1e-09  Score=95.81  Aligned_cols=105  Identities=22%  Similarity=0.276  Sum_probs=87.6

Q ss_pred             eeeEEeccCccccccCccccccccCCCeeeecCCCCCcc-ccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEec
Q 039519          419 FFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM  497 (647)
Q Consensus       419 ~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l  497 (647)
                      ..+.+++++| .+..+|..+.  .+|++|+|++|.++.+ |..++.+++|++|+|++| .+..+|.+.+..+++|++|++
T Consensus        10 ~~~~l~~s~n-~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L   85 (170)
T 3g39_A           10 SGTTVDCSGK-SLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLSL   85 (170)
T ss_dssp             ETTEEECTTS-CCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEEeCCC-CcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCC-CcCccChhhccCCCCCCEEEC
Confidence            3578999999 7888998774  8999999999999988 567899999999999999 789999886789999999977


Q ss_pred             cccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchh
Q 039519          498 FDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       498 ~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  541 (647)
                      .+   |++..+++.           .+..+++|+.|+++.|.+.
T Consensus        86 ~~---N~l~~~~~~-----------~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           86 ND---NQLKSIPRG-----------AFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             CS---SCCCCCCTT-----------TTTTCTTCCEEECCSSCBC
T ss_pred             CC---CccCEeCHH-----------HhcCCCCCCEEEeCCCCCC
Confidence            64   666554443           3678899999999988653

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.78  E-value=2.7e-07  Score=96.25  Aligned_cols=256  Identities=13%  Similarity=-0.021  Sum_probs=149.1

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC-------CC---C--------cceEEEEEEcCcc-CHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA-------PN---D--------FDVVIWMVVSKDL-QLEKI  132 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT-------~~---~--------F~~~~wv~~s~~~-~~~~~  132 (647)
                      ..++||+++++++.+.+..    +..+.+.|+|++|+|||       ..   .        ....+|+..+... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            6789999999999987764    34678999999999999       11   1        3356777776666 78888


Q ss_pred             HHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccc-------cccccCCCCCCCCCcEEEEecCchH
Q 039519          133 QERIGRRIGFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVD-------LTKVGVPFPDPENKSRIDFTTRFLE  205 (647)
Q Consensus       133 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~-------~~~l~~~~~~~~~gs~IivTTR~~~  205 (647)
                      ...++..+..........+..+....+.+.+..++.+|||||++....       +..+....    .+.+||+||+...
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t~~~~  175 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMISNDIN  175 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEECSSTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEECCCc
Confidence            888888873222111233456677788888887777999999986321       22222221    5778888888653


Q ss_pred             H--------hhhcccceeEec----------------cccccCCCChHHHHHHHHHHhc---CCch-hHHHHhhHh--h-
Q 039519          206 I--------CSAMQAHEFLKV----------------EDVLKNHPNIPELARSVAQECA---GLPL-ALITIGRVM--A-  254 (647)
Q Consensus       206 v--------~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~g~~l--~-  254 (647)
                      .        ...++.  .+.+                ...+....--++..+.+++.++   |.|- |+..+-...  + 
T Consensus       176 ~~~~l~~~l~sr~~~--~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~  253 (384)
T 2qby_B          176 VRDYMEPRVLSSLGP--SVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLAS  253 (384)
T ss_dssp             TTTTSCHHHHHTCCC--EEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTT
T ss_pred             hHhhhCHHHHhcCCC--eEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhc
Confidence            2        111111  3333                0011111222456677777777   7665 333322221  1 


Q ss_pred             --cCCCHhHHHHHHHHHhhcccCCCCCCcchhhHHHHhhcCCCchhhhhHHhhhcCCCCC-CcccHHHHHHHhhhcCCcc
Q 039519          255 --CKKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPED-YRTRKSELIDCWIGEGFLD  331 (647)
Q Consensus       255 --~~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp~~-~~i~~~~Li~~w~a~g~~~  331 (647)
                        ..-+.+.+..+++...             ...+..+++.|++ +.+..+..++. ... ..+. ......--..| ..
T Consensus       254 ~~~~i~~~~v~~~~~~~~-------------~~~~~~~~~~l~~-~~~~~l~al~~-~~~~~~~~-~~~~~~~~~~g-~~  316 (384)
T 2qby_B          254 GGGIIRKEHVDKAIVDYE-------------QERLIEAVKALPF-HYKLALRSLIE-SEDVMSAH-KMYTDLCNKFK-QK  316 (384)
T ss_dssp             SSSCCCHHHHHHHHHHHH-------------HHHHHHHHHSSCH-HHHHHHHHHHT-CCBHHHHH-HHHHHHHHHTT-CC
T ss_pred             CCCccCHHHHHHHHHHHh-------------cchHHHHHHcCCH-HHHHHHHHHHH-hcccChHH-HHHHHHHHHcC-CC
Confidence              1245666666554332             2345566788887 67777666665 211 1111 11111111222 11


Q ss_pred             ccCccchHHHHHHHHHHHHHhcccccc
Q 039519          332 QYDRSGAYDEGYYIIGILLHACLLEEE  358 (647)
Q Consensus       332 ~~~~~~~~~~~~~~~~~L~~~~ll~~~  358 (647)
                          ........++++.|.+++++...
T Consensus       317 ----~~~~~~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          317 ----PLSYRRFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             ----CCCHHHHHHHHHHHHhCCCEEEE
Confidence                11234567789999999999763

>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=98.69  E-value=1.1e-08  Score=104.60  Aligned_cols=108  Identities=10%  Similarity=0.137  Sum_probs=68.9

Q ss_pred             cccEEEEEeeccc----ccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccc-cchhc-----
Q 039519          394 WRNVRRMSLMKNK----IENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLP-IDLQK-----  463 (647)
Q Consensus       394 ~~~l~~L~l~~n~----i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp-~~~~~-----  463 (647)
                      +.+++.|.+.++-    +..+..   .+++|+.|||++| .+......-+.++.++++.+..+   .+| ..|.+     
T Consensus        24 ~~~l~~L~l~g~i~~~~~~~l~~---~l~~L~~LdLs~n-~i~~~~~~~~~~~~~~~~~~~~~---~I~~~aF~~~~~~~   96 (329)
T 3sb4_A           24 ANSITHLTLTGKLNAEDFRHLRD---EFPSLKVLDISNA-EIKMYSGKAGTYPNGKFYIYMAN---FVPAYAFSNVVNGV   96 (329)
T ss_dssp             HHHCSEEEEEEEECHHHHHHHHH---SCTTCCEEEEEEE-EECCEEESSSSSGGGCCEEECTT---EECTTTTEEEETTE
T ss_pred             hCceeEEEEeccccHHHHHHHHH---hhccCeEEecCcc-eeEEecCcccccccccccccccc---ccCHHHhccccccc
Confidence            4677888887641    222221   1677899999998 45421111223333555656555   344 34566     


Q ss_pred             ---CccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccc
Q 039519          464 ---LVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVL  513 (647)
Q Consensus       464 ---l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~  513 (647)
                         +++|+.|++.+  .+..|+.+.|..+++|+.|.+.+   |.+..++.+++
T Consensus        97 ~~g~~~L~~l~L~~--~i~~I~~~aF~~~~~L~~l~l~~---n~i~~i~~~aF  144 (329)
T 3sb4_A           97 TKGKQTLEKVILSE--KIKNIEDAAFKGCDNLKICQIRK---KTAPNLLPEAL  144 (329)
T ss_dssp             EEECTTCCC-CBCT--TCCEECTTTTTTCTTCCEEEBCC---SSCCEECTTSS
T ss_pred             ccccCCCcEEECCc--cccchhHHHhhcCcccceEEcCC---CCccccchhhh
Confidence               99999999998  67899998899999999997764   55445555443

>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=98.69  E-value=3.1e-08  Score=101.91  Aligned_cols=97  Identities=16%  Similarity=0.100  Sum_probs=56.6

Q ss_pred             EEecCC-CcccCccccccccEEEEEeec-cccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCC
Q 039519          378 LVHAGF-GLTEAPEIQNWRNVRRMSLMK-NKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTA  453 (647)
Q Consensus       378 l~~~~~-~~~~~~~~~~~~~l~~L~l~~-n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~  453 (647)
                      +.+.+. +++.+|.+..+.+|+.|+|++ |.+..++. .+.+|++|+.|+|++| .+..+ |..|.+|++|++|+|++|.
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 LRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHHHhcCCcCCCEEeCCCCc
Confidence            444554 566665555556666666664 66666553 3466666666666666 33333 3345666666666666666


Q ss_pred             CCccccchhcCccCcEEeeccc
Q 039519          454 ITHLPIDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       454 l~~lp~~~~~l~~L~~L~l~~~  475 (647)
                      |+.+|..+....+|+.|+|.+|
T Consensus        92 l~~~~~~~~~~~~L~~l~l~~N  113 (347)
T 2ifg_A           92 LESLSWKTVQGLSLQELVLSGN  113 (347)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSS
T ss_pred             cceeCHHHcccCCceEEEeeCC
Confidence            6666654433333666666665

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.68  E-value=1.9e-07  Score=97.44  Aligned_cols=262  Identities=16%  Similarity=0.077  Sum_probs=148.5

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC------CCC----------cceEEEEEEcCccCHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA------PND----------FDVVIWMVVSKDLQLEKIQER  135 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT------~~~----------F~~~~wv~~s~~~~~~~~~~~  135 (647)
                      +.++||+.+++++.+.+..    ...+.+.|+|++|+|||      ...          -...+|+......+...+...
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            6789999999999998853    45678999999999999      111          124567777777788899999


Q ss_pred             HHHHhCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCcc----c---cccccCCCCCC--CCCcEEEEecCch
Q 039519          136 IGRRIGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWERV----D---LTKVGVPFPDP--ENKSRIDFTTRFL  204 (647)
Q Consensus       136 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~~----~---~~~l~~~~~~~--~~gs~IivTTR~~  204 (647)
                      ++.+++.... ....+..+....+.+.+.  +++.+|||||++...    .   +..+.......  ..+..+|.||+..
T Consensus        99 l~~~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~  177 (387)
T 2v1u_A           99 IAEAVGVRVP-FTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSL  177 (387)
T ss_dssp             HHHHHSCCCC-SSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCS
T ss_pred             HHHHhCCCCC-CCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCC
Confidence            9999875322 123346666777777774  458899999998642    1   11111111111  3456677777755


Q ss_pred             HH--------hhhcccceeEec----------------cccccCCCChHHHHHHHHHHhc---CCch-hHHHHhhHh--h
Q 039519          205 EI--------CSAMQAHEFLKV----------------EDVLKNHPNIPELARSVAQECA---GLPL-ALITIGRVM--A  254 (647)
Q Consensus       205 ~v--------~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~g~~l--~  254 (647)
                      ..        ...+.. ..+.+                ...+....--++..+.+++.++   |.|- ++.++....  +
T Consensus       178 ~~~~~l~~~l~~r~~~-~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a  256 (387)
T 2v1u_A          178 GFVENLEPRVKSSLGE-VELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIA  256 (387)
T ss_dssp             TTSSSSCHHHHTTTTS-EECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHH
T ss_pred             chHhhhCHHHHhcCCC-eEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHH
Confidence            32        222211 12222                0011111112345566777777   8883 222222211  1


Q ss_pred             ---c--CCCHhHHHHHHHHHhhcccCCCCCCcchhhHHHHhhcCCCchhhhhHHhhhc-CCCCCCcccHHHHHHHh----
Q 039519          255 ---C--KKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCG-LFPEDYRTRKSELIDCW----  324 (647)
Q Consensus       255 ---~--~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a-~fp~~~~i~~~~Li~~w----  324 (647)
                         +  .-+.+.+..+++...             ...+.-++..++. +.+..++.++ ++.....+....+.+..    
T Consensus       257 ~~~~~~~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~-~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~  322 (387)
T 2v1u_A          257 ERRREERVRREHVYSARAEIE-------------RDRVSEVVRTLPL-HAKLVLLSIMMLEDGGRPASTGEIYERYKELT  322 (387)
T ss_dssp             HHTTCSCBCHHHHHHHHHHHH-------------HHHHHHHHHSSCH-HHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHH
T ss_pred             HHcCCCCcCHHHHHHHHHHHh-------------hchHHHHHHcCCH-HHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence               1  134555555544321             2234556788988 6666666555 44322345555444432    


Q ss_pred             hhcCCccccCccchHHHHHHHHHHHHHhcccccc
Q 039519          325 IGEGFLDQYDRSGAYDEGYYIIGILLHACLLEEE  358 (647)
Q Consensus       325 ~a~g~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  358 (647)
                      -..| ..    .........+++.|...+++...
T Consensus       323 ~~~~-~~----~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          323 STLG-LE----HVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             HHTT-CC----CCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HhcC-CC----CCCHHHHHHHHHHHHhCCCeEEE
Confidence            1122 11    12235667789999999998863

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.63  E-value=2.8e-07  Score=96.40  Aligned_cols=204  Identities=12%  Similarity=0.089  Sum_probs=112.9

Q ss_pred             ccccccEEEEEeecccccccccCC-CCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCCCccccchhcCccCc
Q 039519          391 IQNWRNVRRMSLMKNKIENLSELQ-PALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAITHLPIDLQKLVNLK  468 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n~i~~l~~~~-~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~  468 (647)
                      |.++ +|+.+.+..+ +..++... .+ ..|+.+.+..+  +..++ ..|.++.+|+.+++++|+++.+|...-.+.+|+
T Consensus       132 F~~~-~L~~i~l~~~-i~~I~~~aF~~-~~L~~i~lp~~--l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~  206 (401)
T 4fdw_A          132 FRNS-QIAKVVLNEG-LKSIGDMAFFN-STVQEIVFPST--LEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIE  206 (401)
T ss_dssp             TTTC-CCSEEECCTT-CCEECTTTTTT-CCCCEEECCTT--CCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCS
T ss_pred             cccC-CccEEEeCCC-ccEECHHhcCC-CCceEEEeCCC--ccEehHHHhhCcccCCeeecCCCcceEechhhEeecccC
Confidence            4443 5777777655 66665543 33 35777887764  33443 457788888888888888888886555567888


Q ss_pred             EEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCC-----------ccccHHHhhCCCCCcEEEEEe
Q 039519          469 CLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGG-----------HQVLVEELIGMKYLMAVTITL  537 (647)
Q Consensus       469 ~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~-----------~~~~~~~l~~l~~L~~L~l~~  537 (647)
                      .+.+..  .+..++...+..+.+|+.+.+..    .+..++..++.+.           .......+.++++|+.+.+..
T Consensus       207 ~l~lp~--~l~~I~~~aF~~~~~L~~l~l~~----~l~~I~~~aF~~~~L~~i~lp~~i~~I~~~aF~~c~~L~~l~l~~  280 (401)
T 4fdw_A          207 EVLLPV--TLKEIGSQAFLKTSQLKTIEIPE----NVSTIGQEAFRESGITTVKLPNGVTNIASRAFYYCPELAEVTTYG  280 (401)
T ss_dssp             EEECCT--TCCEECTTTTTTCTTCCCEECCT----TCCEECTTTTTTCCCSEEEEETTCCEECTTTTTTCTTCCEEEEES
T ss_pred             EEEeCC--chheehhhHhhCCCCCCEEecCC----CccCccccccccCCccEEEeCCCccEEChhHhhCCCCCCEEEeCC
Confidence            888875  46788877788888888887653    2333443332110           111122345566666666653


Q ss_pred             cchh-----hHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh--hhccccCCceEEee
Q 039519          538 KRLQ-----ALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ--MIIQRSSLSVHNLF  610 (647)
Q Consensus       538 ~~~~-----~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~--~~~~l~~L~~L~L~  610 (647)
                      +...     .+..  .......+|+.+.|.  ++++++.-.+|.++++|+.|.|.++  ...++  .|..+ +|+.|+++
T Consensus       281 ~~~~~~~~~~I~~--~aF~~c~~L~~l~l~--~~i~~I~~~aF~~c~~L~~l~lp~~--l~~I~~~aF~~~-~L~~l~l~  353 (401)
T 4fdw_A          281 STFNDDPEAMIHP--YCLEGCPKLARFEIP--ESIRILGQGLLGGNRKVTQLTIPAN--VTQINFSAFNNT-GIKEVKVE  353 (401)
T ss_dssp             SCCCCCTTCEECT--TTTTTCTTCCEECCC--TTCCEECTTTTTTCCSCCEEEECTT--CCEECTTSSSSS-CCCEEEEC
T ss_pred             ccccCCcccEECH--HHhhCCccCCeEEeC--CceEEEhhhhhcCCCCccEEEECcc--ccEEcHHhCCCC-CCCEEEEc
Confidence            3221     0000  000011123333332  1233333233666677777777543  22332  26666 67777776


Q ss_pred             cc
Q 039519          611 IN  612 (647)
Q Consensus       611 ~~  612 (647)
                      +|
T Consensus       354 ~n  355 (401)
T 4fdw_A          354 GT  355 (401)
T ss_dssp             CS
T ss_pred             CC
Confidence            64

>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=98.61  E-value=6.9e-08  Score=99.29  Aligned_cols=98  Identities=17%  Similarity=0.243  Sum_probs=83.5

Q ss_pred             EEEeecc-cccccccCCCCcceeeEEeccC-ccccccCc-cccccccCCCeeeecCCCCCcccc-chhcCccCcEEeecc
Q 039519          399 RMSLMKN-KIENLSELQPALTFFLFFNMSN-NHLLWKLP-LGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQY  474 (647)
Q Consensus       399 ~L~l~~n-~i~~l~~~~~~l~~L~~L~l~~-~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~  474 (647)
                      .++.+++ .+..+|. ++.+++|+.|+|++ | .+..+| ..|+.|++|++|+|++|.|+.+|+ .|++|++|++|+|++
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQ-HLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCS-SCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCC-CCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC
Confidence            3577787 8999999 89999999999996 8 677776 568999999999999999997764 679999999999999


Q ss_pred             cccCCcCchhhhcCCCCCcEEecccc
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDC  500 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~  500 (647)
                      | .+..+|.+.+..+. |+.|++.+.
T Consensus        90 N-~l~~~~~~~~~~~~-L~~l~l~~N  113 (347)
T 2ifg_A           90 N-ALESLSWKTVQGLS-LQELVLSGN  113 (347)
T ss_dssp             S-CCSCCCSTTTCSCC-CCEEECCSS
T ss_pred             C-ccceeCHHHcccCC-ceEEEeeCC
Confidence            9 78999987565555 999877653

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.57  E-value=2.5e-07  Score=96.78  Aligned_cols=200  Identities=11%  Similarity=0.097  Sum_probs=133.5

Q ss_pred             cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCCCcccc-chhcCccC
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAITHLPI-DLQKLVNL  467 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L  467 (647)
                      .|.++.+|+.+++.+|.+..++...-..+.|+.+.+..+  +..++ ..|.++.+|+.+.+..+ ++.++. .|.+ .+|
T Consensus       175 aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~--l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L  250 (401)
T 4fdw_A          175 IFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT--LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGI  250 (401)
T ss_dssp             TTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT--CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCC
T ss_pred             HhhCcccCCeeecCCCcceEechhhEeecccCEEEeCCc--hheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCc
Confidence            577888999999999999888877644678888988865  44444 45788899999999864 677764 3444 789


Q ss_pred             cEEeecccccCCcCchhhhcCCCCCcEEeccccCC--CcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHH
Q 039519          468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGG--SKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQE  545 (647)
Q Consensus       468 ~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~--n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~  545 (647)
                      +.+.+.+  .+..++...+..+.+|+.+.+.+...  +....++.           ..+.++++|+.+.+. ++++.+..
T Consensus       251 ~~i~lp~--~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~-----------~aF~~c~~L~~l~l~-~~i~~I~~  316 (401)
T 4fdw_A          251 TTVKLPN--GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHP-----------YCLEGCPKLARFEIP-ESIRILGQ  316 (401)
T ss_dssp             SEEEEET--TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECT-----------TTTTTCTTCCEECCC-TTCCEECT
T ss_pred             cEEEeCC--CccEEChhHhhCCCCCCEEEeCCccccCCcccEECH-----------HHhhCCccCCeEEeC-CceEEEhh
Confidence            9999965  57889888899999999998765322  11112332           236778889988886 22322211


Q ss_pred             HhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hcccc-CCceEEeecc
Q 039519          546 LLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRS-SLSVHNLFIN  612 (647)
Q Consensus       546 l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~-~L~~L~L~~~  612 (647)
                        .......+|+.+.|.  .+++++.-.+|.++ +|+.|.+.+|......+. |..++ +++.|++..+
T Consensus       317 --~aF~~c~~L~~l~lp--~~l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l~~l~vp~~  380 (401)
T 4fdw_A          317 --GLLGGNRKVTQLTIP--ANVTQINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDITVIRVPAE  380 (401)
T ss_dssp             --TTTTTCCSCCEEEEC--TTCCEECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTCCEEEECGG
T ss_pred             --hhhcCCCCccEEEEC--ccccEEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCccEEEeCHH
Confidence              001111234444443  23444443458888 999999999865444442 55564 7889988763

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.56  E-value=1.5e-06  Score=90.55  Aligned_cols=263  Identities=11%  Similarity=0.019  Sum_probs=147.9

Q ss_pred             CCcccchHHHHHHHHHhhh----CCce--EEEEEccCccCCC----------CCC-cceEEEEEEcCccCHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVG--IIGLYGMGGLLGA----------PND-FDVVIWMVVSKDLQLEKIQERIGR  138 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~--vi~I~G~gGiGKT----------~~~-F~~~~wv~~s~~~~~~~~~~~i~~  138 (647)
                      +.++||+.+++++.+.+..    ....  .+.|+|.+|+|||          ... -...+|+..+...+...+...++.
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~   96 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIAR   96 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHH
Confidence            5689999999999998875    3334  8999999999999          222 124567777777778899999999


Q ss_pred             HhCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCc--cccccccCCCCCC-C---CCcEEEEecCchHHhhhc
Q 039519          139 RIGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWER--VDLTKVGVPFPDP-E---NKSRIDFTTRFLEICSAM  210 (647)
Q Consensus       139 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~--~~~~~l~~~~~~~-~---~gs~IivTTR~~~v~~~~  210 (647)
                      .++.... ....+..+....+.+.+.  +++.+||||+++..  ..+..+...+... .   .+..||++|+.......+
T Consensus        97 ~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l  175 (389)
T 1fnn_A           97 SLNIPFP-RRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  175 (389)
T ss_dssp             HTTCCCC-SSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HhCccCC-CCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHh
Confidence            8865321 123356666666776664  56889999999864  2233332222221 1   366788887765442221


Q ss_pred             cc-------ceeEec----------------cccccCCCChHHHHHHHHHHh---------cCCchhHHHHhhH-h--h-
Q 039519          211 QA-------HEFLKV----------------EDVLKNHPNIPELARSVAQEC---------AGLPLALITIGRV-M--A-  254 (647)
Q Consensus       211 ~~-------~~~~~~----------------~~~~~~~~~~~~~~~~i~~~c---------~glPLai~~~g~~-l--~-  254 (647)
                      ..       ...+.+                ........--++....+++.+         +|.|-.+..+... .  + 
T Consensus       176 ~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~  255 (389)
T 1fnn_A          176 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQ  255 (389)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             CHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHH
Confidence            10       112333                001111122245667777887         5765433322221 1  1 


Q ss_pred             --cC--CCHhHHHHHHHHHhhcccCCCCCCcchhhHHHHhhcCCCchhhhhHHhhhcCCC---CCCcccHHHHHHHhhh-
Q 039519          255 --CK--KTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFP---EDYRTRKSELIDCWIG-  326 (647)
Q Consensus       255 --~~--~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp---~~~~i~~~~Li~~w~a-  326 (647)
                        +.  -+.+....+.....             ...+.-.+..|+. +.+.++..++.+.   .+..+....+...+.. 
T Consensus       256 ~~~~~~i~~~~v~~~~~~~~-------------~~~~~~~l~~l~~-~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~  321 (389)
T 1fnn_A          256 QNGRKHIAPEDVRKSSKEVL-------------FGISEEVLIGLPL-HEKLFLLAIVRSLKISHTPYITFGDAEESYKIV  321 (389)
T ss_dssp             HTTCSSCCHHHHHHHHHHHS-------------CCCCHHHHHHSCH-HHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHH
T ss_pred             HhCCCCcCHHHHHHHHHHHh-------------hhhHHHHHHcCCH-HHHHHHHHHHHHHhhccCCCccHHHHHHHHHHH
Confidence              10  12222222222111             1112233556777 6777777666544   2224566666554432 


Q ss_pred             ---cCCccccCccchHHHHHHHHHHHHHhcccccc
Q 039519          327 ---EGFLDQYDRSGAYDEGYYIIGILLHACLLEEE  358 (647)
Q Consensus       327 ---~g~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  358 (647)
                         .|..+     -......++++.|.+++++...
T Consensus       322 ~~~~~~~~-----~~~~~~~~~l~~L~~~gli~~~  351 (389)
T 1fnn_A          322 CEEYGERP-----RVHSQLWSYLNDLREKGIVETR  351 (389)
T ss_dssp             HHHTTCCC-----CCHHHHHHHHHHHHHTTSSEEE
T ss_pred             HHHcCCCC-----CCHHHHHHHHHHHHhCCCeEEe
Confidence               22111     1234566789999999999874

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.50  E-value=4.4e-07  Score=94.53  Aligned_cols=262  Identities=13%  Similarity=0.061  Sum_probs=144.6

Q ss_pred             CCcccchHHHHHHHHHhhh----CCceEEEEEccCccCCC----------CCC---cceEEEEEEcCccCHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA----------PND---FDVVIWMVVSKDLQLEKIQERIGR  138 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT----------~~~---F~~~~wv~~s~~~~~~~~~~~i~~  138 (647)
                      ..++||+++++++.+.+..    .....+.|+|++|+|||          ...   -...+|+......+...+...++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~   99 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLE   99 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            6789999999999998873    45678999999999999          111   225677776666677788888887


Q ss_pred             HhCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCcc------ccccccCCCCC-CCCCcEEEEecCchHHhhh
Q 039519          139 RIGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWERV------DLTKVGVPFPD-PENKSRIDFTTRFLEICSA  209 (647)
Q Consensus       139 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~~------~~~~l~~~~~~-~~~gs~IivTTR~~~v~~~  209 (647)
                      .++.... ....+..+....+.+.+.  +++.+||+|+++...      .+..+...+.. ...+..+|+||+.......
T Consensus       100 ~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~  178 (386)
T 2qby_A          100 SLDVKVP-FTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDL  178 (386)
T ss_dssp             TTSCCCC-SSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGG
T ss_pred             HhCCCCC-CCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhh
Confidence            7754321 122345666667777765  348999999997632      22222111110 2335567778876543222


Q ss_pred             ccc-------ceeEec----------------cccccCCCChHHHHHHHHHHhc---CCchhHHHH-hhHh--h---c--
Q 039519          210 MQA-------HEFLKV----------------EDVLKNHPNIPELARSVAQECA---GLPLALITI-GRVM--A---C--  255 (647)
Q Consensus       210 ~~~-------~~~~~~----------------~~~~~~~~~~~~~~~~i~~~c~---glPLai~~~-g~~l--~---~--  255 (647)
                      +..       ...+.+                ........--++..+.+++.++   |.|..+..+ ....  +   +  
T Consensus       179 ~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~  258 (386)
T 2qby_A          179 LDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDT  258 (386)
T ss_dssp             CTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCS
T ss_pred             hCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCC
Confidence            111       123333                0011112223456667777777   887643322 2111  1   1  


Q ss_pred             CCCHhHHHHHHHHHhhcccCCCCCCcchhhHHHHhhcCCCchhhhhHHhhhcCCCC-C-CcccHHHHHHHh--hh--cCC
Q 039519          256 KKTPQEWHYAIQVLRISASEFPGMGKEVYPLLKYSYDSLPDETIRSCLLYCGLFPE-D-YRTRKSELIDCW--IG--EGF  329 (647)
Q Consensus       256 ~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~a~fp~-~-~~i~~~~Li~~w--~a--~g~  329 (647)
                      .-+.+.+..+++...             ...+.-++..++. ..+..+..++.+.+ + ..+....+.+..  ++  .| 
T Consensus       259 ~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~-~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g-  323 (386)
T 2qby_A          259 KVKEEYVYMAKEEIE-------------RDRVRDIILTLPF-HSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLG-  323 (386)
T ss_dssp             SCCHHHHHHHHHHHH-------------HHHHHHHHHTSCH-HHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHT-
T ss_pred             ccCHHHHHHHHHHHh-------------hchHHHHHHcCCH-HHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcC-
Confidence            134445554443321             2345556778887 66766666663222 1 223343332222  11  12 


Q ss_pred             ccccCccchHHHHHHHHHHHHHhccccc
Q 039519          330 LDQYDRSGAYDEGYYIIGILLHACLLEE  357 (647)
Q Consensus       330 ~~~~~~~~~~~~~~~~~~~L~~~~ll~~  357 (647)
                      ..+    ........+++.|.+.+++..
T Consensus       324 ~~~----~~~~~~~~~l~~L~~~gli~~  347 (386)
T 2qby_A          324 VEA----VTQRRVSDIINELDMVGILTA  347 (386)
T ss_dssp             CCC----CCHHHHHHHHHHHHHHTSEEE
T ss_pred             CCC----CCHHHHHHHHHHHHhCCCEEE
Confidence            111    122445678999999999975

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.46  E-value=5.6e-08  Score=100.72  Aligned_cols=102  Identities=12%  Similarity=0.124  Sum_probs=54.2

Q ss_pred             ccEEEEEeeccccccccc-----CC-CCcceeeEEeccCcccccc-Cccc-cccccCCCeeeecCCCCCccc-cch----
Q 039519          395 RNVRRMSLMKNKIENLSE-----LQ-PALTFFLFFNMSNNHLLWK-LPLG-ISTLVSLEHLDLSSTAITHLP-IDL----  461 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~-----~~-~~l~~L~~L~l~~~~~~~~-lp~~-~~~L~~L~~L~L~~~~l~~lp-~~~----  461 (647)
                      +.++.|++++|.+.....     .+ ...+.|+.|+|++| .+.. -... ...+.+|++|+|++|.++... ..+    
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASC-QLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTC-CCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCC-CCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            467777777777654221     11 12256777777777 3322 1112 234566777777777775321 122    


Q ss_pred             -hcCccCcEEeecccccCCc-----CchhhhcCCCCCcEEeccc
Q 039519          462 -QKLVNLKCLNLQYMYNLNQ-----FPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       462 -~~l~~L~~L~l~~~~~l~~-----lp~~~i~~l~~L~~L~l~~  499 (647)
                       ...++|++|+|++| .+..     ++.. +...++|++|++.+
T Consensus       151 ~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~-L~~~~~L~~L~Ls~  192 (372)
T 3un9_A          151 LHDQCQITTLRLSNN-PLTAAGVAVLMEG-LAGNTSVTHLSLLH  192 (372)
T ss_dssp             HSTTCCCCEEECCSS-CCHHHHHHHHHHH-HHTCSSCCEEECTT
T ss_pred             HhcCCccceeeCCCC-CCChHHHHHHHHH-HhcCCCcCEEeCCC
Confidence             13456777777776 3332     2222 34556666665544

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.15  E-value=3.3e-06  Score=86.68  Aligned_cols=95  Identities=18%  Similarity=0.070  Sum_probs=50.4

Q ss_pred             CccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchh---hh--cCCCCCcEEeccccCCCccccc
Q 039519          434 LPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRL---VI--SAFSKLQVLRMFDCGGSKIERL  508 (647)
Q Consensus       434 lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~---~i--~~l~~L~~L~l~~~~~n~~~~~  508 (647)
                      ++..+..+++|+.|+|++|.-..+|. + .+++|++|++..| .   ++..   .+  ..+++|++|.+...+.+.....
T Consensus       164 L~~ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~-~---l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~  237 (362)
T 2ra8_A          164 LSPVLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISG-G---LPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDG  237 (362)
T ss_dssp             CHHHHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECS-B---CCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCS
T ss_pred             HHHHHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecC-C---CChHHHHHHHHccCCCCcEEEEeccccccccch
Confidence            33445567788888887773224444 3 3778888888765 2   3322   12  2677888887653221110000


Q ss_pred             ccccccCCccccHHHh--hCCCCCcEEEEEecchh
Q 039519          509 KSNVLFGGHQVLVEEL--IGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       509 ~~~~~~~~~~~~~~~l--~~l~~L~~L~l~~~~~~  541 (647)
                        .     .......+  ..+++|+.|++..+.+.
T Consensus       238 --~-----~~~l~~~l~~~~~p~Lr~L~L~~~~i~  265 (362)
T 2ra8_A          238 --D-----MNVFRPLFSKDRFPNLKWLGIVDAEEQ  265 (362)
T ss_dssp             --C-----GGGTGGGSCTTTCTTCCEEEEESCTTH
T ss_pred             --h-----HHHHHHHHhcCCCCCcCEEeCCCCCCc
Confidence              0     00000011  24678888888866654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.14  E-value=5.1e-07  Score=93.47  Aligned_cols=135  Identities=16%  Similarity=0.127  Sum_probs=92.3

Q ss_pred             ccEEEEEeecccccc--cccCCCCcceeeEEeccCccccccC-cccc-----ccccCCCeeeecCCCCCc-----cccch
Q 039519          395 RNVRRMSLMKNKIEN--LSELQPALTFFLFFNMSNNHLLWKL-PLGI-----STLVSLEHLDLSSTAITH-----LPIDL  461 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~--l~~~~~~l~~L~~L~l~~~~~~~~l-p~~~-----~~L~~L~~L~L~~~~l~~-----lp~~~  461 (647)
                      ++|+.|+|++|.+..  +......+++|+.|+|++| .++.. ...+     ...++|++|+|++|.++.     ++..+
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n-~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L  179 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLN-SLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGL  179 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSS-CCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCC-CCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHH
Confidence            689999999998865  2222245678999999999 44332 1222     245789999999998864     55566


Q ss_pred             hcCccCcEEeecccccCCcC-----chhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          462 QKLVNLKCLNLQYMYNLNQF-----PRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       462 ~~l~~L~~L~l~~~~~l~~l-----p~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      ..+++|++|+|++| .+...     +.. +...++|++|++.++..   ....       .......+..+++|+.|+++
T Consensus       180 ~~~~~L~~L~Ls~N-~l~~~g~~~L~~~-L~~~~~L~~L~Ls~N~i---~~~g-------~~~l~~~L~~~~~L~~L~Ls  247 (372)
T 3un9_A          180 AGNTSVTHLSLLHT-GLGDEGLELLAAQ-LDRNRQLQELNVAYNGA---GDTA-------ALALARAAREHPSLELLHLY  247 (372)
T ss_dssp             HTCSSCCEEECTTS-SCHHHHHHHHHHH-GGGCSCCCEEECCSSCC---CHHH-------HHHHHHHHHHCSSCCEEECT
T ss_pred             hcCCCcCEEeCCCC-CCCcHHHHHHHHH-HhcCCCcCeEECCCCCC---CHHH-------HHHHHHHHHhCCCCCEEecc
Confidence            78899999999998 44432     332 56677899997776443   1100       11233456677889999999


Q ss_pred             ecchhh
Q 039519          537 LKRLQA  542 (647)
Q Consensus       537 ~~~~~~  542 (647)
                      .|.++.
T Consensus       248 ~N~i~~  253 (372)
T 3un9_A          248 FNELSS  253 (372)
T ss_dssp             TSSCCH
T ss_pred             CCCCCH
Confidence            887754

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=98.08  E-value=6.8e-06  Score=79.23  Aligned_cols=36  Identities=17%  Similarity=0.124  Sum_probs=31.3

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..++||+..++.+...+..+. .+.+.|+|.+|+|||
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT   59 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKT   59 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence            568999999999999988653 458899999999999

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=97.98  E-value=1.2e-05  Score=76.37  Aligned_cols=113  Identities=11%  Similarity=0.138  Sum_probs=65.5

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC-----------CCCcc-eEEEEEEcCccCHHHHHHHHHHHhCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA-----------PNDFD-VVIWMVVSKDLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT-----------~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~~~  143 (647)
                      ..++|+++.++++.+.+.......+.|+|.+|+|||           ...+. ..+.+..+.......+...+.......
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTA   96 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHHTSC
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHhccc
Confidence            568999999999999998765556899999999999           11111 223333333223222222221111100


Q ss_pred             CcCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCc--cccccccCCCCCCCCCcEEEEecCchH
Q 039519          144 DESWKNGSLEDKASDIFRILSKKKLLLLLDDIWER--VDLTKVGVPFPDPENKSRIDFTTRFLE  205 (647)
Q Consensus       144 ~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IivTTR~~~  205 (647)
                      .                 .-.+++.+||+||++..  ...+.+...+.....++++|+||+...
T Consensus        97 ~-----------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  143 (226)
T 2chg_A           97 P-----------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVS  143 (226)
T ss_dssp             C-----------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGG
T ss_pred             C-----------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChh
Confidence            0                 00257889999999864  223333333333345678888887653

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=97.96  E-value=1.1e-05  Score=81.75  Aligned_cols=37  Identities=27%  Similarity=0.328  Sum_probs=30.3

Q ss_pred             CCCcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC
Q 039519           75 CEPTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        75 ~~~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT  111 (647)
                      ...++|++..++++...+..     .....|.|+|.+|+|||
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT   52 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKT   52 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCH
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHH
Confidence            36789999999998887753     24467889999999999

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.78  E-value=2.2e-05  Score=80.58  Aligned_cols=176  Identities=18%  Similarity=0.161  Sum_probs=101.0

Q ss_pred             cccccEEEEEeeccccc----------ccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccc
Q 039519          392 QNWRNVRRMSLMKNKIE----------NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPID  460 (647)
Q Consensus       392 ~~~~~l~~L~l~~n~i~----------~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~  460 (647)
                      ..+++|+.|.+..+...          .++..+..+++|+.|++++|..+ .+|. + .+++|+.|++..|.+. .-...
T Consensus       136 ~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~-~-~~~~L~~L~L~~~~l~~~~l~~  212 (362)
T 2ra8_A          136 EKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK-K-PRPNLKSLEIISGGLPDSVVED  212 (362)
T ss_dssp             HHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS-C-BCTTCSEEEEECSBCCHHHHHH
T ss_pred             hhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc-c-cCCCCcEEEEecCCCChHHHHH
Confidence            34567777777554321          12222255678999999888323 4554 4 3889999999988876 22233


Q ss_pred             hh--cCccCcEEeeccccc-------CCcCchhhh--cCCCCCcEEeccccCCCcccccccccccCCccccHHHh---hC
Q 039519          461 LQ--KLVNLKCLNLQYMYN-------LNQFPRLVI--SAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEEL---IG  526 (647)
Q Consensus       461 ~~--~l~~L~~L~l~~~~~-------l~~lp~~~i--~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l---~~  526 (647)
                      +.  .+++|++|+|+.+..       +..+... +  ..+++|++|.+.+|..              .......+   ..
T Consensus       213 l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~-l~~~~~p~Lr~L~L~~~~i--------------~~~~~~~la~a~~  277 (362)
T 2ra8_A          213 ILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPL-FSKDRFPNLKWLGIVDAEE--------------QNVVVEMFLESDI  277 (362)
T ss_dssp             HHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGG-SCTTTCTTCCEEEEESCTT--------------HHHHHHHHHHCSS
T ss_pred             HHHccCCCCcEEEEeccccccccchhHHHHHHH-HhcCCCCCcCEEeCCCCCC--------------chHHHHHHHhCcc
Confidence            43  789999999863211       1122221 2  3478999998876543              11111122   35


Q ss_pred             CCCCcEEEEEecchhhHH--HHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccC-
Q 039519          527 MKYLMAVTITLKRLQALQ--ELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSS-  603 (647)
Q Consensus       527 l~~L~~L~l~~~~~~~l~--~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~-  603 (647)
                      +++|++|+++.|.+....  .+..                         .+.++++|+.|+|++|....  .....+.. 
T Consensus       278 ~~~L~~LdLs~n~L~d~G~~~L~~-------------------------~L~~l~~L~~L~L~~n~i~d--~~~~~l~~a  330 (362)
T 2ra8_A          278 LPQLETMDISAGVLTDEGARLLLD-------------------------HVDKIKHLKFINMKYNYLSD--EMKKELQKS  330 (362)
T ss_dssp             GGGCSEEECCSSCCBHHHHHHHHT-------------------------THHHHTTCSEEECCSBBCCH--HHHHHHHHH
T ss_pred             CCCCCEEECCCCCCChHHHHHHHh-------------------------hcccCCcceEEECCCCcCCH--HHHHHHHHH
Confidence            778999999877655421  1110                         12346778888888774321  11222222 


Q ss_pred             -CceEEeecc
Q 039519          604 -LSVHNLFIN  612 (647)
Q Consensus       604 -L~~L~L~~~  612 (647)
                       ...++++++
T Consensus       331 lg~~~~~~~~  340 (362)
T 2ra8_A          331 LPMKIDVSDS  340 (362)
T ss_dssp             CCSEEECCSB
T ss_pred             cCCEEEecCC
Confidence             356788774

>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=97.73  E-value=5e-06  Score=80.97  Aligned_cols=81  Identities=26%  Similarity=0.284  Sum_probs=47.6

Q ss_pred             CCcceeeEEeccCccccccC---ccccccccCCCeeeecCCCCCccccchhcCc--cCcEEeecccccCCcCch------
Q 039519          415 PALTFFLFFNMSNNHLLWKL---PLGISTLVSLEHLDLSSTAITHLPIDLQKLV--NLKCLNLQYMYNLNQFPR------  483 (647)
Q Consensus       415 ~~l~~L~~L~l~~~~~~~~l---p~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~--~L~~L~l~~~~~l~~lp~------  483 (647)
                      .+++.|+.|+|++| .+..+   |..+..+++|++|+|++|.|+.+. .+..+.  +|++|+|++|+....+|.      
T Consensus       167 ~~l~~L~~L~Ls~N-~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~-~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~  244 (267)
T 3rw6_A          167 ENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLEELWLDGNSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HHCTTCCEEECTTS-CCCCCGGGTTHHHHSTTCCEEECTTSCCCSGG-GGGGGTTSCCSEEECTTSTTGGGCSSHHHHHH
T ss_pred             hhCCCCCEEECCCC-CCCCCccchhHHhhCCCCCEEECCCCccCCch-hhhhcccCCcceEEccCCcCccccCcchhHHH
Confidence            34556777777777 44433   344556777777777777777552 344444  677777777643333441      


Q ss_pred             hhhcCCCCCcEEec
Q 039519          484 LVISAFSKLQVLRM  497 (647)
Q Consensus       484 ~~i~~l~~L~~L~l  497 (647)
                      .++..+++|+.|+-
T Consensus       245 ~il~~~P~L~~LDg  258 (267)
T 3rw6_A          245 AIRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHHCTTCCEESS
T ss_pred             HHHHHCcccCeECC
Confidence            23556666666643

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.70  E-value=8.6e-05  Score=74.95  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=31.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|++..++.+.+.+..+....+.|+|.+|+|||
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt   56 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKT   56 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHH
Confidence            568999999999999998776555899999999999

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.58  E-value=8.8e-05  Score=66.93  Aligned_cols=64  Identities=17%  Similarity=0.173  Sum_probs=27.9

Q ss_pred             cccccCCCeeeecCC-CCCc-cccchhcC----ccCcEEeecccccCCcCchhhhcCCCCCcEEeccccC
Q 039519          438 ISTLVSLEHLDLSST-AITH-LPIDLQKL----VNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCG  501 (647)
Q Consensus       438 ~~~L~~L~~L~L~~~-~l~~-lp~~~~~l----~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~  501 (647)
                      +.++++|++|+|++| .++. --..++.+    ++|++|+|++|..++.-.-..+..+++|++|++.+|.
T Consensus        81 L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~~c~  150 (176)
T 3e4g_A           81 MEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLP  150 (176)
T ss_dssp             GTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEESCT
T ss_pred             hcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECCCCC
Confidence            344555555555555 3441 11123332    2455555555533332111123445555555555543

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.54  E-value=0.00011  Score=66.22  Aligned_cols=84  Identities=11%  Similarity=0.089  Sum_probs=57.8

Q ss_pred             cCCCeeeecCCCCCc-cccchhcCccCcEEeecccccCCcCchhhhcCC----CCCcEEeccccCCCcccccccccccCC
Q 039519          442 VSLEHLDLSSTAITH-LPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAF----SKLQVLRMFDCGGSKIERLKSNVLFGG  516 (647)
Q Consensus       442 ~~L~~L~L~~~~l~~-lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l----~~L~~L~l~~~~~n~~~~~~~~~~~~~  516 (647)
                      .+|+.||+++|.++. --..+..+++|++|+|++|..++.-.-..++.+    ++|++|++++|..             -
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~-------------I  127 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGN-------------V  127 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTT-------------C
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCc-------------C
Confidence            356666666666652 123467899999999999954433222224443    3699999999864             1


Q ss_pred             ccccHHHhhCCCCCcEEEEEec
Q 039519          517 HQVLVEELIGMKYLMAVTITLK  538 (647)
Q Consensus       517 ~~~~~~~l~~l~~L~~L~l~~~  538 (647)
                      +...+..+..+++|+.|+++.+
T Consensus       128 TD~Gl~~L~~~~~L~~L~L~~c  149 (176)
T 3e4g_A          128 TDKGIIALHHFRNLKYLFLSDL  149 (176)
T ss_dssp             CHHHHHHGGGCTTCCEEEEESC
T ss_pred             CHHHHHHHhcCCCCCEEECCCC
Confidence            5566677888999999999954

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.44  E-value=5.3e-05  Score=69.82  Aligned_cols=95  Identities=14%  Similarity=0.104  Sum_probs=43.9

Q ss_pred             cccccCCCeeeecCCCCCc-----cccchhcCccCcEEeecccccCCc-----CchhhhcCCCCCcEEeccccCCCcccc
Q 039519          438 ISTLVSLEHLDLSSTAITH-----LPIDLQKLVNLKCLNLQYMYNLNQ-----FPRLVISAFSKLQVLRMFDCGGSKIER  507 (647)
Q Consensus       438 ~~~L~~L~~L~L~~~~l~~-----lp~~~~~l~~L~~L~l~~~~~l~~-----lp~~~i~~l~~L~~L~l~~~~~n~~~~  507 (647)
                      +...++|++|+|++|.+..     +...+...++|++|+|++| .+..     +... +...++|++|++.. +.|.+..
T Consensus        61 L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N-~i~~~g~~~l~~~-L~~n~~L~~L~L~~-~~N~i~~  137 (185)
T 1io0_A           61 LKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGILALVEA-LQSNTSLIELRIDN-QSQPLGN  137 (185)
T ss_dssp             HTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHHHHHHG-GGGCSSCCEEECCC-CSSCCCH
T ss_pred             HHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC-cCCHHHHHHHHHH-HHhCCCceEEEecC-CCCCCCH
Confidence            3334555555555555541     2333344455555555555 3332     1222 34445555555511 1122210


Q ss_pred             cccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          508 LKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       508 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      -       ........+...++|+.|+++.|.+..
T Consensus       138 ~-------g~~~l~~~L~~n~~L~~L~L~~n~i~~  165 (185)
T 1io0_A          138 N-------VEMEIANMLEKNTTLLKFGYHFTQQGP  165 (185)
T ss_dssp             H-------HHHHHHHHHHHCSSCCEEECCCSSHHH
T ss_pred             H-------HHHHHHHHHHhCCCcCEEeccCCCCCh
Confidence            0       011234456666777777777776643

>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=97.28  E-value=9.8e-05  Score=71.83  Aligned_cols=78  Identities=18%  Similarity=0.195  Sum_probs=61.4

Q ss_pred             ccccEEEEEeecccccccccC---CCCcceeeEEeccCccccccCcccccccc--CCCeeeecCCCCC-cccc-------
Q 039519          393 NWRNVRRMSLMKNKIENLSEL---QPALTFFLFFNMSNNHLLWKLPLGISTLV--SLEHLDLSSTAIT-HLPI-------  459 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~l~~~---~~~l~~L~~L~l~~~~~~~~lp~~~~~L~--~L~~L~L~~~~l~-~lp~-------  459 (647)
                      .+++|+.|+|++|.+..++..   +..+++|+.|+|++| .+..+ ..+..+.  +|++|+|++|.+. .+|.       
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTS-CCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCC-ccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHHH
Confidence            356899999999999886642   357889999999999 66665 3455565  9999999999997 4552       


Q ss_pred             chhcCccCcEEee
Q 039519          460 DLQKLVNLKCLNL  472 (647)
Q Consensus       460 ~~~~l~~L~~L~l  472 (647)
                      .+..+++|+.||-
T Consensus       246 il~~~P~L~~LDg  258 (267)
T 3rw6_A          246 IRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHCTTCCEESS
T ss_pred             HHHHCcccCeECC
Confidence            3678999999873

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.28  E-value=0.00017  Score=66.44  Aligned_cols=106  Identities=18%  Similarity=0.126  Sum_probs=70.4

Q ss_pred             ccccccEEEEEeecc-cccc-----cccCCCCcceeeEEeccCcccccc-----CccccccccCCCeeeecCCCCCc---
Q 039519          391 IQNWRNVRRMSLMKN-KIEN-----LSELQPALTFFLFFNMSNNHLLWK-----LPLGISTLVSLEHLDLSSTAITH---  456 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n-~i~~-----l~~~~~~l~~L~~L~l~~~~~~~~-----lp~~~~~L~~L~~L~L~~~~l~~---  456 (647)
                      +...++++.|+|++| .+..     +...+...++|++|+|++| .+..     +...+...++|++|+|++|.|..   
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n-~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~  110 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGI  110 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCC-CCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHH
Confidence            344578888888888 7654     3333355677888888888 4432     33345556788889998888873   


Q ss_pred             --cccchhcCccCcEEee--cccccCCc-----CchhhhcCCCCCcEEeccc
Q 039519          457 --LPIDLQKLVNLKCLNL--QYMYNLNQ-----FPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       457 --lp~~~~~l~~L~~L~l--~~~~~l~~-----lp~~~i~~l~~L~~L~l~~  499 (647)
                        +...+...++|++|+|  ++| .+..     +... +...++|++|++.+
T Consensus       111 ~~l~~~L~~n~~L~~L~L~~~~N-~i~~~g~~~l~~~-L~~n~~L~~L~L~~  160 (185)
T 1io0_A          111 LALVEALQSNTSLIELRIDNQSQ-PLGNNVEMEIANM-LEKNTTLLKFGYHF  160 (185)
T ss_dssp             HHHHHGGGGCSSCCEEECCCCSS-CCCHHHHHHHHHH-HHHCSSCCEEECCC
T ss_pred             HHHHHHHHhCCCceEEEecCCCC-CCCHHHHHHHHHH-HHhCCCcCEEeccC
Confidence              4566777788888988  666 3433     2222 45567888887654

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.27  E-value=0.00027  Score=64.99  Aligned_cols=36  Identities=17%  Similarity=0.272  Sum_probs=32.4

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++||++.++++.+.+.....+.+.|+|.+|+|||
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT   57 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKT   57 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHH
T ss_pred             cccccchHHHHHHHHHHhcCCCCceEEECCCCCCHH
Confidence            568999999999999998766677889999999999

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.24  E-value=0.00089  Score=66.73  Aligned_cols=99  Identities=10%  Similarity=0.012  Sum_probs=64.3

Q ss_pred             cccchHHHHHHHHHhhh----CCceEEEEEccCccCCC------------C---CCcc--eEEEEEEcCccCHHHHHHHH
Q 039519           78 TVGLESTFDKVRRCLRE----EQVGIIGLYGMGGLLGA------------P---NDFD--VVIWMVVSKDLQLEKIQERI  136 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~----~~~~vi~I~G~gGiGKT------------~---~~F~--~~~wv~~s~~~~~~~~~~~i  136 (647)
                      +.|||+++++|...|..    +....+-|+|.+|+|||            .   ....  ..+.|....-.+...++..|
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            68999999999887763    56778899999999999            1   1111  23455544556788899999


Q ss_pred             HHHhCCCCcCCCCCCHHHHHHHHHHHh---ccCCeeEEEecCCCc
Q 039519          137 GRRIGFLDESWKNGSLEDKASDIFRIL---SKKKLLLLLDDIWER  178 (647)
Q Consensus       137 ~~~l~~~~~~~~~~~~~~~~~~l~~~l---~~~r~LlVlDdv~~~  178 (647)
                      ++++.....  ......+....+.+.+   .++++++|||+++.-
T Consensus       102 ~~~L~g~~~--~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l  144 (318)
T 3te6_A          102 WFAISKENL--CGDISLEALNFYITNVPKAKKRKTLILIQNPENL  144 (318)
T ss_dssp             HHHHSCCC----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSS
T ss_pred             HHHhcCCCC--CchHHHHHHHHHHHHhhhccCCceEEEEecHHHh
Confidence            999864321  1122223333333333   456799999999874

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.14  E-value=0.0039  Score=64.76  Aligned_cols=103  Identities=14%  Similarity=0.212  Sum_probs=54.8

Q ss_pred             cccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCc-cccccccCCCeeeecCC------------CC-
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSST------------AI-  454 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~------------~l-  454 (647)
                      .|.++.+|+.+.+.. .++.++.. +.++++|+.+++..+  +..++ ..|.++..|+.+.+..+            .+ 
T Consensus        66 AF~~c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~c~~L~~i~~p~~l~~i~~~aF~~~~~~  142 (394)
T 4fs7_A           66 AFQGCRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS--VKMIGRCTFSGCYALKSILLPLMLKSIGVEAFKGCDFK  142 (394)
T ss_dssp             TTTTCTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT--CCEECTTTTTTCTTCCCCCCCTTCCEECTTTTTTCCCS
T ss_pred             HhhCCCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC--ceEccchhhcccccchhhcccCceeeecceeeeccccc
Confidence            466677788887763 36666554 466677777777654  22332 23444445544443221            11 


Q ss_pred             --------Ccc-ccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEec
Q 039519          455 --------THL-PIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM  497 (647)
Q Consensus       455 --------~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l  497 (647)
                              ..+ ...+.++++|+.+.+.+  .+..++.+.+..+.+|+.+.+
T Consensus       143 ~~~~~~~~~~i~~~aF~~c~~L~~i~l~~--~~~~I~~~~F~~c~~L~~i~l  192 (394)
T 4fs7_A          143 EITIPEGVTVIGDEAFATCESLEYVSLPD--SMETLHNGLFSGCGKLKSIKL  192 (394)
T ss_dssp             EEECCTTCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCBCCC
T ss_pred             ccccCccccccchhhhcccCCCcEEecCC--ccceeccccccCCCCceEEEc
Confidence                    111 12345566666666654  235566555666666665544

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.05  E-value=0.0023  Score=66.45  Aligned_cols=205  Identities=12%  Similarity=0.079  Sum_probs=98.8

Q ss_pred             cccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccC-ccccccccCCCeeeecCCCCCccccchhcCccC
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSSTAITHLPIDLQKLVNL  467 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L  467 (647)
                      .+.++++|+.+.+..+ +..++.. +.+++.|+.+.+..+  +..+ ...+.++..|+.+.+..+. ..+........+|
T Consensus       157 aF~~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l~~~--~~~I~~~~F~~~~~L~~i~~~~~~-~~i~~~~~~~~~l  232 (394)
T 4fs7_A          157 AFATCESLEYVSLPDS-METLHNGLFSGCGKLKSIKLPRN--LKIIRDYCFAECILLENMEFPNSL-YYLGDFALSKTGV  232 (394)
T ss_dssp             TTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCCCTT--CCEECTTTTTTCTTCCBCCCCTTC-CEECTTTTTTCCC
T ss_pred             hhcccCCCcEEecCCc-cceeccccccCCCCceEEEcCCC--ceEeCchhhccccccceeecCCCc-eEeehhhcccCCC
Confidence            4667778888887654 3444443 366677777777665  2233 2345666677776665432 2222233334556


Q ss_pred             cEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccC----------CccccHHHhhCCCCCcEEEEEe
Q 039519          468 KCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFG----------GHQVLVEELIGMKYLMAVTITL  537 (647)
Q Consensus       468 ~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~----------~~~~~~~~l~~l~~L~~L~l~~  537 (647)
                      +.+.+..  .+..++...+..+.+|+.+.+...    ...+....+..          .....-..+..+.+|+.+.+..
T Consensus       233 ~~i~ip~--~~~~i~~~~f~~~~~l~~~~~~~~----~~~i~~~~F~~~~~l~~~~~~~~~i~~~~F~~~~~L~~i~l~~  306 (394)
T 4fs7_A          233 KNIIIPD--SFTELGKSVFYGCTDLESISIQNN----KLRIGGSLFYNCSGLKKVIYGSVIVPEKTFYGCSSLTEVKLLD  306 (394)
T ss_dssp             CEEEECT--TCCEECSSTTTTCSSCCEEEECCT----TCEECSCTTTTCTTCCEEEECSSEECTTTTTTCTTCCEEEECT
T ss_pred             ceEEECC--CceecccccccccccceeEEcCCC----cceeeccccccccccceeccCceeecccccccccccccccccc
Confidence            6666654  234555544555666666544321    11111111000          0000111244556666666531


Q ss_pred             cchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh--hhccccCCceEEeec
Q 039519          538 KRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ--MIIQRSSLSVHNLFI  611 (647)
Q Consensus       538 ~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~--~~~~l~~L~~L~L~~  611 (647)
                       +++.+..  .......+|+.+.+.  ++++++.-.+|.++.+|+.+.|..+  +..++  .|..+++|+.+++..
T Consensus       307 -~i~~I~~--~aF~~c~~L~~i~lp--~~v~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          307 -SVKFIGE--EAFESCTSLVSIDLP--YLVEEIGKRSFRGCTSLSNINFPLS--LRKIGANAFQGCINLKKVELPK  375 (394)
T ss_dssp             -TCCEECT--TTTTTCTTCCEECCC--TTCCEECTTTTTTCTTCCEECCCTT--CCEECTTTBTTCTTCCEEEEEG
T ss_pred             -ccceech--hhhcCCCCCCEEEeC--CcccEEhHHhccCCCCCCEEEECcc--ccEehHHHhhCCCCCCEEEECC
Confidence             1111100  000001123333332  1233333233777788888888654  33333  377788888888866

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.98  E-value=0.0049  Score=63.94  Aligned_cols=35  Identities=9%  Similarity=0.105  Sum_probs=19.9

Q ss_pred             ccccCCccEEEEcCCCCCCCCh--hhccccCCceEEeec
Q 039519          575 LACLHNLNKLYVAGCKHLEDFQ--MIIQRSSLSVHNLFI  611 (647)
Q Consensus       575 ~~~l~~L~~L~L~~~~~~~~~~--~~~~l~~L~~L~L~~  611 (647)
                      |..+.+|+++.|-.+  ...+.  .|..+++|+.+++.+
T Consensus       330 F~~C~~L~~i~ip~s--v~~I~~~aF~~C~~L~~i~~~~  366 (394)
T 4gt6_A          330 FAGCEQLERIAIPSS--VTKIPESAFSNCTALNNIEYSG  366 (394)
T ss_dssp             TTTCTTCCEEEECTT--CCBCCGGGGTTCTTCCEEEESS
T ss_pred             hhCCCCCCEEEECcc--cCEEhHhHhhCCCCCCEEEECC
Confidence            566666666666442  22332  266666666666665

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=96.97  E-value=0.00037  Score=70.38  Aligned_cols=36  Identities=14%  Similarity=0.246  Sum_probs=32.4

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|++..++.+.+.+..+....+.++|.+|+|||
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT   60 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKT   60 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHH
Confidence            568999999999999998877666999999999999

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=96.78  E-value=0.0034  Score=64.58  Aligned_cols=36  Identities=17%  Similarity=0.124  Sum_probs=31.3

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..++|++..++.+...+..+. ...+.|+|.+|+|||
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT   52 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKT   52 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHH
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHH
Confidence            568999999999999988754 357889999999999

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.73  E-value=0.003  Score=57.52  Aligned_cols=36  Identities=17%  Similarity=0.245  Sum_probs=32.2

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++||+..++++.+.+.....+.+.|+|.+|+|||
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT   57 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKT   57 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHH
T ss_pred             chhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHH
Confidence            568999999999999998766677889999999999

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=96.72  E-value=0.0015  Score=65.62  Aligned_cols=36  Identities=11%  Similarity=0.246  Sum_probs=31.4

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|++..++.+.+.+..+....+.++|.+|+|||
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt   52 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKT   52 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHH
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHH
Confidence            557999999999999888766555899999999999

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.51  E-value=0.016  Score=60.00  Aligned_cols=58  Identities=10%  Similarity=0.011  Sum_probs=31.4

Q ss_pred             cccccCCccEEEEcCCCCCCCCh--hhccccCCceEEeecccccccccchhhhhhhcCCCCcccC
Q 039519          574 CLACLHNLNKLYVAGCKHLEDFQ--MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKS  636 (647)
Q Consensus       574 ~~~~l~~L~~L~L~~~~~~~~~~--~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~  636 (647)
                      +|..+.+|+.+.|.++  .+.+.  .|..+.+|+.+.|..  ++.. ..-..+.++.+|+.++..
T Consensus       306 aF~~c~~L~~i~lp~~--v~~I~~~aF~~C~~L~~i~ip~--sv~~-I~~~aF~~C~~L~~i~~~  365 (394)
T 4gt6_A          306 VFAGCISLKSIDIPEG--ITQILDDAFAGCEQLERIAIPS--SVTK-IPESAFSNCTALNNIEYS  365 (394)
T ss_dssp             TTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEEECT--TCCB-CCGGGGTTCTTCCEEEES
T ss_pred             eecCCCCcCEEEeCCc--ccEehHhHhhCCCCCCEEEECc--ccCE-EhHhHhhCCCCCCEEEEC
Confidence            3666667777766543  23332  266667777777654  2222 223356666666655443

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.44  E-value=0.039  Score=56.61  Aligned_cols=58  Identities=14%  Similarity=0.018  Sum_probs=36.2

Q ss_pred             ccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccchhhhhhhcCCCCccc
Q 039519          575 LACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTK  635 (647)
Q Consensus       575 ~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~  635 (647)
                      |..+++|+.+.+.++......+ .|..+.+|+.+.|..  ++.. ..-..+.++.+|+.+..
T Consensus       282 F~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~--~l~~-I~~~aF~~C~~L~~i~i  340 (379)
T 4h09_A          282 CSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPT--ALKT-IQVYAFKNCKALSTISY  340 (379)
T ss_dssp             TTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCT--TCCE-ECTTTTTTCTTCCCCCC
T ss_pred             cccccccccccccccccceehhhhhcCCCCCCEEEcCc--cccE-EHHHHhhCCCCCCEEEE
Confidence            7777888888887653322222 377888888888865  3322 23335667777776654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.25  E-value=0.0044  Score=61.07  Aligned_cols=36  Identities=31%  Similarity=0.326  Sum_probs=29.9

Q ss_pred             CCcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++++.+.+..             ...+-+.|+|.+|+|||
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT   65 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKT   65 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHH
Confidence            5689999999999887743             34567899999999999

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=96.20  E-value=0.019  Score=56.04  Aligned_cols=36  Identities=8%  Similarity=-0.065  Sum_probs=26.7

Q ss_pred             CCcccchHHHHHHHHH-------hh---hCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRC-------LR---EEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~-------L~---~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++...       +.   ......+.|+|.+|+|||
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT   78 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKT   78 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHH
Confidence            4578888877776663       32   234567889999999999

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.81  E-value=0.0049  Score=62.02  Aligned_cols=36  Identities=8%  Similarity=-0.098  Sum_probs=30.7

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+++..+. ..++-+.|.+|+|||
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT   62 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKT   62 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHH
Confidence            668999999999999998654 367788888999999

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.58  E-value=0.011  Score=58.78  Aligned_cols=35  Identities=20%  Similarity=0.253  Sum_probs=27.4

Q ss_pred             CcccchHHHHHHHHHhh---------------hCCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLR---------------EEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~---------------~~~~~vi~I~G~gGiGKT  111 (647)
                      .++|.+..++.+.+.+.               ......+.|+|.+|+|||
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT   81 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKT   81 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHH
Confidence            47899998888877654               123456889999999999

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=95.50  E-value=0.0041  Score=59.33  Aligned_cols=36  Identities=11%  Similarity=0.037  Sum_probs=25.7

Q ss_pred             CCcccc---hHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGL---ESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr---~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      +.++|.   +..++.+.........+.+.|+|.+|+|||
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT   66 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRT   66 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHH
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHH
Confidence            456763   345556666665556678999999999999

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.31  E-value=0.021  Score=48.66  Aligned_cols=51  Identities=25%  Similarity=0.287  Sum_probs=27.0

Q ss_pred             EEeccCccccc--cCccccccccCCCeeeecCCCCCcccc-chhcCccCcEEeeccc
Q 039519          422 FFNMSNNHLLW--KLPLGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYM  475 (647)
Q Consensus       422 ~L~l~~~~~~~--~lp~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~  475 (647)
                      .++-+++ .++  .+|..+.  .+|++|+|++|.|+.+|. .+..+++|++|+|++|
T Consensus        12 ~v~Cs~~-~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           12 LVDCGRR-GLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             EEECCSS-CCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             EEEeCCC-CCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            3444554 444  5554332  345666666666666653 2445566666666655

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.30  E-value=0.0087  Score=60.89  Aligned_cols=36  Identities=11%  Similarity=0.241  Sum_probs=31.3

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|+++.++.+...+..+....+.++|.+|+|||
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT   72 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKT   72 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHH
Confidence            568999999999999988765445899999999999

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.28  E-value=0.026  Score=57.38  Aligned_cols=36  Identities=14%  Similarity=0.085  Sum_probs=30.1

Q ss_pred             CCcccchHHHHHHHHHh-hhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCL-REEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L-~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+ ..+....+.|+|..|+|||
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKT   50 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKK   50 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHH
Confidence            56799999999999888 6554444899999999999

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=95.22  E-value=0.036  Score=58.18  Aligned_cols=36  Identities=14%  Similarity=0.238  Sum_probs=31.7

Q ss_pred             CCcccchHHH---HHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTF---DKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~---~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..+   ..+...+..+....+.++|.+|+|||
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKT   64 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKT   64 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHH
Confidence            5689999888   77888888888888999999999999

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.19  E-value=0.0068  Score=52.94  Aligned_cols=35  Identities=26%  Similarity=0.291  Sum_probs=27.0

Q ss_pred             CcccchHHHHHHHHHhhh--CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLRE--EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~--~~~~vi~I~G~gGiGKT  111 (647)
                      .++|++..+.++.+.+..  ....-|-|+|.+|+|||
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt   38 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRM   38 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHH
Confidence            478999999999988763  33345679999999999

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=95.01  E-value=0.066  Score=51.60  Aligned_cols=36  Identities=17%  Similarity=0.053  Sum_probs=27.8

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++.+.+..            ...+.|.|+|.+|+|||
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT   53 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKT   53 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHH
Confidence            5689999988888776531            23356789999999999

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=94.98  E-value=0.039  Score=56.18  Aligned_cols=36  Identities=19%  Similarity=0.119  Sum_probs=29.8

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++.+.+..            ...+.|.|+|.+|+|||
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT  131 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKT  131 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHH
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHH
Confidence            5579999999999887742            34567889999999999

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=94.87  E-value=0.065  Score=53.67  Aligned_cols=36  Identities=19%  Similarity=0.183  Sum_probs=28.6

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++.|.+.+..            ...+-|.++|.+|+|||
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT   59 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKS   59 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHH
Confidence            5679999999988877631            12367889999999999

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=94.87  E-value=0.019  Score=52.08  Aligned_cols=30  Identities=13%  Similarity=0.155  Sum_probs=20.1

Q ss_pred             hHHHHHHHHHhhh---CCceEEEEEccCccCCC
Q 039519           82 ESTFDKVRRCLRE---EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        82 ~~~~~~i~~~L~~---~~~~vi~I~G~gGiGKT  111 (647)
                      +..++.+.+++.+   .....++|+|.+|+|||
T Consensus        20 ~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKT   52 (180)
T 3ec2_A           20 NRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKT   52 (180)
T ss_dssp             HHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHH
T ss_pred             HHHHHHHHHHHHhccccCCCEEEEECCCCCCHH
Confidence            3344444444433   23578999999999999

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=94.85  E-value=0.11  Score=55.05  Aligned_cols=36  Identities=19%  Similarity=0.265  Sum_probs=31.2

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      .++|||+.+++.+.+.+......-+.++|.+|+|||
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT  215 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKT  215 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTH
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHH
Confidence            468999999999999997655556779999999999

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=94.81  E-value=0.054  Score=54.29  Aligned_cols=36  Identities=25%  Similarity=0.289  Sum_probs=28.9

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++.+.+..            ...+-|.++|.+|+|||
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT   65 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKS   65 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHH
Confidence            5679999999999988731            12456889999999999

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=94.66  E-value=0.082  Score=54.49  Aligned_cols=36  Identities=11%  Similarity=0.070  Sum_probs=29.5

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..            ...+-|.|+|.+|+|||
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT  162 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKT  162 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHH
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHH
Confidence            5679999999999988732            23467889999999999

>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=94.41  E-value=0.067  Score=54.87  Aligned_cols=58  Identities=14%  Similarity=0.233  Sum_probs=27.3

Q ss_pred             cccccCCCeeeecCCCCCccc-cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEec
Q 039519          438 ISTLVSLEHLDLSSTAITHLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRM  497 (647)
Q Consensus       438 ~~~L~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l  497 (647)
                      +..+.+|+.+.+.. .++.++ ..+.++++|+.+.+.++ .+..++...+..+.+|+.+.+
T Consensus       259 F~~~~~l~~i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~-~i~~I~~~aF~~c~~L~~i~l  317 (379)
T 4h09_A          259 LQNCTALKTLNFYA-KVKTVPYLLCSGCSNLTKVVMDNS-AIETLEPRVFMDCVKLSSVTL  317 (379)
T ss_dssp             TTTCTTCCEEEECC-CCSEECTTTTTTCTTCCEEEECCT-TCCEECTTTTTTCTTCCEEEC
T ss_pred             cceeehhccccccc-cceecccccccccccccccccccc-ccceehhhhhcCCCCCCEEEc
Confidence            34444555555532 233333 23444555555555443 344555444555555555544

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=94.30  E-value=0.072  Score=54.16  Aligned_cols=36  Identities=25%  Similarity=0.289  Sum_probs=28.3

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.|.+.+..            ...+-|.++|.+|+|||
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT   98 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKS   98 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHH
Confidence            5689999999999887631            12345789999999999

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.30  E-value=0.052  Score=46.23  Aligned_cols=52  Identities=23%  Similarity=0.298  Sum_probs=43.7

Q ss_pred             CeeeecCCCCC--ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccc
Q 039519          445 EHLDLSSTAIT--HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       445 ~~L~L~~~~l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      ..++.++++++  .+|..+.  ++|++|+|++| .+..+|.+.+..+.+|+.|++.+
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~   64 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGN-NLTALPPGLLDALPALRTAHLGA   64 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTS-CCSSCCTTTGGGCTTCCEEECCS
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCC-cCCccChhhhhhccccCEEEecC
Confidence            47888999998  9997543  37999999999 88999998888899999987765

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=94.24  E-value=0.063  Score=52.08  Aligned_cols=36  Identities=17%  Similarity=0.034  Sum_probs=27.2

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++.+.+..            ...+-+.|+|.+|+|||
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT   58 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKT   58 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHH
Confidence            5689999988888776541            11234779999999999

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=93.98  E-value=0.12  Score=58.60  Aligned_cols=36  Identities=19%  Similarity=0.290  Sum_probs=31.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++||+.+++++.+.|......-+.++|.+|+|||
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT  221 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKT  221 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHH
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHH
Confidence            467999999999999988765667789999999999

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=93.97  E-value=0.23  Score=56.10  Aligned_cols=36  Identities=19%  Similarity=0.265  Sum_probs=31.4

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+|||+.+++++.+.+......-+.++|.+|+|||
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT  215 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKT  215 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTH
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHH
Confidence            468999999999999997755556789999999999

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=93.75  E-value=0.067  Score=49.32  Aligned_cols=36  Identities=14%  Similarity=-0.011  Sum_probs=23.2

Q ss_pred             CCcccchH----HHHHHHHHhhhC----CceEEEEEccCccCCC
Q 039519           76 EPTVGLES----TFDKVRRCLREE----QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~----~~~~i~~~L~~~----~~~vi~I~G~gGiGKT  111 (647)
                      +.+++.+.    .++.+.+++...    ....+.|+|.+|+|||
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT   68 (202)
T 2w58_A           25 SDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKT   68 (202)
T ss_dssp             TSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHH
T ss_pred             hhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHH
Confidence            45665443    344445555443    1268899999999999

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=93.69  E-value=0.057  Score=58.02  Aligned_cols=36  Identities=19%  Similarity=0.253  Sum_probs=30.6

Q ss_pred             CCcccchHHHHHHHHHhhh-----------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-----------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|++..++++.+++..                 ...+.+.|+|.+|+|||
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKT   91 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKT   91 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHH
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHH
Confidence            5679999999999999864                 13468999999999999

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=93.63  E-value=0.15  Score=50.40  Aligned_cols=36  Identities=19%  Similarity=0.173  Sum_probs=29.2

Q ss_pred             CCcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++++.+.+..             ...+.|.|+|.+|+|||
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT   63 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKT   63 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHH
Confidence            5579999999888887642             24567899999999999

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=93.62  E-value=0.11  Score=59.60  Aligned_cols=36  Identities=19%  Similarity=0.259  Sum_probs=31.4

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+|||++++.++.+.+......-+.++|.+|+|||
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT  205 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKT  205 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHH
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHH
Confidence            557999999999999988765556789999999999

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=93.54  E-value=0.13  Score=53.94  Aligned_cols=36  Identities=19%  Similarity=0.183  Sum_probs=28.7

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..            ...+-|.++|.+|+|||
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT  181 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKS  181 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHH
Confidence            4568999999999887631            23467889999999999

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=93.44  E-value=0.18  Score=49.58  Aligned_cols=36  Identities=11%  Similarity=0.055  Sum_probs=29.6

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+.+.+..            ...+.|.|+|.+|+|||
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT   68 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKT   68 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHH
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHH
Confidence            5689999999999887742            23568899999999999

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=93.26  E-value=0.099  Score=52.76  Aligned_cols=36  Identities=19%  Similarity=0.310  Sum_probs=30.3

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+...+..++...+.++|.+|+|||
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKT   60 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKT   60 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHH
Confidence            446899988888888888776555899999999999

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=93.12  E-value=0.084  Score=43.76  Aligned_cols=22  Identities=14%  Similarity=0.243  Sum_probs=19.3

Q ss_pred             ChhHHHHHHHHHHhhHHhhccc
Q 039519            1 VEAVETKVGELMRDSSQEVDKL   22 (647)
Q Consensus         1 v~~~~~~~ed~~d~~~~~~~~~   22 (647)
                      |||++||+||++|+|.++....
T Consensus        64 vrdlaYD~ED~iD~f~~~~~~~   85 (115)
T 3qfl_A           64 VRELSYVIEDVVDKFLVQVDGI   85 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHhccc
Confidence            6899999999999999987643

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=92.85  E-value=0.12  Score=52.66  Aligned_cols=36  Identities=17%  Similarity=0.160  Sum_probs=27.1

Q ss_pred             CCcccchHHHHHH---HHHhhhCCc--eEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKV---RRCLREEQV--GIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i---~~~L~~~~~--~vi~I~G~gGiGKT  111 (647)
                      ..+||++..++.+   .+.+..+..  +.+.|+|.+|+|||
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT   84 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKT   84 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHH
Confidence            5689999987764   444444433  58899999999999

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=92.81  E-value=0.13  Score=51.81  Aligned_cols=36  Identities=22%  Similarity=0.215  Sum_probs=30.3

Q ss_pred             CCcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|++..++++..++..     .....|.|+|.+|+|||
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT   69 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKT   69 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHH
Confidence            5689999999999888864     34457889999999999

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=92.52  E-value=0.16  Score=50.20  Aligned_cols=32  Identities=13%  Similarity=0.145  Sum_probs=24.5

Q ss_pred             cchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           80 GLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        80 Gr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      |-++.++.+.+.+..+....+-++|.+|+|||
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKt   32 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPR   32 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHH
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHH
Confidence            44566777888887766778899999999999

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=92.03  E-value=0.083  Score=55.39  Aligned_cols=110  Identities=17%  Similarity=0.169  Sum_probs=55.6

Q ss_pred             Ccc-cchHHH--HHHHHHhhhCC-ceEEEEEccCccCCC----------CCCcc--eEEEEEEcCccCHHHHHHHHHHHh
Q 039519           77 PTV-GLESTF--DKVRRCLREEQ-VGIIGLYGMGGLLGA----------PNDFD--VVIWMVVSKDLQLEKIQERIGRRI  140 (647)
Q Consensus        77 ~~v-Gr~~~~--~~i~~~L~~~~-~~vi~I~G~gGiGKT----------~~~F~--~~~wv~~s~~~~~~~~~~~i~~~l  140 (647)
                      .|| |....+  ..+.......+ ...+.|+|.+|+|||          ...+.  .++++..      ..+...+...+
T Consensus       106 ~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~------~~~~~~~~~~~  179 (440)
T 2z4s_A          106 NFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EKFLNDLVDSM  179 (440)
T ss_dssp             GCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEH------HHHHHHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHH
Confidence            345 644332  33333333333 568899999999999          11121  2344433      23344444444


Q ss_pred             CCCCcCCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccc----cccccCCCCC-CCCCcEEEEecCc
Q 039519          141 GFLDESWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVD----LTKVGVPFPD-PENKSRIDFTTRF  203 (647)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~----~~~l~~~~~~-~~~gs~IivTTR~  203 (647)
                      ...       .    ...+.+.+..+.-+|++||++....    .+.+...+.. ...|..||+||.+
T Consensus       180 ~~~-------~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~  236 (440)
T 2z4s_A          180 KEG-------K----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDR  236 (440)
T ss_dssp             HTT-------C----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             Hcc-------c----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            321       1    1223344444677999999975321    1222111110 1346788888875

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.29  E-value=0.49  Score=49.05  Aligned_cols=34  Identities=21%  Similarity=0.228  Sum_probs=26.5

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|.++.+++|.+.+.-             ...+=|-++|++|.|||
T Consensus       183 igGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKT  229 (437)
T 4b4t_L          183 IGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKT  229 (437)
T ss_dssp             GCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHH
T ss_pred             hCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHH
Confidence            46899988888876541             23567889999999999

>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=90.89  E-value=0.18  Score=46.02  Aligned_cols=116  Identities=16%  Similarity=0.082  Sum_probs=61.3

Q ss_pred             ceeeEEeccCccccc-----cCccccccccCCCeeeecCCCCC-----ccccchhcCccCcEEeecccccCCcCchh---
Q 039519          418 TFFLFFNMSNNHLLW-----KLPLGISTLVSLEHLDLSSTAIT-----HLPIDLQKLVNLKCLNLQYMYNLNQFPRL---  484 (647)
Q Consensus       418 ~~L~~L~l~~~~~~~-----~lp~~~~~L~~L~~L~L~~~~l~-----~lp~~~~~l~~L~~L~l~~~~~l~~lp~~---  484 (647)
                      +.|+.|+|++++.++     .+-..+..-++|+.|+|++|.|.     .+-..+..-+.|++|+|++| .+..--..   
T Consensus        41 ~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N-~Ig~~Ga~ala  119 (197)
T 1pgv_A           41 TDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN-FLTPELLARLL  119 (197)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCHHHHHHHH
T ss_pred             CCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCC-cCCHHHHHHHH
Confidence            356667776532222     12233444466777777777776     23334445567888888776 33321110   


Q ss_pred             -hhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchh
Q 039519          485 -VISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       485 -~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  541 (647)
                       .+..-+.|+.|++.++..+.+..   .    ........|...+.|+.|+++++...
T Consensus       120 ~aL~~N~tL~~L~L~n~~~~~ig~---~----g~~~ia~aL~~N~tL~~L~l~~~~~g  170 (197)
T 1pgv_A          120 RSTLVTQSIVEFKADNQRQSVLGN---Q----VEMDMMMAIEENESLLRVGISFASME  170 (197)
T ss_dssp             HHTTTTCCCSEEECCCCSSCCCCH---H----HHHHHHHHHHHCSSCCEEECCCCCHH
T ss_pred             HHHhhCCceeEEECCCCcCcCcCH---H----HHHHHHHHHHhCCCcCeEeccCCCcc
Confidence             13344567777776432212200   0    01123455777788888888866543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=90.88  E-value=0.69  Score=44.20  Aligned_cols=36  Identities=11%  Similarity=0.050  Sum_probs=26.9

Q ss_pred             CCcccchHHHHHHHHHhhh------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++.+.+..            ...+-|.|+|.+|+|||
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT   59 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKT   59 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHH
Confidence            5679999888887765431            12345889999999999

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.78  E-value=0.56  Score=47.92  Aligned_cols=34  Identities=21%  Similarity=0.250  Sum_probs=26.2

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|.++.+++|.+.+.-             ...+=|-++|++|.|||
T Consensus       150 IgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKT  196 (405)
T 4b4t_J          150 VGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKT  196 (405)
T ss_dssp             SCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHH
T ss_pred             hCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHH
Confidence            46899999988876541             13456789999999999

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.55  E-value=0.45  Score=49.31  Aligned_cols=35  Identities=14%  Similarity=0.137  Sum_probs=27.1

Q ss_pred             CcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      .+.|.++.+++|.+.+..             ...+=|-++|++|.|||
T Consensus       182 digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKT  229 (434)
T 4b4t_M          182 DVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKT  229 (434)
T ss_dssp             GSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHH
T ss_pred             hcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHH
Confidence            347999999988876431             23567889999999999

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.20  E-value=0.71  Score=47.89  Aligned_cols=35  Identities=23%  Similarity=0.245  Sum_probs=27.3

Q ss_pred             CcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      .+.|.++.+++|.+.+.-             ...+=|-++|++|.|||
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKT  257 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKT  257 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHH
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHH
Confidence            457899999988876531             24567889999999999

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=90.19  E-value=0.52  Score=47.25  Aligned_cols=30  Identities=10%  Similarity=0.191  Sum_probs=23.3

Q ss_pred             hHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           82 ESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        82 ~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ++..+.+.+.+..++ ...+-++|..|+|||
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt   38 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDD   38 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHH
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHH
Confidence            455677777777665 456889999999999

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.93  E-value=0.58  Score=48.38  Aligned_cols=35  Identities=20%  Similarity=0.226  Sum_probs=26.8

Q ss_pred             CcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      .+.|.++.+++|.+.+.-             ...+=|-++|++|+|||
T Consensus       173 digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT  220 (428)
T 4b4t_K          173 DVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKT  220 (428)
T ss_dssp             GSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHH
T ss_pred             HhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHH
Confidence            346899999888876541             23456889999999999

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=89.69  E-value=0.1  Score=51.48  Aligned_cols=62  Identities=16%  Similarity=0.167  Sum_probs=40.2

Q ss_pred             ceEEEEEccCccCCC-------CCCcceEEEEEE--cCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCC
Q 039519           97 VGIIGLYGMGGLLGA-------PNDFDVVIWMVV--SKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK  167 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT-------~~~F~~~~wv~~--s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r  167 (647)
                      .+++.|+|++|+|||       ...-..++|+++  .+..+             .     -..+.++....+.+.+...+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~-------------~-----~~~~le~~l~~i~~~l~~~~  184 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLS-------------G-----YNTDFNVFVDDIARAMLQHR  184 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSST-------------T-----CBCCHHHHHHHHHHHHHHCS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhh-------------h-----hhcCHHHHHHHHHHHHhhCC
Confidence            356789999999999       111123466766  32211             0     11456677777777787777


Q ss_pred             eeEEEecCCC
Q 039519          168 LLLLLDDIWE  177 (647)
Q Consensus       168 ~LlVlDdv~~  177 (647)
                       +||+|++..
T Consensus       185 -LLVIDsI~a  193 (331)
T 2vhj_A          185 -VIVIDSLKN  193 (331)
T ss_dssp             -EEEEECCTT
T ss_pred             -EEEEecccc
Confidence             999999854

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=88.77  E-value=0.38  Score=47.23  Aligned_cols=16  Identities=25%  Similarity=0.318  Sum_probs=13.7

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ..+.+.++|.+|+|||
T Consensus        35 ~p~~lLl~GppGtGKT   50 (293)
T 3t15_A           35 VPLILGIWGGKGQGKS   50 (293)
T ss_dssp             CCSEEEEEECTTSCHH
T ss_pred             CCeEEEEECCCCCCHH
Confidence            3467889999999999

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.68  E-value=0.88  Score=46.74  Aligned_cols=34  Identities=24%  Similarity=0.296  Sum_probs=26.4

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|.++.+++|.+.+.-             ...+=|-++|++|.|||
T Consensus       184 IgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKT  230 (437)
T 4b4t_I          184 IGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKT  230 (437)
T ss_dssp             TCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHH
T ss_pred             cCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHH
Confidence            46899998888876531             13466889999999999

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=86.58  E-value=0.94  Score=47.92  Aligned_cols=36  Identities=17%  Similarity=0.184  Sum_probs=28.9

Q ss_pred             CCcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++++.+.+..             ...+-|.|+|.+|+|||
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT  252 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKT  252 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHH
Confidence            3579999999999887652             23456889999999999

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=86.47  E-value=0.27  Score=42.35  Aligned_cols=35  Identities=14%  Similarity=0.175  Sum_probs=25.9

Q ss_pred             CcccchHHHHHHHHHhhh--CCceEEEEEccCccCCC
Q 039519           77 PTVGLESTFDKVRRCLRE--EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        77 ~~vGr~~~~~~i~~~L~~--~~~~vi~I~G~gGiGKT  111 (647)
                      .++|++..++++.+.+..  ....-|-|+|.+|+|||
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt   41 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFE   41 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHH
Confidence            468999999998888764  33345779999999999

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=86.25  E-value=0.9  Score=45.15  Aligned_cols=36  Identities=22%  Similarity=0.284  Sum_probs=22.4

Q ss_pred             CCcc-cchH--HHHHHHHHhhhC--CceEEEEEccCccCCC
Q 039519           76 EPTV-GLES--TFDKVRRCLREE--QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~v-Gr~~--~~~~i~~~L~~~--~~~vi~I~G~gGiGKT  111 (647)
                      +.|| |...  ....+...+...  ....+.|+|.+|+|||
T Consensus        11 ~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT   51 (324)
T 1l8q_A           11 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKT   51 (324)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHH
Confidence            4454 5332  233444444443  3467889999999999

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=86.04  E-value=1.4  Score=44.67  Aligned_cols=77  Identities=10%  Similarity=0.074  Sum_probs=50.4

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC---CCCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES---WKNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~  162 (647)
                      .-+++.|.|.+|+|||          ...=..++|++....++..     .+..++.+.+.   .+..+.++....+++.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l  147 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMELL  147 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHHH
Confidence            3468899999999999          1112368999988877654     24555543221   1234567777777766


Q ss_pred             hcc-CCeeEEEecCCC
Q 039519          163 LSK-KKLLLLLDDIWE  177 (647)
Q Consensus       163 l~~-~r~LlVlDdv~~  177 (647)
                      ++. .--+||+|.+..
T Consensus       148 ~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          148 VRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HTTTCCSEEEEECTTT
T ss_pred             HhcCCCCEEEEeChHH
Confidence            653 456899999853

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=85.93  E-value=1.4  Score=44.43  Aligned_cols=78  Identities=12%  Similarity=0.075  Sum_probs=50.9

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC---CCCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES---WKNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~  162 (647)
                      .-+++.|.|.+|+|||          ...=..++|++....++..     .+++++.....   ....+.++....+...
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l  134 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVDEL  134 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHHHH
Confidence            3569999999999999          1111347888877776654     45556544321   1345666777777666


Q ss_pred             hc-cCCeeEEEecCCCc
Q 039519          163 LS-KKKLLLLLDDIWER  178 (647)
Q Consensus       163 l~-~~r~LlVlDdv~~~  178 (647)
                      ++ .+.-++|+|.+...
T Consensus       135 ~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          135 VRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHTSCCSEEEEECTTTC
T ss_pred             hhhcCCCeEEehHhhhh
Confidence            64 45668999998543

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=85.65  E-value=1.2  Score=44.89  Aligned_cols=76  Identities=11%  Similarity=0.080  Sum_probs=47.7

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCC---CCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESW---KNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~  162 (647)
                      .-+++.|.|.+|+|||          ...=..++|++....++...     +..++...+.+   +..+.++....++..
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~~~l  136 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDAL  136 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHHHHH
Confidence            4568999999999999          11113688999887777442     44555432211   233455666555555


Q ss_pred             hc-cCCeeEEEecCC
Q 039519          163 LS-KKKLLLLLDDIW  176 (647)
Q Consensus       163 l~-~~r~LlVlDdv~  176 (647)
                      .+ .+--+||+|.+.
T Consensus       137 ~~~~~~~lVVIDsl~  151 (356)
T 1u94_A          137 ARSGAVDVIVVDSVA  151 (356)
T ss_dssp             HHHTCCSEEEEECGG
T ss_pred             HhccCCCEEEEcCHH
Confidence            43 445589999974

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=85.38  E-value=0.24  Score=49.17  Aligned_cols=17  Identities=24%  Similarity=0.567  Sum_probs=15.4

Q ss_pred             CCceEEEEEccCccCCC
Q 039519           95 EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        95 ~~~~vi~I~G~gGiGKT  111 (647)
                      ++.+||+|.|.||||||
T Consensus        46 ~~aKVIAIaGKGGVGKT   62 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKS   62 (314)
T ss_dssp             -CCEEEEEECSTTSSHH
T ss_pred             CCceEEEEECCCccCHH
Confidence            57899999999999999

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=85.06  E-value=1.1  Score=41.51  Aligned_cols=81  Identities=10%  Similarity=0.051  Sum_probs=44.9

Q ss_pred             CceEEEEEccCccCCC-------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCC----------cCCCCCCHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA-------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLD----------ESWKNGSLEDKASD  158 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~----------~~~~~~~~~~~~~~  158 (647)
                      .-.++.|+|.+|+|||       ...-..++|++....++...+.+ +....+...          ......+..+....
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQRRVIGS   97 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHHHHHHH
Confidence            3468999999999999       21113678888766556555443 232222110          00011122334445


Q ss_pred             HHHHhccCCeeEEEecCCC
Q 039519          159 IFRILSKKKLLLLLDDIWE  177 (647)
Q Consensus       159 l~~~l~~~r~LlVlDdv~~  177 (647)
                      ++..+..+.-+||+|.+..
T Consensus        98 ~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           98 LKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHCCTTEEEEEEECCCC
T ss_pred             HHHHhhcCCCEEEEcCcHH
Confidence            5555544466888898743

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=84.62  E-value=2.1  Score=42.89  Aligned_cols=80  Identities=10%  Similarity=0.129  Sum_probs=47.4

Q ss_pred             CceEEEEEccCccCCC--------C--C------CcceEEEEEEcCccCHHHHHHHHHHHhCCCCc----------CCCC
Q 039519           96 QVGIIGLYGMGGLLGA--------P--N------DFDVVIWMVVSKDLQLEKIQERIGRRIGFLDE----------SWKN  149 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT--------~--~------~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----------~~~~  149 (647)
                      .-.++.|+|.+|+|||        .  .      .-..++|++....++...+.+. +..++....          ....
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~-~~~~g~~~~~~l~~l~~~~~~~~  199 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDI-ADRFNVDHDAVLDNVLYARAYTS  199 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHH-HHHTTCCHHHHHHTEEEEECCST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHH-HHHcCCCHHHHHhceeEeecCCH
Confidence            4568999999999999        1  1      1247899998888777766543 445543210          0011


Q ss_pred             CCHHHHHHHHHHHhc---cCCeeEEEecCC
Q 039519          150 GSLEDKASDIFRILS---KKKLLLLLDDIW  176 (647)
Q Consensus       150 ~~~~~~~~~l~~~l~---~~r~LlVlDdv~  176 (647)
                      ....+....+.+.++   .+--+||+|.+.
T Consensus       200 e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~  229 (343)
T 1v5w_A          200 EHQMELLDYVAAKFHEEAGIFKLLIIDSIM  229 (343)
T ss_dssp             THHHHHHHHHHHHHHHSCSSEEEEEEETSG
T ss_pred             HHHHHHHHHHHHHHHhcCCCccEEEEechH
Confidence            122233344455554   345578888874

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=84.38  E-value=1.5  Score=49.03  Aligned_cols=34  Identities=18%  Similarity=0.175  Sum_probs=26.2

Q ss_pred             cccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           78 TVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        78 ~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      +.|.++.+++|.+.+.-             ...+-|-++|.+|+|||
T Consensus       206 IgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT  252 (806)
T 3cf2_A          206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKT  252 (806)
T ss_dssp             CCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHH
T ss_pred             hcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHH
Confidence            46888888888876531             13466889999999999

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=84.26  E-value=1.9  Score=45.28  Aligned_cols=36  Identities=17%  Similarity=0.140  Sum_probs=26.7

Q ss_pred             CCcccchHHHHHHHHHhhh--C----------CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE--E----------QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~--~----------~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++++.+.+..  .          -.+-|.|+|.+|+|||
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT   63 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKT   63 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHH
Confidence            4579999988887776431  1          1234789999999999

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=84.24  E-value=1.2  Score=46.82  Aligned_cols=36  Identities=17%  Similarity=0.073  Sum_probs=27.1

Q ss_pred             CCcccchHHHHHHHHHhh---hC--CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLR---EE--QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~---~~--~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++.+...+.   .+  ..+-+-++|.+|+|||
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT   77 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKT   77 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHH
Confidence            568999998887665543   22  2356889999999999

>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=84.07  E-value=0.36  Score=44.11  Aligned_cols=102  Identities=15%  Similarity=0.098  Sum_probs=65.6

Q ss_pred             ccEEEEEeecc-cccc-----cccCCCCcceeeEEeccCcccccc-----CccccccccCCCeeeecCCCCC-----ccc
Q 039519          395 RNVRRMSLMKN-KIEN-----LSELQPALTFFLFFNMSNNHLLWK-----LPLGISTLVSLEHLDLSSTAIT-----HLP  458 (647)
Q Consensus       395 ~~l~~L~l~~n-~i~~-----l~~~~~~l~~L~~L~l~~~~~~~~-----lp~~~~~L~~L~~L~L~~~~l~-----~lp  458 (647)
                      +.|+.|+|++| .|..     +-..+..-+.|+.|+|++| .++.     +-..+..=+.|++|+|++|.|.     .+-
T Consensus        41 ~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n-~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala  119 (197)
T 1pgv_A           41 TDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLL  119 (197)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHH
T ss_pred             CCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCC-CCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHH
Confidence            57888999875 6653     2222344468999999999 4442     2223444578999999999987     233


Q ss_pred             cchhcCccCcEEeecccccCCcCchh-------hhcCCCCCcEEecc
Q 039519          459 IDLQKLVNLKCLNLQYMYNLNQFPRL-------VISAFSKLQVLRMF  498 (647)
Q Consensus       459 ~~~~~l~~L~~L~l~~~~~l~~lp~~-------~i~~l~~L~~L~l~  498 (647)
                      +.+..-+.|++|+|++|. ...+...       .+..-++|+.|++.
T Consensus       120 ~aL~~N~tL~~L~L~n~~-~~~ig~~g~~~ia~aL~~N~tL~~L~l~  165 (197)
T 1pgv_A          120 RSTLVTQSIVEFKADNQR-QSVLGNQVEMDMMMAIEENESLLRVGIS  165 (197)
T ss_dssp             HHTTTTCCCSEEECCCCS-SCCCCHHHHHHHHHHHHHCSSCCEEECC
T ss_pred             HHHhhCCceeEEECCCCc-CcCcCHHHHHHHHHHHHhCCCcCeEecc
Confidence            445555679999998652 1123321       24455678888664

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=83.93  E-value=2.5  Score=40.80  Aligned_cols=36  Identities=14%  Similarity=0.009  Sum_probs=24.8

Q ss_pred             CCcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..+.|.++.+++|.+.+..             .-.+=+.++|.+|+|||
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKT   58 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKT   58 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHH
Confidence            5578888888888765421             11122899999999999

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=83.81  E-value=1.6  Score=43.30  Aligned_cols=80  Identities=11%  Similarity=0.189  Sum_probs=47.8

Q ss_pred             CceEEEEEccCccCCC-----------CCC-----cceEEEEEEcCccCHHHHHHHHHHHhCCCCcC-------CCCCCH
Q 039519           96 QVGIIGLYGMGGLLGA-----------PND-----FDVVIWMVVSKDLQLEKIQERIGRRIGFLDES-------WKNGSL  152 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-----------~~~-----F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  152 (647)
                      .-.++.|+|.+|+|||           ...     -..++|++....++...+.+. +..++...+.       ....+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~-~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENM-AKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHH-HHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHH-HHHhCCCHHHHhccEEEEeCCCH
Confidence            3468999999999999           110     247899998888777766543 4555442210       011222


Q ss_pred             H---HHHHHHHHHhc--cCCeeEEEecCC
Q 039519          153 E---DKASDIFRILS--KKKLLLLLDDIW  176 (647)
Q Consensus       153 ~---~~~~~l~~~l~--~~r~LlVlDdv~  176 (647)
                      +   +....+.+.++  .+.-+||+|.+.
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  213 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVT  213 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTT
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcH
Confidence            2   23445555554  345577788774

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=83.74  E-value=1.5  Score=41.28  Aligned_cols=81  Identities=10%  Similarity=0.099  Sum_probs=46.5

Q ss_pred             CceEEEEEccCccCCC-------C--CC-------cceEEEEEEcCccCHHHHHHHHHHHhCCCCc----C---CCCCCH
Q 039519           96 QVGIIGLYGMGGLLGA-------P--ND-------FDVVIWMVVSKDLQLEKIQERIGRRIGFLDE----S---WKNGSL  152 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-------~--~~-------F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----~---~~~~~~  152 (647)
                      .-.+++|+|.+|+|||       .  ..       -..++|++....++...+. .++..++....    .   ....+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCH
Confidence            3469999999999999       1  11       3578898877755555443 33444443210    0   011223


Q ss_pred             HH---HHHHHHHHhc-cCCeeEEEecCCC
Q 039519          153 ED---KASDIFRILS-KKKLLLLLDDIWE  177 (647)
Q Consensus       153 ~~---~~~~l~~~l~-~~r~LlVlDdv~~  177 (647)
                      .+   ....+.+.+. .+.-+||+|.+..
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            32   2333555554 3567888998854

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=81.30  E-value=0.78  Score=45.08  Aligned_cols=36  Identities=19%  Similarity=0.154  Sum_probs=28.8

Q ss_pred             CCcccchHHHHHHHHHhhh--------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE--------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~--------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.+..++.+...+..              .....+.++|.+|+|||
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT   64 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKT   64 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHH
Confidence            4579999999998887754              23456779999999999

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=81.01  E-value=0.86  Score=41.74  Aligned_cols=32  Identities=13%  Similarity=0.164  Sum_probs=25.3

Q ss_pred             cchHHHHHHHHHhhh---CCceEEEEEccCccCCC
Q 039519           80 GLESTFDKVRRCLRE---EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        80 Gr~~~~~~i~~~L~~---~~~~vi~I~G~gGiGKT  111 (647)
                      .|++.++++.+.+..   ....+|+|.|..|+|||
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKs   36 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKT   36 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHH
Confidence            356677778777764   35679999999999999

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=80.86  E-value=2.9  Score=41.99  Aligned_cols=77  Identities=12%  Similarity=0.144  Sum_probs=49.2

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcC---CCCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDES---WKNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~  162 (647)
                      .-+++.|.|.+|+|||          ...=..++|++....++..     .++.++...+.   ....+.++....++..
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l  134 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIADML  134 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHH
Confidence            4578999999999999          1111367899988777653     24555543221   1234566666666655


Q ss_pred             hcc-CCeeEEEecCCC
Q 039519          163 LSK-KKLLLLLDDIWE  177 (647)
Q Consensus       163 l~~-~r~LlVlDdv~~  177 (647)
                      .+. +.-+||+|.+..
T Consensus       135 ~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          135 VRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HTTTCCSEEEEECGGG
T ss_pred             HhcCCCCEEEEcChHh
Confidence            543 466899999843

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=80.57  E-value=3.2  Score=40.82  Aligned_cols=76  Identities=16%  Similarity=0.175  Sum_probs=49.5

Q ss_pred             eEEEEEccCccCCC----------CCC--cceEEEEEEcCccCHHHHHHHHHHHhCCCCcCC---CCCCHHHH-HHHHHH
Q 039519           98 GIIGLYGMGGLLGA----------PND--FDVVIWMVVSKDLQLEKIQERIGRRIGFLDESW---KNGSLEDK-ASDIFR  161 (647)
Q Consensus        98 ~vi~I~G~gGiGKT----------~~~--F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~-~~~l~~  161 (647)
                      .++-|.|.+|+|||          ...  =..++||+..+.++..     .+++++.+.+..   ...+.++. ...+..
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            37899999999999          111  2468999988887764     367777654321   23455555 444333


Q ss_pred             H--h-ccCCeeEEEecCCCc
Q 039519          162 I--L-SKKKLLLLLDDIWER  178 (647)
Q Consensus       162 ~--l-~~~r~LlVlDdv~~~  178 (647)
                      .  + +++.-+||+|-|...
T Consensus       104 l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTC
T ss_pred             HHHhhccCceEEEEeccccc
Confidence            3  3 346789999998543

---

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	647
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-20
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	7e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-04
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	1e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-04
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	4e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	0.003
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.004

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 87.9 bits (217), Expect = 6e-20
 Identities = 41/272 (15%), Positives = 78/272 (28%), Gaps = 56/272 (20%)

Query: 74  PCEPTV-GLESTFDKVRRCLRE---EQVGIIGLYGMGGL--------------LGAPNDF 115
           P + T    E   D+V + L E        + L+G  G                    ++
Sbjct: 17  PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 76

Query: 116 DVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNG--------SLEDKASDIFRILSKKK 167
           D ++W+  S               +    E             S+  K      ++ +  
Sbjct: 77  DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 136

Query: 168 LLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAMQAH------EFLKVEDV 221
            L + DD+ +              E + R   TTR +EI +A            L++++ 
Sbjct: 137 TLFVFDDVVQEET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDEC 190

Query: 222 LK----------NHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRI 271
                             ++     +  +G P  L+   +     KT ++       L  
Sbjct: 191 YDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCE-PKTFEKMAQLNNKLES 249

Query: 272 SASEFPGMGKEVYPLLKYSYDSLPDETIRSCL 303
                      V  +  YSY SL    ++ C+
Sbjct: 250 RGLV------GVECITPYSYKSLAMA-LQRCV 274

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 46.2 bits (108), Expect = 7e-06
 Identities = 35/211 (16%), Positives = 58/211 (27%), Gaps = 26/211 (12%)

Query: 431 LWKLPLGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAF 489
           L K+P  +        LDL +  IT +   D + L NL  L L         P     AF
Sbjct: 22  LEKVPKDLPP--DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISP----GAF 75

Query: 490 SKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS 549
           + L  L       ++++ L                     +      L+  +     +  
Sbjct: 76  APLVKLERLYLSKNQLKELPEK------------------MPKTLQELRVHENEITKVRK 117

Query: 550 QELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNL 609
                  Q + +    +              + KL             I Q    S+  L
Sbjct: 118 SVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQGLPPSLTEL 176

Query: 610 FINKNYIHTNQLSILLGINRLPHFTKSNPYH 640
            ++ N I     + L G+N L     S    
Sbjct: 177 HLDGNKITKVDAASLKGLNNLAKLGLSFNSI 207

>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 = 44.2 bits (103), Expect = 3e-05
 Identities = 20/123 (16%), Positives = 51/123 (41%), Gaps = 9/123 (7%)

Query: 378 LVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLG 437
           L      ++    +     +  + L +N++E++S     L    +  +  N++    P+ 
Sbjct: 268 LKLGANQISNISPLAGLTALTNLELNENQLEDISP-ISNLKNLTYLTLYFNNISDISPVS 326

Query: 438 ISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLV-ISAFSKLQVLR 496
             +L  L+ L  ++  ++ +   L  L N+  L+  +    NQ   L  ++  +++  L 
Sbjct: 327 --SLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGH----NQISDLTPLANLTRITQLG 379

Query: 497 MFD 499
           + D
Sbjct: 380 LND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 41.1 bits (95), Expect = 3e-04
 Identities = 14/69 (20%), Positives = 31/69 (44%), Gaps = 3/69 (4%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           +++   + +   ++R+    NK+ ++S L   LT   + +  +N +    PL    L  +
Sbjct: 319 ISDISPVSSLTKLQRLFFANNKVSDVSSLAN-LTNINWLSAGHNQISDLTPLA--NLTRI 375

Query: 445 EHLDLSSTA 453
             L L+  A
Sbjct: 376 TQLGLNDQA 384

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

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]

 Score = 42.0 bits (97), Expect = 1e-04
 Identities = 12/65 (18%), Positives = 20/65 (30%)

Query: 418 TFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYN 477
                 ++ NN +   LP G++ L  L  L++S   +         L             
Sbjct: 244 KNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKC 303

Query: 478 LNQFP 482
           L   P
Sbjct: 304 LCGSP 308

>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 = 41.0 bits (94), Expect = 3e-04
 Identities = 15/78 (19%), Positives = 31/78 (39%), Gaps = 7/78 (8%)

Query: 391 IQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLS 450
                ++  +++  NK+  L  L P L        S NHL  ++P       +L+ L + 
Sbjct: 280 CDLPPSLEELNVSNNKLIELPALPPRLERL---IASFNHL-AEVP---ELPQNLKQLHVE 332

Query: 451 STAITHLPIDLQKLVNLK 468
              +   P   + + +L+
Sbjct: 333 YNPLREFPDIPESVEDLR 350

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 40.3 bits (92), Expect = 4e-04
 Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 5/95 (5%)

Query: 392 QNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGI-STLVSLEHLDLS 450
                   + L KN I+ +       T     N+S+N+ L +LP  +         LD+S
Sbjct: 150 GLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDIS 209

Query: 451 STAITHLPID-LQKLVNLKCLNLQYMYNLNQFPRL 484
            T I  LP   L+ L  L+  +    YNL + P L
Sbjct: 210 RTRIHSLPSYGLENLKKLRARST---YNLKKLPTL 241

>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 = 35.8 bits (82), Expect = 0.003
 Identities = 21/115 (18%), Positives = 37/115 (32%), Gaps = 6/115 (5%)

Query: 385 LTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSL 444
           LT    ++    V  + L  N++  L     AL        S+N    +   G++ L  L
Sbjct: 10  LTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNA--LENVDGVANLPRL 67

Query: 445 EHLDLSSTAITHLPI--DLQKLVNLKCLNLQY--MYNLNQFPRLVISAFSKLQVL 495
           + L L +  +        L     L  LNLQ   +         +      +  +
Sbjct: 68  QELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 122

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (85), Expect = 0.004
 Identities = 36/240 (15%), Positives = 74/240 (30%), Gaps = 15/240 (6%)

Query: 398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-- 455
           + + L    +      +      + F    + +   L    S    ++H+DLS++ I   
Sbjct: 3   QTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFS-PFRVQHMDLSNSVIEVS 61

Query: 456 HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFG 515
            L   L +   L+ L+L+ +   +      ++  S L  L +  C         S     
Sbjct: 62  TLHGILSQCSKLQNLSLEGLRLSDPIVN-TLAKNSNLVRLNLSGC---------SGFSEF 111

Query: 516 GHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCL 575
             Q L+     +  L          + +Q  +           L     N  KS     +
Sbjct: 112 ALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLV 171

Query: 576 ACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTK 635
               NL  L ++    L++           + +L +++ Y        LL +  +P    
Sbjct: 172 RRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIP--ETLLELGEIPTLKT 229

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	647
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.69
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.66
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.63
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.62
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.61
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.6
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.59
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.57
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.54
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.53
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.52
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.5
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.48
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.45
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.45
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.43
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.43
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.37
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.36
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.31
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.31
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.28
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.21
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.18
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.18
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.13
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.1
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.09
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.09
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.94
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.82
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.58
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.51
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.17
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.13
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.05
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.96
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.6
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.47
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.31
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.3
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.9
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.77
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.51
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.44
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.35
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.34
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.27
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.17
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.09
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.03
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.38
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.35
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.05
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	94.87
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	94.34
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	94.25
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.16
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.79
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.44
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	93.27
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	93.2
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.66
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	92.41
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	91.66
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	90.3
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	89.62
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	89.45
d2qy9a2	211	GTPase domain of the signal recognition particle r	89.4
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	85.94
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	84.0
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	82.55
d1j8yf2	211	GTPase domain of the signal sequence recognition p	81.6
d1okkd2	207	GTPase domain of the signal recognition particle r	81.53
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	81.24

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=7.7e-34  Score=281.09  Aligned_cols=217  Identities=19%  Similarity=0.141  Sum_probs=170.6

Q ss_pred             CCcccchHHHHHHHHHhhh---CCceEEEEEccCccCCC--------------CCCcceEEEEEEcCccCHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE---EQVGIIGLYGMGGLLGA--------------PNDFDVVIWMVVSKDLQLEKIQERIGR  138 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~---~~~~vi~I~G~gGiGKT--------------~~~F~~~~wv~~s~~~~~~~~~~~i~~  138 (647)
                      +.++||+.++++|+++|.+   .+.++|+|+||||+|||              ..+|++++||++++.++...+...+..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~   99 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI   99 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHH
Confidence            4578999999999999864   46889999999999999              456899999999999887766655544


Q ss_pred             Hh---CCCCc-----CCCCCCHHHHHHHHHHHhccCCeeEEEecCCCccccccccCCCCCCCCCcEEEEecCchHHhhhc
Q 039519          139 RI---GFLDE-----SWKNGSLEDKASDIFRILSKKKLLLLLDDIWERVDLTKVGVPFPDPENKSRIDFTTRFLEICSAM  210 (647)
Q Consensus       139 ~l---~~~~~-----~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IivTTR~~~v~~~~  210 (647)
                      .+   +....     .....+.......+.+.+.++|+|+||||||+.++|+.+.      ..|||||||||++.++..+
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~~~  173 (277)
T d2a5yb3         100 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNAA  173 (277)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHHhc
Confidence            43   22211     0122334445567888899999999999999998887653      2489999999999999876


Q ss_pred             ccc-eeEecc-------------cccc--CCCChHHHHHHHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHHHhhccc
Q 039519          211 QAH-EFLKVE-------------DVLK--NHPNIPELARSVAQECAGLPLALITIGRVMACKKTPQEWHYAIQVLRISAS  274 (647)
Q Consensus       211 ~~~-~~~~~~-------------~~~~--~~~~~~~~~~~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~l~~~~~  274 (647)
                      ... +.|++.             .++.  ..+..++++++|+++|+|+||||+++|+.|+. ++.++|....+.+.+...
T Consensus       174 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L~~~~~  252 (277)
T d2a5yb3         174 SQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESRGL  252 (277)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHHHHHCS
T ss_pred             CCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHHhcCcH
Confidence            654 567771             1111  22345788999999999999999999999987 789999998888876433


Q ss_pred             CCCCCCcchhhHHHHhhcCCCchhhhhHHhhh
Q 039519          275 EFPGMGKEVYPLLKYSYDSLPDETIRSCLLYC  306 (647)
Q Consensus       275 ~~~~~~~~i~~~l~~sy~~L~~~~~k~~fl~~  306 (647)
                            .++..++.+||+.||+ ++|.||.++
T Consensus       253 ------~~v~~il~~sY~~L~~-~lk~c~~~l  277 (277)
T d2a5yb3         253 ------VGVECITPYSYKSLAM-ALQRCVEVL  277 (277)
T ss_dssp             ------STTCCCSSSSSSSHHH-HHHHHHHTS
T ss_pred             ------HHHHHHHHHHHhcccH-HHHHHHHhC
Confidence                  3789999999999999 999999764

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.69  E-value=2.9e-17  Score=165.08  Aligned_cols=225  Identities=18%  Similarity=0.198  Sum_probs=143.5

Q ss_pred             ccEEEEEeecccccc---cccCCCCcceeeEEeccC-ccccccCccccccccCCCeeeecCCCCCcc-ccchhcCccCcE
Q 039519          395 RNVRRMSLMKNKIEN---LSELQPALTFFLFFNMSN-NHLLWKLPLGISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKC  469 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~---l~~~~~~l~~L~~L~l~~-~~~~~~lp~~~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~  469 (647)
                      ..++.|+|.++.+.+   +|..+.+|++|++|++++ |...+.+|..|++|++|++|+|++|++..+ |..+..+++|++
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcc
Confidence            367888888887763   677778888888888875 545557888888888888888888888754 455777888888


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCC-cEEEEEecchhhHH----
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYL-MAVTITLKRLQALQ----  544 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L-~~L~l~~~~~~~l~----  544 (647)
                      +++++|.....+|.. ++.+++|+.+++.+   |.+           .+..+..+..+..+ +.+.++.|.+++..    
T Consensus       130 l~l~~N~~~~~~p~~-l~~l~~L~~l~l~~---n~l-----------~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~  194 (313)
T d1ogqa_         130 LDFSYNALSGTLPPS-ISSLPNLVGITFDG---NRI-----------SGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTF  194 (313)
T ss_dssp             EECCSSEEESCCCGG-GGGCTTCCEEECCS---SCC-----------EEECCGGGGCCCTTCCEEECCSSEEEEECCGGG
T ss_pred             cccccccccccCchh-hccCcccceeeccc---ccc-----------ccccccccccccccccccccccccccccccccc
Confidence            888887666677776 77888888876654   333           22222333333333 33443333322110    


Q ss_pred             -----------------HHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCce
Q 039519          545 -----------------ELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSV  606 (647)
Q Consensus       545 -----------------~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~  606 (647)
                                       ..+.......+++.+.+.++ ++. ..+..+..+++|+.|+|++|.+.+.+| +++++++|++
T Consensus       195 ~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~-~l~-~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~  272 (313)
T d1ogqa_         195 ANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKN-SLA-FDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHS  272 (313)
T ss_dssp             GGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSS-EEC-CBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCE
T ss_pred             ccccccccccccccccccccccccccccccccccccc-ccc-ccccccccccccccccCccCeecccCChHHhCCCCCCE
Confidence                             00111111222333333321 111 111236778999999999998886666 6999999999


Q ss_pred             EEeecccccccccchhhhhhhcCCCCcccCCCC
Q 039519          607 HNLFINKNYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       607 L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                      |+|++|  .+.+ .++.++++++|+.+...++.
T Consensus       273 L~Ls~N--~l~g-~iP~~~~L~~L~~l~l~~N~  302 (313)
T d1ogqa_         273 LNVSFN--NLCG-EIPQGGNLQRFDVSAYANNK  302 (313)
T ss_dssp             EECCSS--EEEE-ECCCSTTGGGSCGGGTCSSS
T ss_pred             EECcCC--cccc-cCCCcccCCCCCHHHhCCCc
Confidence            999995  4543 34466788888888766553

>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=99.66  E-value=2.1e-16  Score=154.64  Aligned_cols=197  Identities=21%  Similarity=0.166  Sum_probs=142.7

Q ss_pred             EEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCc
Q 039519          378 LVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITH  456 (647)
Q Consensus       378 l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~  456 (647)
                      +.+.+.+++.+|..- ++++++|+|++|.|+.+|.. +.++++|++|++++| .+..+| .++.+++|++|+|++|+++.
T Consensus        15 v~C~~~~L~~iP~~l-p~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~-~~~~l~~L~~L~Ls~N~l~~   91 (266)
T d1p9ag_          15 VNCDKRNLTALPPDL-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQ-VDGTLPVLGTLDLSHNQLQS   91 (266)
T ss_dssp             EECTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEE-CCSCCTTCCEEECCSSCCSS
T ss_pred             EEccCCCCCeeCcCc-CcCCCEEECcCCcCCCcCHHHhhccccccccccccc-cccccc-cccccccccccccccccccc
Confidence            567777788877422 25788899999988887754 578888999999988 677776 46788889999999998888


Q ss_pred             cccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          457 LPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       457 lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      .|..+.++++|++|++++| .+..++...+..+.+++.|.+.+   |.+..+++.           .+..+++|+.++++
T Consensus        92 ~~~~~~~l~~L~~L~l~~~-~~~~~~~~~~~~l~~l~~L~l~~---n~l~~l~~~-----------~~~~l~~l~~l~l~  156 (266)
T d1p9ag_          92 LPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKG---NELKTLPPG-----------LLTPTPKLEKLSLA  156 (266)
T ss_dssp             CCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTT---SCCCCCCTT-----------TTTTCTTCCEEECT
T ss_pred             ccccccccccccccccccc-ccceeeccccccccccccccccc---cccceeccc-----------cccccccchhcccc
Confidence            8888888889999999887 55666665567778888886654   444333332           23445556655555


Q ss_pred             ecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccc
Q 039519          537 LKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYI  616 (647)
Q Consensus       537 ~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  616 (647)
                      .                           +++..+....+..+++|++|+|++|.+...++.+..+++|+.|+|++|+-..
T Consensus       157 ~---------------------------N~l~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~Np~~C  209 (266)
T d1p9ag_         157 N---------------------------NNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWLC  209 (266)
T ss_dssp             T---------------------------SCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCCBCC
T ss_pred             c---------------------------ccccccCccccccccccceeecccCCCcccChhHCCCCCCCEEEecCCCCCC
Confidence            3                           3444444444778999999999999765444457789999999999987544


Q ss_pred             ccc
Q 039519          617 HTN  619 (647)
Q Consensus       617 ~~~  619 (647)
                      ++.
T Consensus       210 dC~  212 (266)
T d1p9ag_         210 NCE  212 (266)
T ss_dssp             SGG
T ss_pred             Ccc
Confidence            433

>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=99.63  E-value=1e-15  Score=151.23  Aligned_cols=223  Identities=18%  Similarity=0.169  Sum_probs=170.5

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCc-cccccccCCCeeeec-C
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLS-S  451 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~-~  451 (647)
                      ...+.+.+.+++.+|.. -++++++|+|++|.|+.+|.. +.+++.|++|++++| .+..++ ..+..+..++.+... .
T Consensus        13 ~~~v~c~~~~L~~iP~~-ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n-~l~~i~~~~~~~~~~~~~l~~~~~   90 (284)
T d1ozna_          13 KVTTSCPQQGLQAVPVG-IPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDN   90 (284)
T ss_dssp             SCEEECCSSCCSSCCTT-CCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSC
T ss_pred             CeEEEcCCCCCCccCCC-CCCCCCEEECcCCcCCCCCHHHhhccccccccccccc-cccccccccccccccccccccccc
Confidence            44567778788888763 346899999999999999875 689999999999999 555544 445678889998875 4


Q ss_pred             CCCCcc-ccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCC
Q 039519          452 TAITHL-PIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYL  530 (647)
Q Consensus       452 ~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L  530 (647)
                      +.++.+ |..+.++++|++|++++| .+..++...+....+|+.+++.   .|++..+++.           .+..+++|
T Consensus        91 ~~~~~l~~~~~~~l~~L~~L~l~~n-~~~~~~~~~~~~~~~L~~l~l~---~N~l~~i~~~-----------~f~~~~~L  155 (284)
T d1ozna_          91 AQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQ---DNALQALPDD-----------TFRDLGNL  155 (284)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECC---SSCCCCCCTT-----------TTTTCTTC
T ss_pred             cccccccchhhcccccCCEEecCCc-ccccccccccchhcccchhhhc---cccccccChh-----------Hhccccch
Confidence            578777 467889999999999998 5667776557788889888665   4666555443           36678899


Q ss_pred             cEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEe
Q 039519          531 MAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNL  609 (647)
Q Consensus       531 ~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L  609 (647)
                      +.|+++.|.++.+..  .....+++|+.+.+++ +++..+....|..+++|++|++++|...+.++ .|+.+++|++|+|
T Consensus       156 ~~L~l~~N~l~~l~~--~~f~~l~~L~~l~l~~-N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l  232 (284)
T d1ozna_         156 THLFLHGNRISSVPE--RAFRGLHSLDRLLLHQ-NRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL  232 (284)
T ss_dssp             CEEECCSSCCCEECT--TTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC
T ss_pred             hhcccccCcccccch--hhhccccccchhhhhh-ccccccChhHhhhhhhcccccccccccccccccccccccccCEEEe
Confidence            999999888765422  2223456788888876 56777665668999999999999998877776 4899999999999


Q ss_pred             eccccccc
Q 039519          610 FINKNYIH  617 (647)
Q Consensus       610 ~~~~~~~~  617 (647)
                      ++|+-...
T Consensus       233 ~~N~l~C~  240 (284)
T d1ozna_         233 NDNPWVCD  240 (284)
T ss_dssp             CSSCEECS
T ss_pred             cCCCCCCC
Confidence            99763333

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.62  E-value=2.5e-15  Score=150.08  Aligned_cols=245  Identities=18%  Similarity=0.140  Sum_probs=160.6

Q ss_pred             ccceEEecCCCcccCccccccccEEEEEeeccccccccc-CCCCcceeeEEeccCccccccC-ccccccccCCCeeeecC
Q 039519          374 KENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSE-LQPALTFFLFFNMSNNHLLWKL-PLGISTLVSLEHLDLSS  451 (647)
Q Consensus       374 ~~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~-~~~~l~~L~~L~l~~~~~~~~l-p~~~~~L~~L~~L~L~~  451 (647)
                      ..+.+.+.+.+++.+|.- -++++++|++++|+|+.+|+ .+.++++|++|++++| .+..+ |..|..+++|++|++++
T Consensus        11 ~~~~~~C~~~~L~~lP~~-l~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n-~~~~i~~~~f~~l~~L~~L~l~~   88 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKD-LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSK   88 (305)
T ss_dssp             ETTEEECTTSCCCSCCCS-CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCS
T ss_pred             cCCEEEecCCCCCccCCC-CCCCCCEEECcCCcCCCcChhHhhccccccccccccc-cccccchhhhhCCCccCEecccC
Confidence            346688888889988862 24789999999999999987 4689999999999999 55555 66799999999999999


Q ss_pred             CCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCc
Q 039519          452 TAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLM  531 (647)
Q Consensus       452 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~  531 (647)
                      |+++.+|..+  .+.|..|++.+| .+..++...+.....+..+.........            .......+..+++|+
T Consensus        89 n~l~~l~~~~--~~~l~~L~~~~n-~l~~l~~~~~~~~~~~~~l~~~~n~~~~------------~~~~~~~~~~l~~L~  153 (305)
T d1xkua_          89 NQLKELPEKM--PKTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPLKS------------SGIENGAFQGMKKLS  153 (305)
T ss_dssp             SCCSBCCSSC--CTTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCCCG------------GGBCTTGGGGCTTCC
T ss_pred             CccCcCccch--hhhhhhhhcccc-chhhhhhhhhhccccccccccccccccc------------cCCCccccccccccC
Confidence            9999999754  457899999887 6777877656666677776555432211            111112233344444


Q ss_pred             EEEEEecchhhHHH-------------------HhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCC
Q 039519          532 AVTITLKRLQALQE-------------------LLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHL  592 (647)
Q Consensus       532 ~L~l~~~~~~~l~~-------------------l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~  592 (647)
                      .+++..+.+..+..                   ..........++.|.+++ +++.++....+..+++|++|+|++|.+.
T Consensus       154 ~l~l~~n~l~~l~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~-n~l~~~~~~~~~~l~~L~~L~L~~N~L~  232 (305)
T d1xkua_         154 YIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSF-NSISAVDNGSLANTPHLRELHLNNNKLV  232 (305)
T ss_dssp             EEECCSSCCCSCCSSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCS-SCCCEECTTTGGGSTTCCEEECCSSCCS
T ss_pred             ccccccCCccccCcccCCccCEEECCCCcCCCCChhHhhcccccccccccc-ccccccccccccccccceeeeccccccc
Confidence            44444333222100                   001112223344455544 3455554444788889999999998665


Q ss_pred             CCChhhccccCCceEEeecccccccccc------hhhhhhhcCCCCcccCCC
Q 039519          593 EDFQMIIQRSSLSVHNLFINKNYIHTNQ------LSILLGINRLPHFTKSNP  638 (647)
Q Consensus       593 ~~~~~~~~l~~L~~L~L~~~~~~~~~~~------~~~l~~l~~L~~L~~~~~  638 (647)
                      ..++++..+++|++|+|++|+  +...+      ...+..+++|+.|...+.
T Consensus       233 ~lp~~l~~l~~L~~L~Ls~N~--i~~i~~~~f~~~~~~~~~~~L~~L~L~~N  282 (305)
T d1xkua_         233 KVPGGLADHKYIQVVYLHNNN--ISAIGSNDFCPPGYNTKKASYSGVSLFSN  282 (305)
T ss_dssp             SCCTTTTTCSSCCEEECCSSC--CCCCCTTSSSCSSCCTTSCCCSEEECCSS
T ss_pred             ccccccccccCCCEEECCCCc--cCccChhhccCcchhcccCCCCEEECCCC
Confidence            555568889999999999863  33221      122344566666655543

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.61  E-value=1.5e-16  Score=159.80  Aligned_cols=223  Identities=17%  Similarity=0.087  Sum_probs=167.4

Q ss_pred             CccccccccEEEEEeec-cccc-ccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC-ccccchhcC
Q 039519          388 APEIQNWRNVRRMSLMK-NKIE-NLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT-HLPIDLQKL  464 (647)
Q Consensus       388 ~~~~~~~~~l~~L~l~~-n~i~-~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l  464 (647)
                      ++.+.++++|++|+|++ |++. .+|..+.+|++|++|++++|......|..+..+.+|+++++++|.+. .+|..++++
T Consensus        69 p~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l  148 (313)
T d1ogqa_          69 PSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL  148 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGC
T ss_pred             ChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccC
Confidence            46788899999999986 7777 59998999999999999999555556667889999999999999766 789999999


Q ss_pred             ccCcEEeecccccCCcCchhhhcCCCCC-cEEeccccCCCcccccccccc------------cCCccccHHHhhCCCCCc
Q 039519          465 VNLKCLNLQYMYNLNQFPRLVISAFSKL-QVLRMFDCGGSKIERLKSNVL------------FGGHQVLVEELIGMKYLM  531 (647)
Q Consensus       465 ~~L~~L~l~~~~~l~~lp~~~i~~l~~L-~~L~l~~~~~n~~~~~~~~~~------------~~~~~~~~~~l~~l~~L~  531 (647)
                      ++|+++++++|.....+|.. +..+.++ +.+.+.   .|++....+...            ....+..+..++.+++|+
T Consensus       149 ~~L~~l~l~~n~l~~~ip~~-~~~l~~l~~~l~~~---~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~  224 (313)
T d1ogqa_         149 PNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTIS---RNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQ  224 (313)
T ss_dssp             TTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECC---SSEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCS
T ss_pred             cccceeeccccccccccccc-cccccccccccccc---cccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999998555578886 6777766 556443   455543332211            111334455667888999


Q ss_pred             EEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeec
Q 039519          532 AVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFI  611 (647)
Q Consensus       532 ~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~  611 (647)
                      .+++..+.+...   ........+++.|+|++ +++..--...+..+++|++|+|++|.+.+.+|.++++++|+.+++++
T Consensus       225 ~l~~~~~~l~~~---~~~~~~~~~L~~L~Ls~-N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~~~L~~L~~l~l~~  300 (313)
T d1ogqa_         225 KIHLAKNSLAFD---LGKVGLSKNLNGLDLRN-NRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYAN  300 (313)
T ss_dssp             EEECCSSEECCB---GGGCCCCTTCCEEECCS-SCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCS
T ss_pred             cccccccccccc---ccccccccccccccCcc-CeecccCChHHhCCCCCCEEECcCCcccccCCCcccCCCCCHHHhCC
Confidence            999987766542   12233456788888887 46652222458899999999999998887888889999999999999


Q ss_pred             cccccccc
Q 039519          612 NKNYIHTN  619 (647)
Q Consensus       612 ~~~~~~~~  619 (647)
                      |+ .+++.
T Consensus       301 N~-~l~g~  307 (313)
T d1ogqa_         301 NK-CLCGS  307 (313)
T ss_dssp             SS-EEEST
T ss_pred             Cc-cccCC
Confidence            74 34433

>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=99.60  E-value=5.7e-15  Score=152.30  Aligned_cols=244  Identities=17%  Similarity=0.263  Sum_probs=139.4

Q ss_pred             ceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCC
Q 039519          376 NFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT  455 (647)
Q Consensus       376 ~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~  455 (647)
                      +-+...+.++++++.+..+++|++|++++|+++.+|. +.++++|++|++++| .+..++ .++++++|++|+++++.++
T Consensus        47 ~~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n-~i~~i~-~l~~l~~L~~L~~~~~~~~  123 (384)
T d2omza2          47 TTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADIT-PLANLTNLTGLTLFNNQIT  123 (384)
T ss_dssp             CEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSSCCC
T ss_pred             CEEECCCCCCCCccccccCCCCCEEeCcCCcCCCCcc-ccCCccccccccccc-cccccc-ccccccccccccccccccc
Confidence            3455556666777677777888888888888887764 577788888888888 566665 4777788888877766554


Q ss_pred             ccc----------------------------------------------------------------cchhcCccCcEEe
Q 039519          456 HLP----------------------------------------------------------------IDLQKLVNLKCLN  471 (647)
Q Consensus       456 ~lp----------------------------------------------------------------~~~~~l~~L~~L~  471 (647)
                      .++                                                                .....++++..++
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~  203 (384)
T d2omza2         124 DIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLI  203 (384)
T ss_dssp             CCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEE
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceee
Confidence            221                                                                1233445566666


Q ss_pred             ecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccc-----c----ccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          472 LQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSN-----V----LFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       472 l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~-----~----~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      +++| .+..+++  .+...+|+.|++.++.   +..++.-     .    ..+..-.....++.+++|+.|+++.+.+..
T Consensus       204 l~~n-~i~~~~~--~~~~~~L~~L~l~~n~---l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~~~l~~  277 (384)
T d2omza2         204 ATNN-QISDITP--LGILTNLDELSLNGNQ---LKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISN  277 (384)
T ss_dssp             CCSS-CCCCCGG--GGGCTTCCEEECCSSC---CCCCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCC
T ss_pred             ccCC-ccCCCCc--ccccCCCCEEECCCCC---CCCcchhhcccccchhccccCccCCCCcccccccCCEeeccCcccCC
Confidence            6655 4444444  3445566666544332   2211110     0    000011122246677778888887665544


Q ss_pred             HHHHhhhhhhhhccceee-----------eeccCCCceEEEe--------cccccCCccEEEEcCCCCCCCChhhccccC
Q 039519          543 LQELLISQELQRCTQFLF-----------LRCFNDSKSLDIF--------CLACLHNLNKLYVAGCKHLEDFQMIIQRSS  603 (647)
Q Consensus       543 l~~l~~~~~~~~~l~~l~-----------L~~~~~L~~L~l~--------~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~  603 (647)
                      +..+..    ...++.+.           +..+.+++.|++.        .+..+++|++|+|++|. ++.++.++.+++
T Consensus       278 ~~~~~~----~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~l~~l~~l~~L~~L~L~~n~-l~~l~~l~~l~~  352 (384)
T d2omza2         278 ISPLAG----LTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNK-VSDVSSLANLTN  352 (384)
T ss_dssp             CGGGTT----CTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSC-CCCCGGGGGCTT
T ss_pred             CCcccc----ccccccccccccccccccccchhcccCeEECCCCCCCCCcccccCCCCCEEECCCCC-CCCChhHcCCCC
Confidence            322111    11111111           1223344444432        26777888888888874 455667788888


Q ss_pred             CceEEeecccccccccchhhhhhhcCCCCcccCC
Q 039519          604 LSVHNLFINKNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       604 L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                      |++|++++|+  +.  .++.+.++++|+.|+.++
T Consensus       353 L~~L~l~~N~--l~--~l~~l~~l~~L~~L~L~~  382 (384)
T d2omza2         353 INWLSAGHNQ--IS--DLTPLANLTRITQLGLND  382 (384)
T ss_dssp             CCEEECCSSC--CC--BCGGGTTCTTCSEEECCC
T ss_pred             CCEEECCCCc--CC--CChhhccCCCCCEeeCCC
Confidence            8888888752  32  233467777777776543

>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=99.59  E-value=2.5e-15  Score=148.37  Aligned_cols=217  Identities=18%  Similarity=0.161  Sum_probs=170.7

Q ss_pred             EEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCcccc-chhcCccCcEEeeccccc
Q 039519          400 MSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYMYN  477 (647)
Q Consensus       400 L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~  477 (647)
                      +..++++++.+|..++  +.+++|+|++| .+..+|. .|.++++|++|++++|.+..++. .+..++.+..+....+..
T Consensus        16 v~c~~~~L~~iP~~ip--~~~~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~   92 (284)
T d1ozna_          16 TSCPQQGLQAVPVGIP--AASQRIFLHGN-RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ   92 (284)
T ss_dssp             EECCSSCCSSCCTTCC--TTCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTT
T ss_pred             EEcCCCCCCccCCCCC--CCCCEEECcCC-cCCCCCHHHhhccccccccccccccccccccccccccccccccccccccc
Confidence            4556677888887654  46799999999 6778875 58999999999999999997764 456788899998877768


Q ss_pred             CCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccc
Q 039519          478 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQ  557 (647)
Q Consensus       478 l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~  557 (647)
                      +..++...++.+++|++|++.++..              .......+....+|+.++++.|.++.+..  ........++
T Consensus        93 ~~~l~~~~~~~l~~L~~L~l~~n~~--------------~~~~~~~~~~~~~L~~l~l~~N~l~~i~~--~~f~~~~~L~  156 (284)
T d1ozna_          93 LRSVDPATFHGLGRLHTLHLDRCGL--------------QELGPGLFRGLAALQYLYLQDNALQALPD--DTFRDLGNLT  156 (284)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTSCC--------------CCCCTTTTTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCC
T ss_pred             cccccchhhcccccCCEEecCCccc--------------ccccccccchhcccchhhhccccccccCh--hHhccccchh
Confidence            8888776689999999998776433              22233446678899999999888776431  1223445788


Q ss_pred             eeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeecccccccccchhhhhhhcCCCCcccC
Q 039519          558 FLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKS  636 (647)
Q Consensus       558 ~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~  636 (647)
                      .|++++ ++++.+.-..|.++++|+.+++++|......| +|..+++|++|++++  |.+.......++.+++|++|+..
T Consensus       157 ~L~l~~-N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~--N~i~~~~~~~~~~~~~L~~L~l~  233 (284)
T d1ozna_         157 HLFLHG-NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFA--NNLSALPTEALAPLRALQYLRLN  233 (284)
T ss_dssp             EEECCS-SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS--SCCSCCCHHHHTTCTTCCEEECC
T ss_pred             hccccc-CcccccchhhhccccccchhhhhhccccccChhHhhhhhhcccccccc--cccccccccccccccccCEEEec
Confidence            999988 58888876778999999999999997776655 599999999999999  45666777789999999999877


Q ss_pred             CC
Q 039519          637 NP  638 (647)
Q Consensus       637 ~~  638 (647)
                      ++
T Consensus       234 ~N  235 (284)
T d1ozna_         234 DN  235 (284)
T ss_dssp             SS
T ss_pred             CC
Confidence            65

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=3.1e-15  Score=146.12  Aligned_cols=194  Identities=22%  Similarity=0.165  Sum_probs=142.0

Q ss_pred             ccEEEEEeecccccccccCCCCcceeeEEeccCccccccCc-cccccccCCCeeeecCCCCCccccchhcCccCcEEeec
Q 039519          395 RNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ  473 (647)
Q Consensus       395 ~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~  473 (647)
                      ..+..++.+++.++.+|..++  +.+++|+|++| .+..+| ..|.++++|++|+|++|.|+.+|. ++.+++|++|+++
T Consensus        10 ~~~~~v~C~~~~L~~iP~~lp--~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls   85 (266)
T d1p9ag_          10 ASHLEVNCDKRNLTALPPDLP--KDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLS   85 (266)
T ss_dssp             TTCCEEECTTSCCSSCCSCCC--TTCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECC
T ss_pred             CCCeEEEccCCCCCeeCcCcC--cCCCEEECcCC-cCCCcCHHHhhcccccccccccccccccccc-ccccccccccccc
Confidence            445556788888888887654  46889999999 677776 458899999999999999999884 6789999999999


Q ss_pred             ccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhh
Q 039519          474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQ  553 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~  553 (647)
                      +| .+..++.. +..+++|+.|++.++..   .+++           ...+..+.+++.|.+..                
T Consensus        86 ~N-~l~~~~~~-~~~l~~L~~L~l~~~~~---~~~~-----------~~~~~~l~~l~~L~l~~----------------  133 (266)
T d1p9ag_          86 HN-QLQSLPLL-GQTLPALTVLDVSFNRL---TSLP-----------LGALRGLGELQELYLKG----------------  133 (266)
T ss_dssp             SS-CCSSCCCC-TTTCTTCCEEECCSSCC---CCCC-----------SSTTTTCTTCCEEECTT----------------
T ss_pred             cc-cccccccc-ccccccccccccccccc---ceee-----------ccccccccccccccccc----------------
Confidence            98 67777775 78899999997765433   2222           22234555566555542                


Q ss_pred             hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEEeecccccccccchhhhhhhcCCCC
Q 039519          554 RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPH  632 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~  632 (647)
                                 +.+..+.-..+..+++|+.|++++|.....++. |+.+++|++|+|++|  .+... .+.+..+++|+.
T Consensus       134 -----------n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N--~L~~l-p~~~~~~~~L~~  199 (266)
T d1p9ag_         134 -----------NELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQEN--SLYTI-PKGFFGSHLLPF  199 (266)
T ss_dssp             -----------SCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSS--CCCCC-CTTTTTTCCCSE
T ss_pred             -----------cccceeccccccccccchhcccccccccccCccccccccccceeecccC--CCccc-ChhHCCCCCCCE
Confidence                       234444333467789999999999977766664 899999999999995  34422 234667888888


Q ss_pred             cccCCC
Q 039519          633 FTKSNP  638 (647)
Q Consensus       633 L~~~~~  638 (647)
                      |...++
T Consensus       200 L~L~~N  205 (266)
T d1p9ag_         200 AFLHGN  205 (266)
T ss_dssp             EECCSC
T ss_pred             EEecCC
Confidence            876654

>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=99.54  E-value=7.9e-15  Score=137.68  Aligned_cols=165  Identities=19%  Similarity=0.276  Sum_probs=99.4

Q ss_pred             cccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeec
Q 039519          394 WRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQ  473 (647)
Q Consensus       394 ~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~  473 (647)
                      +.+++.|++.+|.+..++. +..+++|++|++++| .+..++ .++.+++|++|++++|+++.+| .+..+++|+.|+++
T Consensus        45 L~~L~~L~l~~~~i~~l~~-l~~l~~L~~L~L~~n-~i~~l~-~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~  120 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGN-KLTDIK-PLANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTT-GGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECT
T ss_pred             hcCccEEECcCCCCCCchh-HhhCCCCCEEeCCCc-cccCcc-ccccCccccccccccccccccc-cccccccccccccc
Confidence            4566677777777666543 455667777777777 555555 4566777777777777777666 46667777777777


Q ss_pred             ccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhh
Q 039519          474 YMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQ  553 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~  553 (647)
                      +| .+..++.  +..+++|+.+.+.+   |.+.             .+..+..+++|+.++++.|.              
T Consensus       121 ~~-~~~~~~~--l~~l~~l~~l~~~~---n~l~-------------~~~~~~~l~~L~~l~l~~n~--------------  167 (210)
T d1h6ta2         121 HN-GISDING--LVHLPQLESLYLGN---NKIT-------------DITVLSRLTKLDTLSLEDNQ--------------  167 (210)
T ss_dssp             TS-CCCCCGG--GGGCTTCCEEECCS---SCCC-------------CCGGGGGCTTCSEEECCSSC--------------
T ss_pred             cc-ccccccc--cccccccccccccc---cccc-------------cccccccccccccccccccc--------------
Confidence            66 4455554  56666666665443   2221             11123344555555554222              


Q ss_pred             hccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeec
Q 039519          554 RCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFI  611 (647)
Q Consensus       554 ~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~  611 (647)
                                   +..+  ..+.++++|++|+|++|. ++.+|.++.+++|++|+|++
T Consensus       168 -------------l~~i--~~l~~l~~L~~L~Ls~N~-i~~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         168 -------------ISDI--VPLAGLTKLQNLYLSKNH-ISDLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             -------------CCCC--GGGTTCTTCCEEECCSSC-CCBCGGGTTCTTCSEEEEEE
T ss_pred             -------------cccc--ccccCCCCCCEEECCCCC-CCCChhhcCCCCCCEEEccC
Confidence                         2221  124567777778887774 44566677788888888764

>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=99.53  E-value=1.2e-14  Score=135.25  Aligned_cols=162  Identities=15%  Similarity=0.268  Sum_probs=97.8

Q ss_pred             CcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEE
Q 039519          416 ALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL  495 (647)
Q Consensus       416 ~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L  495 (647)
                      .+..++.|+++++ .+..++ ++..+++|++|++++|.++.++. ++++++|++|++++| .+..++.  ++.+++|+.|
T Consensus        38 ~l~~l~~L~l~~~-~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n-~~~~~~~--l~~l~~L~~L  111 (199)
T d2omxa2          38 DLDQVTTLQADRL-GIKSID-GVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADITP--LANLTNLTGL  111 (199)
T ss_dssp             HHTTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG--GTTCTTCSEE
T ss_pred             HhcCCCEEECCCC-CCCCcc-ccccCCCcCcCccccccccCccc-ccCCccccccccccc-ccccccc--cccccccccc
Confidence            3455667777777 555554 56677777777777777776664 677777777777776 5566664  5677777777


Q ss_pred             eccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecc
Q 039519          496 RMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCL  575 (647)
Q Consensus       496 ~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~  575 (647)
                      ++.++...                ....+..+++|+.|+++.|.+.                           .+  +.+
T Consensus       112 ~l~~~~~~----------------~~~~~~~l~~L~~L~l~~n~l~---------------------------~~--~~l  146 (199)
T d2omxa2         112 TLFNNQIT----------------DIDPLKNLTNLNRLELSSNTIS---------------------------DI--SAL  146 (199)
T ss_dssp             ECCSSCCC----------------CCGGGTTCTTCSEEECCSSCCC---------------------------CC--GGG
T ss_pred             cccccccc----------------cccccchhhhhHHhhhhhhhhc---------------------------cc--ccc
Confidence            66544321                1122455666666666533221                           11  124


Q ss_pred             cccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCc
Q 039519          576 ACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHF  633 (647)
Q Consensus       576 ~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L  633 (647)
                      ..+++|++|++.+|.. ..++.++.+++|++|++++|+  ++  +++.++++++|+.|
T Consensus       147 ~~~~~L~~L~l~~n~l-~~l~~l~~l~~L~~L~ls~N~--i~--~i~~l~~L~~L~~L  199 (199)
T d2omxa2         147 SGLTSLQQLNFSSNQV-TDLKPLANLTTLERLDISSNK--VS--DISVLAKLTNLESL  199 (199)
T ss_dssp             TTCTTCSEEECCSSCC-CCCGGGTTCTTCCEEECCSSC--CC--CCGGGGGCTTCSEE
T ss_pred             cccccccccccccccc-cCCccccCCCCCCEEECCCCC--CC--CCccccCCCCCCcC
Confidence            4566777777777743 445567777888888887753  22  23455666666543

>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=99.52  E-value=1.8e-14  Score=137.09  Aligned_cols=189  Identities=20%  Similarity=0.234  Sum_probs=109.9

Q ss_pred             cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcE
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC  469 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~  469 (647)
                      ....+.+++.|++.+|.|+.++ .+.++++|++|++++| .+..++ .+.++++|+++++++|.++.++ .+.++++|+.
T Consensus        36 ~~~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n-~i~~~~-~l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~  111 (227)
T d1h6ua2          36 TQADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDN-QITDLA-PLKNLTKITELELSGNPLKNVS-AIAGLQSIKT  111 (227)
T ss_dssp             CHHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCG-GGTTCCSCCEEECCSCCCSCCG-GGTTCTTCCE
T ss_pred             CHHHcCCcCEEECCCCCCCcch-hHhcCCCCcEeecCCc-eeeccc-cccccccccccccccccccccc-cccccccccc
Confidence            3444566777777777776663 3466677777777777 455554 3667777777777777766665 4666777777


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhh
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS  549 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~  549 (647)
                      +++++| ....++.  +.....+..+.+..+..                .....+..+++|+.|+++.+.+...      
T Consensus       112 l~l~~~-~~~~~~~--~~~~~~~~~l~~~~~~~----------------~~~~~~~~~~~L~~L~l~~n~~~~~------  166 (227)
T d1h6ua2         112 LDLTST-QITDVTP--LAGLSNLQVLYLDLNQI----------------TNISPLAGLTNLQYLSIGNAQVSDL------  166 (227)
T ss_dssp             EECTTS-CCCCCGG--GTTCTTCCEEECCSSCC----------------CCCGGGGGCTTCCEEECCSSCCCCC------
T ss_pred             cccccc-cccccch--hccccchhhhhchhhhh----------------chhhhhccccccccccccccccccc------
Confidence            777766 3344443  45556666665543322                0111234455566655553332211      


Q ss_pred             hhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcC
Q 039519          550 QELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINR  629 (647)
Q Consensus       550 ~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~  629 (647)
                                             ..++.+++|++|+|++|. +..+++++.+++|++|+|++|+  ++  .++.++++++
T Consensus       167 -----------------------~~l~~l~~L~~L~Ls~n~-l~~l~~l~~l~~L~~L~Ls~N~--lt--~i~~l~~l~~  218 (227)
T d1h6ua2         167 -----------------------TPLANLSKLTTLKADDNK-ISDISPLASLPNLIEVHLKNNQ--IS--DVSPLANTSN  218 (227)
T ss_dssp             -----------------------GGGTTCTTCCEEECCSSC-CCCCGGGGGCTTCCEEECTTSC--CC--BCGGGTTCTT
T ss_pred             -----------------------hhhcccccceecccCCCc-cCCChhhcCCCCCCEEECcCCc--CC--CCcccccCCC
Confidence                                   124556677777777763 4455667777777777777752  22  2334566666


Q ss_pred             CCCccc
Q 039519          630 LPHFTK  635 (647)
Q Consensus       630 L~~L~~  635 (647)
                      |+.|+.
T Consensus       219 L~~L~l  224 (227)
T d1h6ua2         219 LFIVTL  224 (227)
T ss_dssp             CCEEEE
T ss_pred             CCEEEe
Confidence            666543

>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=99.50  E-value=3.4e-14  Score=132.05  Aligned_cols=165  Identities=19%  Similarity=0.275  Sum_probs=127.7

Q ss_pred             cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcE
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC  469 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~  469 (647)
                      ....+.+++.|++.+|.+..++ .+..+++|++|++++| .+..++ .++++++|++|++++|.+..+| .++++++|++
T Consensus        35 ~~~~l~~l~~L~l~~~~i~~l~-~l~~l~nL~~L~Ls~N-~l~~~~-~l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~  110 (199)
T d2omxa2          35 SQTDLDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNN-QLTDIT-PLKNLTKLVDILMNNNQIADIT-PLANLTNLTG  110 (199)
T ss_dssp             CHHHHTTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSSCCCCCG-GGTTCTTCSE
T ss_pred             CHHHhcCCCEEECCCCCCCCcc-ccccCCCcCcCccccc-cccCcc-cccCCccccccccccccccccc-cccccccccc
Confidence            3445678999999999998875 3577899999999999 677776 4899999999999999999887 4889999999


Q ss_pred             EeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhh
Q 039519          470 LNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLIS  549 (647)
Q Consensus       470 L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~  549 (647)
                      |++++| ....++.  +..+++|+.|++.++   ++..             +..+..+++|+.|++..|.++        
T Consensus       111 L~l~~~-~~~~~~~--~~~l~~L~~L~l~~n---~l~~-------------~~~l~~~~~L~~L~l~~n~l~--------  163 (199)
T d2omxa2         111 LTLFNN-QITDIDP--LKNLTNLNRLELSSN---TISD-------------ISALSGLTSLQQLNFSSNQVT--------  163 (199)
T ss_dssp             EECCSS-CCCCCGG--GTTCTTCSEEECCSS---CCCC-------------CGGGTTCTTCSEEECCSSCCC--------
T ss_pred             cccccc-ccccccc--cchhhhhHHhhhhhh---hhcc-------------ccccccccccccccccccccc--------
Confidence            999988 5556654  788999999977653   3311             223667788888877643322        


Q ss_pred             hhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceE
Q 039519          550 QELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVH  607 (647)
Q Consensus       550 ~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L  607 (647)
                                         .+  ..++.+++|++|+|++|+ +..++.++++++|+.|
T Consensus       164 -------------------~l--~~l~~l~~L~~L~ls~N~-i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         164 -------------------DL--KPLANLTTLERLDISSNK-VSDISVLAKLTNLESL  199 (199)
T ss_dssp             -------------------CC--GGGTTCTTCCEEECCSSC-CCCCGGGGGCTTCSEE
T ss_pred             -------------------CC--ccccCCCCCCEEECCCCC-CCCCccccCCCCCCcC
Confidence                               11  125678899999999995 5667788999999876

>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=99.48  E-value=7e-14  Score=132.91  Aligned_cols=184  Identities=21%  Similarity=0.207  Sum_probs=116.0

Q ss_pred             EEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCC
Q 039519          400 MSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLN  479 (647)
Q Consensus       400 L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~  479 (647)
                      +++..+.+.++. ....+.+|+.|++.+| .+..++ .+..+++|++|++++|.++.+++ +..+++|+++++++| .+.
T Consensus        24 ~~l~~~~~~d~~-~~~~l~~L~~L~l~~~-~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n-~~~   98 (227)
T d1h6ua2          24 IAAGKSNVTDTV-TQADLDGITTLSAFGT-GVTTIE-GVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGN-PLK   98 (227)
T ss_dssp             HHTTCSSTTSEE-CHHHHHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSC-CCS
T ss_pred             HHhCCCCcCCcC-CHHHcCCcCEEECCCC-CCCcch-hHhcCCCCcEeecCCceeecccc-ccccccccccccccc-ccc
Confidence            344444444432 1145566777777777 566664 57777777777777777776653 677777777777776 556


Q ss_pred             cCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhcccee
Q 039519          480 QFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFL  559 (647)
Q Consensus       480 ~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l  559 (647)
                      .++.  +..+++|+.+.+.++...                ....+...+.+..+.+.                       
T Consensus        99 ~i~~--l~~l~~L~~l~l~~~~~~----------------~~~~~~~~~~~~~l~~~-----------------------  137 (227)
T d1h6ua2          99 NVSA--IAGLQSIKTLDLTSTQIT----------------DVTPLAGLSNLQVLYLD-----------------------  137 (227)
T ss_dssp             CCGG--GTTCTTCCEEECTTSCCC----------------CCGGGTTCTTCCEEECC-----------------------
T ss_pred             cccc--cccccccccccccccccc----------------ccchhccccchhhhhch-----------------------
Confidence            6664  667777777766544321                11113333444444333                       


Q ss_pred             eeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccCCCC
Q 039519          560 FLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSNPY  639 (647)
Q Consensus       560 ~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  639 (647)
                         ++ .+..  ...+..+++|++|++++|.. ...+.++++++|++|+|++|.  +.  .++.+.++++|++|+..+..
T Consensus       138 ---~~-~~~~--~~~~~~~~~L~~L~l~~n~~-~~~~~l~~l~~L~~L~Ls~n~--l~--~l~~l~~l~~L~~L~Ls~N~  206 (227)
T d1h6ua2         138 ---LN-QITN--ISPLAGLTNLQYLSIGNAQV-SDLTPLANLSKLTTLKADDNK--IS--DISPLASLPNLIEVHLKNNQ  206 (227)
T ss_dssp             ---SS-CCCC--CGGGGGCTTCCEEECCSSCC-CCCGGGTTCTTCCEEECCSSC--CC--CCGGGGGCTTCCEEECTTSC
T ss_pred             ---hh-hhch--hhhhcccccccccccccccc-ccchhhcccccceecccCCCc--cC--CChhhcCCCCCCEEECcCCc
Confidence               21 1111  11256788899999998854 455568999999999999963  33  34568889999999877654


Q ss_pred             c
Q 039519          640 H  640 (647)
Q Consensus       640 ~  640 (647)
                      +
T Consensus       207 l  207 (227)
T d1h6ua2         207 I  207 (227)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.45  E-value=1.3e-13  Score=129.18  Aligned_cols=165  Identities=21%  Similarity=0.226  Sum_probs=124.7

Q ss_pred             CcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEE
Q 039519          416 ALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVL  495 (647)
Q Consensus       416 ~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L  495 (647)
                      .+..|+.|++++| .+..++ ++..+++|++|++++|.++.++ .++.+++|++|++++| .+..+|.  +..+++|+.|
T Consensus        44 ~L~~L~~L~l~~~-~i~~l~-~l~~l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n-~i~~l~~--l~~l~~L~~L  117 (210)
T d1h6ta2          44 ELNSIDQIIANNS-DIKSVQ-GIQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDEN-KVKDLSS--LKDLKKLKSL  117 (210)
T ss_dssp             HHHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSS-CCCCGGG--GTTCTTCCEE
T ss_pred             HhcCccEEECcCC-CCCCch-hHhhCCCCCEEeCCCccccCcc-ccccCccccccccccc-ccccccc--cccccccccc
Confidence            4667889999998 777776 6888999999999999999887 4788999999999988 7788885  7889999999


Q ss_pred             eccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecc
Q 039519          496 RMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCL  575 (647)
Q Consensus       496 ~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~  575 (647)
                      ++.++...                .+..+..+++|+.+.++.+.++.                           +  ..+
T Consensus       118 ~l~~~~~~----------------~~~~l~~l~~l~~l~~~~n~l~~---------------------------~--~~~  152 (210)
T d1h6ta2         118 SLEHNGIS----------------DINGLVHLPQLESLYLGNNKITD---------------------------I--TVL  152 (210)
T ss_dssp             ECTTSCCC----------------CCGGGGGCTTCCEEECCSSCCCC---------------------------C--GGG
T ss_pred             cccccccc----------------ccccccccccccccccccccccc---------------------------c--ccc
Confidence            87765431                12346667777777766433221                           1  124


Q ss_pred             cccCCccEEEEcCCCCCCCChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccC
Q 039519          576 ACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKS  636 (647)
Q Consensus       576 ~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~  636 (647)
                      ..+++|+.+++++|... .++.++++++|+.|+|++|.  ++  .++.+.++++|++|+.+
T Consensus       153 ~~l~~L~~l~l~~n~l~-~i~~l~~l~~L~~L~Ls~N~--i~--~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         153 SRLTKLDTLSLEDNQIS-DIVPLAGLTKLQNLYLSKNH--IS--DLRALAGLKNLDVLELF  208 (210)
T ss_dssp             GGCTTCSEEECCSSCCC-CCGGGTTCTTCCEEECCSSC--CC--BCGGGTTCTTCSEEEEE
T ss_pred             ccccccccccccccccc-ccccccCCCCCCEEECCCCC--CC--CChhhcCCCCCCEEEcc
Confidence            56788999999999654 56669999999999999963  43  35568888888888643

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.45  E-value=2.6e-13  Score=135.15  Aligned_cols=221  Identities=18%  Similarity=0.142  Sum_probs=152.9

Q ss_pred             EEEEEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCcc-ccchhcCccCcEEeecc
Q 039519          397 VRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHL-PIDLQKLVNLKCLNLQY  474 (647)
Q Consensus       397 l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~  474 (647)
                      .+.++=++++++.+|..++  +.+++|++++| .++.+|+ .|.++++|++|++++|.+..+ |..+.++++|++|++++
T Consensus        12 ~~~~~C~~~~L~~lP~~l~--~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~   88 (305)
T d1xkua_          12 LRVVQCSDLGLEKVPKDLP--PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK   88 (305)
T ss_dssp             TTEEECTTSCCCSCCCSCC--TTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEecCCCCCccCCCCC--CCCCEEECcCC-cCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccC
Confidence            3445666667888887654  57999999999 7888886 589999999999999999987 56799999999999999


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhh
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQR  554 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~  554 (647)
                      | .+..+|..   ....+..|...+   |.+..+           ....+.....+..+....+...............+
T Consensus        89 n-~l~~l~~~---~~~~l~~L~~~~---n~l~~l-----------~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~  150 (305)
T d1xkua_          89 N-QLKELPEK---MPKTLQELRVHE---NEITKV-----------RKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMK  150 (305)
T ss_dssp             S-CCSBCCSS---CCTTCCEEECCS---SCCCBB-----------CHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCT
T ss_pred             C-ccCcCccc---hhhhhhhhhccc---cchhhh-----------hhhhhhccccccccccccccccccCCCcccccccc
Confidence            9 78999974   346788887665   343222           22334455566666665443222111111122223


Q ss_pred             ccceeeeec----------cCCCceEEEec----------ccccCCccEEEEcCCCCCCCCh-hhccccCCceEEeeccc
Q 039519          555 CTQFLFLRC----------FNDSKSLDIFC----------LACLHNLNKLYVAGCKHLEDFQ-MIIQRSSLSVHNLFINK  613 (647)
Q Consensus       555 ~l~~l~L~~----------~~~L~~L~l~~----------~~~l~~L~~L~L~~~~~~~~~~-~~~~l~~L~~L~L~~~~  613 (647)
                      +|+.+.+.+          +++|+.|++..          +..++++++|++++|.....++ ++..+++|++|+|++|+
T Consensus       151 ~L~~l~l~~n~l~~l~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~  230 (305)
T d1xkua_         151 KLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNK  230 (305)
T ss_dssp             TCCEEECCSSCCCSCCSSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSC
T ss_pred             ccCccccccCCccccCcccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeeccccc
Confidence            444444443          33556665522          7788899999999997666555 58899999999999963


Q ss_pred             ccccccchhhhhhhcCCCCcccCCCCcc
Q 039519          614 NYIHTNQLSILLGINRLPHFTKSNPYHP  641 (647)
Q Consensus       614 ~~~~~~~~~~l~~l~~L~~L~~~~~~~~  641 (647)
                       +...  ...+..+++|+.|+.....+.
T Consensus       231 -L~~l--p~~l~~l~~L~~L~Ls~N~i~  255 (305)
T d1xkua_         231 -LVKV--PGGLADHKYIQVVYLHNNNIS  255 (305)
T ss_dssp             -CSSC--CTTTTTCSSCCEEECCSSCCC
T ss_pred             -cccc--ccccccccCCCEEECCCCccC
Confidence             3332  236788999999987765543

>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=99.43  E-value=3.4e-13  Score=138.66  Aligned_cols=196  Identities=18%  Similarity=0.248  Sum_probs=153.6

Q ss_pred             ccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCc
Q 039519          386 TEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLV  465 (647)
Q Consensus       386 ~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~  465 (647)
                      ........++++..+.+++|.+..++.. ...+.|+.|++++| .+..+| .+..+++|+.|++++|.++.++. ++.++
T Consensus       188 ~~~~~~~~l~~~~~l~l~~n~i~~~~~~-~~~~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~l~~n~l~~~~~-~~~~~  263 (384)
T d2omza2         188 SDISVLAKLTNLESLIATNNQISDITPL-GILTNLDELSLNGN-QLKDIG-TLASLTNLTDLDLANNQISNLAP-LSGLT  263 (384)
T ss_dssp             CCCGGGGGCTTCSEEECCSSCCCCCGGG-GGCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSSCCCCCGG-GTTCT
T ss_pred             ccccccccccccceeeccCCccCCCCcc-cccCCCCEEECCCC-CCCCcc-hhhcccccchhccccCccCCCCc-ccccc
Confidence            3345566778889999999998887653 55578899999999 677765 68889999999999999998874 88899


Q ss_pred             cCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHH
Q 039519          466 NLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQE  545 (647)
Q Consensus       466 ~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~  545 (647)
                      +|++|++++| .+..+++  +..+..++.+.+..+   .+           .  .+..+..+++++.|+++.|.++.+..
T Consensus       264 ~L~~L~l~~~-~l~~~~~--~~~~~~l~~l~~~~n---~l-----------~--~~~~~~~~~~l~~L~ls~n~l~~l~~  324 (384)
T d2omza2         264 KLTELKLGAN-QISNISP--LAGLTALTNLELNEN---QL-----------E--DISPISNLKNLTYLTLYFNNISDISP  324 (384)
T ss_dssp             TCSEEECCSS-CCCCCGG--GTTCTTCSEEECCSS---CC-----------S--CCGGGGGCTTCSEEECCSSCCSCCGG
T ss_pred             cCCEeeccCc-ccCCCCc--ccccccccccccccc---cc-----------c--cccccchhcccCeEECCCCCCCCCcc
Confidence            9999999988 6777776  677888888866643   32           1  13347788899999999888876532


Q ss_pred             HhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChhhccccCCceEEeecc
Q 039519          546 LLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQMIIQRSSLSVHNLFIN  612 (647)
Q Consensus       546 l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~L~~L~L~~~  612 (647)
                          ...+++|+.|+++++ +++.++  .+..+++|++|+|++|...+ ++++.++++|++|+|++|
T Consensus       325 ----l~~l~~L~~L~L~~n-~l~~l~--~l~~l~~L~~L~l~~N~l~~-l~~l~~l~~L~~L~L~~N  383 (384)
T d2omza2         325 ----VSSLTKLQRLFFANN-KVSDVS--SLANLTNINWLSAGHNQISD-LTPLANLTRITQLGLNDQ  383 (384)
T ss_dssp             ----GGGCTTCCEEECCSS-CCCCCG--GGGGCTTCCEEECCSSCCCB-CGGGTTCTTCSEEECCCE
T ss_pred             ----cccCCCCCEEECCCC-CCCCCh--hHcCCCCCCEEECCCCcCCC-ChhhccCCCCCEeeCCCC
Confidence                344568999999884 677654  58899999999999996554 455899999999999984

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=1.9e-13  Score=131.17  Aligned_cols=218  Identities=14%  Similarity=0.107  Sum_probs=138.5

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccC-CCCcceeeEEeccCccccccCc-cccccccCCCeeeecC-
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSEL-QPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSS-  451 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~-  451 (647)
                      .+.+.+.+.+++.+|.- -++++++|++++|.|+.+|.. +.++++|++|++++|.....+| ..|..++.++++.+.. 
T Consensus        10 ~~~i~c~~~~l~~iP~~-l~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          10 NRVFLCQESKVTEIPSD-LPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             SSEEEEESCSCSSCCSC-SCSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             CCEEEEeCCCCCCcCCC-CCCCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccc
Confidence            35677777788888752 235899999999999998875 5889999999999995444444 3578899999998765 


Q ss_pred             CCCCccc-cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCC-CC
Q 039519          452 TAITHLP-IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGM-KY  529 (647)
Q Consensus       452 ~~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l-~~  529 (647)
                      |.+..++ ..+.++++|+++++++| .+..++.  ...+.+++.+.......+.+..++...           +..+ ..
T Consensus        89 n~l~~~~~~~~~~l~~L~~l~l~~~-~l~~~~~--~~~~~~l~~l~~~~~~n~~l~~i~~~~-----------~~~~~~~  154 (242)
T d1xwdc1          89 NNLLYINPEAFQNLPNLQYLLISNT-GIKHLPD--VHKIHSLQKVLLDIQDNINIHTIERNS-----------FVGLSFE  154 (242)
T ss_dssp             TTCCEECTTSEECCTTCCEEEEESC-CCCSCCC--CTTTCBSSCEEEEEESCTTCCEECTTS-----------STTSBSS
T ss_pred             ccccccccccccccccccccccchh-hhccccc--ccccccccccccccccccccccccccc-----------ccccccc
Confidence            5777555 55789999999999998 6667665  456677777766666655554444332           2222 25


Q ss_pred             CcEEEEEecchhhHHHHhhhhhhhhccceeeeeccCCCceEEEecccccCCccEEEEcCCCCCCCChh-hccccCCceEE
Q 039519          530 LMAVTITLKRLQALQELLISQELQRCTQFLFLRCFNDSKSLDIFCLACLHNLNKLYVAGCKHLEDFQM-IIQRSSLSVHN  608 (647)
Q Consensus       530 L~~L~l~~~~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~L~~~~~~~~~~~-~~~l~~L~~L~  608 (647)
                      ++.|++..+.++.+..   .......+..+.....+++++++...|..+++|++|+|++|.+...+++ |.++++|+.|+
T Consensus       155 l~~L~l~~n~l~~i~~---~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~  231 (242)
T d1xwdc1         155 SVILWLNKNGIQEIHN---CAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARS  231 (242)
T ss_dssp             CEEEECCSSCCCEECT---TTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSS
T ss_pred             ceeeeccccccccccc---ccccchhhhccccccccccccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCc
Confidence            6666666554443321   1111122333332233456655544466666666666666654433333 55555555555


Q ss_pred             ee
Q 039519          609 LF  610 (647)
Q Consensus       609 L~  610 (647)
                      +.
T Consensus       232 ~~  233 (242)
T d1xwdc1         232 TY  233 (242)
T ss_dssp             EE
T ss_pred             CC
Confidence            43

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=2.9e-13  Score=129.84  Aligned_cols=217  Identities=14%  Similarity=0.142  Sum_probs=140.3

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCc-cc-cchhcCccCcEEeecc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITH-LP-IDLQKLVNLKCLNLQY  474 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~-lp-~~~~~l~~L~~L~l~~  474 (647)
                      +.++.++..++.+|..++  +++++|++++| .+..+|. .|.++++|++|++++|.+.. +| ..+..+++++++.+..
T Consensus        11 ~~i~c~~~~l~~iP~~l~--~~l~~L~Ls~n-~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~   87 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLT-KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   87 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESC-CCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEEC
T ss_pred             CEEEEeCCCCCCcCCCCC--CCCCEEECcCC-cCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccc
Confidence            356777778888887654  47899999999 7778876 47899999999999998874 44 4578899999999887


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhHHHHhhhhhhhh
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQALQELLISQELQR  554 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l~~l~~~~~~~~  554 (647)
                      +..+..++.+.+..+++|++|.+.++..   ...+.          ...+..+..+..+....+.+..+.. ........
T Consensus        88 ~n~l~~~~~~~~~~l~~L~~l~l~~~~l---~~~~~----------~~~~~~l~~l~~~~~~n~~l~~i~~-~~~~~~~~  153 (242)
T d1xwdc1          88 ANNLLYINPEAFQNLPNLQYLLISNTGI---KHLPD----------VHKIHSLQKVLLDIQDNINIHTIER-NSFVGLSF  153 (242)
T ss_dssp             CTTCCEECTTSEECCTTCCEEEEESCCC---CSCCC----------CTTTCBSSCEEEEEESCTTCCEECT-TSSTTSBS
T ss_pred             cccccccccccccccccccccccchhhh---ccccc----------ccccccccccccccccccccccccc-cccccccc
Confidence            6677778877688999999998876433   11111          1112233333333333222222211 00011122


Q ss_pred             ccceeeeeccCCCceEEEecccccCCccEEE-EcCCCCCCCCh-h-hccccCCceEEeecccccccccchhhhhhhcCCC
Q 039519          555 CTQFLFLRCFNDSKSLDIFCLACLHNLNKLY-VAGCKHLEDFQ-M-IIQRSSLSVHNLFINKNYIHTNQLSILLGINRLP  631 (647)
Q Consensus       555 ~l~~l~L~~~~~L~~L~l~~~~~l~~L~~L~-L~~~~~~~~~~-~-~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~  631 (647)
                      .+..+.+.+ +++..+.-..+ ...++.++. +.+| .++.+| + |..+++|++|+|++|+  +...+...+.++++|+
T Consensus       154 ~l~~L~l~~-n~l~~i~~~~~-~~~~l~~~~~l~~n-~l~~l~~~~f~~l~~L~~L~Ls~N~--l~~l~~~~~~~l~~L~  228 (242)
T d1xwdc1         154 ESVILWLNK-NGIQEIHNCAF-NGTQLDELNLSDNN-NLEELPNDVFHGASGPVILDISRTR--IHSLPSYGLENLKKLR  228 (242)
T ss_dssp             SCEEEECCS-SCCCEECTTTT-TTCCEEEEECTTCT-TCCCCCTTTTTTSCCCSEEECTTSC--CCCCCSSSCTTCCEEE
T ss_pred             cceeeeccc-ccccccccccc-cchhhhcccccccc-ccccccHHHhcCCCCCCEEECCCCc--CCccCHHHHcCCcccc
Confidence            455566654 56666653323 345555665 4555 555555 3 8999999999999963  4444445677788887


Q ss_pred             CcccC
Q 039519          632 HFTKS  636 (647)
Q Consensus       632 ~L~~~  636 (647)
                      .|...
T Consensus       229 ~l~~~  233 (242)
T d1xwdc1         229 ARSTY  233 (242)
T ss_dssp             SSSEE
T ss_pred             cCcCC
Confidence            77554

>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=99.36  E-value=4e-13  Score=119.84  Aligned_cols=136  Identities=21%  Similarity=0.228  Sum_probs=106.5

Q ss_pred             cCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccch-hcCc
Q 039519          387 EAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDL-QKLV  465 (647)
Q Consensus       387 ~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~-~~l~  465 (647)
                      ..|.+.++.+++.|+|++|+|+.++.....+++|+.|++++| .+..++ .+..+++|++|++++|.++.+|..+ ..++
T Consensus        10 ~~~~~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N-~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~   87 (162)
T d1a9na_          10 QAAQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALP   87 (162)
T ss_dssp             TSCEEECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCT
T ss_pred             hhHhccCcCcCcEEECCCCCCCccCccccccccCCEEECCCC-CCCccC-CcccCcchhhhhcccccccCCCcccccccc
Confidence            346677778999999999999999866577889999999999 787885 6899999999999999999998664 6799


Q ss_pred             cCcEEeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEE
Q 039519          466 NLKCLNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTIT  536 (647)
Q Consensus       466 ~L~~L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  536 (647)
                      +|++|++++| .+..++. ..+..+++|++|++.+   |.+...+        ......+..+++|+.|+-.
T Consensus        88 ~L~~L~L~~N-~i~~~~~l~~l~~l~~L~~L~l~~---N~i~~~~--------~~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_          88 DLTELILTNN-SLVELGDLDPLASLKSLTYLCILR---NPVTNKK--------HYRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             TCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCS---SGGGGST--------THHHHHHHHCTTCSEETTE
T ss_pred             ccccceeccc-cccccccccccccccccchhhcCC---Ccccccc--------chHHHHHHHCCCcCeeCCC
Confidence            9999999998 7777775 2367788888887765   4443222        1123346778888888754

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=1.9e-12  Score=127.17  Aligned_cols=201  Identities=17%  Similarity=0.100  Sum_probs=122.4

Q ss_pred             CCcceeeEEeccCcccccc-CccccccccCCCeeeecCCCCC-ccccchhcCccCcEEeecccccCCcCch-hhhcCCCC
Q 039519          415 PALTFFLFFNMSNNHLLWK-LPLGISTLVSLEHLDLSSTAIT-HLPIDLQKLVNLKCLNLQYMYNLNQFPR-LVISAFSK  491 (647)
Q Consensus       415 ~~l~~L~~L~l~~~~~~~~-lp~~~~~L~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~i~~l~~  491 (647)
                      .....|++||++++..... ++.-+..+++|++|++++|.++ ..+..++.+++|++|++++|..++...- .+...+++
T Consensus        43 ~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~  122 (284)
T d2astb2          43 FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSR  122 (284)
T ss_dssp             CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTT
T ss_pred             ccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHh
Confidence            3445678888887732222 3444567788888888888776 5556677788888888888754432111 12345778


Q ss_pred             CcEEeccccCCCcccccccccccCCccccHHHhhC-CCCCcEEEEEec--chhhHHHHhhhhhhhhccceeeeeccCCCc
Q 039519          492 LQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIG-MKYLMAVTITLK--RLQALQELLISQELQRCTQFLFLRCFNDSK  568 (647)
Q Consensus       492 L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~-l~~L~~L~l~~~--~~~~l~~l~~~~~~~~~l~~l~L~~~~~L~  568 (647)
                      |++|++.+|..-.            .......+.. .++|+.|++++.  .++. ..+.......++|+.|++++|..+.
T Consensus       123 L~~L~ls~c~~~~------------~~~~~~~~~~~~~~L~~L~l~~~~~~i~~-~~l~~l~~~~~~L~~L~L~~~~~it  189 (284)
T d2astb2         123 LDELNLSWCFDFT------------EKHVQVAVAHVSETITQLNLSGYRKNLQK-SDLSTLVRRCPNLVHLDLSDSVMLK  189 (284)
T ss_dssp             CCEEECCCCTTCC------------HHHHHHHHHHSCTTCCEEECCSCGGGSCH-HHHHHHHHHCTTCSEEECTTCTTCC
T ss_pred             ccccccccccccc------------cccchhhhcccccccchhhhccccccccc-ccccccccccccccccccccccCCC
Confidence            8888887764310            1111122333 357888887642  1211 1122122233568888888777776


Q ss_pred             eEEEecccccCCccEEEEcCCCCCCCC--hhhccccCCceEEeecccccccccchhhh-hhhcCCC
Q 039519          569 SLDIFCLACLHNLNKLYVAGCKHLEDF--QMIIQRSSLSVHNLFINKNYIHTNQLSIL-LGINRLP  631 (647)
Q Consensus       569 ~L~l~~~~~l~~L~~L~L~~~~~~~~~--~~~~~l~~L~~L~L~~~~~~~~~~~~~~l-~~l~~L~  631 (647)
                      .-.+..+..+++|++|+|++|..+..-  ..++++++|+.|++++|   +....+..+ ..+|+|+
T Consensus       190 d~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~---~~d~~l~~l~~~lp~L~  252 (284)
T d2astb2         190 NDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI---VPDGTLQLLKEALPHLQ  252 (284)
T ss_dssp             GGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS---SCTTCHHHHHHHSTTSE
T ss_pred             chhhhhhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC---CCHHHHHHHHHhCcccc
Confidence            555555788899999999998765432  24788899999999886   333333333 4466665

>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=99.31  E-value=2.6e-12  Score=108.83  Aligned_cols=97  Identities=24%  Similarity=0.306  Sum_probs=65.0

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeeccccc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYN  477 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~  477 (647)
                      |.|++++|+++.++. +..+++|++|++++| .+..+|+.++.+++|++|++++|.++.+| +++.+++|++|++++| .
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-~   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNN-R   76 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSS-C
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCC-ccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCC-c
Confidence            356777777776653 466677777777777 66677766777777777777777777776 4677777777777776 5


Q ss_pred             CCcCch-hhhcCCCCCcEEecc
Q 039519          478 LNQFPR-LVISAFSKLQVLRMF  498 (647)
Q Consensus       478 l~~lp~-~~i~~l~~L~~L~l~  498 (647)
                      +..+|. ..++.+++|++|++.
T Consensus        77 i~~~~~~~~l~~~~~L~~L~l~   98 (124)
T d1dcea3          77 LQQSAAIQPLVSCPRLVLLNLQ   98 (124)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECT
T ss_pred             cCCCCCchhhcCCCCCCEEECC
Confidence            566653 225566666666554

>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=99.28  E-value=4.5e-12  Score=107.32  Aligned_cols=116  Identities=22%  Similarity=0.214  Sum_probs=98.6

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCc
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITH  456 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~  456 (647)
                      .+...+..++.++.+..+.++++|++++|.++.+|..+..+++|+.|++++| .+..+| .++.+++|++|++++|.++.
T Consensus         2 ~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~~   79 (124)
T d1dcea3           2 VLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVD-GVANLPRLQELLLCNNRLQQ   79 (124)
T ss_dssp             EEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-CCCCCG-GGTTCSSCCEEECCSSCCCS
T ss_pred             EEEcCCCCCCCCcccccCCCCCEEECCCCccCcchhhhhhhhcccccccccc-cccccC-ccccccccCeEECCCCccCC
Confidence            4566778888999999999999999999999999988888999999999999 788887 69999999999999999998


Q ss_pred             cc--cchhcCccCcEEeecccccCCcC---chhhhcCCCCCcEE
Q 039519          457 LP--IDLQKLVNLKCLNLQYMYNLNQF---PRLVISAFSKLQVL  495 (647)
Q Consensus       457 lp--~~~~~l~~L~~L~l~~~~~l~~l---p~~~i~~l~~L~~L  495 (647)
                      +|  ..++.+++|++|++++| .+..+   +..++..+++|+.|
T Consensus        80 ~~~~~~l~~~~~L~~L~l~~N-~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          80 SAAIQPLVSCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             SSTTGGGGGCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCCchhhcCCCCCCEEECCCC-cCCcCccHHHHHHHHCcCcceE
Confidence            87  46889999999999998 44433   34445567777665

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=7.8e-12  Score=122.64  Aligned_cols=200  Identities=18%  Similarity=0.162  Sum_probs=132.3

Q ss_pred             eEEeccCccccccCccccccccCCCeeeecCCCCC--ccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEecc
Q 039519          421 LFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAIT--HLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       421 ~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~  498 (647)
                      ..+.++.+ ..............|++|++++|.++  .++.-+..+++|++|++++|..-...+.. ++++++|++|++.
T Consensus        26 ~~lrl~~~-~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~-l~~~~~L~~L~Ls  103 (284)
T d2astb2          26 IAFRCPRS-FMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT-LAKNSNLVRLNLS  103 (284)
T ss_dssp             SEEECTTC-EECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHH-HTTCTTCSEEECT
T ss_pred             eEeecccc-ccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHH-HhcCCCCcCcccc
Confidence            34555555 33332233445678999999999876  45666788999999999998422233443 7889999999998


Q ss_pred             ccCCCcccccccccccCCccccHH-HhhCCCCCcEEEEEecc-hhhHHHHhh-hhhhhhccceeeeeccC-CCceEEEec
Q 039519          499 DCGGSKIERLKSNVLFGGHQVLVE-ELIGMKYLMAVTITLKR-LQALQELLI-SQELQRCTQFLFLRCFN-DSKSLDIFC  574 (647)
Q Consensus       499 ~~~~n~~~~~~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~-~~~l~~l~~-~~~~~~~l~~l~L~~~~-~L~~L~l~~  574 (647)
                      +|..  +           ....+. -...+++|+.|+++++. ++. +.+.. .......|+.|.+++|. ++..-.+..
T Consensus       104 ~c~~--i-----------td~~l~~l~~~~~~L~~L~ls~c~~~~~-~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~  169 (284)
T d2astb2         104 GCSG--F-----------SEFALQTLLSSCSRLDELNLSWCFDFTE-KHVQVAVAHVSETITQLNLSGYRKNLQKSDLST  169 (284)
T ss_dssp             TCBS--C-----------CHHHHHHHHHHCTTCCEEECCCCTTCCH-HHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHH
T ss_pred             cccc--c-----------cccccchhhHHHHhcccccccccccccc-ccchhhhcccccccchhhhcccccccccccccc
Confidence            8754  1           222222 24578999999998643 222 11111 11222457777776642 233222211


Q ss_pred             -ccccCCccEEEEcCCCCCC--CChhhccccCCceEEeecccccccccchhhhhhhcCCCCcccCC
Q 039519          575 -LACLHNLNKLYVAGCKHLE--DFQMIIQRSSLSVHNLFINKNYIHTNQLSILLGINRLPHFTKSN  637 (647)
Q Consensus       575 -~~~l~~L~~L~L~~~~~~~--~~~~~~~l~~L~~L~L~~~~~~~~~~~~~~l~~l~~L~~L~~~~  637 (647)
                       ...+++|++|+|++|...+  .+..++.+++|++|+|++|.+ +....+..++++|+|+.|+..+
T Consensus       170 l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~-i~~~~l~~L~~~~~L~~L~l~~  234 (284)
T d2astb2         170 LVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYD-IIPETLLELGEIPTLKTLQVFG  234 (284)
T ss_dssp             HHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTT-CCGGGGGGGGGCTTCCEEECTT
T ss_pred             cccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCC-CChHHHHHHhcCCCCCEEeeeC
Confidence             3568999999999987654  344588999999999999854 4555666788899999887654

>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=99.18  E-value=1e-11  Score=110.50  Aligned_cols=113  Identities=16%  Similarity=0.103  Sum_probs=93.1

Q ss_pred             CCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcE
Q 039519          415 PALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQV  494 (647)
Q Consensus       415 ~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~  494 (647)
                      .+...++.|+|++| .+..+|..+..+++|++|+|++|.|+.++ .+..+++|++|++++| .+..+|.+++..+++|++
T Consensus        15 ~n~~~lr~L~L~~n-~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N-~i~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          15 TNAVRDRELDLRGY-KIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNN-RICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             ECTTSCEEEECTTS-CCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSS-CCCEECSCHHHHCTTCCE
T ss_pred             cCcCcCcEEECCCC-CCCccCccccccccCCEEECCCCCCCccC-CcccCcchhhhhcccc-cccCCCcccccccccccc
Confidence            45567999999999 78889876788999999999999999996 5899999999999999 788998876678999999


Q ss_pred             EeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhhH
Q 039519          495 LRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQAL  543 (647)
Q Consensus       495 L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~l  543 (647)
                      |++.+   |++..+          ..+..+..+++|+.|+++.|.++..
T Consensus        92 L~L~~---N~i~~~----------~~l~~l~~l~~L~~L~l~~N~i~~~  127 (162)
T d1a9na_          92 LILTN---NSLVEL----------GDLDPLASLKSLTYLCILRNPVTNK  127 (162)
T ss_dssp             EECCS---CCCCCG----------GGGGGGGGCTTCCEEECCSSGGGGS
T ss_pred             ceecc---cccccc----------ccccccccccccchhhcCCCccccc
Confidence            97776   444222          2234578899999999998877654

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.18  E-value=3.1e-11  Score=122.01  Aligned_cols=98  Identities=26%  Similarity=0.307  Sum_probs=76.1

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      ...+...+.+++.+|..  ++++++|++++|+++.+|..+   .+|+.|++++| .+..++. +  .+.|++|++++|.+
T Consensus        40 l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n-~l~~l~~-l--p~~L~~L~L~~n~l  110 (353)
T d1jl5a_          40 AHELELNNLGLSSLPEL--PPHLESLVASCNSLTELPELP---QSLKSLLVDNN-NLKALSD-L--PPLLEYLGVSNNQL  110 (353)
T ss_dssp             CSEEECTTSCCSCCCSC--CTTCSEEECCSSCCSSCCCCC---TTCCEEECCSS-CCSCCCS-C--CTTCCEEECCSSCC
T ss_pred             CCEEEeCCCCCCCCCCC--CCCCCEEECCCCCCcccccch---hhhhhhhhhhc-ccchhhh-h--cccccccccccccc
Confidence            34566777788888864  578999999999999988654   46788889988 6666653 2  14699999999999


Q ss_pred             CccccchhcCccCcEEeecccccCCcCch
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPR  483 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~  483 (647)
                      +.+|. ++.+++|++|++++| .+...|.
T Consensus       111 ~~lp~-~~~l~~L~~L~l~~~-~~~~~~~  137 (353)
T d1jl5a_         111 EKLPE-LQNSSFLKIIDVDNN-SLKKLPD  137 (353)
T ss_dssp             SSCCC-CTTCTTCCEEECCSS-CCSCCCC
T ss_pred             ccccc-hhhhccceeeccccc-ccccccc
Confidence            99985 688999999999987 4555544

>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=99.13  E-value=5.1e-11  Score=109.41  Aligned_cols=120  Identities=19%  Similarity=0.169  Sum_probs=75.0

Q ss_pred             eEEecCCCcccCccccccccEEEEEeecccccc-cccC-CCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          377 FLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIEN-LSEL-QPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       377 ~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~-l~~~-~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      .+.+.+.+++.+|.-- ++++++|+|++|.|.. ++.. +.++++|+.|++++|......+..+..+++|++|+|++|++
T Consensus        12 ~v~Cs~~~L~~iP~~l-p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l   90 (192)
T d1w8aa_          12 TVDCTGRGLKEIPRDI-PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI   90 (192)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCC
T ss_pred             EEEEeCCCcCccCCCC-CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccc
Confidence            4556666666666421 3567777777777754 3232 35666777777777733333444566677777777777777


Q ss_pred             Ccccc-chhcCccCcEEeecccccCCcCchhhhcCCCCCcEEecc
Q 039519          455 THLPI-DLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMF  498 (647)
Q Consensus       455 ~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~  498 (647)
                      +.+|. .|.++++|++|+|++| .+..+|++.+..+++|++|++.
T Consensus        91 ~~l~~~~F~~l~~L~~L~L~~N-~l~~i~~~~f~~l~~L~~l~L~  134 (192)
T d1w8aa_          91 KEISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLA  134 (192)
T ss_dssp             CEECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECT
T ss_pred             cccCHHHHhCCCcccccccCCc-cccccCHHHhcCCccccccccc
Confidence            76653 4566777777777776 6666766656666667666554

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.10  E-value=9.8e-10  Score=110.60  Aligned_cols=113  Identities=23%  Similarity=0.338  Sum_probs=78.5

Q ss_pred             cceEEecCCCcccCccccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCC
Q 039519          375 ENFLVHAGFGLTEAPEIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       375 ~~~l~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l  454 (647)
                      -+.+...+..++.+|..  +.+|+.|++.+|.++.++..+   +.|++|++++| .+..+| .++.+++|++|++++|.+
T Consensus        60 L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l~~l~~lp---~~L~~L~L~~n-~l~~lp-~~~~l~~L~~L~l~~~~~  132 (353)
T d1jl5a_          60 LESLVASCNSLTELPEL--PQSLKSLLVDNNNLKALSDLP---PLLEYLGVSNN-QLEKLP-ELQNSSFLKIIDVDNNSL  132 (353)
T ss_dssp             CSEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCSCC---TTCCEEECCSS-CCSSCC-CCTTCTTCCEEECCSSCC
T ss_pred             CCEEECCCCCCcccccc--hhhhhhhhhhhcccchhhhhc---ccccccccccc-cccccc-chhhhccceeeccccccc
Confidence            45566677778888764  468999999999888776432   35888999999 677888 468899999999999888


Q ss_pred             CccccchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEecccc
Q 039519          455 THLPIDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLRMFDC  500 (647)
Q Consensus       455 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~l~~~  500 (647)
                      ...|...   ..+..+.+..+ .......  ++.++.++.|.+.+.
T Consensus       133 ~~~~~~~---~~l~~l~~~~~-~~~~~~~--l~~l~~l~~L~l~~n  172 (353)
T d1jl5a_         133 KKLPDLP---PSLEFIAAGNN-QLEELPE--LQNLPFLTAIYADNN  172 (353)
T ss_dssp             SCCCCCC---TTCCEEECCSS-CCSSCCC--CTTCTTCCEEECCSS
T ss_pred             ccccccc---ccccchhhccc-ccccccc--ccccccceecccccc
Confidence            8776543   34555666554 2222222  556667777765543

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.09  E-value=8.2e-11  Score=107.98  Aligned_cols=126  Identities=11%  Similarity=0.160  Sum_probs=103.1

Q ss_pred             EEEEeecccccccccCCCCcceeeEEeccCccccc-cC-ccccccccCCCeeeecCCCCCccc-cchhcCccCcEEeecc
Q 039519          398 RRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLW-KL-PLGISTLVSLEHLDLSSTAITHLP-IDLQKLVNLKCLNLQY  474 (647)
Q Consensus       398 ~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~-~l-p~~~~~L~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~  474 (647)
                      +.++.++++++.+|..++  +.+++|+|++| .+. .+ +..|..+++|+.|+|++|.+..++ ..+..+++|++|++++
T Consensus        11 ~~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N-~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEEeCCCcCccCCCCC--CCCCEEEeCCC-CCcccccccccCCCceEeeeeccccccccccccccccccccceeeecc
Confidence            367888999999987664  57899999999 554 34 445789999999999999999665 6788899999999999


Q ss_pred             cccCCcCchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchh
Q 039519          475 MYNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       475 ~~~l~~lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  541 (647)
                      | .+..+|.+.|..+++|++|++.   .|++.++++++           +..+++|++|+++.|...
T Consensus        88 N-~l~~l~~~~F~~l~~L~~L~L~---~N~l~~i~~~~-----------f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          88 N-KIKEISNKMFLGLHQLKTLNLY---DNQISCVMPGS-----------FEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             C-CCCEECSSSSTTCTTCCEEECC---SSCCCEECTTS-----------STTCTTCCEEECTTCCBC
T ss_pred             c-cccccCHHHHhCCCcccccccC---CccccccCHHH-----------hcCCcccccccccccccc
Confidence            9 8899998778999999999666   47776666554           567889999999876653

>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=99.09  E-value=2.2e-12  Score=119.17  Aligned_cols=118  Identities=20%  Similarity=0.221  Sum_probs=75.8

Q ss_pred             ccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcEEeecccccCCcCchhhh
Q 039519          407 IENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKCLNLQYMYNLNQFPRLVI  486 (647)
Q Consensus       407 i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~i  486 (647)
                      ++.++..+..|++|++|++++| .+..++ .+..+++|++|++++|.++.+|.....+++|++|++++| .+..++.  +
T Consensus        37 i~~l~~sl~~L~~L~~L~Ls~n-~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~~--~  111 (198)
T d1m9la_          37 IEKMDATLSTLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLSG--I  111 (198)
T ss_dssp             CCCCHHHHHHTTTCCEEECSEE-EESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEE-ECCCHHH--H
T ss_pred             hhhhhhHHhcccccceeECccc-CCCCcc-cccCCccccChhhcccccccccccccccccccccccccc-ccccccc--c
Confidence            4444445566667777777777 566665 577777777777777777777755555667777777777 5666654  5


Q ss_pred             cCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchhh
Q 039519          487 SAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQA  542 (647)
Q Consensus       487 ~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  542 (647)
                      ..+++|+.|++.++   ++.          ....+..++.+++|+.|+++.|.+..
T Consensus       112 ~~l~~L~~L~L~~N---~i~----------~~~~~~~l~~l~~L~~L~L~~N~l~~  154 (198)
T d1m9la_         112 EKLVNLRVLYMSNN---KIT----------NWGEIDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             HHHHHSSEEEESEE---ECC----------CHHHHHHHTTTTTCSEEEECSSHHHH
T ss_pred             cccccccccccccc---hhc----------cccccccccCCCccceeecCCCcccc
Confidence            66777777766543   221          11123456777777777777665443

>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=98.94  E-value=2.4e-11  Score=111.97  Aligned_cols=137  Identities=19%  Similarity=0.235  Sum_probs=103.5

Q ss_pred             cccccccEEEEEeecccccccccCCCCcceeeEEeccCccccccCccccccccCCCeeeecCCCCCccccchhcCccCcE
Q 039519          390 EIQNWRNVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLPIDLQKLVNLKC  469 (647)
Q Consensus       390 ~~~~~~~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp~~~~~l~~L~~  469 (647)
                      .+..+++|++|++++|.|+.++ .+.++++|++|++++| .+..+|..+..+++|++|++++|.++.++ .+..+++|++
T Consensus        43 sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~  119 (198)
T d1m9la_          43 TLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRV  119 (198)
T ss_dssp             HHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSE
T ss_pred             HHhcccccceeECcccCCCCcc-cccCCccccChhhccc-ccccccccccccccccccccccccccccc-cccccccccc
Confidence            4667889999999999999886 4578899999999999 78888866667788999999999999886 5889999999


Q ss_pred             EeecccccCCcCch-hhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          470 LNLQYMYNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       470 L~l~~~~~l~~lp~-~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                      |++++| .+..++. ..++.+++|+.|++.+   |++...+..... ........+..+++|+.|+
T Consensus       120 L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~---N~l~~~~~~~~~-~~~~r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         120 LYMSNN-KITNWGEIDKLAALDKLEDLLLAG---NPLYNDYKENNA-TSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             EEESEE-ECCCHHHHHHHTTTTTCSEEEECS---SHHHHHHCTTTT-HHHHHHHHHHHCSSCCEES
T ss_pred             cccccc-hhccccccccccCCCccceeecCC---CccccCcccccc-hhhHHHHHHHHCCCcCEeC
Confidence            999998 7777764 2378899999997764   555443332100 0011112256677777765

>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=98.82  E-value=4.8e-09  Score=92.13  Aligned_cols=102  Identities=16%  Similarity=0.158  Sum_probs=75.8

Q ss_pred             cEEEEEeecccccccccCCCCcceeeEEeccCccccccCcc-ccccccCCCeeeecCCCCCccc-cchhcCccCcEEeec
Q 039519          396 NVRRMSLMKNKIENLSELQPALTFFLFFNMSNNHLLWKLPL-GISTLVSLEHLDLSSTAITHLP-IDLQKLVNLKCLNLQ  473 (647)
Q Consensus       396 ~l~~L~l~~n~i~~l~~~~~~l~~L~~L~l~~~~~~~~lp~-~~~~L~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~  473 (647)
                      ....++..++.+...|..++.+++|+.|++++++.++.++. .|.++++|+.|++++|+|+.++ ..|..+++|++|+|+
T Consensus         9 ~~~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3           9 GSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             SSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            33446677777777777778888888888876645766654 4788888888888888888875 557788888888888


Q ss_pred             ccccCCcCchhhhcCCCCCcEEeccc
Q 039519          474 YMYNLNQFPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       474 ~~~~l~~lp~~~i~~l~~L~~L~l~~  499 (647)
                      +| .+..+|.+.+. ..+|++|++.+
T Consensus        89 ~N-~l~~l~~~~~~-~~~l~~L~L~~  112 (156)
T d2ifga3          89 FN-ALESLSWKTVQ-GLSLQELVLSG  112 (156)
T ss_dssp             SS-CCSCCCSTTTC-SCCCCEEECCS
T ss_pred             CC-CCcccChhhhc-cccccccccCC
Confidence            88 77888887443 33677776654

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.58  E-value=5e-08  Score=97.73  Aligned_cols=234  Identities=17%  Similarity=0.111  Sum_probs=126.9

Q ss_pred             ccccccEEEEEeecccccc-----cccCCCCcceeeEEeccCccccccC-----------ccccccccCCCeeeecCCCC
Q 039519          391 IQNWRNVRRMSLMKNKIEN-----LSELQPALTFFLFFNMSNNHLLWKL-----------PLGISTLVSLEHLDLSSTAI  454 (647)
Q Consensus       391 ~~~~~~l~~L~l~~n~i~~-----l~~~~~~l~~L~~L~l~~~~~~~~l-----------p~~~~~L~~L~~L~L~~~~l  454 (647)
                      +....+++.|+|++|.+..     +...+...+.|+.|+++++ .....           ...+...++|+.|+|++|.+
T Consensus        27 L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~-~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i  105 (344)
T d2ca6a1          27 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF  105 (344)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC
T ss_pred             HhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCC-cccccccccchHHHHHHHHHhhCCCccccccccccc
Confidence            4445778889998887743     3444566678888888876 22221           12345567899999998877


Q ss_pred             Cc-----cccchhcCccCcEEeecccccCCcCc-----hh--------hhcCCCCCcEEeccccCCCcccccccccccCC
Q 039519          455 TH-----LPIDLQKLVNLKCLNLQYMYNLNQFP-----RL--------VISAFSKLQVLRMFDCGGSKIERLKSNVLFGG  516 (647)
Q Consensus       455 ~~-----lp~~~~~l~~L~~L~l~~~~~l~~lp-----~~--------~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~  516 (647)
                      ..     +...+..+++|++|++++| .+..-.     ..        .......|+.|.+.+   |.+..-       .
T Consensus       106 ~~~~~~~l~~~l~~~~~L~~L~l~~n-~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~---n~i~~~-------~  174 (344)
T d2ca6a1         106 GPTAQEPLIDFLSKHTPLEHLYLHNN-GLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGR---NRLENG-------S  174 (344)
T ss_dssp             CTTTHHHHHHHHHHCTTCCEEECCSS-CCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCS---SCCTGG-------G
T ss_pred             ccccccchhhhhcccccchheecccc-cccccccccccccccccccccccccCcccceeeccc---cccccc-------c
Confidence            63     4445567788999999887 222100     00        012455677776554   322100       0


Q ss_pred             ccccHHHhhCCCCCcEEEEEecchhhH--HH-HhhhhhhhhccceeeeeccCCCceEEE----ecccccCCccEEEEcCC
Q 039519          517 HQVLVEELIGMKYLMAVTITLKRLQAL--QE-LLISQELQRCTQFLFLRCFNDSKSLDI----FCLACLHNLNKLYVAGC  589 (647)
Q Consensus       517 ~~~~~~~l~~l~~L~~L~l~~~~~~~l--~~-l~~~~~~~~~l~~l~L~~~~~L~~L~l----~~~~~l~~L~~L~L~~~  589 (647)
                      .......+...++|+.|+++.|.++.-  .. +.......++|+.|+|++. .+..-..    ..+...++|++|+|++|
T Consensus       175 ~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N-~i~~~g~~~L~~~l~~~~~L~~L~Ls~n  253 (344)
T d2ca6a1         175 MKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDN-TFTHLGSSALAIALKSWPNLRELGLNDC  253 (344)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSS-CCHHHHHHHHHHHGGGCTTCCEEECTTC
T ss_pred             cccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccc-cccccccccccccccccccchhhhhhcC
Confidence            112233455677888888877765431  11 1111222334555555441 2111000    11566778888888887


Q ss_pred             CCCCC-Chh----hcc--ccCCceEEeecccccccccchhhhh-----hhcCCCCcccCCCC
Q 039519          590 KHLED-FQM----IIQ--RSSLSVHNLFINKNYIHTNQLSILL-----GINRLPHFTKSNPY  639 (647)
Q Consensus       590 ~~~~~-~~~----~~~--l~~L~~L~L~~~~~~~~~~~~~~l~-----~l~~L~~L~~~~~~  639 (647)
                      ..... ...    +..  .+.|++|+|++|  .++......+.     ++++|++|+..+..
T Consensus       254 ~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N--~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         254 LLSARGAAAVVDAFSKLENIGLQTLRLQYN--EIELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             CCCHHHHHHHHHHHHTCSSCCCCEEECCSS--CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             ccCchhhHHHHHHhhhccCCCCCEEECCCC--cCChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence            54321 111    222  245888888874  34443333322     35667777665544

>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=98.51  E-value=9.8e-08  Score=83.48  Aligned_cols=99  Identities=15%  Similarity=0.067  Sum_probs=80.5

Q ss_pred             eEEecCCCcccC-ccccccccEEEEEeecc-cccccccC-CCCcceeeEEeccCccccccCc-cccccccCCCeeeecCC
Q 039519          377 FLVHAGFGLTEA-PEIQNWRNVRRMSLMKN-KIENLSEL-QPALTFFLFFNMSNNHLLWKLP-LGISTLVSLEHLDLSST  452 (647)
Q Consensus       377 ~l~~~~~~~~~~-~~~~~~~~l~~L~l~~n-~i~~l~~~-~~~l~~L~~L~l~~~~~~~~lp-~~~~~L~~L~~L~L~~~  452 (647)
                      .+.+.+.+.... ..+..++++++|++.+| .++.++.. +.++++|+.|++++| .+..++ ..|..+++|++|+|++|
T Consensus        12 ~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   90 (156)
T d2ifga3          12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFN   90 (156)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSS
T ss_pred             eEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeecc-ccCCcccccccccccccceeccCC
Confidence            355556555554 34566789999999766 58888754 688999999999999 677774 55899999999999999


Q ss_pred             CCCccccchhcCccCcEEeecccc
Q 039519          453 AITHLPIDLQKLVNLKCLNLQYMY  476 (647)
Q Consensus       453 ~l~~lp~~~~~l~~L~~L~l~~~~  476 (647)
                      +++.+|..+....+|+.|+|++|+
T Consensus        91 ~l~~l~~~~~~~~~l~~L~L~~Np  114 (156)
T d2ifga3          91 ALESLSWKTVQGLSLQELVLSGNP  114 (156)
T ss_dssp             CCSCCCSTTTCSCCCCEEECCSSC
T ss_pred             CCcccChhhhccccccccccCCCc
Confidence            999999887777789999999983

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.17  E-value=9.3e-07  Score=91.45  Aligned_cols=82  Identities=18%  Similarity=0.196  Sum_probs=50.0

Q ss_pred             ccccEEEEEeecccccc-----cccCCCCcceeeEEeccCcccccc-----Cccccc-cccCCCeeeecCCCCCc-----
Q 039519          393 NWRNVRRMSLMKNKIEN-----LSELQPALTFFLFFNMSNNHLLWK-----LPLGIS-TLVSLEHLDLSSTAITH-----  456 (647)
Q Consensus       393 ~~~~l~~L~l~~n~i~~-----l~~~~~~l~~L~~L~l~~~~~~~~-----lp~~~~-~L~~L~~L~L~~~~l~~-----  456 (647)
                      .+++++.|+|.+|+++.     +...+..+++|+.|+|++| .++.     +...+. ...+|++|+|++|.++.     
T Consensus        25 ~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~  103 (460)
T d1z7xw1          25 LLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGV  103 (460)
T ss_dssp             HHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             hCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCC-cCChHHHHHHHHHHhcCCCCCCEEECCCCCcccccccc
Confidence            35667777777777653     2333355667777888777 4432     122221 12467888888777753     


Q ss_pred             cccchhcCccCcEEeeccc
Q 039519          457 LPIDLQKLVNLKCLNLQYM  475 (647)
Q Consensus       457 lp~~~~~l~~L~~L~l~~~  475 (647)
                      ++..+..+++|++|++++|
T Consensus       104 l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1         104 LSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             HHHHTTSCTTCCEEECCSS
T ss_pred             ccchhhccccccccccccc
Confidence            3455667777888887776

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.13  E-value=1.6e-06  Score=86.46  Aligned_cols=217  Identities=12%  Similarity=0.017  Sum_probs=131.9

Q ss_pred             CCcceeeEEeccCccccc-----cCccccccccCCCeeeecCCCCCcc-----------ccchhcCccCcEEeecccccC
Q 039519          415 PALTFFLFFNMSNNHLLW-----KLPLGISTLVSLEHLDLSSTAITHL-----------PIDLQKLVNLKCLNLQYMYNL  478 (647)
Q Consensus       415 ~~l~~L~~L~l~~~~~~~-----~lp~~~~~L~~L~~L~L~~~~l~~l-----------p~~~~~l~~L~~L~l~~~~~l  478 (647)
                      .+.+.++.|+|++| .+.     .+...+...++|+.|+++++.....           ...+..+++|+.|+|++| .+
T Consensus        28 ~~~~~l~~L~Ls~n-~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n-~i  105 (344)
T d2ca6a1          28 LEDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDN-AF  105 (344)
T ss_dssp             HHCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSC-CC
T ss_pred             hhCCCCCEEECcCC-cCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccc-cc
Confidence            44567999999998 442     2344567789999999998754422           223456789999999998 44


Q ss_pred             Cc-----CchhhhcCCCCCcEEeccccCCCcccccccccc-cCC-ccccHHHhhCCCCCcEEEEEecchh--hHHHHhhh
Q 039519          479 NQ-----FPRLVISAFSKLQVLRMFDCGGSKIERLKSNVL-FGG-HQVLVEELIGMKYLMAVTITLKRLQ--ALQELLIS  549 (647)
Q Consensus       479 ~~-----lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~-~~~-~~~~~~~l~~l~~L~~L~l~~~~~~--~l~~l~~~  549 (647)
                      ..     +... +...++|++|++.++   .+........ ... ...........+.|+.+.++.+.++  +...+...
T Consensus       106 ~~~~~~~l~~~-l~~~~~L~~L~l~~n---~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~  181 (344)
T d2ca6a1         106 GPTAQEPLIDF-LSKHTPLEHLYLHNN---GLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKT  181 (344)
T ss_dssp             CTTTHHHHHHH-HHHCTTCCEEECCSS---CCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHH
T ss_pred             ccccccchhhh-hcccccchheecccc---cccccccccccccccccccccccccCcccceeecccccccccccccccch
Confidence            43     3332 456789999988754   3311000000 000 0001112345678999998877653  34444444


Q ss_pred             hhhhhccceeeeeccCCCceEE-----EecccccCCccEEEEcCCCCCCC----C-hhhccccCCceEEeeccccccccc
Q 039519          550 QELQRCTQFLFLRCFNDSKSLD-----IFCLACLHNLNKLYVAGCKHLED----F-QMIIQRSSLSVHNLFINKNYIHTN  619 (647)
Q Consensus       550 ~~~~~~l~~l~L~~~~~L~~L~-----l~~~~~l~~L~~L~L~~~~~~~~----~-~~~~~l~~L~~L~L~~~~~~~~~~  619 (647)
                      ......++.+.|+++ ++..-.     ...+..+++|+.|+|++|.+...    + +.+...++|++|+|++|.  ++..
T Consensus       182 l~~~~~L~~L~L~~n-~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~--i~~~  258 (344)
T d2ca6a1         182 FQSHRLLHTVKMVQN-GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL--LSAR  258 (344)
T ss_dssp             HHHCTTCCEEECCSS-CCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC--CCHH
T ss_pred             hhhhhhhcccccccc-cccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCc--cCch
Confidence            444456778887763 333210     12367789999999999864221    2 236788999999999964  5444


Q ss_pred             chhhhh----h--hcCCCCcccCCCCc
Q 039519          620 QLSILL----G--INRLPHFTKSNPYH  640 (647)
Q Consensus       620 ~~~~l~----~--l~~L~~L~~~~~~~  640 (647)
                      ....+.    .  .+.|+.|+.++..+
T Consensus       259 g~~~l~~~l~~~~~~~L~~L~ls~N~i  285 (344)
T d2ca6a1         259 GAAAVVDAFSKLENIGLQTLRLQYNEI  285 (344)
T ss_dssp             HHHHHHHHHHTCSSCCCCEEECCSSCC
T ss_pred             hhHHHHHHhhhccCCCCCEEECCCCcC
Confidence            444332    2  25688887776643

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=2.3e-06  Score=88.44  Aligned_cols=36  Identities=22%  Similarity=0.275  Sum_probs=21.7

Q ss_pred             ccCCccEEEEcCCCCCCC----Ch-hhccccCCceEEeecc
Q 039519          577 CLHNLNKLYVAGCKHLED----FQ-MIIQRSSLSVHNLFIN  612 (647)
Q Consensus       577 ~l~~L~~L~L~~~~~~~~----~~-~~~~l~~L~~L~L~~~  612 (647)
                      ..+.|++|+|++|.+...    +. .+...++|++|+|++|
T Consensus       367 ~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~N  407 (460)
T d1z7xw1         367 PGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNN  407 (460)
T ss_dssp             TTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSS
T ss_pred             ccCCCCEEECCCCCCChHHHHHHHHHHhcCCCCCEEECCCC
Confidence            345677888877754321    11 2445677888888774

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.96  E-value=5e-06  Score=79.73  Aligned_cols=32  Identities=13%  Similarity=0.120  Sum_probs=27.9

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      +.||||+++++++.+.    ..++|.|+|.+|+|||
T Consensus        12 ~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKT   43 (283)
T d2fnaa2          12 KDFFDREKEIEKLKGL----RAPITLVLGLRRTGKS   43 (283)
T ss_dssp             GGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHH
T ss_pred             hhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHH
Confidence            7799999999988763    4578999999999999

>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=97.60  E-value=2.2e-06  Score=75.08  Aligned_cols=58  Identities=28%  Similarity=0.250  Sum_probs=24.0

Q ss_pred             cceeeEEeccCccccccCc---cccccccCCCeeeecCCCCCcccc-chhcCccCcEEeeccc
Q 039519          417 LTFFLFFNMSNNHLLWKLP---LGISTLVSLEHLDLSSTAITHLPI-DLQKLVNLKCLNLQYM  475 (647)
Q Consensus       417 l~~L~~L~l~~~~~~~~lp---~~~~~L~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~  475 (647)
                      ++.|++|++++| .+..++   ..+..+++|++|+|++|.|+.+++ ......+|+.|++++|
T Consensus        64 ~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~N  125 (162)
T d1koha1          64 IPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGN  125 (162)
T ss_dssp             CTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTS
T ss_pred             CCCCCEeeCCCc-cccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCC
Confidence            334444455544 333322   223344445555555554444432 1112233444444444

>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=97.47  E-value=1e-05  Score=70.75  Aligned_cols=106  Identities=21%  Similarity=0.126  Sum_probs=66.0

Q ss_pred             eeEEeccCccccccCccccccccCCCeeeecCCCCCccc---cchhcCccCcEEeecccccCCcCchhhhcCCCCCcEEe
Q 039519          420 FLFFNMSNNHLLWKLPLGISTLVSLEHLDLSSTAITHLP---IDLQKLVNLKCLNLQYMYNLNQFPRLVISAFSKLQVLR  496 (647)
Q Consensus       420 L~~L~l~~~~~~~~lp~~~~~L~~L~~L~L~~~~l~~lp---~~~~~l~~L~~L~l~~~~~l~~lp~~~i~~l~~L~~L~  496 (647)
                      +..++...+ ....++.....+++|++|+|++|+|+.++   ..+..+++|+.|++++| .+..++.-......+|+.|+
T Consensus        44 ~~~l~~~~~-~~~~l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~l~~l~~l~~~~L~~L~  121 (162)
T d1koha1          44 DVVLNRRSS-MAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELW  121 (162)
T ss_dssp             CCCTTSHHH-HHHHHHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCSSCC
T ss_pred             hhhcchhhh-HhhhhHHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccC-ccccchhhhhhhccccceee
Confidence            344444444 44444444467899999999999998664   45678999999999998 78888873233445677775


Q ss_pred             ccccCCCcccccccccccCCccccHHHhhCCCCCcEEE
Q 039519          497 MFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVT  534 (647)
Q Consensus       497 l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  534 (647)
                      +.   +|.+.......    .......+..+++|+.|+
T Consensus       122 L~---~Npl~~~~~~~----~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         122 LD---GNSLSDTFRDQ----STYISAIRERFPKLLRLD  152 (162)
T ss_dssp             CT---TSTTSSSSSSH----HHHHHHHHTTSTTCCEET
T ss_pred             cC---CCCcCcCcccc----hhHHHHHHHHCCCCCEEC
Confidence            55   45542211100    111122355667777664

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.31  E-value=0.00038  Score=65.09  Aligned_cols=118  Identities=19%  Similarity=0.319  Sum_probs=70.3

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC---------------CCC-cceEEE-EEEcCccCHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA---------------PND-FDVVIW-MVVSKDLQLEKIQERIGR  138 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT---------------~~~-F~~~~w-v~~s~~~~~~~~~~~i~~  138 (647)
                      ++.||||++++++...|....-.-+.++|.+|+|||               ... ....+| ++++.-            
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l------------   85 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL------------   85 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH------------
Confidence            357999999999999998655556669999999999               011 122333 222210            


Q ss_pred             HhCCCCcCCCCCCHHHHHHHHHHHhc-cCCeeEEEecCCCcc----------ccccccCCCCCCCCCcEEEEecCchHHh
Q 039519          139 RIGFLDESWKNGSLEDKASDIFRILS-KKKLLLLLDDIWERV----------DLTKVGVPFPDPENKSRIDFTTRFLEIC  207 (647)
Q Consensus       139 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~~r~LlVlDdv~~~~----------~~~~l~~~~~~~~~gs~IivTTR~~~v~  207 (647)
                       +.   ......+.++....+.+.+. ..++++++|++..-.          +...+..|.-..| .-++|.||..++..
T Consensus        86 -ia---g~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg-~i~vIgatT~eey~  160 (268)
T d1r6bx2          86 -LA---GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTYQEFS  160 (268)
T ss_dssp             --C---CCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-CCEEEEEECHHHHH
T ss_pred             -hc---cCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCC-CCeEEEeCCHHHHH
Confidence             00   00123456666665555554 467899999986531          1233333332222 45788888877775


Q ss_pred             hhc
Q 039519          208 SAM  210 (647)
Q Consensus       208 ~~~  210 (647)
                      ...
T Consensus       161 ~~~  163 (268)
T d1r6bx2         161 NIF  163 (268)
T ss_dssp             CCC
T ss_pred             HHH
Confidence            443

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=97.30  E-value=0.001  Score=62.65  Aligned_cols=102  Identities=14%  Similarity=0.099  Sum_probs=72.3

Q ss_pred             CCcccchHHHHHHHHHhhh------CCceEEEEEccCccCCC----------CCCcc-eEEEEEEcCccCHHHHHHHHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE------EQVGIIGLYGMGGLLGA----------PNDFD-VVIWMVVSKDLQLEKIQERIGR  138 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~------~~~~vi~I~G~gGiGKT----------~~~F~-~~~wv~~s~~~~~~~~~~~i~~  138 (647)
                      ..++|||.++++|.++|..      ...+.+.|+|++|+|||          ...+. ..+|+..........+...+..
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIAR   95 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhHH
Confidence            4589999999999998863      34578899999999999          22232 4566666677788888888888


Q ss_pred             HhCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCCc
Q 039519          139 RIGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWER  178 (647)
Q Consensus       139 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~~  178 (647)
                      ..+.... ............+.+.+.  .....+++|++++.
T Consensus        96 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~  136 (276)
T d1fnna2          96 SLNIPFP-RRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL  136 (276)
T ss_dssp             HTTCCCC-SSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             hhhhhhh-hhccchhHHHHHHHHHHhhcccccccchhHHHHh
Confidence            8765432 133455666666666553  35677888888764

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.90  E-value=0.0013  Score=62.27  Aligned_cols=101  Identities=16%  Similarity=0.081  Sum_probs=68.1

Q ss_pred             CCcccchHHHHHHHHHhhh----C-----CceEEEEEccCccCCC----------------CCCcceEEEEEEcCccCHH
Q 039519           76 EPTVGLESTFDKVRRCLRE----E-----QVGIIGLYGMGGLLGA----------------PNDFDVVIWMVVSKDLQLE  130 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~----~-----~~~vi~I~G~gGiGKT----------------~~~F~~~~wv~~s~~~~~~  130 (647)
                      +.++||+.++++|.+.+..    +     ...++.++|++|+|||                ........++.........
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            5689999999999887642    1     1224667899999999                1112345667777777778


Q ss_pred             HHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhc--cCCeeEEEecCCC
Q 039519          131 KIQERIGRRIGFLDESWKNGSLEDKASDIFRILS--KKKLLLLLDDIWE  177 (647)
Q Consensus       131 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~~r~LlVlDdv~~  177 (647)
                      .....+...++.... ............+.+..+  +...++++|.++.
T Consensus        96 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~  143 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQ-VRGAPALDILKALVDNLYVENHYLLVILDEFQS  143 (287)
T ss_dssp             HHHHHHHHHHTCCCC-CTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHH
T ss_pred             hHHHHHhhhcccccc-cccchHHHHHHHHHHHHHhccCccccceeEEEE
Confidence            888888887765432 134455666666666553  4567788887764

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.002  Score=56.64  Aligned_cols=36  Identities=17%  Similarity=0.272  Sum_probs=31.1

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ++.||||++++++...|...+-.-+.++|.+|+|||
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKT   57 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKT   57 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccH
Confidence            357999999999999998755556779999999999

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.51  E-value=0.0018  Score=63.96  Aligned_cols=36  Identities=19%  Similarity=0.259  Sum_probs=29.6

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      +++||||.+++++.+.|...+-.-+.++|.+|+|||
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKt   57 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKT   57 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHH
Confidence            358999999999999998643344467899999999

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.44  E-value=0.00076  Score=61.75  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=32.2

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+||.++.++++.+++.++...-+-++|++|+|||
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKT   50 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKT   50 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCch
Confidence            568999999999999999877766779999999999

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.0016  Score=60.08  Aligned_cols=36  Identities=17%  Similarity=0.124  Sum_probs=31.0

Q ss_pred             CCcccchHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.++.+.+++..++ ...+-++|.+|+|||
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKt   48 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKT   48 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHH
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHH
Confidence            568999999999999998765 356789999999999

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.34  E-value=0.00085  Score=61.49  Aligned_cols=36  Identities=19%  Similarity=0.310  Sum_probs=31.8

Q ss_pred             CCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ..+||.++.++++.+++..+....+-++|++|+|||
T Consensus        14 ~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKt   49 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKT   49 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChh
Confidence            568999999999999998877666779999999999

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.27  E-value=0.0064  Score=56.10  Aligned_cols=36  Identities=8%  Similarity=-0.110  Sum_probs=26.6

Q ss_pred             CCcccchHHHHHHHHHhh-------h---CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLR-------E---EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~-------~---~~~~vi~I~G~gGiGKT  111 (647)
                      ..+||..++++.+.+.+.       .   ...+-|-++|.+|+|||
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT   54 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKT   54 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHH
Confidence            457888888777766543       1   23456789999999999

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.17  E-value=0.0014  Score=60.21  Aligned_cols=37  Identities=14%  Similarity=0.226  Sum_probs=33.6

Q ss_pred             CCCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           75 CEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        75 ~~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ...+||.+..++++..++..+...-+-++|.+|+|||
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKT   59 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKT   59 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHH
Confidence            4678999999999999999888777889999999999

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.09  E-value=0.0012  Score=60.88  Aligned_cols=37  Identities=11%  Similarity=0.221  Sum_probs=32.5

Q ss_pred             CCCcccchHHHHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           75 CEPTVGLESTFDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        75 ~~~~vGr~~~~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      ...++|.+..++.+.+++.......+-++|.+|+|||
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKT   47 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKT   47 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChH
Confidence            3668999999999999998877666889999999999

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.03  E-value=0.0044  Score=53.49  Aligned_cols=115  Identities=17%  Similarity=0.099  Sum_probs=65.1

Q ss_pred             cceeeEEeccCcccccc-----CccccccccCCCeeeecCCCCC-----ccccchhcCccCcEEeecccccCCcC-----
Q 039519          417 LTFFLFFNMSNNHLLWK-----LPLGISTLVSLEHLDLSSTAIT-----HLPIDLQKLVNLKCLNLQYMYNLNQF-----  481 (647)
Q Consensus       417 l~~L~~L~l~~~~~~~~-----lp~~~~~L~~L~~L~L~~~~l~-----~lp~~~~~l~~L~~L~l~~~~~l~~l-----  481 (647)
                      .+.|+.|+|++++.++.     +-..+...++|++|+|++|.+.     .+...+...+.|++|+|++| .+..-     
T Consensus        14 ~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n-~i~~~g~~~l   92 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN-FLTPELLARL   92 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehh-hcchHHHHHH
Confidence            34567777765422221     2223455667888888888775     22234456677888888887 33321     


Q ss_pred             chhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecch
Q 039519          482 PRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRL  540 (647)
Q Consensus       482 p~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  540 (647)
                      -. .+..-++|++|++.+...+.+   ...    ........+...+.|+.|+++++..
T Consensus        93 ~~-aL~~n~sL~~L~l~~n~~~~~---g~~----~~~~l~~~L~~n~sL~~l~l~~~~~  143 (167)
T d1pgva_          93 LR-STLVTQSIVEFKADNQRQSVL---GNQ----VEMDMMMAIEENESLLRVGISFASM  143 (167)
T ss_dssp             HH-HTTTTCCCSEEECCCCSSCCC---CHH----HHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             HH-HHHhCCcCCEEECCCCcCCCc---cHH----HHHHHHHHHHhCCCccEeeCcCCCc
Confidence            11 145556788887765544322   000    0122344566778888888876544

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.38  E-value=0.01  Score=53.36  Aligned_cols=149  Identities=15%  Similarity=0.086  Sum_probs=71.9

Q ss_pred             eEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHhccCC
Q 039519           98 GIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESWKNGSLEDKASDIFRILSKKK  167 (647)
Q Consensus        98 ~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~r  167 (647)
                      ..+.|||.+|+|||          ......+++++.      .++...+...+...       ...    .+.+.++ .-
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~-------~~~----~~~~~~~-~~   98 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSA------DDFAQAMVEHLKKG-------TIN----EFRNMYK-SV   98 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEH------HHHHHHHHHHHHHT-------CHH----HHHHHHH-TC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccCccceEEech------HHHHHHHHHHHHcc-------chh----hHHHHHh-hc
Confidence            44789999999999          222234444433      34444444443211       111    2222222 45


Q ss_pred             eeEEEecCCCc---cccccc-cCCCCC-CCCCcEEEEecCchHH---------hhhcccceeEeccccccCCCChHHHHH
Q 039519          168 LLLLLDDIWER---VDLTKV-GVPFPD-PENKSRIDFTTRFLEI---------CSAMQAHEFLKVEDVLKNHPNIPELAR  233 (647)
Q Consensus       168 ~LlVlDdv~~~---~~~~~l-~~~~~~-~~~gs~IivTTR~~~v---------~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (647)
                      -+|++||+...   ..|+.. ...+.. ...|.+||+||+...-         ...+.....+.++ .  ++....++.+
T Consensus        99 dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p--~d~~~~~iL~  175 (213)
T d1l8qa2          99 DLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-L--DNKTRFKIIK  175 (213)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-C--CHHHHHHHHH
T ss_pred             cchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-C--CcHHHHHHHH
Confidence            68899999753   233321 111111 1357789999985322         2223333333331 1  1122233444


Q ss_pred             HHHHHhcCCchhHHHHhhHhhcCCCHhHHHHHHHH
Q 039519          234 SVAQECAGLPLALITIGRVMACKKTPQEWHYAIQV  268 (647)
Q Consensus       234 ~i~~~c~glPLai~~~g~~l~~~~~~~~w~~~~~~  268 (647)
                      +.++ -.|+.+.=.++--.+...++..+.+.+++.
T Consensus       176 ~~a~-~rgl~l~~~v~~yl~~~~~~~R~L~~~l~~  209 (213)
T d1l8qa2         176 EKLK-EFNLELRKEVIDYLLENTKNVREIEGKIKL  209 (213)
T ss_dssp             HHHH-HTTCCCCHHHHHHHHHHCSSHHHHHHHHHH
T ss_pred             HHHH-HcCCCCCHHHHHHHHHhcCcHHHHHHHHHH
Confidence            4443 257877766665555432344444444443

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.35  E-value=0.0036  Score=58.07  Aligned_cols=36  Identities=14%  Similarity=0.080  Sum_probs=28.7

Q ss_pred             CCcccchHHHHHHHHHhhhC-CceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLREE-QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~~-~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++..++|.+++... ...-+.++|++|+|||
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKT   47 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKK   47 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHH
Confidence            56899999888888877653 3444669999999999

>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=95.05  E-value=0.0065  Score=52.35  Aligned_cols=104  Identities=14%  Similarity=0.061  Sum_probs=70.1

Q ss_pred             cccEEEEEeecc-cccc-----cccCCCCcceeeEEeccCccccc-----cCccccccccCCCeeeecCCCCCc-----c
Q 039519          394 WRNVRRMSLMKN-KIEN-----LSELQPALTFFLFFNMSNNHLLW-----KLPLGISTLVSLEHLDLSSTAITH-----L  457 (647)
Q Consensus       394 ~~~l~~L~l~~n-~i~~-----l~~~~~~l~~L~~L~l~~~~~~~-----~lp~~~~~L~~L~~L~L~~~~l~~-----l  457 (647)
                      .++++.|+|+++ .+..     +-..+...+.|+.|++++| .++     .+...+...+.|+.|+|++|.+..     +
T Consensus        14 ~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n-~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeecccc-ccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            468999999874 4543     2222355678999999998 443     223345566889999999998872     3


Q ss_pred             ccchhcCccCcEEeecccccCCcCchh-------hhcCCCCCcEEeccc
Q 039519          458 PIDLQKLVNLKCLNLQYMYNLNQFPRL-------VISAFSKLQVLRMFD  499 (647)
Q Consensus       458 p~~~~~l~~L~~L~l~~~~~l~~lp~~-------~i~~l~~L~~L~l~~  499 (647)
                      -..+...++|++|++++| ....+...       .+..-++|+.|++..
T Consensus        93 ~~aL~~n~sL~~L~l~~n-~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~  140 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQ-RQSVLGNQVEMDMMMAIEENESLLRVGISF  140 (167)
T ss_dssp             HHHTTTTCCCSEEECCCC-SSCCCCHHHHHHHHHHHHHCSSCCEEECCC
T ss_pred             HHHHHhCCcCCEEECCCC-cCCCccHHHHHHHHHHHHhCCCccEeeCcC
Confidence            345667788999999887 43444311       245567888886643

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=94.87  E-value=0.028  Score=51.87  Aligned_cols=83  Identities=11%  Similarity=0.054  Sum_probs=49.7

Q ss_pred             CCcccchHHHHHHHHHhh---h---------CCceEEEEEccCccCCCCCCcceEEEEEEcCccCHHHHHHHHHHHhCCC
Q 039519           76 EPTVGLESTFDKVRRCLR---E---------EQVGIIGLYGMGGLLGAPNDFDVVIWMVVSKDLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~---~---------~~~~vi~I~G~gGiGKT~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  143 (647)
                      ..++|.|+.+++|.+.+.   .         ...+-+-++|++|+|||                   .+.+.|+..++..
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT-------------------~la~~iA~~~~~~   72 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKT-------------------LLAKAIAGEAKVP   72 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHH-------------------HHHHHHHHHHTCC
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCcc-------------------HHHHHHHHHcCCC
Confidence            567999998888866432   1         13456889999999999                   2333444444321


Q ss_pred             C---------cCCCCCCHHHHHHHHHHHhccCCeeEEEecCCC
Q 039519          144 D---------ESWKNGSLEDKASDIFRILSKKKLLLLLDDIWE  177 (647)
Q Consensus       144 ~---------~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~  177 (647)
                      .         +.+.......+...+...-+..+++|++||++.
T Consensus        73 ~~~i~~~~l~~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~  115 (256)
T d1lv7a_          73 FFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDA  115 (256)
T ss_dssp             EEEECSCSSTTSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHH
T ss_pred             EEEEEhHHhhhcchhHHHHHHHHHHHHHHHcCCEEEEEEChhh
Confidence            1         011123334344444444356788999999963

>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=94.34  E-value=0.013  Score=50.16  Aligned_cols=116  Identities=13%  Similarity=0.033  Sum_probs=67.3

Q ss_pred             CcceeeEEeccCccccc-----cCccccccccCCCeeeecCCCCC-----ccccchhcCccCcEEeecccccCCc-----
Q 039519          416 ALTFFLFFNMSNNHLLW-----KLPLGISTLVSLEHLDLSSTAIT-----HLPIDLQKLVNLKCLNLQYMYNLNQ-----  480 (647)
Q Consensus       416 ~l~~L~~L~l~~~~~~~-----~lp~~~~~L~~L~~L~L~~~~l~-----~lp~~~~~l~~L~~L~l~~~~~l~~-----  480 (647)
                      +.+.|+.|++++++.++     .+-..+...++|+.|++++|.+.     .+-..+...+.++.+++++| .+..     
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~-~~~~~g~~~   93 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGILA   93 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccc-cccchhHHH
Confidence            34567777777642221     12234456788888888888776     23334566778888888876 3221     


Q ss_pred             CchhhhcCCCCCcEEeccccCCCcccccccccccCCccccHHHhhCCCCCcEEEEEecchh
Q 039519          481 FPRLVISAFSKLQVLRMFDCGGSKIERLKSNVLFGGHQVLVEELIGMKYLMAVTITLKRLQ  541 (647)
Q Consensus       481 lp~~~i~~l~~L~~L~l~~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  541 (647)
                      +-.. +...++|+.+++..+ .|.+..-       ........+...++|+.|++.++...
T Consensus        94 l~~~-l~~~~~L~~l~L~l~-~n~i~~~-------~~~~La~~L~~n~~L~~L~l~~~~~~  145 (166)
T d1io0a_          94 LVEA-LQSNTSLIELRIDNQ-SQPLGNN-------VEMEIANMLEKNTTLLKFGYHFTQQG  145 (166)
T ss_dssp             HHHG-GGGCSSCCEEECCCC-SSCCCHH-------HHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHH-HHhCccccEEeeccC-CCcCcHH-------HHHHHHHHHHhCCCcCEEeCcCCCCc
Confidence            1122 456677877766532 3333100       01223445667888999988866543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=94.25  E-value=0.041  Score=50.39  Aligned_cols=36  Identities=14%  Similarity=0.178  Sum_probs=26.3

Q ss_pred             CCcccchHHHHHHHHHh---hh---------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCL---RE---------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L---~~---------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.+++|.+.+   ..         ...+-|-++|.+|+|||
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT   56 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKT   56 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChh
Confidence            45789998887766543   21         12456889999999999

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.16  E-value=0.0084  Score=55.44  Aligned_cols=57  Identities=14%  Similarity=0.048  Sum_probs=40.1

Q ss_pred             CCcccchHHHHHHHHHhhh-----------------CCceEEEEEccCccCCC-------CCCcceEEEEEEcCccCHHH
Q 039519           76 EPTVGLESTFDKVRRCLRE-----------------EQVGIIGLYGMGGLLGA-------PNDFDVVIWMVVSKDLQLEK  131 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----------------~~~~vi~I~G~gGiGKT-------~~~F~~~~wv~~s~~~~~~~  131 (647)
                      ..++|.+..+++|.+++..                 ...+.+.++|++|+|||       +...-..+++..+...+...
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~~~~   93 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTL   93 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCHHH
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchhhHH
Confidence            5689999999999998752                 13457889999999999       33333455666665555444


Q ss_pred             H
Q 039519          132 I  132 (647)
Q Consensus       132 ~  132 (647)
                      +
T Consensus        94 ~   94 (253)
T d1sxja2          94 L   94 (253)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.79  E-value=0.034  Score=49.45  Aligned_cols=31  Identities=13%  Similarity=0.228  Sum_probs=24.0

Q ss_pred             chHHHHHHHHHhhhCC-ceEEEEEccCccCCC
Q 039519           81 LESTFDKVRRCLREEQ-VGIIGLYGMGGLLGA  111 (647)
Q Consensus        81 r~~~~~~i~~~L~~~~-~~vi~I~G~gGiGKT  111 (647)
                      -+...+++.+.+..+. ...+-++|..|+|||
T Consensus         7 ~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKt   38 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDD   38 (207)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHH
T ss_pred             cHHHHHHHHHHHHcCCcCeEEEEECCCCCcHH
Confidence            3455777888777765 456889999999999

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.44  E-value=0.058  Score=49.76  Aligned_cols=36  Identities=17%  Similarity=0.219  Sum_probs=27.8

Q ss_pred             CCcccchHHHHHHHHHhh----h---------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLR----E---------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~----~---------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.|+.+++|.+.+.    .         ...+-|-++|.+|+|||
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT   52 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKT   52 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCch
Confidence            457899999998888643    1         12456889999999999

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.27  E-value=0.055  Score=47.62  Aligned_cols=100  Identities=13%  Similarity=0.147  Sum_probs=55.0

Q ss_pred             HHHHHHHHhhhCCceEEEEEccCccCCC--------------CCCcceEEEEEE-cCccCHHHHHHHHHHHhCCCCcCCC
Q 039519           84 TFDKVRRCLREEQVGIIGLYGMGGLLGA--------------PNDFDVVIWMVV-SKDLQLEKIQERIGRRIGFLDESWK  148 (647)
Q Consensus        84 ~~~~i~~~L~~~~~~vi~I~G~gGiGKT--------------~~~F~~~~wv~~-s~~~~~~~~~~~i~~~l~~~~~~~~  148 (647)
                      .++-+..++..+....+-++|.+|+|||              ..|. ..+++.- +....+..+. ++.+.+.....   
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~-D~~~i~~~~~~I~Id~IR-~i~~~~~~~~~---   76 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKAS-DVLEIDPEGENIGIDDIR-TIKDFLNYSPE---   76 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTT-TEEEECCSSSCBCHHHHH-HHHHHHTSCCS---
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCC-CEEEEeCCcCCCCHHHHH-HHHHHHhhCcc---
Confidence            3556666677777889999999999999              1111 2333332 1122333332 23333332110   


Q ss_pred             CCCHHHHHHHHHHHhccCCeeEEEecCCCc--cccccccCCCCCCCCCcEEEEecCc
Q 039519          149 NGSLEDKASDIFRILSKKKLLLLLDDIWER--VDLTKVGVPFPDPENKSRIDFTTRF  203 (647)
Q Consensus       149 ~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IivTTR~  203 (647)
                                     .+++=++|+|+++..  +...++...+......+.+|++|.+
T Consensus        77 ---------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~  118 (198)
T d2gnoa2          77 ---------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRR  118 (198)
T ss_dssp             ---------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESC
T ss_pred             ---------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCC
Confidence                           145558899999864  3344444444344456666655554

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=93.20  E-value=0.037  Score=50.40  Aligned_cols=36  Identities=28%  Similarity=0.350  Sum_probs=29.1

Q ss_pred             CCcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT  111 (647)
                      +.+||-+..++++..++..     ...+-+-++|++|+|||
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKT   49 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKT   49 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHH
Confidence            5689999999998888763     23556778999999999

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.66  E-value=0.066  Score=49.56  Aligned_cols=36  Identities=19%  Similarity=0.173  Sum_probs=26.2

Q ss_pred             CCcccchHHHHHHHHHhhh-------------CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-------------EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-------------~~~~vi~I~G~gGiGKT  111 (647)
                      ..++|.++.+++|.+.+..             ...+-|-++|.+|.|||
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT   55 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKT   55 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcch
Confidence            4567888887777765431             12456889999999999

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=92.41  E-value=0.061  Score=48.79  Aligned_cols=36  Identities=25%  Similarity=0.260  Sum_probs=29.1

Q ss_pred             CCcccchHHHHHHHHHhhh-----CCceEEEEEccCccCCC
Q 039519           76 EPTVGLESTFDKVRRCLRE-----EQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        76 ~~~vGr~~~~~~i~~~L~~-----~~~~vi~I~G~gGiGKT  111 (647)
                      ..+||.+..+++|..++..     ...+-+-++|++|+|||
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT   49 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKT   49 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHH
Confidence            5689999999999888753     23445679999999999

>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=91.66  E-value=0.048  Score=46.46  Aligned_cols=105  Identities=17%  Similarity=0.125  Sum_probs=70.0

Q ss_pred             ccccEEEEEeec-ccccc-----cccCCCCcceeeEEeccCcccccc-----CccccccccCCCeeeecCCCCC-----c
Q 039519          393 NWRNVRRMSLMK-NKIEN-----LSELQPALTFFLFFNMSNNHLLWK-----LPLGISTLVSLEHLDLSSTAIT-----H  456 (647)
Q Consensus       393 ~~~~l~~L~l~~-n~i~~-----l~~~~~~l~~L~~L~l~~~~~~~~-----lp~~~~~L~~L~~L~L~~~~l~-----~  456 (647)
                      +.++|+.|++.+ +.++.     +-..+...++|+.|++++| .++.     +-..+...++++.+++++|.+.     .
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n-~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC-cccHHHHHHHHHHHhhcccchhhhhccccccchhHHH
Confidence            346889999987 44533     2222356788999999999 4332     2234566789999999999876     3


Q ss_pred             cccchhcCccCcEEeecccc-cCCc-----CchhhhcCCCCCcEEeccc
Q 039519          457 LPIDLQKLVNLKCLNLQYMY-NLNQ-----FPRLVISAFSKLQVLRMFD  499 (647)
Q Consensus       457 lp~~~~~l~~L~~L~l~~~~-~l~~-----lp~~~i~~l~~L~~L~l~~  499 (647)
                      +-..+...++|+.++|..+. .+..     +... +...++|++|++..
T Consensus        94 l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~-L~~n~~L~~L~l~~  141 (166)
T d1io0a_          94 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIANM-LEKNTTLLKFGYHF  141 (166)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHH-HHHCSSCCEEECCC
T ss_pred             HHHHHHhCccccEEeeccCCCcCcHHHHHHHHHH-HHhCCCcCEEeCcC
Confidence            44567788899987775431 2221     2222 56788999997753

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=90.30  E-value=0.26  Score=45.25  Aligned_cols=76  Identities=12%  Similarity=0.148  Sum_probs=54.8

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCC---CCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESW---KNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~  162 (647)
                      .-+++-|+|.+|+|||          ...=..++||+....++.+.     +++++.+.+.+   +..+.++..+.+...
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~~l  133 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIADML  133 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHHHH
Confidence            4579999999999999          22223689999998888764     45567665432   456677777777666


Q ss_pred             hcc-CCeeEEEecCC
Q 039519          163 LSK-KKLLLLLDDIW  176 (647)
Q Consensus       163 l~~-~r~LlVlDdv~  176 (647)
                      ++. +.-|||+|.+-
T Consensus       134 ~~~~~~~liIiDSi~  148 (269)
T d1mo6a1         134 IRSGALDIVVIDSVA  148 (269)
T ss_dssp             HHTTCEEEEEEECST
T ss_pred             HhcCCCCEEEEeccc
Confidence            654 56789999884

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=89.62  E-value=0.32  Score=44.63  Aligned_cols=76  Identities=11%  Similarity=0.104  Sum_probs=56.3

Q ss_pred             CceEEEEEccCccCCC-----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCC---CCCCHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESW---KNGSLEDKASDIFR  161 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~  161 (647)
                      .-+++-|+|.+|+|||           +.. ..++|++....++..     ++++++.+.+.+   +..+.++..+.+..
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g-~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~  129 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAG-GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  129 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT-CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCC-CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHHH
Confidence            4579999999999999           211 358999998888874     677778765542   45677777777777


Q ss_pred             Hhcc-CCeeEEEecCCC
Q 039519          162 ILSK-KKLLLLLDDIWE  177 (647)
Q Consensus       162 ~l~~-~r~LlVlDdv~~  177 (647)
                      .++. ..-|+|+|-+-.
T Consensus       130 l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         130 LVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHTTTCCSEEEEECTTT
T ss_pred             HHhcCCCcEEEEecccc
Confidence            7654 467899998843

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=89.45  E-value=0.27  Score=44.97  Aligned_cols=76  Identities=11%  Similarity=0.092  Sum_probs=52.4

Q ss_pred             CceEEEEEccCccCCC----------CCCcceEEEEEEcCccCHHHHHHHHHHHhCCCCcCC---CCCCHHHHHHHHHHH
Q 039519           96 QVGIIGLYGMGGLLGA----------PNDFDVVIWMVVSKDLQLEKIQERIGRRIGFLDESW---KNGSLEDKASDIFRI  162 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT----------~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~  162 (647)
                      .-+++-|+|.+|+|||          ...=..++|++....++..     .++.++.+.+.+   +..+.++....+...
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l  127 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDAL  127 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHHHH
Confidence            3469999999999999          1112357999988888864     356667654432   345667777777666


Q ss_pred             hcc-CCeeEEEecCC
Q 039519          163 LSK-KKLLLLLDDIW  176 (647)
Q Consensus       163 l~~-~r~LlVlDdv~  176 (647)
                      .+. ..-|+|+|-+-
T Consensus       128 ~~~~~~~liViDSi~  142 (263)
T d1u94a1         128 ARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHTCCSEEEEECGG
T ss_pred             HhcCCCCEEEEECcc
Confidence            654 45688889873

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=89.40  E-value=0.3  Score=42.86  Aligned_cols=82  Identities=10%  Similarity=0.062  Sum_probs=46.0

Q ss_pred             CCceEEEEEccCccCCC---------CCCcceEEEEEEcCccCHH--HHHHHHHHHhCCCCcCC-CCCCHHHHHHHHHHH
Q 039519           95 EQVGIIGLYGMGGLLGA---------PNDFDVVIWMVVSKDLQLE--KIQERIGRRIGFLDESW-KNGSLEDKASDIFRI  162 (647)
Q Consensus        95 ~~~~vi~I~G~gGiGKT---------~~~F~~~~wv~~s~~~~~~--~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~~  162 (647)
                      ....||.++|+.|+|||         -......+.+-..++|.+.  +-++..++.++...... ...+.........+.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~   86 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQA   86 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHH
Confidence            34689999999999999         1122345666666777654  44566677776543211 223444444333333


Q ss_pred             hccCC-eeEEEecCC
Q 039519          163 LSKKK-LLLLLDDIW  176 (647)
Q Consensus       163 l~~~r-~LlVlDdv~  176 (647)
                      .+.+. =+|++|=.-
T Consensus        87 a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          87 AKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHTTCSEEEECCCC
T ss_pred             HHHcCCCEEEeccCC
Confidence            22233 356666654

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=85.94  E-value=0.15  Score=47.19  Aligned_cols=27  Identities=22%  Similarity=0.379  Sum_probs=23.8

Q ss_pred             HHHHHHHhhhCCceEEEEEccCccCCC
Q 039519           85 FDKVRRCLREEQVGIIGLYGMGGLLGA  111 (647)
Q Consensus        85 ~~~i~~~L~~~~~~vi~I~G~gGiGKT  111 (647)
                      +..+.+.+...+.++|.+.|.||+|||
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKT   34 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKT   34 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHH
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHH
Confidence            566777788889999999999999999

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.00  E-value=0.098  Score=44.76  Aligned_cols=16  Identities=13%  Similarity=0.133  Sum_probs=14.4

Q ss_pred             CceEEEEEccCccCCC
Q 039519           96 QVGIIGLYGMGGLLGA  111 (647)
Q Consensus        96 ~~~vi~I~G~gGiGKT  111 (647)
                      ...+|.++|++|+|||
T Consensus        13 ~p~liil~G~pGsGKS   28 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKS   28 (172)
T ss_dssp             SCCEEEEECCTTSSHH
T ss_pred             CCEEEEEECCCCCCHH
Confidence            4569999999999999

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=82.55  E-value=0.26  Score=45.30  Aligned_cols=15  Identities=27%  Similarity=0.660  Sum_probs=13.7

Q ss_pred             ceEEEEEccCccCCC
Q 039519           97 VGIIGLYGMGGLLGA  111 (647)
Q Consensus        97 ~~vi~I~G~gGiGKT  111 (647)
                      .+.|+|+|.||+|||
T Consensus         1 mr~Iai~gKGGvGKT   15 (269)
T d1cp2a_           1 MRQVAIYGKGGIGKS   15 (269)
T ss_dssp             CEEEEEEECTTSSHH
T ss_pred             CCEEEEECCCcCCHH
Confidence            378999999999999

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=81.60  E-value=1.1  Score=39.09  Aligned_cols=47  Identities=19%  Similarity=0.122  Sum_probs=25.8

Q ss_pred             CCceEEEEEccCccCCC-----------CCCcceEEEEEEcCccC--HHHHHHHHHHHhCCC
Q 039519           95 EQVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSKDLQ--LEKIQERIGRRIGFL  143 (647)
Q Consensus        95 ~~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~~~~--~~~~~~~i~~~l~~~  143 (647)
                      ....||.++|..|+|||           ... ..+..|++. .+.  ..+-++..++.++..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g-~kV~lit~D-t~R~ga~eQL~~~a~~l~v~   69 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKG-FKVGLVGAD-VYRPAALEQLQQLGQQIGVP   69 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTT-CCEEEEECC-CSSHHHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC-CceEEEEee-ccccchhHHHHHhccccCcc
Confidence            35689999999999999           111 235555543 233  333445566666654

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=81.53  E-value=1  Score=39.14  Aligned_cols=48  Identities=10%  Similarity=0.118  Sum_probs=32.4

Q ss_pred             CCceEEEEEccCccCCC-----------CCCcceEEEEEEcC-ccCHHHHHHHHHHHhCCC
Q 039519           95 EQVGIIGLYGMGGLLGA-----------PNDFDVVIWMVVSK-DLQLEKIQERIGRRIGFL  143 (647)
Q Consensus        95 ~~~~vi~I~G~gGiGKT-----------~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~  143 (647)
                      ++.+||.++|+.|+|||           +.. ..+..|+... .....+-++..++.++..
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLG-KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTT-CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC-CcEEEEEeccccccchhhHhhcccccCce
Confidence            35689999999999999           222 3466665432 344556667777777764

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=81.24  E-value=0.19  Score=42.35  Aligned_cols=25  Identities=12%  Similarity=0.194  Sum_probs=18.4

Q ss_pred             eEEEEEccCccCCC------CCCcceEEEEE
Q 039519           98 GIIGLYGMGGLLGA------PNDFDVVIWMV  122 (647)
Q Consensus        98 ~vi~I~G~gGiGKT------~~~F~~~~wv~  122 (647)
                      ++|.|.|++|+|||      ..+++..+++.
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~~~~~~~   33 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLDNSAYIE   33 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSSEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCEEEe
Confidence            57999999999999      44555555543