Citrus Sinensis ID: 043450

---

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-
Protein Sequence
NGLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD
Secondary Structure (PSIPRED)
ccccccEEEEEcccHHHHHHcccccEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHcccccHHHHHHHHHHcccccccccccccccHHHHHHHHcccccccccccccccHHHHcccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccccccccccccccEEEEcHHHHHHHHHHHHccEEEEEEcccEEEEcccccccEEEEEEEEccccccccccccccccEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHcccccccEEEEccccccccccccccccccccccccccccEEEccccccccccHHHcccccccEEEcccccccccccccccccccccEEEcccccccccccccccccccccccccEEEccccccccccccccccccccccEEEEEcccccccHHHHHHcccccccccccEEEEEcccccccccccccccccHHHHHHcccccccccEEEEEEcccccccccccccccccEEEcc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccEEEEccHHHHHHHHHcHHcccccccccccHHHEEEHccccccHHHHHHHHHHHcccccccEcHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccEEEHHHHHHHHHHHHcccEEEEEEcccccccccccccccEEEEEEEccccccccHHHcccccccEEEEcccccccccccccccHHHHHHHccccccccccccccccHHHccccccccccHHHHHHHccccEEEEccccccEEEcccccHHHccccccccHHccEEEccccccccccccccccccccEEEEcccHHHHHccHHccccccccEEEEcccccHcccccccccccHccEEEEEEccccccccccccHHHHHHHHccccEEEccccccccHHHHHHccccccccccEEEEEccccccccccccccccHHHHHHHHHccccccccEEEEEcccccccccHcccccccEEEEcc
Coil and Loop (DISEMBL)
nglpgskivVTTRNVSVARMMRStniisikplpedeFWSLFERFAffghssvdrekLEPIARQIARKCKGLPLAAKVTGnllcdkrtgnllsskSIVNEWQRILDSEVWKVEEIKQGLLAPLllsyndlpsnsmvkrcfsycavfpkdynmnKRELINLWMAQgylnadedeEMEMIGEEYFNILATRSFFqefekddddddilrckMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRhiglnfqrgasfpmsffEFDRLRSLLIydtshynpslfQSMAISSAYSLVNAVLYLVsspglgiddespsnpslnsSILRELFSKLACLRALVisqpspifrpdlnlirEIPENVEKLIHLKYLnlsglriesLPETLCELYNLqkldirrcqdlrelptgigklknmrsllngdtsslkylpigiSRLTSLRTLEKFVvgggvdgnntcRLESLKNLQLLRECRVEglsnvshvdeAERLQLYNKknllrlglqfgrvadgegeegrrknenDEQLLEalqppvnveELWIVYYGGNIFPKWLTLLTnlrdlnld
Flexible Loop (DISEMBL)
nglpgskivvttrnvsvarmmrstniisikplPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKvtgnllcdkrtgnllssksivnEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVIsqpspifrpdlNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPtgigklknmrsllngdtsslkylPIGISRLTSLRTLEKFVvgggvdgnntcRLESLKNLQLLRECRVEGlsnvshvdeaERLQLynkknllrlglqfgrvadgegeegrrknendeqLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTnlrdlnld
Low Complexity Region (SEG)
NGLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAdedeememigeeYFNILATRSFFQEFEKddddddILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDEspsnpslnssilRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVAdgegeegrrknendeQLLEALQPPVNVEELWIVYYGGNIFPKWltlltnlrdlnld
Disordered region (IsUnstruct)
*******IVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGL***************ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRV*********************LQPPVNVEELWIVYYGGNIFPKWLTLLTNLRD****
Disordered Region (DISOPRED)
**LPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGH******KLEPIARQIARKCKGLPLAAKVTGNLLCDKRTG*L*SSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTK****NFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVAD***********NDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD
Disordered Region (DISEMBL)
NGLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVA************NDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD
Disordered Region (DISPRO)
*****SKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
NGLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD
Positional Conservation
no confident homologs detected

---

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	561	2.2.26 [Sep-21-2011]
Q9LRR4	1054	Putative disease resistan	yes	no	0.848	0.451	0.300	1e-55
Q7XA42	979	Putative disease resistan	N/A	no	0.782	0.448	0.313	1e-54
Q9LRR5	1424	Putative disease resistan	no	no	0.834	0.328	0.308	3e-47
Q7XA40	992	Putative disease resistan	N/A	no	0.802	0.453	0.295	3e-44
Q7XA39	988	Putative disease resistan	N/A	no	0.778	0.442	0.284	1e-40
Q38834	852	Disease resistance RPP13-	no	no	0.834	0.549	0.271	3e-36
Q7XBQ9	970	Disease resistance protei	N/A	no	0.356	0.206	0.381	5e-35
Q39214	926	Disease resistance protei	no	no	0.597	0.361	0.280	2e-26
Q9LMP6	851	Probable disease resistan	no	no	0.347	0.229	0.325	2e-25
Q9STE7	847	Putative disease resistan	no	no	0.618	0.409	0.258	1e-23

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

 Score =  218 bits (554), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 165/549 (30%), Positives = 270/549 (49%), Gaps = 73/549 (13%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQI 64
           GS+I+VTTR+  VA +M + ++ +++PL + + WSLF +  F         ++  +A +I
Sbjct: 307 GSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNREIGDLAERI 366

Query: 65  ARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLL 124
             KC+GLPLA K  G +L  +  G ++       EW+R+L S +W +   K  LL  L +
Sbjct: 367 VHKCRGLPLAVKTLGGVL--RFEGKVI-------EWERVLSSRIWDLPADKSNLLPVLRV 417

Query: 125 SYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEE-MEMIGEEYFN 183
           SY  LP++  +KRCF+YC++FPK +   K +++ LWMA+G+L      + +E +G EYF+
Sbjct: 418 SYYYLPAH--LKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSSKNLEELGNEYFS 475

Query: 184 ILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEK 243
            L +RS  Q+ +         R  MHD +++ AQF S +                 F  K
Sbjct: 476 ELESRSLLQKTKT--------RYIMHDFINELAQFASGE-----------------FSSK 510

Query: 244 VRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVS 303
                  F+ G    +S    +R R L     ++  P  F+++           V +L +
Sbjct: 511 -------FEDGCKLQVS----ERTRYLSYLRDNYAEPMEFEAL---------REVKFLRT 550

Query: 304 SPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKL 363
              L + + S S   L+  +  +L   L  LR L +S           + R  P+  + +
Sbjct: 551 FLPLSLTNSSRSC-CLDQMVSEKLLPTLTRLRVLSLSH--------YKIARLPPDFFKNI 601

Query: 364 IHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNGDTS 422
            H ++L+LS   +E LP++LC +YNLQ L +  C  L+ELPT I  L N+R L L G  +
Sbjct: 602 SHARFLDLSRTELEKLPKSLCYMYNLQTLLLSYCSSLKELPTDISNLINLRYLDLIG--T 659

Query: 423 SLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDE 482
            L+ +P    RL SL+TL  F V    DG+    L  L +L    + ++  L  V  V +
Sbjct: 660 KLRQMPRRFGRLKSLQTLTTFFVSAS-DGSRISELGGLHDLH--GKLKIVELQRVVDVAD 716

Query: 483 AERLQLYNKKNLLRLGLQFGR-VADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYG 541
           A    L +KK+L  +   +    +  E      + +N+ ++ E L+P  ++E+L I  Y 
Sbjct: 717 AAEANLNSKKHLREIDFVWRTGSSSSENNTNPHRTQNEAEVFEKLRPHRHIEKLAIERYK 776

Query: 542 GNIFPKWLT 550
           G  FP WL+
Sbjct: 777 GRRFPDWLS 785

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

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score =  214 bits (546), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 172/549 (31%), Positives = 245/549 (44%), Gaps = 110/549 (20%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIA 61
           G  G+ ++ TTR   V  +M +     +  L  ++ W LF + AF GH       L  I 
Sbjct: 281 GASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRAF-GHQEEINPNLMAIG 339

Query: 62  RQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAP 121
           ++I +KC G+PLAAK  G +L  KR            EW+ + DS +W + + +  +L  
Sbjct: 340 KEIVKKCGGVPLAAKTLGGILRFKREER---------EWEHVRDSPIWNLPQDESSILPA 390

Query: 122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEY 181
           L LSY+ LP +  +++CF YCAVFPKD  M K  LI  WMA G+L +  + E+E +G E 
Sbjct: 391 LRLSYHHLPLD--LRQCFVYCAVFPKDTKMAKENLIAFWMAHGFLLSKGNLELEDVGNEV 448

Query: 182 FNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFG 241
           +N L  RSFFQE E +         KMHD++HD A               T     N   
Sbjct: 449 WNELYLRSFFQEIEVESGKTYF---KMHDLIHDLA---------------TSLFSANTSS 490

Query: 242 EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYL 301
             +R I  N+  G    + F E            S Y+PSL Q                 
Sbjct: 491 SNIREINANYD-GYMMSIGFAEV----------VSSYSPSLLQ----------------- 522

Query: 302 VSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVE 361
                                       K   LR L +   +         + ++P ++ 
Sbjct: 523 ----------------------------KFVSLRVLNLRNSN---------LNQLPSSIG 545

Query: 362 KLIHLKYLNLSG-LRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGD 420
            L+HL+YL+LSG  RI +LP+ LC+L NLQ LD+  C  L  LP    KL ++R+LL  D
Sbjct: 546 DLVHLRYLDLSGNFRIRNLPKRLCKLQNLQTLDLHYCDSLSCLPKQTSKLGSLRNLL-LD 604

Query: 421 TSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV 480
             SL   P  I  LT L++L  FV+G         +L  LKNL L     +  L  V   
Sbjct: 605 GCSLTSTPPRIGLLTCLKSLSCFVIG----KRKGHQLGELKNLNLYGSISITKLDRVKKD 660

Query: 481 DEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYY 540
            +A+   L  K NL  L L +    D +G     K+  D ++LEAL+P  N++ L I  +
Sbjct: 661 TDAKEANLSAKANLHSLCLSW----DLDG-----KHRYDSEVLEALKPHSNLKYLEINGF 711

Query: 541 GGNIFPKWL 549
           GG   P W+
Sbjct: 712 GGIRLPDWM 720

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score =  190 bits (482), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 171/554 (30%), Positives = 261/554 (47%), Gaps = 86/554 (15%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDR--EKLEPIAR 62
           GSKIV+TTR+  V+ + ++  I  +K +  +E W L  RFAF G+ SV    ++LE I +
Sbjct: 302 GSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAF-GNISVGSINQELEGIGK 360

Query: 63  QIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPL 122
           +IA +CKGLPLAA+   + L          SK   ++W  +  +           +L  L
Sbjct: 361 RIAEQCKGLPLAARAIASHL---------RSKPNPDDWYAVSKN----FSSYTNSILPVL 407

Query: 123 LLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYL-NADEDEEMEMIGEEY 181
            LSY+ LP    +KRCF+ C++FPK +  ++ EL+ LWMA   L        +E IG +Y
Sbjct: 408 KLSYDSLPPQ--LKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIGNDY 465

Query: 182 FNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFG 241
              L  +SFFQ       D  +    MHD+++D A+ VS   C  +E +   E+      
Sbjct: 466 LGDLVAQSFFQRL-----DITMTSFVMHDLMNDLAKAVSGDFCFRLEDDNIPEI-----P 515

Query: 242 EKVRHIGLN-FQRGASFPM-SFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVL 299
              RH   +  Q  AS    S    + LR++L +++    P+  +S+             
Sbjct: 516 STTRHFSFSRSQCDASVAFRSICGAEFLRTILPFNS----PTSLESL------------- 558

Query: 300 YLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN 359
                              L   +L  L + L+ LR L +S            I  +P++
Sbjct: 559 ------------------QLTEKVLNPLLNALSGLRILSLSH---------YQITNLPKS 591

Query: 360 VEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNG 419
           ++ L  L+YL+LS  +I+ LPE +C L NLQ L +  C+DL  LP  I +L N+R LL+ 
Sbjct: 592 LKGLKLLRYLDLSSTKIKELPEFVCTLCNLQTLLLSNCRDLTSLPKSIAELINLR-LLDL 650

Query: 420 DTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVS 478
             + L  +P GI +L SL+ L  FV+ G + G     L  LK L  LR   R+  L NV+
Sbjct: 651 VGTPLVEMPPGIKKLRSLQKLSNFVI-GRLSGAG---LHELKELSHLRGTLRISELQNVA 706

Query: 479 HVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNE---NDEQLLEALQPPVNVEEL 535
              EA+   L  K  L  L L++     G G      N    + +++L  L+P  +++  
Sbjct: 707 FASEAKDAGLKRKPFLDGLILKW--TVKGSGFVPGSFNALACDQKEVLRMLEPHPHLKTF 764

Query: 536 WIVYYGGNIFPKWL 549
            I  Y G  FPKWL
Sbjct: 765 CIESYQGGAFPKWL 778

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score =  179 bits (455), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 162/548 (29%), Positives = 247/548 (45%), Gaps = 98/548 (17%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIA 61
           G  G+ I++TTR   +  +M +  +  +  L +++ W LF++ AF  H +    KL  I 
Sbjct: 281 GASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWLLFKQRAF-CHQTETSPKLMEIG 339

Query: 62  RQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAP 121
           ++I +KC G+PLAAK  G LL  KR  +         EW+ + DSE+W + + +  +L  
Sbjct: 340 KEIVKKCGGVPLAAKTLGGLLRFKREES---------EWEHVRDSEIWNLPQDENSVLPA 390

Query: 122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEY 181
           L LSY+ LP +  +++CF+YCAVFPKD  + K  LI LWMA  +L +  + E+E +G E 
Sbjct: 391 LRLSYHHLPLD--LRQCFAYCAVFPKDTKIEKEYLIALWMAHSFLLSKGNMELEDVGNEV 448

Query: 182 FNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFG 241
           +N L  RSFFQE E           KMHD++HD A  +                  +   
Sbjct: 449 WNELYLRSFFQEIEVKSGKTYF---KMHDLIHDLATSMFSA---------------SASS 490

Query: 242 EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYL 301
             +R I +       F ++ ++ D +        S Y+PSLF+        +L N+    
Sbjct: 491 RSIRQINVKDDEDMMFIVTNYK-DMMSIGFSEVVSSYSPSLFKRFVSLRVLNLSNSEF-- 547

Query: 302 VSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVE 361
                    ++ PS+              L  LR L +S          N I  +P+ + 
Sbjct: 548 ---------EQLPSS-----------VGDLVHLRYLDLSG---------NKICSLPKRLC 578

Query: 362 KLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDT 421
           KL +L+ L+               LYN        CQ L  LP    KL ++R+L+  D 
Sbjct: 579 KLQNLQTLD---------------LYN--------CQSLSCLPKQTSKLCSLRNLV-LDH 614

Query: 422 SSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVD 481
             L  +P  I  LT L+TL  FVVG         +L  L+NL L     +  L  V +  
Sbjct: 615 CPLTSMPPRIGLLTCLKTLGYFVVG----ERKGYQLGELRNLNLRGAISITHLERVKNDM 670

Query: 482 EAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYG 541
           EA+   L  K NL  L + + R    E EE +        +LEAL+P  N++ L I+ + 
Sbjct: 671 EAKEANLSAKANLHSLSMSWDRPNRYESEEVK--------VLEALKPHPNLKYLEIIDFC 722

Query: 542 GNIFPKWL 549
           G   P W+
Sbjct: 723 GFCLPDWM 730

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score =  168 bits (425), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 157/552 (28%), Positives = 234/552 (42%), Gaps = 115/552 (20%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPL-PEDEFWSLFERFAFFGHSSVDREKLEPI 60
           G  G+ I+ TTR   V  +M +     +  L P D      +R   FG        L  I
Sbjct: 283 GARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRA--FGQQKEANPNLVAI 340

Query: 61  ARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLA 120
            ++I +KC G+PLAAK  G LL  KR  +         EW+ + D+E+W + + +  +L 
Sbjct: 341 GKEIVKKCGGVPLAAKTLGGLLRFKREES---------EWEHVRDNEIWSLPQDESSILP 391

Query: 121 PLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEE 180
            L LSY+ LP +  +++CF+YCAVFPKD  M K  LI LWMA G+L +  + E+E +G E
Sbjct: 392 ALRLSYHHLPLD--LRQCFAYCAVFPKDTKMIKENLITLWMAHGFLLSKGNLELEDVGNE 449

Query: 181 YFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQ--FVSRKECLWVEINGTKELVIN 238
            +N L  RSFFQE E    +      K+HD++HD A   F +   C              
Sbjct: 450 VWNELYLRSFFQEIEAKSGNTYF---KIHDLIHDLATSLFSASASC-------------- 492

Query: 239 FFGEKVRHIGL-NFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNA 297
                +R I + +++   S   +               S Y+PSL +        +L  +
Sbjct: 493 ---GNIREINVKDYKHTVSIGFAAV------------VSSYSPSLLKKFVSLRVLNLSYS 537

Query: 298 VLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIP 357
            L  +              PS    +L   +  L+C                 N  R +P
Sbjct: 538 KLEQL--------------PSSIGDLLHLRYLDLSC-----------------NNFRSLP 566

Query: 358 ENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLL 417
           E + KL +L+ L+                       +  C  L  LP    KL ++R L+
Sbjct: 567 ERLCKLQNLQTLD-----------------------VHNCYSLNCLPKQTSKLSSLRHLV 603

Query: 418 NGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNV 477
             D   L   P  I  LT L+TL  F+VG         +L  LKNL L     +  L  V
Sbjct: 604 -VDGCPLTSTPPRIGLLTCLKTLGFFIVG----SKKGYQLGELKNLNLCGSISITHLERV 658

Query: 478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWI 537
            +  +AE   L  K NL  L + +    D +G    R    + ++LEAL+P  N++ L I
Sbjct: 659 KNDTDAEA-NLSAKANLQSLSMSW----DNDGP--NRYESKEVKVLEALKPHPNLKYLEI 711

Query: 538 VYYGGNIFPKWL 549
           + +GG  FP W+
Sbjct: 712 IAFGGFRFPSWI 723

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q38834|R13L4_ARATH Disease resistance RPP13-like protein 4 OS=Arabidopsis thaliana GN=RPP13L4 PE=2 SV=2

 Score =  154 bits (388), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 152/560 (27%), Positives = 251/560 (44%), Gaps = 92/560 (16%)

Query: 1   NGLP---GSKIVVTTRNVSVARMMRSTNIISIKP--LPEDEFWSLFERFAFFGH-SSVDR 54
            GLP   G  ++VTTR+ SVA+ +++ +  + +P  L  D  W LF   AF  +  + +R
Sbjct: 282 QGLPRGQGGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAANDGTCER 341

Query: 55  EKLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILD---SEVWKV 111
            +LE + ++I  KCKGLPL  K  G L        LL    + +EW+RI +    E+   
Sbjct: 342 PELEDVGKEIVTKCKGLPLTIKAVGGL--------LLCKDHVYHEWRRIAEHFQDELRGN 393

Query: 112 EEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADED 171
                 +++ L LSY++LPS+  +K C    +++P+D  + K++L++ W+ +G++     
Sbjct: 394 TSETDNVMSSLQLSYDELPSH--LKSCILTLSLYPEDCVIPKQQLVHGWIGEGFVMWRNG 451

Query: 172 EEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEING 231
                 GE+ F+ L  R   +  +K      I+ CK+HD+V D    +++K+        
Sbjct: 452 RSATESGEDCFSGLTNRCLIEVVDK-TYSGTIITCKIHDMVRDLVIDIAKKDSF------ 504

Query: 232 TKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSA 291
                 N  G   RH+G++                                F    I   
Sbjct: 505 -----SNPEGLNCRHLGISGN------------------------------FDEKQIKVN 529

Query: 292 YSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLN 351
           + L      +VS+   G  ++      LNS + ++ F+    LR L IS+   IF   L+
Sbjct: 530 HKLRG----VVSTTKTGEVNK------LNSDLAKK-FTDCKYLRVLDISK--SIFDAPLS 576

Query: 352 LIREIPENVEKLIHLKYLNLSGLR-IESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
              EI + +  L HL  L+LS    +   P ++ +L+NLQ LD   CQ+L++L   I   
Sbjct: 577 ---EILDEIASLQHLACLSLSNTHPLIQFPRSMEDLHNLQILDASYCQNLKQLQPCIVLF 633

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECR 470
           K +  L   +  SL+  P GI  L  L  L  F        NN C+L  +KNL  LR+  
Sbjct: 634 KKLLVLDMTNCGSLECFPKGIGSLVKLEVLLGF---KPARSNNGCKLSEVKNLTNLRKLG 690

Query: 471 VEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPV 530
           +  L+    ++E E   L N   L+ + +      D  G++   K       ++AL PP 
Sbjct: 691 L-SLTRGDQIEEEELDSLINLSKLMSISIN---CYDSYGDDLITK-------IDALTPPH 739

Query: 531 NVEELWIVYYGGNIFPKWLT 550
            + EL + +Y G   P WL+
Sbjct: 740 QLHELSLQFYPGKSSPSWLS 759

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score =  149 bits (377), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 82/215 (38%), Positives = 120/215 (55%), Gaps = 15/215 (6%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIA 61
           G  G+ ++ TTR   V  +M +     +  L +++ W LF + AF GH       L  I 
Sbjct: 282 GASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRAF-GHQEEINPNLVAIG 340

Query: 62  RQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAP 121
           ++I +K  G+PLAAK  G +LC KR             W+ + DS +W + + +  +L  
Sbjct: 341 KEIVKKSGGVPLAAKTLGGILCFKREER---------AWEHVRDSPIWNLPQDESSILPA 391

Query: 122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEY 181
           L LSY+ LP +  +K+CF+YCAVFPKD  M K +LI+LWMA G+L +  + E+E +G+E 
Sbjct: 392 LRLSYHQLPLD--LKQCFAYCAVFPKDAKMEKEKLISLWMAHGFLLSKGNMELEDVGDEV 449

Query: 182 FNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFA 216
           +  L  RSFFQE E  D        KMHD++HD A
Sbjct: 450 WKELYLRSFFQEIEVKDGKTYF---KMHDLIHDLA 481

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.

Solanum bulbocastanum (taxid: 147425)

>sp|Q39214|RPM1_ARATH Disease resistance protein RPM1 OS=Arabidopsis thaliana GN=RPM1 PE=1 SV=1

 Score =  120 bits (302), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 115/410 (28%), Positives = 194/410 (47%), Gaps = 75/410 (18%)

Query: 1   NGLPGSKIVVTTRNVSVARM---MRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDR-EK 56
           +G+ GS++++TTR+++VA     + ST    I+ L EDE W LF   AF       R + 
Sbjct: 303 DGIYGSRVMMTTRDMNVASFPYGIGSTKH-EIELLKEDEAWVLFSNKAFPASLEQCRTQN 361

Query: 57  LEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKV---EE 113
           LEPIAR++  +C+GLPLA             G+++S+K   +EW+++  +  W++    E
Sbjct: 362 LEPIARKLVERCQGLPLAIA---------SLGSMMSTKKFESEWKKVYSTLNWELNNNHE 412

Query: 114 IKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEE 173
           +K  + + + LS+NDLP    +KRCF YC++FP +Y M ++ LI +WMAQ ++      +
Sbjct: 413 LKI-VRSIMFLSFNDLPYP--LKRCFLYCSLFPVNYRMKRKRLIRMWMAQRFVEPIRGVK 469

Query: 174 MEMIGEEYFNILATRSFFQ-----EFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVE 228
            E + + Y N L  R+  Q      F +          KMHD++ + A  VS+ E     
Sbjct: 470 AEEVADSYLNELVYRNMLQVILWNPFGRPK------AFKMHDVIWEIALSVSKLERFCDV 523

Query: 229 IN------GTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSL 282
            N         E + N+     RH+ +  +     P S      L SLL+  ++ +   L
Sbjct: 524 YNDDSDGDDAAETMENYGS---RHLCIQKEMT---PDS-IRATNLHSLLVCSSAKHKMEL 576

Query: 283 FQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQP 342
             S+ +  A               L ++D S S        L +    +  L+ L +S+ 
Sbjct: 577 LPSLNLLRA---------------LDLEDSSISK-------LPDCLVTMFNLKYLNLSKT 614

Query: 343 SPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKL 392
                     ++E+P+N  KL++L+ LN    +IE LP  + +L  L+ L
Sbjct: 615 Q---------VKELPKNFHKLVNLETLNTKHSKIEELPLGMWKLKKLRYL 655

Disease resistance (R) protein that specifically recognizes the AvrRpm1 type III effector avirulence protein from Pseudomonas syringae. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is phosphorylated by AvrRpm1. It is then degraded at the onset of the hypersensitive response.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score =  117 bits (294), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 73/224 (32%), Positives = 113/224 (50%), Gaps = 29/224 (12%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFER----FAFFGHSSVDREKLEPI 60
           GSKIV TTR+  V R M     + +  LP DE W LF++         H     E +  +
Sbjct: 283 GSKIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSH-----EDIPTL 337

Query: 61  ARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRI---LDSEVWKVEEIKQG 117
           AR++A KC GLPLA  V G  +         +S+  V EWQ +   L+S   +   +++ 
Sbjct: 338 ARKVAEKCCGLPLALSVIGKAM---------ASRETVQEWQHVIHVLNSSSHEFPSMEEK 388

Query: 118 LLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEE-MEM 176
           +L  L  SY+DL  +  VK CF YC++FP+DY + K ELI  WM +G+++ +EDE+    
Sbjct: 389 ILPVLKFSYDDL-KDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANN 447

Query: 177 IGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVS 220
            G +    L             D +   + KMHD++ + A +++
Sbjct: 448 KGHDIIGSLVRAHLLM------DGELTTKVKMHDVIREMALWIA 485

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE7|R13L3_ARATH Putative disease resistance RPP13-like protein 3 OS=Arabidopsis thaliana GN=RPP13L3 PE=3 SV=1

 Score =  112 bits (279), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 107/414 (25%), Positives = 188/414 (45%), Gaps = 67/414 (16%)

Query: 5   GSKIVVTTRNVSVARMMRSTNII-SIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQ 63
           GSK+++TTR  ++A  +  T     ++ L  +E W+LFER AF     VD E L+   ++
Sbjct: 299 GSKVIITTRIRAIAEGVEGTVYAHKLRFLTFEESWTLFERKAFSNIEKVD-EDLQRTGKE 357

Query: 64  IARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLL 123
           + +KC GLPLA  V   LL  KRT          NEW  +  S   ++++    +     
Sbjct: 358 MVKKCGGLPLAIVVLSGLLSRKRT----------NEWHEVCASLWRRLKDNSIHISTVFD 407

Query: 124 LSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFN 183
           LS+ ++     +K CF Y +VFP+DY +   +LI+L +A+G++  DE+  ME +   Y +
Sbjct: 408 LSFKEMRHE--LKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFIQEDEEMMMEDVARCYID 465

Query: 184 ILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEK 243
            L  RS  +   +  +   ++ C++HD++ D A     KE  +V +   K+   +    +
Sbjct: 466 ELVDRSLVK--AERIERGKVMSCRIHDLLRDLA-IKKAKELNFVNVYNEKQHSSDICRRE 522

Query: 244 VRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVS 303
           V H  +N          ++  DR                            + + L++  
Sbjct: 523 VVHHLMN---------DYYLCDR-----------------------RVNKRMRSFLFIGE 550

Query: 304 SPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKL 363
             G G          +N++ L     KL  LR  V++    +F    N+   +P+ + +L
Sbjct: 551 RRGFGY---------VNTTNL-----KLKLLR--VLNMEGLLFVSK-NISNTLPDVIGEL 593

Query: 364 IHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLL 417
           IHL+YL ++   +  LP ++  L  LQ LD     D  +  T + KL ++R ++
Sbjct: 594 IHLRYLGIADTYVSILPASISNLRFLQTLDA-SGNDPFQYTTDLSKLTSLRHVI 646

Potential 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	561
224115686	938	cc-nbs-lrr resistance protein [Populus t	0.836	0.5	0.413	1e-101
359482784	919	PREDICTED: putative disease resistance p	0.836	0.510	0.421	1e-100
224122712	945	cc-nbs-lrr resistance protein [Populus t	0.864	0.513	0.412	1e-100
224114824	941	cc-nbs-lrr resistance protein [Populus t	0.852	0.507	0.411	2e-99
359482790	923	PREDICTED: putative disease resistance p	0.857	0.521	0.400	3e-99
255554080	940	leucine-rich repeat-containing protein,	0.868	0.518	0.403	9e-99
224110248	888	cc-nbs-lrr resistance protein [Populus t	0.857	0.541	0.406	1e-98
224130338	906	nbs-lrr resistance protein [Populus tric	0.860	0.533	0.392	4e-98
224134406	987	cc-nbs-lrr resistance protein [Populus t	0.869	0.494	0.407	6e-98
147825450	927	hypothetical protein VITISV_000086 [Viti	0.846	0.512	0.410	1e-97

>gi|224115686|ref|XP_002332117.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874937|gb|EEF12068.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  375 bits (964), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 226/546 (41%), Positives = 314/546 (57%), Gaps = 77/546 (14%)

Query: 2   GLPGSKIVVTTRNVSVARMMRS---TNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLE 58
           GLPGS+I+VTTR  +VA  M S   T+I+ +  L  D+ WSLF + AFF  +S +R  LE
Sbjct: 301 GLPGSRIMVTTRKTNVASSMGSSPSTDILELGLLSTDKCWSLFSQLAFFEKNSRERGDLE 360

Query: 59  PIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGL 118
            I RQIA KCKGLPLAAK  G+LL  KR         I  EW+ +L++ VW+++E +  +
Sbjct: 361 DIGRQIAAKCKGLPLAAKSLGSLLRFKR---------IRAEWESVLNNHVWEIKEAESKI 411

Query: 119 LAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIG 178
           LAPL LSYNDLPS+  ++RCFSYCAVFPKD+   +  LI LWMAQG+L   +++EME++G
Sbjct: 412 LAPLWLSYNDLPSD--MRRCFSYCAVFPKDFTFERDTLIKLWMAQGFLRETQNKEMEVMG 469

Query: 179 EEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVIN 238
            E F  LA RSFFQ+FE D+DD  I  CKMHD+VHDFAQ +++ EC  V+I+G  E  I+
Sbjct: 470 RECFEALAARSFFQDFEIDEDDGSIYACKMHDMVHDFAQSLTKNECFSVDIDGVSESKID 529

Query: 239 FFGEKVRHIGLNFQ--RGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVN 296
            F    RH  + F+  R  SFP +     +LRSL++                        
Sbjct: 530 SFSRDTRHSMVVFRNYRTTSFPATIHSLKKLRSLIV------------------------ 565

Query: 297 AVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI 356
                         D  PS  S+N++ L +L + L+CLR L++S+           I E+
Sbjct: 566 --------------DGYPS--SMNAA-LPKLIANLSCLRTLMLSECG---------IEEV 599

Query: 357 PENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL 416
           P N+ KLIHL++++LS   I  LPE +CELYN+  LD+  C  L  LP  IGKL  +R L
Sbjct: 600 PSNIGKLIHLRHVDLSWNEIRELPEEMCELYNMLTLDVSFCMKLERLPDNIGKLVKLRHL 659

Query: 417 LNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSN 476
              +   +K    G+  L+SLR L++F V G  + +N   L +L +LQ     R+  L +
Sbjct: 660 SVDNWQFVKMR--GVEGLSSLRELDEFHVSGSDEVSNIGDLRNLNHLQ--GSLRIRWLGD 715

Query: 477 VSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELW 536
           V   DE ++ +L +KK+L  LGL F    D       R+  ND+++ EAL+PP N+  L 
Sbjct: 716 VKDPDEVKKAELKSKKHLTHLGLFFQSRTD-------REKINDDEVFEALEPPPNIYSLA 768

Query: 537 IVYYGG 542
           I YY G
Sbjct: 769 IGYYEG 774

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482784|ref|XP_002269044.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 232/550 (42%), Positives = 310/550 (56%), Gaps = 81/550 (14%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIA 61
           G  GS+I+VTTR  SV  MMR+T + S+  L ED+  +LF + AF+G +    E  + I 
Sbjct: 302 GGVGSRILVTTRKESVVEMMRTTYMHSLGKLSEDKSRALFYQIAFYGKNREKMEDFQEIG 361

Query: 62  RQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAP 121
            +IA KCKGLPLA K  GNL+          SK    EW+ +L SEVWK++   + +   
Sbjct: 362 EKIADKCKGLPLAIKTLGNLM---------RSKHNREEWENVLCSEVWKLDVFGRDISPA 412

Query: 122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEY 181
           LLLSY DLP    +KRCFS+CAVFPKD  + + ELI LWMAQ YL +D  +EMEM+G EY
Sbjct: 413 LLLSYYDLPPT--IKRCFSFCAVFPKDSVIERDELIKLWMAQSYLKSDGSKEMEMVGREY 470

Query: 182 FNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFG 241
           F  LA RSFFQ+FEK D DDDI+RCKMHDIVHDFAQF+++ EC  VE++  K+  ++ F 
Sbjct: 471 FEYLAARSFFQDFEK-DGDDDIIRCKMHDIVHDFAQFLTQNECFVVEVDNQKKGSMDLFF 529

Query: 242 EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYL 301
           +K+ H  L  Q       S      L +LL                              
Sbjct: 530 QKICHATLVVQESTLNFASTCNMKNLHTLL------------------------------ 559

Query: 302 VSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVE 361
                        +  + +S +L E    L CLRAL +S           LI E+P+ V 
Sbjct: 560 -------------AKSAFDSRVL-EALGHLTCLRALDLSWN--------QLIEELPKEVG 597

Query: 362 KLIHLKYLNLSGLR-IESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGD 420
           KLIHL+YL+LS  + +  LPET+C+LYNLQ L+I+ C  L++LP  +GKL N+R L N  
Sbjct: 598 KLIHLRYLDLSRCQSLRELPETICDLYNLQTLNIQYCISLQKLPQAMGKLINLRHLENY- 656

Query: 421 TSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVSH 479
           T SLK LP GI RL+SL+TL+ F+V     GN+ C++  L+NL  LR    ++GL  V  
Sbjct: 657 TRSLKGLPKGIGRLSSLQTLDVFIVSS--HGNDECQIGDLRNLNNLRGGLSIQGLDEVKD 714

Query: 480 VDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVY 539
             EAE+ +L N+ +L RL L FG      GEEG +       + EALQP  N++ L I  
Sbjct: 715 AGEAEKAELKNRVSLHRLALVFG------GEEGTKG------VAEALQPHPNLKSLCIYG 762

Query: 540 YGGNIFPKWL 549
           YG   +P W+
Sbjct: 763 YGDREWPNWM 772

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122712|ref|XP_002318907.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222859580|gb|EEE97127.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 233/565 (41%), Positives = 318/565 (56%), Gaps = 80/565 (14%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQI 64
           GS+I+VTTR  +VA MM + + I+I+ L ++   S+F   AF   S  +RE+L  I  +I
Sbjct: 306 GSRILVTTRKDAVATMMGTDHRINIEKLSDEICRSIFNHVAFQERSEDERERLTDIGDKI 365

Query: 65  ARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQG-----LL 119
           A KCKGLPLAAKV G L+  KRT           EW+R+L SE+W+++E+ +      + 
Sbjct: 366 ANKCKGLPLAAKVLGGLMQSKRTRE---------EWERVLSSELWRLDEVDRDQVESRIF 416

Query: 120 APLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGE 179
            PLLLSY DLPS  +V+RCF YCA+FPKDY M K EL+ +WMAQGY+      +ME++GE
Sbjct: 417 IPLLLSYYDLPS--VVRRCFLYCAMFPKDYEMGKYELVKMWMAQGYIKETSGGDMELVGE 474

Query: 180 EYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINF 239
            YF++LA RSFFQ+FE D  +   ++ KMHDIVHDFAQ++++ ECL V++N      +  
Sbjct: 475 RYFHVLAARSFFQDFETDIFEG--MKFKMHDIVHDFAQYMTKNECLTVDVNTLGGATVET 532

Query: 240 FGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVL 299
             E+VRH+ +      SFP+S  +   LRSLLI DT                        
Sbjct: 533 SIERVRHLSMMVSEETSFPVSIHKAKGLRSLLI-DT------------------------ 567

Query: 300 YLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN 359
                           +PSL ++ L +LF +L C+R+L +S  S         I+EIP  
Sbjct: 568 ---------------RDPSLGAA-LPDLFKQLTCIRSLNLSASS---------IKEIPNE 602

Query: 360 VEKLIHLKYLNLSGL-RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLN 418
           V KLIHL+++NL+    +ESLPET+C+L NLQ LD+  C+ L+ELP  IGKL  +R  L 
Sbjct: 603 VGKLIHLRHVNLARCGELESLPETMCDLCNLQSLDVTWCRSLKELPNAIGKLIKLRH-LR 661

Query: 419 GDTSSLKYLPIGISRLTSLRTLEKF-VVGGGVDGNNTCRLESLKNL-QLLRECRVEGL-S 475
              S + ++P GI R+T LRTL+ F V GGG + +    L  LKNL  +     +  L  
Sbjct: 662 IYRSGVDFIPKGIERITCLRTLDVFKVCGGGENESKAANLRELKNLNHIGGSLNIRNLGG 721

Query: 476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEEL 535
            +    +A   QL NKK L RL L F R       E      N+  L+EALQPP N+E L
Sbjct: 722 GIEDASDAAEAQLKNKKRLRRLELVFDR-------EKTELQANEGSLIEALQPPSNLEYL 774

Query: 536 WIVYYGGNIFPKWLTLLTNLRDLNL 560
            I  YGG   P W+  LT L  L L
Sbjct: 775 TISSYGGFDLPNWMMTLTRLLALEL 799

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114824|ref|XP_002332291.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222832453|gb|EEE70930.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  369 bits (948), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 234/569 (41%), Positives = 322/569 (56%), Gaps = 91/569 (15%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQI 64
           GS+I+VTTR  SVA MM + ++I+++ L ++   S+F   AF   S  +RE+L     +I
Sbjct: 302 GSRILVTTRKHSVATMMGTGHVINLEKLSDEVCRSIFNHVAFQQRSKDERERLTDTGDKI 361

Query: 65  ARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEI-----KQGLL 119
           A KCKGLPLAAKV G L+  KRT           EW+R+  SE+W ++E+     ++G+ 
Sbjct: 362 ANKCKGLPLAAKVLGGLMQSKRTRE---------EWERVFCSELWGLDEVDRDQVERGIF 412

Query: 120 APLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGE 179
            PLLLSY DLPS  MV+RCF YCA+FPKDY M K EL+ +W+AQGYL      +ME +GE
Sbjct: 413 LPLLLSYYDLPS--MVRRCFLYCAMFPKDYEMRKYELVKMWIAQGYLKETSGGDMEAVGE 470

Query: 180 EYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINF 239
           +YF +LA RSFFQ+F+  D +D  +R KMHDIVHDFAQ++++ ECL V++N  +E  +  
Sbjct: 471 QYFQVLAARSFFQDFKTYDRED--VRFKMHDIVHDFAQYMTKNECLTVDVNNLREATVET 528

Query: 240 FGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVL 299
             E+VRH+ +   +   FP+S  +   LRSL I                           
Sbjct: 529 SIERVRHLSMMLSKETYFPVSIHKAKGLRSLFID-------------------------- 562

Query: 300 YLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN 359
                P LG             + L ++F +L C+R+L +S         ++LI+EIP  
Sbjct: 563 --ARDPWLG-------------AALPDVFKQLTCIRSLNLS---------MSLIKEIPNE 598

Query: 360 VEKLIHLKYLNLSGL-RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-L 417
           V KLIHL++LNL+   ++ESLPE +C+L  LQ LD+  C+ L ELP  IGKL  +R L +
Sbjct: 599 VGKLIHLRHLNLADCYKLESLPEIMCDLCKLQSLDVTTCRSLWELPKAIGKLIKLRHLRI 658

Query: 418 NGDTSSLKYLPIGISRLTSLRTLEKFVV-GGGVDGNNTCRLESLKNL-QLLRECRVEGL- 474
            G  S + ++P GI R+T LRTL+ F V GGG D +    L  LKNL  +    RV  L 
Sbjct: 659 CG--SIVAFMPKGIERITCLRTLDWFAVCGGGEDESKAANLRELKNLNHIGGSLRVYNLR 716

Query: 475 SNVSHVDEAERLQLYNKKNL--LRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNV 532
             +    +A   QL NKK L  L+L   F R             END  L+EALQPP ++
Sbjct: 717 GGLEGARDAAEAQLKNKKRLRCLQLYFDFDR-------------END-ILIEALQPPSDL 762

Query: 533 EELWIVYYGGNIFPKWLTLLTNLRDLNLD 561
           E L I  YGG  FP W+  LT L++L LD
Sbjct: 763 EYLTISRYGGLDFPNWMMTLTRLQELTLD 791

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482790|ref|XP_002268671.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  369 bits (946), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 226/564 (40%), Positives = 328/564 (58%), Gaps = 83/564 (14%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREK-LEPI 60
           G  GS+I+ TTR  SV +MMR+T    +  L  ++  +LF + AF+  S+ ++E+ L+ I
Sbjct: 302 GAAGSRILATTRKESVVKMMRATYKHPLGELSSEQSRALFHQIAFYERSTWEKEEELKEI 361

Query: 61  ARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLA 120
             +IA KCKGLPLA K  GNLL           K+   EW+ +L+SEVW+++E ++ +  
Sbjct: 362 GEKIADKCKGLPLAIKTLGNLL---------RIKNSEEEWKNVLNSEVWQLDEFERDISP 412

Query: 121 PLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEE 180
            LLLSY DLP    ++RCFS+CAVFPKD  + + ELI LWMAQ YL +D  +EMEM+G  
Sbjct: 413 ALLLSYYDLPP--AIQRCFSFCAVFPKDSVIERDELIKLWMAQSYLKSDGSKEMEMVGRT 470

Query: 181 YFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFF 240
           YF  LA RSFFQ+FEK DDD +I+ CKMHDIVHDFAQF++  EC  VE++  K+  ++ F
Sbjct: 471 YFEYLAARSFFQDFEK-DDDGNIIHCKMHDIVHDFAQFLTLNECFIVEVDNQKKGSMDLF 529

Query: 241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLY 300
            +K+RH                      +L++ +++   P+   +  + + ++L+     
Sbjct: 530 FQKIRHA---------------------TLVVREST---PNFASTCNMKNLHTLL----- 560

Query: 301 LVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV 360
                         +  + +S +L E    L CLRAL +            LI E+P+ V
Sbjct: 561 --------------AKRAFDSRVL-EALGHLTCLRALDLRSN--------QLIEELPKEV 597

Query: 361 EKLIHLKYLNLSGL-RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNG 419
            KLIHL+YLNLS    +  LPET+C+LYNLQ L+I+ C  L++LP  +GKL N+R L N 
Sbjct: 598 GKLIHLRYLNLSYCDSLRELPETICDLYNLQTLNIQACSRLQKLPQAMGKLINLRHLENY 657

Query: 420 DTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVS 478
           D   L+ LP GI RL+SL+TL+ F+V     GN+ C++E L+NL  LR    ++GL  V 
Sbjct: 658 DADDLQGLPKGIGRLSSLQTLDVFIVSS--HGNDECQIEDLRNLNNLRGRLSIQGLDEVK 715

Query: 479 HVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIV 538
              EAE+ +L N+ +L RL L+FG      GEEG +       + EALQP  N++ L I+
Sbjct: 716 DAGEAEKAELQNRVHLQRLTLEFG------GEEGTKG------VAEALQPHPNLKFLCII 763

Query: 539 YYGGNIFPKWL--TLLTNLRDLNL 560
            YG   +P W+  + L  L+ L+L
Sbjct: 764 RYGDREWPNWMMGSSLAQLKILHL 787

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255554080|ref|XP_002518080.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223542676|gb|EEF44213.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  367 bits (942), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 225/558 (40%), Positives = 306/558 (54%), Gaps = 71/558 (12%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQI 64
           GS+I+VTTRN   + MM +   +S+  L   + W LF RFAF+G S  DR  LE   R+I
Sbjct: 309 GSRILVTTRNERASMMMEACYRLSLGKLSPVDSWLLFSRFAFYGKSREDRCNLEATGRKI 368

Query: 65  ARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLL 124
           A +CKGLPLA K  G+L+  K T            W+ ILDSE+W++EE+++G+  PLLL
Sbjct: 369 ADRCKGLPLALKTLGSLMRFKETKQ---------AWEDILDSELWEIEEVERGIFTPLLL 419

Query: 125 SYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNI 184
           SY DLPS   +KRCF+YCA+FPKDY M+K  LI+ WMAQG+L      +ME  G EYF+ 
Sbjct: 420 SYYDLPSP--MKRCFTYCAIFPKDYKMDKETLIHHWMAQGFLVPSGSMDMEQKGAEYFDN 477

Query: 185 LATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKV 244
           LA RSFFQ+ E+D DD   + CKMH+IVHDFAQF+++ ECL ++++      ++    + 
Sbjct: 478 LAMRSFFQDLERDMDDPRKITCKMHEIVHDFAQFLTKNECLIIDVDERHISGLDMLHTRT 537

Query: 245 RHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSS 304
           RH+ L       F  S + F  LR+LL+                    ++   +  + S 
Sbjct: 538 RHLTL-IGPMEYFHPSVYNFRNLRTLLVLQ--------------KEMLTVPGDLFRIRSI 582

Query: 305 PGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLI 364
           PG                   +LF+ L  LR L +S           LI  +P  + KL+
Sbjct: 583 PG-------------------DLFNCLTSLRGLDLSH---------TLITRLPSEIGKLL 614

Query: 365 HLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSL 424
           HL++LNLS L +E LP TL  LYNLQ L++ RC+ L+ LP G+GKLKN+R L   +T  L
Sbjct: 615 HLRWLNLSKLDLEELPNTLSNLYNLQTLNLDRCKRLQRLPGGLGKLKNLRHLNLRETDCL 674

Query: 425 KYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVSHVDEA 483
              P GI RL++LR L KFVV    +G   C +  LKNL+ LR    +  L  V   D+A
Sbjct: 675 NIFPQGIERLSNLRMLTKFVVSENKEG---CNIAELKNLKYLRGHLEISRLEKVVDTDKA 731

Query: 484 ERLQLYNKK-NLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGG 542
           +   L NK    L L   FG              E  E ++E LQP   +E L +  YGG
Sbjct: 732 KEADLTNKHLQSLDLVFSFG------------VKEAMENVIEVLQPHPELEALQVYDYGG 779

Query: 543 NIFPKWLTLLTNLRDLNL 560
           +IFP W+TLLT L+ L L
Sbjct: 780 SIFPNWITLLTKLKHLRL 797

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110248|ref|XP_002333128.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834939|gb|EEE73388.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  366 bits (940), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 230/566 (40%), Positives = 320/566 (56%), Gaps = 85/566 (15%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQI 64
           GS+I+VTTR  +VA MM + + I+I+ L ++   S+F   AF   S  +RE+L  I  +I
Sbjct: 242 GSRILVTTRKDAVATMMGTDHRINIEKLSDEICRSIFNHVAFQERSEDERERLTDIGDKI 301

Query: 65  ARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQG-----LL 119
           A KCKGLPLAAKV G L+  KRT           EW+R+L SE+W+++E+ +      + 
Sbjct: 302 ANKCKGLPLAAKVLGGLMQSKRTRE---------EWERVLSSELWRLDEVDRDQVESRIF 352

Query: 120 APLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGE 179
            PLLLSY DLPS  +V+RCF YCA+FPKD+ M K EL+ +WMAQGY+      +ME++GE
Sbjct: 353 IPLLLSYYDLPS--VVRRCFLYCAMFPKDFEMVKDELVKMWMAQGYIKETSGGDMELVGE 410

Query: 180 EYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINF 239
            YF++LA RSFFQ+FE D  +   ++ KMHDIVHDFAQ++++ ECL V++N      +  
Sbjct: 411 RYFHVLAARSFFQDFETDRFEG--MKFKMHDIVHDFAQYMTKNECLTVDVNTLGGATVET 468

Query: 240 FGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVL 299
             E+VRH+ +      SFP+S  +   LRSLLI DT                        
Sbjct: 469 SIERVRHLSMMVSEETSFPVSIHKAKGLRSLLI-DT------------------------ 503

Query: 300 YLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN 359
                           +PS  ++ L +LF +L C+R+L +S  S         I+EIP  
Sbjct: 504 ---------------RDPSFGAA-LPDLFKQLTCIRSLDLSASS---------IKEIPNE 538

Query: 360 VEKLIHLKYLNLSGL-RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLN 418
           V KLIHL+++NL+    +ESLPET+C+L NLQ LD+  C+ L+ELP  IGKL  +R  L 
Sbjct: 539 VGKLIHLRHVNLARCGELESLPETMCDLCNLQSLDVTWCRSLKELPNAIGKLIKLRH-LR 597

Query: 419 GDTSSLKYLPIGISRLTSLRTLEKF-VVGGGVDGNNTCRLESLKNL-QLLRECRVEGL-S 475
              S + ++P GI R+T LRTL+ F V GGG + +    L  LKNL  +     +  L  
Sbjct: 598 IYRSGVDFIPKGIERITCLRTLDVFKVCGGGENESKAANLRELKNLNHIGGSFSIRNLGG 657

Query: 476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEEL 535
            +    +A   QL NKK LLRL L F              N+ +  L+EALQPP ++E L
Sbjct: 658 GIEDASDAAEAQLKNKKRLLRLELGFD------------YNQENGILIEALQPPSDLECL 705

Query: 536 WIVYYGGNIFPKWLTLLTNLRDLNLD 561
            I  YGG   P W+  LT L++L LD
Sbjct: 706 TISSYGGLDLPHWMMTLTRLQELRLD 731

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130338|ref|XP_002328584.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222838566|gb|EEE76931.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  365 bits (937), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 220/561 (39%), Positives = 304/561 (54%), Gaps = 78/561 (13%)

Query: 1   NGLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPI 60
           +G PGS+I+VTTRN  V++MM +  ++ +  L  ++ WSLF +FAF+G S  DR+ LE I
Sbjct: 299 SGAPGSRILVTTRNEGVSKMMDAAYMLPLGKLSPEDSWSLFSKFAFYGKSREDRDNLEEI 358

Query: 61  ARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLA 120
            R+IA KC+GLPLA K  G+L+  K T            W+ +L SE+W+ EE ++G+  
Sbjct: 359 GREIADKCQGLPLAVKSLGSLMRFKETKQ---------AWENVLHSELWESEEAERGIFP 409

Query: 121 PLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEE 180
            LLLSY+DL  +  +KRCF++CA+FP+D+ + +  LI LWMAQG+L      EME IG E
Sbjct: 410 HLLLSYHDL--SPPIKRCFAFCAIFPRDHKIERDTLIQLWMAQGFLVPTGSVEMEQIGAE 467

Query: 181 YFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFF 240
           YF+ L  RSFFQ+ E+D DD  I+ C+MHDIV  FAQF+S+ +C  +E +    L +   
Sbjct: 468 YFDNLVMRSFFQDLERDRDDFSIVACRMHDIVQSFAQFLSKNQCFVIEFDEKNVLEMASL 527

Query: 241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLY 300
             K RH+ L  +     P+  F    LR+L +                            
Sbjct: 528 HTKARHMTLTGREKQFHPI-IFNLKNLRTLQVLQK------------------------- 561

Query: 301 LVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV 360
                     D   + P        +LF  L CLR L +S  S         I  +P  V
Sbjct: 562 ----------DVKTAPP--------DLFHGLQCLRGLDLSHTS---------ITGLPSAV 594

Query: 361 EKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGD 420
            +L HL++LNLSGL    LP+T+C+LYNL  L +  C+ L  LP G+GKL N+R L   +
Sbjct: 595 GRLFHLRWLNLSGLNFVVLPDTICKLYNLLALKLHGCRRLHRLPRGLGKLINLRYLNIEE 654

Query: 421 TSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVSH 479
           T SL  LP GI RL++LRTL KF +G   +G   C +  LKNL  LR    + GL  V +
Sbjct: 655 TESLSVLPQGIGRLSNLRTLSKFCIGENREG---CNVGELKNLNHLRGHLEISGLEKVRN 711

Query: 480 VDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVY 539
           V+E     L NK++L  L L F               E    +LEALQP  N+E L +  
Sbjct: 712 VNEVMEANLKNKEHLRSLDLAFSFGG----------QELITNVLEALQPHPNLEALLVYD 761

Query: 540 YGGNIFPKWLTLLTNLRDLNL 560
           YGG+I P W+TLLT ++DL L
Sbjct: 762 YGGSILPSWMTLLTKMKDLKL 782

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134406|ref|XP_002321815.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222868811|gb|EEF05942.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  364 bits (935), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 229/562 (40%), Positives = 315/562 (56%), Gaps = 74/562 (13%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIA 61
           G PGS+I+VTTR  +VA+MM S   + +  L ++E WS+F + AF+G S    E    I 
Sbjct: 329 GAPGSRILVTTRKDTVAKMMESDYSLLLGKLTDEECWSVFSQVAFYGRSQDACEMFTEIG 388

Query: 62  RQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAP 121
           RQI  +CKGLPLAAK  G L+          SK+   +W  IL +E+W++EE+++G+  P
Sbjct: 389 RQIVYRCKGLPLAAKTLGGLM---------QSKTTTEDWDNILSNELWEIEEVEKGIFPP 439

Query: 122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEY 181
           LLLSY DLP    ++ CF+YCA+FPKD+ M + +LI +WMAQGYL A   +EME++G+ Y
Sbjct: 440 LLLSYYDLPV--AIRSCFTYCAMFPKDHVMERGKLIKMWMAQGYLKASPSKEMELVGKGY 497

Query: 182 FNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFG 241
           F ILATR+FFQ+F++ D+D   ++ KMHDIVHDFAQF+ + EC  VE +  K      F 
Sbjct: 498 FEILATRAFFQDFQETDEDS--IKFKMHDIVHDFAQFLMKDECFTVETDVLKRQKTESFY 555

Query: 242 EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYL 301
           E+ RH  +     A FP S ++  +LRSLLI          F   AIS            
Sbjct: 556 ERARHAIMTVSNWARFPQSIYKAGKLRSLLIRS--------FNDTAISKP---------- 597

Query: 302 VSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVE 361
                                 L EL  KL  LR         +F    + I EIP +V 
Sbjct: 598 ----------------------LLELLRKLTYLR---------LFDLSASQIEEIPSDVG 626

Query: 362 KLIHLKYLNLSGLR-IESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNG 419
           KL+HL+YL+ S  + ++ LPET+ +LYNLQ LD+  C  L++LP  + KL  +R L + G
Sbjct: 627 KLLHLRYLDFSYCKWLKELPETISDLYNLQSLDLTWCVALKKLPQKMRKLIRLRHLEIFG 686

Query: 420 DTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVS 478
             S + +LP GI  LTSLRTL  F+V GG   +    L  L NL  LR    +E L NV 
Sbjct: 687 --SGVAFLPRGIEELTSLRTLTNFIVSGGGGQSGAANLGELGNLSHLRGTLWIEKLLNVR 744

Query: 479 HVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIV 538
            V+EA + ++  KK L+ L L F R      E   R +EN   L+EALQPP N++ L I 
Sbjct: 745 DVNEAVKAEIKKKKYLIGLYLLFNR-----DETDLRVDEN--ALVEALQPPSNLQVLCIS 797

Query: 539 YYGGNIFPKWLTLLTNLRDLNL 560
            + G + PKW+  LT LR L++
Sbjct: 798 EFRGTLLPKWIMSLTKLRGLDI 819

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147825450|emb|CAN71072.1| hypothetical protein VITISV_000086 [Vitis vinifera]

 Score =  363 bits (932), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 226/550 (41%), Positives = 315/550 (57%), Gaps = 75/550 (13%)

Query: 2   GLPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIA 61
           G  GS+I+VTTRN +V  MMR+T + S+  L ED+   LF + AF G +    E L+ I 
Sbjct: 302 GAVGSRILVTTRNENVVEMMRTTYMHSLGKLSEDKSRELFYQIAFSGKNREKMEDLKEIG 361

Query: 62  RQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAP 121
            +IA KCKGLPLA K  GNL+          SK    EW+ +L SEVWK++     +   
Sbjct: 362 EKIADKCKGLPLAIKTLGNLM---------RSKHNREEWENVLCSEVWKLDVFGIYISPA 412

Query: 122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEY 181
           LLLSY+DLP    ++RCFS+CAVFPKD  +   ELI LWMAQ YLN+D  +EMEM+G  Y
Sbjct: 413 LLLSYHDLPPE--IQRCFSFCAVFPKDSVIWSDELIKLWMAQSYLNSDRSKEMEMVGRTY 470

Query: 182 FNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFG 241
           F  LA RSFFQ+FEK DDD +I+ CKMHDIVHDFAQF+++ EC  VE++  K+  ++ F 
Sbjct: 471 FEYLAARSFFQDFEK-DDDGNIICCKMHDIVHDFAQFLTQNECFIVEVDNQKKGSMDLFF 529

Query: 242 EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYL 301
           +K+RH                      +L++ +++   P+   +  + + ++L+    + 
Sbjct: 530 QKIRHA---------------------TLVVREST---PNFASTCNMKNLHTLLAKEEF- 564

Query: 302 VSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVE 361
                         B S     L  L   L CLRAL +S+          LI E+P+ V 
Sbjct: 565 --------------BISXVLEALXNLLRHLTCLRALDLSRN--------RLIEELPKEVG 602

Query: 362 KLIHLKYLNLS-GLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGD 420
           KLIHL+YLNLS   R+  LPET+C+LYNLQ L+I  C  L++LP  +GKL N+R L N +
Sbjct: 603 KLIHLRYLNLSLCYRLRELPETICDLYNLQTLNIEGCSSLQKLPQAMGKLINLRHLENCN 662

Query: 421 TSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVSH 479
           T SLK LP GI RL+SL+TL+ F+V     GN+ C++  L+NL  LR    ++ L  V  
Sbjct: 663 TGSLKGLPKGIGRLSSLQTLDVFIVSS--HGNDECQIGDLRNLNNLRGGLSIQRLDEVKD 720

Query: 480 VDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVY 539
             EAE+ +L N+ +   L L+FG+    EG +G         + EALQP  N++ L I  
Sbjct: 721 AGEAEKAELKNRVHFQYLTLEFGK---KEGTKG---------VAEALQPHPNLKSLDIFN 768

Query: 540 YGGNIFPKWL 549
           YG   +P W+
Sbjct: 769 YGDREWPNWM 778

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	561
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.317	0.168	0.347	6.7e-43
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.401	0.124	0.333	1.5e-33
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.376	0.247	0.290	1.7e-32
TAIR|locus:2077572	926	RPM1 "RESISTANCE TO P. SYRINGA	0.372	0.225	0.334	1.6e-30
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.638	0.251	0.277	1.4e-27
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.352	0.232	0.312	3e-23
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.408	0.270	0.290	1.6e-22
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.354	0.223	0.289	6.5e-22
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.263	0.161	0.335	9.3e-22
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.406	0.268	0.298	1e-21

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 6.7e-43, Sum P(2) = 6.7e-43
 Identities = 66/190 (34%), Positives = 108/190 (56%)

Query:     5 GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQI 64
             GS+I+VTTR+  VA +M + ++ +++PL + + WSLF +  F         ++  +A +I
Sbjct:   307 GSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNREIGDLAERI 366

Query:    65 ARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLL 124
               KC+GLPLA K  G +L  +  G ++       EW+R+L S +W +   K  LL  L +
Sbjct:   367 VHKCRGLPLAVKTLGGVL--RFEGKVI-------EWERVLSSRIWDLPADKSNLLPVLRV 417

Query:   125 SYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXXXXXXXXXX-YFN 183
             SY  LP++  +KRCF+YC++FPK +   K +++ LWMA+G+L               YF+
Sbjct:   418 SYYYLPAH--LKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSSKNLEELGNEYFS 475

Query:   184 ILATRSFFQE 193
              L +RS  Q+
Sbjct:   476 ELESRSLLQK 485

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

UNIPROTKB|O48647 O48647 "XA1" [Oryza sativa (taxid:4530)]

 Score = 325 (119.5 bits), Expect = 1.5e-33, Sum P(2) = 1.5e-33
 Identities = 82/246 (33%), Positives = 131/246 (53%)

Query:     5 GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREK-LEPIARQ 63
             G+ I++TTR  S+A+ + +   I ++ L +D+ WSLF+  AF G+   D    L+ + +Q
Sbjct:   438 GNMIILTTRIQSIAKSLGTVQSIKLEALKDDDIWSLFKVHAF-GNDKHDSSPGLQVLGKQ 496

Query:    64 IARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLL 123
             IA + KG PLAAK  G+LL     G  L+    ++ W  I+ SE WK  +   G++  L 
Sbjct:   497 IASELKGNPLAAKTVGSLL-----GTNLT----IDHWDSIIKSEEWKSLQQAYGIMQALK 547

Query:   124 LSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXXXXXXXXXXYFN 183
             LSY+ L SN + ++C SYC++FPK Y+ +K +LI +W+AQG++              Y  
Sbjct:   548 LSYDHL-SNPL-QQCVSYCSLFPKGYSFSKAQLIQIWIAQGFVEESSEKLEQKGWK-YLA 604

Query:   184 ILATRSFFQEFEKXXXXXXILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEK 243
              L    F Q+ E            MHD++HD AQ VS+ E  +  I+G++          
Sbjct:   605 ELVNSGFLQQVESTRFSSEYF--VMHDLMHDLAQKVSQTE--YATIDGSE---CTELAPS 657

Query:   244 VRHIGL 249
             +RH+ +
Sbjct:   658 IRHLSI 663

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2078012 ZAR1 "HOPZ-ACTIVATED RESISTANCE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 260 (96.6 bits), Expect = 1.7e-32, Sum P(2) = 1.7e-32
 Identities = 67/231 (29%), Positives = 118/231 (51%)

Query:     2 GLP---GSKIVVTTRNVSVARMMRSTNIISIKP--LPEDEFWSLFERFAFFGHSSV-DRE 55
             GLP   G  ++VTTR+ SVA+ +++ +  + +P  L  D  W LF   AF  +    +R 
Sbjct:   283 GLPRGQGGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAANDGTCERP 342

Query:    56 KLEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILD---SEVWKVE 112
             +LE + ++I  KCKGLPL  K  G LL        L    + +EW+RI +    E+    
Sbjct:   343 ELEDVGKEIVTKCKGLPLTIKAVGGLL--------LCKDHVYHEWRRIAEHFQDELRGNT 394

Query:   113 EIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXX 172
                  +++ L LSY++LPS+  +K C    +++P+D  + K++L++ W+ +G++      
Sbjct:   395 SETDNVMSSLQLSYDELPSH--LKSCILTLSLYPEDCVIPKQQLVHGWIGEGFVMWRNGR 452

Query:   173 XXXXXXXXYFNILATRSFFQEFEKXXXXXXILRCKMHDIVHDFAQFVSRKE 223
                      F+ L  R   +  +K      I+ CK+HD+V D    +++K+
Sbjct:   453 SATESGEDCFSGLTNRCLIEVVDKTYSGT-IITCKIHDMVRDLVIDIAKKD 502

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2077572 RPM1 "RESISTANCE TO P. SYRINGAE PV MACULICOLA 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 291 (107.5 bits), Expect = 1.6e-30, Sum P(2) = 1.6e-30
 Identities = 77/230 (33%), Positives = 124/230 (53%)

Query:     1 NGLPGSKIVVTTRNVSVARM---MRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDR-EK 56
             +G+ GS++++TTR+++VA     + ST    I+ L EDE W LF   AF       R + 
Sbjct:   303 DGIYGSRVMMTTRDMNVASFPYGIGSTKH-EIELLKEDEAWVLFSNKAFPASLEQCRTQN 361

Query:    57 LEPIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVE---E 113
             LEPIAR++  +C+GLPLA     +L      G+++S+K   +EW+++  +  W++    E
Sbjct:   362 LEPIARKLVERCQGLPLAI---ASL------GSMMSTKKFESEWKKVYSTLNWELNNNHE 412

Query:   114 IKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXXX 173
             +K  + + + LS+NDLP    +KRCF YC++FP +Y M ++ LI +WMAQ ++       
Sbjct:   413 LKI-VRSIMFLSFNDLPYP--LKRCFLYCSLFPVNYRMKRKRLIRMWMAQRFVEPIRGVK 469

Query:   174 XXXXXXXYFNILATRSFFQEFEKXXXXXXILRCKMHDIVHDFAQFVSRKE 223
                    Y N L  R+  Q              KMHD++ + A  VS+ E
Sbjct:   470 AEEVADSYLNELVYRNMLQVI-LWNPFGRPKAFKMHDVIWEIALSVSKLE 518

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0000166 "nucleotide binding" evidence=ISS

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

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 1.4e-27, Sum P(2) = 1.4e-27
 Identities = 111/400 (27%), Positives = 187/400 (46%)

Query:     5 GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVD--REKLEPIAR 62
             GSKIV+TTR+  V+ + ++  I  +K +  +E W L  RFAF G+ SV    ++LE I +
Sbjct:   302 GSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAF-GNISVGSINQELEGIGK 360

Query:    63 QIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPL 122
             +IA +CKGLPLAA+   + L          SK   ++W  +  +           +L  L
Sbjct:   361 RIAEQCKGLPLAARAIASHL---------RSKPNPDDWYAVSKN----FSSYTNSILPVL 407

Query:   123 LLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYL-NAXXXXXXXXXXXXY 181
              LSY+ LP    +KRCF+ C++FPK +  ++ EL+ LWMA   L               Y
Sbjct:   408 KLSYDSLPPQ--LKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIGNDY 465

Query:   182 FNILATRSFFQEFEKXXXXXXILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFG 241
                L  +SFFQ  +            MHD+++D A+ VS   C  +E +   E+      
Sbjct:   466 LGDLVAQSFFQRLDITMTSFV-----MHDLMNDLAKAVSGDFCFRLEDDNIPEIP----- 515

Query:   242 EKVRHIGLN-FQRGASFPM-SFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAY--SLVNA 297
                RH   +  Q  AS    S    + LR++L +++    P+  +S+ ++      L+NA
Sbjct:   516 STTRHFSFSRSQCDASVAFRSICGAEFLRTILPFNS----PTSLESLQLTEKVLNPLLNA 571

Query:   298 V--LYLVSSPGLGIDDEXXXXXXXXXXXXRELFS-KLACLRALV--ISQPSPIFRPDLNL 352
             +  L ++S     I +              +L S K+  L   V  +     +   +   
Sbjct:   572 LSGLRILSLSHYQITNLPKSLKGLKLLRYLDLSSTKIKELPEFVCTLCNLQTLLLSNCRD 631

Query:   353 IREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKL 392
             +  +P+++ +LI+L+ L+L G  +  +P  + +L +LQKL
Sbjct:   632 LTSLPKSIAELINLRLLDLVGTPLVEMPPGIKKLRSLQKL 671

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 267 (99.0 bits), Expect = 3.0e-23, Sum P(2) = 3.0e-23
 Identities = 69/221 (31%), Positives = 106/221 (47%)

Query:     5 GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVD-REKLEPIARQ 63
             GSKIV TTR+  V R M     + +  LP DE W LF++    G   +   E +  +AR+
Sbjct:   283 GSKIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWELFQKKV--GPIPLQSHEDIPTLARK 340

Query:    64 IARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRI---LDSEVWKVEEIKQGLLA 120
             +A KC GLPLA  V G  +  + T         V EWQ +   L+S   +   +++ +L 
Sbjct:   341 VAEKCCGLPLALSVIGKAMASRET---------VQEWQHVIHVLNSSSHEFPSMEEKILP 391

Query:   121 PLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXXXXXXXXXX 180
              L  SY+DL  +  VK CF YC++FP+DY + K ELI  WM +G+++             
Sbjct:   392 VLKFSYDDL-KDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANNKGH 450

Query:   181 -YFNILATRSFFQEFEKXXXXXXILRCKMHDIVHDFAQFVS 220
                  L       + E         + KMHD++ + A +++
Sbjct:   451 DIIGSLVRAHLLMDGELTT------KVKMHDVIREMALWIA 485

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 247 (92.0 bits), Expect = 1.6e-22, Sum P(2) = 1.6e-22
 Identities = 72/248 (29%), Positives = 122/248 (49%)

Query:     5 GSKIVVTTRNVSVARMMRSTNII-SIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQ 63
             GSK+++TTR  ++A  +  T     ++ L  +E W+LFER AF     VD E L+   ++
Sbjct:   299 GSKVIITTRIRAIAEGVEGTVYAHKLRFLTFEESWTLFERKAFSNIEKVD-EDLQRTGKE 357

Query:    64 IARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWK-VEEIKQGLLAPL 122
             + +KC GLPLA  V   LL  KRT          NEW  +  S +W+ +++    +    
Sbjct:   358 MVKKCGGLPLAIVVLSGLLSRKRT----------NEWHEVCAS-LWRRLKDNSIHISTVF 406

Query:   123 LLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXXXXXXXXXXYF 182
              LS+ ++     +K CF Y +VFP+DY +   +LI+L +A+G++              Y 
Sbjct:   407 DLSFKEMRHE--LKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFIQEDEEMMMEDVARCYI 464

Query:   183 NILATRSFFQEFEKXXXXXXILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGE 242
             + L  RS  +  E+      ++ C++HD++ D A     KE  +V +   K+   +    
Sbjct:   465 DELVDRSLVKA-ERIERGK-VMSCRIHDLLRDLA-IKKAKELNFVNVYNEKQHSSDICRR 521

Query:   243 KVRHIGLN 250
             +V H  +N
Sbjct:   522 EVVHHLMN 529

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 231 (86.4 bits), Expect = 6.5e-22, Sum P(2) = 6.5e-22
 Identities = 64/221 (28%), Positives = 106/221 (47%)

Query:     5 GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEP-IARQ 63
             G K+  TTR+  V   M   + + +  L  +E W LF+     G +++      P +AR+
Sbjct:   286 GCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKV--GKNTLGSHPDIPGLARK 343

Query:    64 IARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILD---SEVWKVEEIKQGLLA 120
             +ARKC+GLPLA  V G  +  KRT         V+EW   +D   S       ++  +L 
Sbjct:   344 VARKCRGLPLALNVIGEAMACKRT---------VHEWCHAIDVLTSSAIDFSGMEDEILH 394

Query:   121 PLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXXXXXXXXXX 180
              L  SY++L +  ++K CF YC++FP+DY ++K  L++ W+++G++N             
Sbjct:   395 VLKYSYDNL-NGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRERNINQGY 453

Query:   181 -YFNILATRSFFQEFEKXXXXXXILRCKMHDIVHDFAQFVS 220
                  L       E E+          KMHD+V + A ++S
Sbjct:   454 EIIGTLVRACLLLEEERNKS-----NVKMHDVVREMALWIS 489

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:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 202 (76.2 bits), Expect = 9.3e-22, Sum P(2) = 9.3e-22
 Identities = 55/164 (33%), Positives = 86/164 (52%)

Query:     6 SKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIA 65
             SK+V+T+R + V + M +   I +  L E E W LF      G  + + + ++PIA+ ++
Sbjct:   246 SKVVLTSRRLEVCQQMMTNENIKVACLQEKEAWELFCHNV--GEVA-NSDNVKPIAKDVS 302

Query:    66 RKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEI--KQGLLAPLL 123
              +C GLPLA    G      RT   L  K  V  W+  L+        I  ++ +   L 
Sbjct:   303 HECCGLPLAIITIG------RT---LRGKPQVEVWKHTLNLLKRSAPSIDTEEKIFGTLK 353

Query:   124 LSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLN 167
             LSY+ L  N  +K CF +CA+FP+DY++   ELI  W+A+G L+
Sbjct:   354 LSYDFLQDN--MKSCFLFCALFPEDYSIKVSELIMYWVAEGLLD 395

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 249 (92.7 bits), Expect = 1.0e-21, Sum P(2) = 1.0e-21
 Identities = 76/255 (29%), Positives = 116/255 (45%)

Query:     5 GSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQI 64
             GSKIV TTR+  V + M++   I +  L  DE W LF R           + +  +AR +
Sbjct:   281 GSKIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELF-RLTVGDIILRSHQDIPALARIV 339

Query:    65 ARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQR---ILDSEVWKVEEIKQGLLAP 121
             A KC GLPLA  V G  +  K T         V EW+    +L+S   K   +++ +L  
Sbjct:   340 AAKCHGLPLALNVIGKAMVCKET---------VQEWRHAINVLNSPGHKFPGMEERILPI 390

Query:   122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAXXXXXXXXXXXX- 180
             L  SY+ L  N  +K CF YC++FP+D+ + K +LI  W+ +GY+N              
Sbjct:   391 LKFSYDSL-KNGEIKLCFLYCSLFPEDFEIEKDKLIEYWICEGYINPNRYEDGGTNQGYD 449

Query:   181 YFNILATRSFFQEFEKXXXXXXILRCKMHDIVHDFA-----QFVSRKECLWVEINGTKEL 235
                +L       E E         + KMHD++ + A      F +++E + V+      L
Sbjct:   450 IIGLLVRAHLLIECELTD------KVKMHDVIREMALWINSDFGNQQETICVKSGAHVRL 503

Query:   236 VINFFG-EKVRHIGL 249
             + N    E VR + L
Sbjct:   504 IPNDISWEIVRQMSL 518

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	561
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-35
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	1e-04

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

 Score =  133 bits (338), Expect = 2e-35
 Identities = 66/168 (39%), Positives = 97/168 (57%), Gaps = 15/168 (8%)

Query: 5   GSKIVVTTRNVSVARMMRSTN-IISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQ 63
           GS+++VTTR+ SVA  M  T+    ++ L  +E W LF    F        E LE +A++
Sbjct: 128 GSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPE-LEEVAKE 186

Query: 64  IARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQ--GLLAP 121
           I  KCKGLPLA KV G LL         + KS V EW+ +L+    ++        +L+ 
Sbjct: 187 IVEKCKGLPLALKVLGGLL---------AFKSTVQEWEHVLEQLNNELAGRDGLNEVLSI 237

Query: 122 LLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNAD 169
           L LSY++LP +  +KRCF Y A+FP+DYN+ K +LI LW+A+G++   
Sbjct: 238 LSLSYDNLPMH--LKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPS 283

Length = 285

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

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 48/172 (27%), Positives = 72/172 (41%), Gaps = 31/172 (18%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQ------------ 398
           N I  +P  +  L +LK L+LS   +  LP+ L  L NL  LD+   +            
Sbjct: 150 NKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLS 209

Query: 399 ----------DLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGG 448
                      + EL + +  LKN+ S L    + L+ LP  I  L++L TL+       
Sbjct: 210 ALEELDLSNNSIIELLSSLSNLKNL-SGLELSNNKLEDLPESIGNLSNLETLD------- 261

Query: 449 VDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQ 500
           +  N    + SL +L  LRE  + G S +S+      L L   + LL L L 
Sbjct: 262 LSNNQISSISSLGSLTNLRELDLSGNS-LSNALPLIALLLLLLELLLNLLLT 312

Length = 394

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	561
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	99.88
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.8
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.78
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.77
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.76
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.67
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.66
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.62
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.62
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.61
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.6
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.38
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.36
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.35
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.32
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.21
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.19
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.18
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.15
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.13
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.1
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.06
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.02
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.0
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.98
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.83
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.81
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.74
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.74
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.7
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.59
PLN03150	623	hypothetical protein; Provisional	98.55
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.46
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.46
PLN03150	623	hypothetical protein; Provisional	98.32
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.31
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.29
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.2
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.14
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.12
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.11
PRK15386	426	type III secretion protein GogB; Provisional	98.06
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.04
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.88
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.85
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.83
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.74
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.69
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.5
PRK15386	426	type III secretion protein GogB; Provisional	97.46
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.44
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.37
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.16
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.65
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.64
KOG4341	483	consensus F-box protein containing LRR [General fu	96.56
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.5
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.31
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.22
PRK04841	903	transcriptional regulator MalT; Provisional	96.01
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.93
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.82
KOG4341	483	consensus F-box protein containing LRR [General fu	95.74
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.55
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.43
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.25
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.24
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.21
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.31
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	93.56
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.36
KOG1947	482	consensus Leucine rich repeat proteins, some prote	93.35
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	92.99
KOG0473	326	consensus Leucine-rich repeat protein [Function un	92.52
KOG0473	326	consensus Leucine-rich repeat protein [Function un	91.42
smart00370	26	LRR Leucine-rich repeats, outliers.	90.63
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	90.63
PRK06893	229	DNA replication initiation factor; Validated	89.12
KOG1947	482	consensus Leucine rich repeat proteins, some prote	88.43
KOG3864	221	consensus Uncharacterized conserved protein [Funct	86.42
smart00370	26	LRR Leucine-rich repeats, outliers.	86.37
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	86.37
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	86.0
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	83.83
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	82.61

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=3.7e-54  Score=465.69  Aligned_cols=428  Identities=30%  Similarity=0.460  Sum_probs=327.9

Q ss_pred             CCCcEEEEEcCchHHHhh-cCCcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhh
Q 043450            3 LPGSKIVVTTRNVSVARM-MRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNL   81 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~~~-~~~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~   81 (561)
                      ..||||++|||++.|+.. ++++..+++++|.++|||+||++.||..... .++.++++|++||++|+|||||+.++|+.
T Consensus       287 ~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~-~~~~i~~lak~v~~kC~GLPLAl~viG~~  365 (889)
T KOG4658|consen  287 ENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLG-SHPDIEELAKEVAEKCGGLPLALNVLGGL  365 (889)
T ss_pred             cCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccc-ccccHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            468999999999999998 8888999999999999999999999865332 23459999999999999999999999999


Q ss_pred             ccccccccccCCcchhHHHHHHHhhhhhhh----hhhcccccchhhhcccCCCCChhhhhhhhhhcccCCCcccCHHHHH
Q 043450           82 LCDKRTGNLLSSKSIVNEWQRILDSEVWKV----EEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELI  157 (561)
Q Consensus        82 L~~~~~~~~l~~~~~~~~w~~~~~~~~~~~----~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a~fp~~~~i~~~~Li  157 (561)
                      |         +.+.+.++|+++.+...+..    .+....++.++++||+.||+  ++|.||+|||.||+|+.|+++.|+
T Consensus       366 m---------a~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~--~lK~CFLycalFPED~~I~~e~Li  434 (889)
T KOG4658|consen  366 L---------ACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPE--ELKSCFLYCALFPEDYEIKKEKLI  434 (889)
T ss_pred             h---------cCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhH--HHHHHHHhhccCCcccccchHHHH
Confidence            5         44556889999988654442    23356888999999999997  899999999999999999999999


Q ss_pred             HHHHHcCCCCCCc-chhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEecHHHHHHHHHhhc-----cceEEEeec-
Q 043450          158 NLWMAQGYLNADE-DEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSR-----KECLWVEIN-  230 (561)
Q Consensus       158 ~~w~a~g~~~~~~-~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~mhdlv~~~~~~i~~-----~e~~~~~~~-  230 (561)
                      .+|+||||+.+.+ ...+++.|.+|+.+|++++|+......  +... +|+|||++++||.++++     ++..+.... 
T Consensus       435 ~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~--~~~~-~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~  511 (889)
T KOG4658|consen  435 EYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDE--GRKE-TVKMHDVVREMALWIASDFGKQEENQIVSDGV  511 (889)
T ss_pred             HHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccc--ccee-EEEeeHHHHHHHHHHhccccccccceEEECCc
Confidence            9999999999854 456899999999999999999886543  3333 39999999999999999     666444432 


Q ss_pred             CcceeeeeecCCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCC
Q 043450          231 GTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGID  310 (561)
Q Consensus       231 ~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  310 (561)
                      +....+....+..+|++++..+....++.+ ...++|++|.+.++..                                 
T Consensus       512 ~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~-~~~~~L~tLll~~n~~---------------------------------  557 (889)
T KOG4658|consen  512 GLSEIPQVKSWNSVRRMSLMNNKIEHIAGS-SENPKLRTLLLQRNSD---------------------------------  557 (889)
T ss_pred             CccccccccchhheeEEEEeccchhhccCC-CCCCccceEEEeecch---------------------------------
Confidence            333334445567899999999988777743 4455899999998710                                 


Q ss_pred             CCCCCCCCcchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCcc
Q 043450          311 DESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQ  390 (561)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~  390 (561)
                              ........+|..++.|++|||++|        ..+..+|.+|+.|.+||||+++++.+..+|.++++|+.|.
T Consensus       558 --------~l~~is~~ff~~m~~LrVLDLs~~--------~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~  621 (889)
T KOG4658|consen  558 --------WLLEISGEFFRSLPLLRVLDLSGN--------SSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLI  621 (889)
T ss_pred             --------hhhhcCHHHHhhCcceEEEECCCC--------CccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhh
Confidence                    013344566889999999999986        6789999999999999999999999999999999999999


Q ss_pred             EEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCc--
Q 043450          391 KLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRE--  468 (561)
Q Consensus       391 ~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~--  468 (561)
                      +||+.++..+..+|..+..|++||+|.+.... ...-...++.+.+|++|..+-.....    ...+..+...+.|..  
T Consensus       622 ~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~-~~~~~~~l~el~~Le~L~~ls~~~~s----~~~~e~l~~~~~L~~~~  696 (889)
T KOG4658|consen  622 YLNLEVTGRLESIPGILLELQSLRVLRLPRSA-LSNDKLLLKELENLEHLENLSITISS----VLLLEDLLGMTRLRSLL  696 (889)
T ss_pred             eeccccccccccccchhhhcccccEEEeeccc-cccchhhHHhhhcccchhhheeecch----hHhHhhhhhhHHHHHHh
Confidence            99999998777777767779999999987654 11111223444444444322222111    111122222222222  


Q ss_pred             --eEEcCCCCCCCcchhhhcccccccccccEEEEeecCC
Q 043450          469 --CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVA  505 (561)
Q Consensus       469 --l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  505 (561)
                        +.+.+     .........+..+.+|+.|.+..+.+.
T Consensus       697 ~~l~~~~-----~~~~~~~~~~~~l~~L~~L~i~~~~~~  730 (889)
T KOG4658|consen  697 QSLSIEG-----CSKRTLISSLGSLGNLEELSILDCGIS  730 (889)
T ss_pred             Hhhhhcc-----cccceeecccccccCcceEEEEcCCCc
Confidence              22222     223445566788888999998877754

>PLN03210 Resistant to P

Probab=100.00  E-value=7.7e-49  Score=446.86  Aligned_cols=380  Identities=22%  Similarity=0.268  Sum_probs=282.8

Q ss_pred             CCCcEEEEEcCchHHHhhcCCcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhhc
Q 043450            3 LPGSKIVVTTRNVSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLL   82 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~~~~~~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~L   82 (561)
                      ++|||||||||+++++..++++.+|+|+.|++++||+||+++||...  .+++++++++++||++|+|+||||+++|++|
T Consensus       322 ~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~--~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L  399 (1153)
T PLN03210        322 GSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKN--SPPDGFMELASEVALRAGNLPLGLNVLGSYL  399 (1153)
T ss_pred             CCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCC--CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            68999999999999998888889999999999999999999999653  3446799999999999999999999999998


Q ss_pred             cccccccccCCcchhHHHHHHHhhhhhhhhhhcccccchhhhcccCCCCChhhhhhhhhhcccCCCcccCHHHHHHHHHH
Q 043450           83 CDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMA  162 (561)
Q Consensus        83 ~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a~fp~~~~i~~~~Li~~w~a  162 (561)
                      +++.          ..+|+.+++.....   ...++..++++||++|+++ ..|.||+++||||.+..+   ..+..|.+
T Consensus       400 ~~k~----------~~~W~~~l~~L~~~---~~~~I~~~L~~SYd~L~~~-~~k~~Fl~ia~ff~~~~~---~~v~~~l~  462 (1153)
T PLN03210        400 RGRD----------KEDWMDMLPRLRNG---LDGKIEKTLRVSYDGLNNK-KDKAIFRHIACLFNGEKV---NDIKLLLA  462 (1153)
T ss_pred             cCCC----------HHHHHHHHHHHHhC---ccHHHHHHHHHhhhccCcc-chhhhhheehhhcCCCCH---HHHHHHHH
Confidence            7764          57899998876543   3457889999999999863 479999999999988643   34566777


Q ss_pred             cCCCCCCcchhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEecHHHHHHHHHhhccce--------EEEeecCcce
Q 043450          163 QGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKEC--------LWVEINGTKE  234 (561)
Q Consensus       163 ~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~mhdlv~~~~~~i~~~e~--------~~~~~~~~~~  234 (561)
                      .+.+..          +..++.|++++|++....        +++|||++++||+++++++.        +|...+....
T Consensus       463 ~~~~~~----------~~~l~~L~~ksLi~~~~~--------~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~v  524 (1153)
T PLN03210        463 NSDLDV----------NIGLKNLVDKSLIHVRED--------IVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDV  524 (1153)
T ss_pred             hcCCCc----------hhChHHHHhcCCEEEcCC--------eEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHH
Confidence            654432          223889999999976321        29999999999999998763        4444444444


Q ss_pred             eeeeecCCceEEEEeeecCCCCCc---ccccccCceeEEEEccCCCCCc------chhhhhhhhhhhhhhHHHhhhccCC
Q 043450          235 LVINFFGEKVRHIGLNFQRGASFP---MSFFEFDRLRSLLIYDTSHYNP------SLFQSMAISSAYSLVNAVLYLVSSP  305 (561)
Q Consensus       235 ~~~~~~~~~~~~l~l~~~~~~~~~---~~~~~~~~Lr~L~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~  305 (561)
                      +....++..+++++++.+....+.   .+|.+|++|+.|.+........      -..++..++..++.++|..++....
T Consensus       525 l~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~l  604 (1153)
T PLN03210        525 LEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCM  604 (1153)
T ss_pred             HHhCcccceeeEEEeccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCC
Confidence            455667788999999887765443   5689999999999976521110      0012334566677777777777666


Q ss_pred             CCCCCCCCCCCCCcchhHHH---HHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCC-Cccccc
Q 043450          306 GLGIDDESPSNPSLNSSILR---ELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLR-IESLPE  381 (561)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~---~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~-l~~lp~  381 (561)
                      +..+.+..+....+....+.   ..+..+.+|++|+++++        +.++.+|. ++.+++|++|++++|. +..+|.
T Consensus       605 P~~f~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~--------~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~  675 (1153)
T PLN03210        605 PSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGS--------KNLKEIPD-LSMATNLETLKLSDCSSLVELPS  675 (1153)
T ss_pred             CCcCCccCCcEEECcCccccccccccccCCCCCEEECCCC--------CCcCcCCc-cccCCcccEEEecCCCCccccch
Confidence            66665555544444333332   22456778888888874        44666664 6777888888888776 667888


Q ss_pred             cccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcc
Q 043450          382 TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPI  429 (561)
Q Consensus       382 ~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~  429 (561)
                      +++++++|+.|++++|..++.+|..+ ++++|+.|++++|..+..+|.
T Consensus       676 si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~  722 (1153)
T PLN03210        676 SIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPD  722 (1153)
T ss_pred             hhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCcccccc
Confidence            88888888888888887777887765 677788887777766665553

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=99.88  E-value=3.2e-24  Score=210.26  Aligned_cols=155  Identities=37%  Similarity=0.674  Sum_probs=121.8

Q ss_pred             CCCcEEEEEcCchHHHhhcCC-cceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhh
Q 043450            3 LPGSKIVVTTRNVSVARMMRS-TNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNL   81 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~~~~~~-~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~   81 (561)
                      +.||+||||||++.++..+.. ...|+|++|+++||++||++.++... ..+.+..++++++|+++|+|+||||+++|++
T Consensus       127 ~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~  205 (287)
T PF00931_consen  127 SSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASY  205 (287)
T ss_dssp             HSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            469999999999999887765 67999999999999999999998654 2233455678999999999999999999999


Q ss_pred             ccccccccccCCcchhHHHHHHHhhhhhhhh---hhcccccchhhhcccCCCCChhhhhhhhhhcccCCCcccCHHHHHH
Q 043450           82 LCDKRTGNLLSSKSIVNEWQRILDSEVWKVE---EIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELIN  158 (561)
Q Consensus        82 L~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~---~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a~fp~~~~i~~~~Li~  158 (561)
                      |+.++         +..+|+.+.+.......   .....+..++..||+.|++  .+|+||+|||+||+++.|+++.+++
T Consensus       206 l~~~~---------~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~--~~~~~f~~L~~f~~~~~i~~~~li~  274 (287)
T PF00931_consen  206 LRSKS---------TVDEWEEALEELENSLRESRDYDRSVFSALELSYDSLPD--ELRRCFLYLSIFPEGVPIPRERLIR  274 (287)
T ss_dssp             HHHHH---------SSSSHHHHHHHHHHCHTCSSGSCHHHHHHHHHHHHSSHT--CCHHHHHHGGGSGTTS-EEHHHHHH
T ss_pred             ccccc---------cccccccccccccccccccccccccccccceechhcCCc--cHHHHHhhCcCCCCCceECHHHHHH
Confidence            75543         35678887766444432   1346788899999999999  7999999999999999999999999


Q ss_pred             HHHHcCCCCCC
Q 043450          159 LWMAQGYLNAD  169 (561)
Q Consensus       159 ~w~a~g~~~~~  169 (561)
                      +|+++|++...
T Consensus       275 lW~~e~~i~~~  285 (287)
T PF00931_consen  275 LWVAEGFISSK  285 (287)
T ss_dssp             HHTT-HHTC--
T ss_pred             HHHHCCCCccc
Confidence            99999998764

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=99.80  E-value=1.2e-19  Score=207.57  Aligned_cols=206  Identities=19%  Similarity=0.195  Sum_probs=115.6

Q ss_pred             HHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCcc
Q 043450          325 RELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       325 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      +..+..+.+|++|++++|        .....+|..++.+++|++|++++|.+. .+|..++++++|++|++++|.....+
T Consensus       157 p~~~~~l~~L~~L~L~~n--------~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~  228 (968)
T PLN00113        157 PNDIGSFSSLKVLDLGGN--------VLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEI  228 (968)
T ss_pred             ChHHhcCCCCCEEECccC--------cccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcC
Confidence            333455555555555552        112344555555555555555555544 44555555555555555555544455


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      |..++++++|++|++++|...+.+|..++++++|++|+  +..+.+.+..+..   +..+++|+.|++++.    .....
T Consensus       229 p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~--L~~n~l~~~~p~~---l~~l~~L~~L~Ls~n----~l~~~  299 (968)
T PLN00113        229 PYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLF--LYQNKLSGPIPPS---IFSLQKLISLDLSDN----SLSGE  299 (968)
T ss_pred             ChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEE--CcCCeeeccCchh---HhhccCcCEEECcCC----eeccC
Confidence            55555555555555555554445555555555555555  3344333222222   233334444444332    11223


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhcccCCcEEEcC
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~L~  561 (561)
                      .+..+.++++|+.|++++|.+              .+.+|..+..+++|+.|++++|.+. .+|.+++.+++|+.|+|+
T Consensus       300 ~p~~~~~l~~L~~L~l~~n~~--------------~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls  364 (968)
T PLN00113        300 IPELVIQLQNLEILHLFSNNF--------------TGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLS  364 (968)
T ss_pred             CChhHcCCCCCcEEECCCCcc--------------CCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECC
Confidence            344455566666666665542              3445677788889999999988865 688888889999998874

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

Probab=99.78  E-value=3.6e-19  Score=203.61  Aligned_cols=208  Identities=20%  Similarity=0.219  Sum_probs=164.8

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcC
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLR  401 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~  401 (561)
                      ..|..+.++++|++|++++|        .....+|..++.+++|++|++++|.+. .+|..++++++|++|++++|....
T Consensus       179 ~~p~~~~~l~~L~~L~L~~n--------~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~  250 (968)
T PLN00113        179 KIPNSLTNLTSLEFLTLASN--------QLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTG  250 (968)
T ss_pred             cCChhhhhCcCCCeeeccCC--------CCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceecc
Confidence            34556788999999999984        334567888999999999999999977 788899999999999999998666


Q ss_pred             ccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcc
Q 043450          402 ELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVD  481 (561)
Q Consensus       402 ~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~  481 (561)
                      .+|..++++++|+.|++++|...+.+|..++++++|++|+  +..|...+..+..+   ..+++|+.|.+.+.    ...
T Consensus       251 ~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~--Ls~n~l~~~~p~~~---~~l~~L~~L~l~~n----~~~  321 (968)
T PLN00113        251 PIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLD--LSDNSLSGEIPELV---IQLQNLEILHLFSN----NFT  321 (968)
T ss_pred             ccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEE--CcCCeeccCCChhH---cCCCCCcEEECCCC----ccC
Confidence            8899999999999999999987778898999999999998  56666654444443   45556666666543    223


Q ss_pred             hhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhcccCCcEEEc
Q 043450          482 EAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLTNLRDLNL  560 (561)
Q Consensus       482 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~L  560 (561)
                      +..+..+..+++|+.|++++|.+              ...+|..+..+++|+.|++++|.+. .+|.++..+++|+.|++
T Consensus       322 ~~~~~~~~~l~~L~~L~L~~n~l--------------~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l  387 (968)
T PLN00113        322 GKIPVALTSLPRLQVLQLWSNKF--------------SGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLIL  387 (968)
T ss_pred             CcCChhHhcCCCCCEEECcCCCC--------------cCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEEC
Confidence            34556678889999999997764              3346777888899999999999865 68889988999999887


Q ss_pred             C
Q 043450          561 D  561 (561)
Q Consensus       561 ~  561 (561)
                      +
T Consensus       388 ~  388 (968)
T PLN00113        388 F  388 (968)
T ss_pred             c
Confidence            4

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

Probab=99.77  E-value=6.9e-21  Score=188.82  Aligned_cols=45  Identities=24%  Similarity=0.235  Sum_probs=39.4

Q ss_pred             cchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          517 ENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       517 ~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      ...+-+|++++-++.|++|.++.|++.++|+.|--|+.|..|||+
T Consensus       326 N~LElVPEglcRC~kL~kL~L~~NrLiTLPeaIHlL~~l~vLDlr  370 (1255)
T KOG0444|consen  326 NKLELVPEGLCRCVKLQKLKLDHNRLITLPEAIHLLPDLKVLDLR  370 (1255)
T ss_pred             cccccCchhhhhhHHHHHhcccccceeechhhhhhcCCcceeecc
Confidence            346778999999999999999999988999999889999999875

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

Probab=99.76  E-value=1.1e-19  Score=180.28  Aligned_cols=262  Identities=20%  Similarity=0.210  Sum_probs=126.2

Q ss_pred             eEEEEeeecCC--CCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcch
Q 043450          244 VRHIGLNFQRG--ASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNS  321 (561)
Q Consensus       244 ~~~l~l~~~~~--~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (561)
                      +|.+.++.+..  ..+|.....|.++++|.+...        +...+|..+........+.-.+.             ..
T Consensus         9 VrGvDfsgNDFsg~~FP~~v~qMt~~~WLkLnrt--------~L~~vPeEL~~lqkLEHLs~~HN-------------~L   67 (1255)
T KOG0444|consen    9 VRGVDFSGNDFSGDRFPHDVEQMTQMTWLKLNRT--------KLEQVPEELSRLQKLEHLSMAHN-------------QL   67 (1255)
T ss_pred             eecccccCCcCCCCcCchhHHHhhheeEEEechh--------hhhhChHHHHHHhhhhhhhhhhh-------------hh
Confidence            56666666654  567777777888888887766        22333333332222211111000             01


Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCcccc--cccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCC
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLI--REIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQD  399 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~--~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~  399 (561)
                      ..+..-++.++.||.+++..         |.+  ..+|..|.+|.-|..|+|++|++.+.|..+..-+++-+|+|++|. 
T Consensus        68 ~~vhGELs~Lp~LRsv~~R~---------N~LKnsGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~-  137 (1255)
T KOG0444|consen   68 ISVHGELSDLPRLRSVIVRD---------NNLKNSGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNN-  137 (1255)
T ss_pred             HhhhhhhccchhhHHHhhhc---------cccccCCCCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCc-
Confidence            11122234455555555555         222  234555555555555555555555555555555555555555555 


Q ss_pred             cCccCcc-cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCC
Q 043450          400 LRELPTG-IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVS  478 (561)
Q Consensus       400 ~~~lp~~-~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~  478 (561)
                      +..+|.. +-+++.|-.|++++|. +..+|+.+.+|..|++|.  +++|..   ....+..|++++.|..|.+++.   +
T Consensus       138 IetIPn~lfinLtDLLfLDLS~Nr-Le~LPPQ~RRL~~LqtL~--Ls~NPL---~hfQLrQLPsmtsL~vLhms~T---q  208 (1255)
T KOG0444|consen  138 IETIPNSLFINLTDLLFLDLSNNR-LEMLPPQIRRLSMLQTLK--LSNNPL---NHFQLRQLPSMTSLSVLHMSNT---Q  208 (1255)
T ss_pred             cccCCchHHHhhHhHhhhccccch-hhhcCHHHHHHhhhhhhh--cCCChh---hHHHHhcCccchhhhhhhcccc---c
Confidence            5555542 3355555555555555 555555555555555555  444432   1222333444444444444332   2


Q ss_pred             CcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEE
Q 043450          479 HVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDL  558 (561)
Q Consensus       479 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L  558 (561)
                      .....+|.++..+.+|+.++++.|.               ...+|+.+-.+++|+.|++++|.++++--.+....+|++|
T Consensus       209 RTl~N~Ptsld~l~NL~dvDlS~N~---------------Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtL  273 (1255)
T KOG0444|consen  209 RTLDNIPTSLDDLHNLRDVDLSENN---------------LPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETL  273 (1255)
T ss_pred             chhhcCCCchhhhhhhhhccccccC---------------CCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhh
Confidence            2233444555555555555555554               2334444444455555555544444443333333344433


Q ss_pred             Ec
Q 043450          559 NL  560 (561)
Q Consensus       559 ~L  560 (561)
                      +|
T Consensus       274 Nl  275 (1255)
T KOG0444|consen  274 NL  275 (1255)
T ss_pred             cc
Confidence            33

>PLN03210 Resistant to P

Probab=99.67  E-value=2e-16  Score=181.63  Aligned_cols=276  Identities=18%  Similarity=0.169  Sum_probs=146.4

Q ss_pred             CCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      +.+++.+.+.......+|..+ ...+|+.|.+.++...        .++....      .......+.     +..... 
T Consensus       588 p~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l~--------~L~~~~~------~l~~Lk~L~-----Ls~~~~-  646 (1153)
T PLN03210        588 PPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLE--------KLWDGVH------SLTGLRNID-----LRGSKN-  646 (1153)
T ss_pred             CcccEEEEecCCCCCCCCCcC-CccCCcEEECcCcccc--------ccccccc------cCCCCCEEE-----CCCCCC-
Confidence            456888888887778888555 5678888887766210        0000000      000000000     000000 


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCC-CccccccccCCCCccEEecCCCCC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLR-IESLPETLCELYNLQKLDIRRCQD  399 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~-l~~lp~~i~~L~~L~~L~l~~~~~  399 (561)
                      ...+|. ++.+.+|+.|++++|        ..+..+|.+++.+++|++|++++|. ++.+|..+ ++++|+.|++++|..
T Consensus       647 l~~ip~-ls~l~~Le~L~L~~c--------~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~  716 (1153)
T PLN03210        647 LKEIPD-LSMATNLETLKLSDC--------SSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSR  716 (1153)
T ss_pred             cCcCCc-cccCCcccEEEecCC--------CCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCC
Confidence            111222 566788888888886        5677888888888888888888875 77888766 688888888888877


Q ss_pred             cCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCce-----------------------------eecCccC
Q 043450          400 LRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKF-----------------------------VVGGGVD  450 (561)
Q Consensus       400 ~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~-----------------------------~~~~~~~  450 (561)
                      +..+|..   ..+|+.|++++|. +..+|..+ .+++|+.|.+.                             +.++...
T Consensus       717 L~~~p~~---~~nL~~L~L~~n~-i~~lP~~~-~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l  791 (1153)
T PLN03210        717 LKSFPDI---STNISWLDLDETA-IEEFPSNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSL  791 (1153)
T ss_pred             ccccccc---cCCcCeeecCCCc-cccccccc-cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCc
Confidence            7777642   3456666666665 45555433 22233222210                             2222222


Q ss_pred             CCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcc------cccCCCcchHHHhh
Q 043450          451 GNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGE------EGRRKNENDEQLLE  524 (561)
Q Consensus       451 ~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~------~~~~~n~~~~~~~~  524 (561)
                      ...|.   .+.++++|+.|.+.++.+...    ++..+ ++++|+.|++++|........      ...-.+.....+|.
T Consensus       792 ~~lP~---si~~L~~L~~L~Ls~C~~L~~----LP~~~-~L~sL~~L~Ls~c~~L~~~p~~~~nL~~L~Ls~n~i~~iP~  863 (1153)
T PLN03210        792 VELPS---SIQNLHKLEHLEIENCINLET----LPTGI-NLESLESLDLSGCSRLRTFPDISTNISDLNLSRTGIEEVPW  863 (1153)
T ss_pred             cccCh---hhhCCCCCCEEECCCCCCcCe----eCCCC-CccccCEEECCCCCccccccccccccCEeECCCCCCccChH
Confidence            22222   234455555566655443322    12222 455666666665431110000      00000011334555


Q ss_pred             cCCCCCCCceEEEeecC-CCCCChhhhcccCCcEEEc
Q 043450          525 ALQPPVNVEELWIVYYG-GNIFPKWLTLLTNLRDLNL  560 (561)
Q Consensus       525 ~l~~~~~L~~L~l~~~~-~~~lp~~~~~l~~L~~L~L  560 (561)
                      ++..+++|+.|++++|. +..+|..+.++++|+.|++
T Consensus       864 si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l  900 (1153)
T PLN03210        864 WIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDF  900 (1153)
T ss_pred             HHhcCCCCCEEECCCCCCcCccCcccccccCCCeeec
Confidence            66666666666666654 5556666666666666554

syringae 6; Provisional

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

Probab=99.66  E-value=5.7e-19  Score=166.91  Aligned_cols=235  Identities=25%  Similarity=0.318  Sum_probs=177.6

Q ss_pred             eEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhH
Q 043450          244 VRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSI  323 (561)
Q Consensus       244 ~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (561)
                      +..+.++.+...++|.++.++..+..|.++.+                                            ....
T Consensus        70 l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n--------------------------------------------~ls~  105 (565)
T KOG0472|consen   70 LTVLNVHDNKLSQLPAAIGELEALKSLNVSHN--------------------------------------------KLSE  105 (565)
T ss_pred             eeEEEeccchhhhCCHHHHHHHHHHHhhcccc--------------------------------------------hHhh
Confidence            44556666666777777777777777776665                                            2345


Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCcc
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      +|..+..+..|+.|+.+.         |.+.++|++++.+..|..|+..+|++.++|+.++++..|..|++.+|+ +..+
T Consensus       106 lp~~i~s~~~l~~l~~s~---------n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~-l~~l  175 (565)
T KOG0472|consen  106 LPEQIGSLISLVKLDCSS---------NELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGNK-LKAL  175 (565)
T ss_pred             ccHHHhhhhhhhhhhccc---------cceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccccc-hhhC
Confidence            666677888888888888         788888888888888999998888888899888888889999998887 7788


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      |+..-.++.|++|++..|- ++.+|+.+|.+.+|.-|+  +..|.+ .    .+.+++.+..|..+.++.    +.....
T Consensus       176 ~~~~i~m~~L~~ld~~~N~-L~tlP~~lg~l~~L~~Ly--L~~Nki-~----~lPef~gcs~L~Elh~g~----N~i~~l  243 (565)
T KOG0472|consen  176 PENHIAMKRLKHLDCNSNL-LETLPPELGGLESLELLY--LRRNKI-R----FLPEFPGCSLLKELHVGE----NQIEML  243 (565)
T ss_pred             CHHHHHHHHHHhcccchhh-hhcCChhhcchhhhHHHH--hhhccc-c----cCCCCCccHHHHHHHhcc----cHHHhh
Confidence            7776678889999888877 888898898888888886  444443 1    122444444444444432    233333


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEc
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNL  560 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L  560 (561)
                      ......++++|..|||..|+               ..++|+.++.+.+|.+||+++|.++.+|..++++ .|+.|-+
T Consensus       244 pae~~~~L~~l~vLDLRdNk---------------lke~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~l  304 (565)
T KOG0472|consen  244 PAEHLKHLNSLLVLDLRDNK---------------LKEVPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLAL  304 (565)
T ss_pred             HHHHhcccccceeeeccccc---------------cccCchHHHHhhhhhhhcccCCccccCCcccccc-eeeehhh
Confidence            33344688999999999887               6678889999999999999999999999999888 7777654

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

Probab=99.62  E-value=2.5e-16  Score=155.72  Aligned_cols=205  Identities=23%  Similarity=0.349  Sum_probs=143.7

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCc
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDL  400 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~  400 (561)
                      +-.+.+..+..||+|||+.         |.+..+|. ++..-.++++|+|++|+|+.+- ..|..|.+|.+|.|+.|+ +
T Consensus       140 v~se~L~~l~alrslDLSr---------N~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNr-i  209 (873)
T KOG4194|consen  140 VTSEELSALPALRSLDLSR---------NLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNR-I  209 (873)
T ss_pred             ccHHHHHhHhhhhhhhhhh---------chhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCc-c
Confidence            3344466778899999998         78888764 3555578999999999988774 457888899999999988 7


Q ss_pred             CccCc-ccccCCCCCeEEcCCCCCCccC-cccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCC
Q 043450          401 RELPT-GIGKLKNMRSLLNGDTSSLKYL-PIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVS  478 (561)
Q Consensus       401 ~~lp~-~~~~l~~L~~L~l~~~~~~~~l-p~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~  478 (561)
                      +.+|. .|.+|++|+.|+|..|. +..+ -..|..|++|+.|.  +..|.+..-....|-.+.++..|.   +..    +
T Consensus       210 ttLp~r~Fk~L~~L~~LdLnrN~-irive~ltFqgL~Sl~nlk--lqrN~I~kL~DG~Fy~l~kme~l~---L~~----N  279 (873)
T KOG4194|consen  210 TTLPQRSFKRLPKLESLDLNRNR-IRIVEGLTFQGLPSLQNLK--LQRNDISKLDDGAFYGLEKMEHLN---LET----N  279 (873)
T ss_pred             cccCHHHhhhcchhhhhhccccc-eeeehhhhhcCchhhhhhh--hhhcCcccccCcceeeecccceee---ccc----c
Confidence            77776 56669999999998887 4444 34578888888887  666665433333444444444333   221    3


Q ss_pred             CcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChh-hhcccCCcE
Q 043450          479 HVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKW-LTLLTNLRD  557 (561)
Q Consensus       479 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~-~~~l~~L~~  557 (561)
                      ........++.++..|+.|+|++|.|..              .-++++...++|+.|+++.|.+.++|+. +.-|+.|+.
T Consensus       280 ~l~~vn~g~lfgLt~L~~L~lS~NaI~r--------------ih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~  345 (873)
T KOG4194|consen  280 RLQAVNEGWLFGLTSLEQLDLSYNAIQR--------------IHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEE  345 (873)
T ss_pred             hhhhhhcccccccchhhhhccchhhhhe--------------eecchhhhcccceeEeccccccccCChhHHHHHHHhhh
Confidence            3344455678899999999999887533              2355677778888888888888887643 355666666


Q ss_pred             EEcC
Q 043450          558 LNLD  561 (561)
Q Consensus       558 L~L~  561 (561)
                      |+|+
T Consensus       346 LnLs  349 (873)
T KOG4194|consen  346 LNLS  349 (873)
T ss_pred             hccc
Confidence            6553

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

Probab=99.62  E-value=1.2e-16  Score=158.06  Aligned_cols=247  Identities=17%  Similarity=0.186  Sum_probs=172.3

Q ss_pred             CceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          242 EKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       242 ~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      .+++++.+..+.++.+. ..|..+..|-+|.+.++-                                           .
T Consensus       173 ~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNr-------------------------------------------i  209 (873)
T KOG4194|consen  173 VNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNR-------------------------------------------I  209 (873)
T ss_pred             CCceEEeeccccccccccccccccchheeeecccCc-------------------------------------------c
Confidence            35777778777777665 566677777777777661                                           1


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQ  398 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  398 (561)
                      ...++..|+++++|+.|+|..         |.++.. .-.|..|.+|+.|.|..|+|..+-+. |..|.++++|+|..|+
T Consensus       210 ttLp~r~Fk~L~~L~~LdLnr---------N~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~  280 (873)
T KOG4194|consen  210 TTLPQRSFKRLPKLESLDLNR---------NRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNR  280 (873)
T ss_pred             cccCHHHhhhcchhhhhhccc---------cceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccch
Confidence            334455677788888888887         666554 34467788888888888888776543 6678888888888887


Q ss_pred             CcCccC-cccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCC
Q 043450          399 DLRELP-TGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNV  477 (561)
Q Consensus       399 ~~~~lp-~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~  477 (561)
                       +..+. .++.+|++|++|++++|.+-..-++++...++|++|+  +..|.+..-.+..+..|..|..|.   ++.    
T Consensus       281 -l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~Ld--Ls~N~i~~l~~~sf~~L~~Le~Ln---Ls~----  350 (873)
T KOG4194|consen  281 -LQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELD--LSSNRITRLDEGSFRVLSQLEELN---LSH----  350 (873)
T ss_pred             -hhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEe--ccccccccCChhHHHHHHHhhhhc---ccc----
Confidence             55554 3677888888888888886555677788888888888  677766555555555555554443   322    


Q ss_pred             CCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh-hcccCCc
Q 043450          478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL-TLLTNLR  556 (561)
Q Consensus       478 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~-~~l~~L~  556 (561)
                      +...-.....|..+++|+.|+|+.|.+++.           .+.--..+..+++|++|.+.||.+..+|..- ..|.+|+
T Consensus       351 Nsi~~l~e~af~~lssL~~LdLr~N~ls~~-----------IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~LE  419 (873)
T KOG4194|consen  351 NSIDHLAEGAFVGLSSLHKLDLRSNELSWC-----------IEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEALE  419 (873)
T ss_pred             cchHHHHhhHHHHhhhhhhhcCcCCeEEEE-----------EecchhhhccchhhhheeecCceeeecchhhhccCcccc
Confidence            333344445677888888998887775432           2222334556888999999999888888654 7888888


Q ss_pred             EEEcC
Q 043450          557 DLNLD  561 (561)
Q Consensus       557 ~L~L~  561 (561)
                      .|||.
T Consensus       420 ~LdL~  424 (873)
T KOG4194|consen  420 HLDLG  424 (873)
T ss_pred             eecCC
Confidence            88873

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

Probab=99.61  E-value=7e-18  Score=159.62  Aligned_cols=229  Identities=23%  Similarity=0.260  Sum_probs=185.7

Q ss_pred             eeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHHHHH
Q 043450          249 LNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELF  328 (561)
Q Consensus       249 l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (561)
                      +..+....+......+..+.+|.+.++                                            ....+|..+
T Consensus        52 ls~N~l~~l~~dl~nL~~l~vl~~~~n--------------------------------------------~l~~lp~ai   87 (565)
T KOG0472|consen   52 LSHNDLEVLREDLKNLACLTVLNVHDN--------------------------------------------KLSQLPAAI   87 (565)
T ss_pred             hccCchhhccHhhhcccceeEEEeccc--------------------------------------------hhhhCCHHH
Confidence            334444455557778888889988887                                            134456668


Q ss_pred             hccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIG  408 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~  408 (561)
                      +++..++.|+++.         |.+.++|+.++.+..|+.|+.+.|.+.++|++|+.+..|+.|+..+|. +..+|+.++
T Consensus        88 g~l~~l~~l~vs~---------n~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~~N~-i~slp~~~~  157 (565)
T KOG0472|consen   88 GELEALKSLNVSH---------NKLSELPEQIGSLISLVKLDCSSNELKELPDSIGRLLDLEDLDATNNQ-ISSLPEDMV  157 (565)
T ss_pred             HHHHHHHHhhccc---------chHhhccHHHhhhhhhhhhhccccceeecCchHHHHhhhhhhhccccc-cccCchHHH
Confidence            8899999999999         899999999999999999999999999999999999999999999988 999999999


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCC--CceEEcCCCCCCCcchhhhc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLL--RECRVEGLSNVSHVDEAERL  486 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L--~~l~i~~~~~~~~~~~~~~~  486 (561)
                      ++.+|..|++.+|. +..+|+..-+++.|+.|+  .+.|-. +..|..++.+.+|..|  +...+..          .| 
T Consensus       158 ~~~~l~~l~~~~n~-l~~l~~~~i~m~~L~~ld--~~~N~L-~tlP~~lg~l~~L~~LyL~~Nki~~----------lP-  222 (565)
T KOG0472|consen  158 NLSKLSKLDLEGNK-LKALPENHIAMKRLKHLD--CNSNLL-ETLPPELGGLESLELLYLRRNKIRF----------LP-  222 (565)
T ss_pred             HHHHHHHhhccccc-hhhCCHHHHHHHHHHhcc--cchhhh-hcCChhhcchhhhHHHHhhhccccc----------CC-
Confidence            99999999999999 777777766699999997  555544 3445555555554432  2222222          22 


Q ss_pred             ccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC-CCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          487 QLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ-PPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       487 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~-~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      .|.+++.|.+|+++.|.               .+.+|...+ .+++|..||+..|.++++|+.+..+.+|..||+|
T Consensus       223 ef~gcs~L~Elh~g~N~---------------i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlS  283 (565)
T KOG0472|consen  223 EFPGCSLLKELHVGENQ---------------IEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLS  283 (565)
T ss_pred             CCCccHHHHHHHhcccH---------------HHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhccc
Confidence            58899999999999776               666676665 7899999999999999999999999999999986

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

Probab=99.60  E-value=1.8e-17  Score=139.09  Aligned_cols=173  Identities=24%  Similarity=0.280  Sum_probs=112.0

Q ss_pred             ccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCccccc
Q 043450          353 IREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGIS  432 (561)
Q Consensus       353 ~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~  432 (561)
                      +.++|. +..+.++..|-|++|+++.+|+.|..|.+|+.|++++|. ++++|..+..+++|++|+++-|. +..+|.+||
T Consensus        23 f~~~~g-Lf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnq-ie~lp~~issl~klr~lnvgmnr-l~~lprgfg   99 (264)
T KOG0617|consen   23 FEELPG-LFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQ-IEELPTSISSLPKLRILNVGMNR-LNILPRGFG   99 (264)
T ss_pred             Hhhccc-ccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccch-hhhcChhhhhchhhhheecchhh-hhcCccccC
Confidence            334443 334566667777777777777777777777777777776 77777777777777777777666 666777777


Q ss_pred             CCcCCcccCceeecCcc-CCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCccc
Q 043450          433 RLTSLRTLEKFVVGGGV-DGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEE  511 (561)
Q Consensus       433 ~l~~L~~L~~~~~~~~~-~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  511 (561)
                      .++.|++|++.  .|+. ....|..|--+..   |+-|.++.     .-.+.++..++++++|+.|.+..|.        
T Consensus       100 s~p~levldlt--ynnl~e~~lpgnff~m~t---lralyl~d-----ndfe~lp~dvg~lt~lqil~lrdnd--------  161 (264)
T KOG0617|consen  100 SFPALEVLDLT--YNNLNENSLPGNFFYMTT---LRALYLGD-----NDFEILPPDVGKLTNLQILSLRDND--------  161 (264)
T ss_pred             CCchhhhhhcc--ccccccccCCcchhHHHH---HHHHHhcC-----CCcccCChhhhhhcceeEEeeccCc--------
Confidence            77777777733  3322 1222333333333   33333322     1235566677888888888887665        


Q ss_pred             ccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhccc
Q 043450          512 GRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLT  553 (561)
Q Consensus       512 ~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~  553 (561)
                             .-.+|..++.+.+|+.|.+.||++..+|+.++++.
T Consensus       162 -------ll~lpkeig~lt~lrelhiqgnrl~vlppel~~l~  196 (264)
T KOG0617|consen  162 -------LLSLPKEIGDLTRLRELHIQGNRLTVLPPELANLD  196 (264)
T ss_pred             -------hhhCcHHHHHHHHHHHHhcccceeeecChhhhhhh
Confidence                   45567778888888999999998888888776543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.38  E-value=5.5e-13  Score=143.84  Aligned_cols=134  Identities=25%  Similarity=0.353  Sum_probs=78.4

Q ss_pred             CCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      +..++.+.+..+.++.+|..+.  ++|++|.+.++...                                          
T Consensus       198 p~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N~Lt------------------------------------------  233 (754)
T PRK15370        198 PEQITTLILDNNELKSLPENLQ--GNIKTLYANSNQLT------------------------------------------  233 (754)
T ss_pred             ccCCcEEEecCCCCCcCChhhc--cCCCEEECCCCccc------------------------------------------
Confidence            4567788888888777775443  57888888776210                                          


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCc
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDL  400 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~  400 (561)
                       . +|..+  ..+|+.|++++         |.+..+|..+.  .+|++|++++|+++.+|..+.  .+|++|++++|. +
T Consensus       234 -s-LP~~l--~~~L~~L~Ls~---------N~L~~LP~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~-L  295 (754)
T PRK15370        234 -S-IPATL--PDTIQEMELSI---------NRITELPERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDNS-I  295 (754)
T ss_pred             -c-CChhh--hccccEEECcC---------CccCcCChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCCc-c
Confidence             0 11111  12466666666         55566665543  356667776666666665543  466677776665 5


Q ss_pred             CccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccC
Q 043450          401 RELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE  441 (561)
Q Consensus       401 ~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~  441 (561)
                      ..+|..+.  ++|+.|++++|. +..+|..+.  ++|+.|+
T Consensus       296 t~LP~~lp--~sL~~L~Ls~N~-Lt~LP~~l~--~sL~~L~  331 (754)
T PRK15370        296 RTLPAHLP--SGITHLNVQSNS-LTALPETLP--PGLKTLE  331 (754)
T ss_pred             ccCcccch--hhHHHHHhcCCc-cccCCcccc--ccceecc
Confidence            56665432  356666666665 445554432  4566665

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.36  E-value=1.7e-12  Score=140.10  Aligned_cols=139  Identities=22%  Similarity=0.351  Sum_probs=103.6

Q ss_pred             ceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchh
Q 043450          243 KVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSS  322 (561)
Q Consensus       243 ~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (561)
                      +...+.+...+.+.+|..+  .+.++.|.+.++..                                           ..
T Consensus       179 ~~~~L~L~~~~LtsLP~~I--p~~L~~L~Ls~N~L-------------------------------------------ts  213 (754)
T PRK15370        179 NKTELRLKILGLTTIPACI--PEQITTLILDNNEL-------------------------------------------KS  213 (754)
T ss_pred             CceEEEeCCCCcCcCCccc--ccCCcEEEecCCCC-------------------------------------------Cc
Confidence            3456777777777777544  25788999888722                                           11


Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCc
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      .+.. +  ..+|++|++++         |.+..+|..+.  .+|+.|++++|.+..+|..+.  .+|+.|++++|. +..
T Consensus       214 LP~~-l--~~nL~~L~Ls~---------N~LtsLP~~l~--~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~Ls~N~-L~~  276 (754)
T PRK15370        214 LPEN-L--QGNIKTLYANS---------NQLTSIPATLP--DTIQEMELSINRITELPERLP--SALQSLDLFHNK-ISC  276 (754)
T ss_pred             CChh-h--ccCCCEEECCC---------CccccCChhhh--ccccEEECcCCccCcCChhHh--CCCCEEECcCCc-cCc
Confidence            1112 2  25799999999         77888887664  479999999999999998775  589999999987 788


Q ss_pred             cCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccC
Q 043450          403 LPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVD  450 (561)
Q Consensus       403 lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~  450 (561)
                      +|..+.  .+|+.|++++|. +..+|..+.  ++|+.|+  +.+|.+.
T Consensus       277 LP~~l~--~sL~~L~Ls~N~-Lt~LP~~lp--~sL~~L~--Ls~N~Lt  317 (754)
T PRK15370        277 LPENLP--EELRYLSVYDNS-IRTLPAHLP--SGITHLN--VQSNSLT  317 (754)
T ss_pred             cccccC--CCCcEEECCCCc-cccCcccch--hhHHHHH--hcCCccc
Confidence            998664  589999999997 777887653  4788887  5566553

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

Probab=99.35  E-value=1.8e-14  Score=121.26  Aligned_cols=130  Identities=27%  Similarity=0.427  Sum_probs=83.4

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCc-CccCcc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDL-RELPTG  406 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~-~~lp~~  406 (561)
                      +..+.+|++|++.+         |.++++|.+++.|++|+.|++.-|++..+|..|+.++.|++||+.+|... ..+|..
T Consensus        52 ia~l~nlevln~~n---------nqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levldltynnl~e~~lpgn  122 (264)
T KOG0617|consen   52 IAELKNLEVLNLSN---------NQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLDLTYNNLNENSLPGN  122 (264)
T ss_pred             HHHhhhhhhhhccc---------chhhhcChhhhhchhhhheecchhhhhcCccccCCCchhhhhhccccccccccCCcc
Confidence            55666777777776         66777777777777777777777777677777777777777777766533 246666


Q ss_pred             cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcC
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEG  473 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~  473 (561)
                      +..++.|+.|++++|. ...+|..++++++||.|.  +..|..    -....+++.|+.|+.|+|.+
T Consensus       123 ff~m~tlralyl~dnd-fe~lp~dvg~lt~lqil~--lrdndl----l~lpkeig~lt~lrelhiqg  182 (264)
T KOG0617|consen  123 FFYMTTLRALYLGDND-FEILPPDVGKLTNLQILS--LRDNDL----LSLPKEIGDLTRLRELHIQG  182 (264)
T ss_pred             hhHHHHHHHHHhcCCC-cccCChhhhhhcceeEEe--eccCch----hhCcHHHHHHHHHHHHhccc
Confidence            6666777777777766 566677777777777765  333333    23334445555555555543

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.32  E-value=1.6e-11  Score=131.87  Aligned_cols=233  Identities=21%  Similarity=0.132  Sum_probs=135.6

Q ss_pred             CCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      +..++.+.+..+..+.+|.   ..++|++|.+.++.....     +..+..+                 ....+...  .
T Consensus       221 ~~~L~~L~L~~N~Lt~LP~---lp~~Lk~LdLs~N~LtsL-----P~lp~sL-----------------~~L~Ls~N--~  273 (788)
T PRK15387        221 PAHITTLVIPDNNLTSLPA---LPPELRTLEVSGNQLTSL-----PVLPPGL-----------------LELSIFSN--P  273 (788)
T ss_pred             hcCCCEEEccCCcCCCCCC---CCCCCcEEEecCCccCcc-----cCccccc-----------------ceeeccCC--c
Confidence            3467888888888777773   257888888887722100     0000000                 00000000  1


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCc
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDL  400 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~  400 (561)
                      ...++.   -...|+.|++++         |.++.+|..   +++|++|++++|.++.+|...   .+|+.|++++|. +
T Consensus       274 L~~Lp~---lp~~L~~L~Ls~---------N~Lt~LP~~---p~~L~~LdLS~N~L~~Lp~lp---~~L~~L~Ls~N~-L  334 (788)
T PRK15387        274 LTHLPA---LPSGLCKLWIFG---------NQLTSLPVL---PPGLQELSVSDNQLASLPALP---SELCKLWAYNNQ-L  334 (788)
T ss_pred             hhhhhh---chhhcCEEECcC---------Ccccccccc---ccccceeECCCCccccCCCCc---ccccccccccCc-c
Confidence            112222   235677788888         667777753   467888888888888777533   356677888877 6


Q ss_pred             CccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCc
Q 043450          401 RELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV  480 (561)
Q Consensus       401 ~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~  480 (561)
                      ..+|..   ..+|+.|++++|. +..+|...   .+|+.|+  +..|.+.. .+..      ...|+.|++.+..    .
T Consensus       335 ~~LP~l---p~~Lq~LdLS~N~-Ls~LP~lp---~~L~~L~--Ls~N~L~~-LP~l------~~~L~~LdLs~N~----L  394 (788)
T PRK15387        335 TSLPTL---PSGLQELSVSDNQ-LASLPTLP---SELYKLW--AYNNRLTS-LPAL------PSGLKELIVSGNR----L  394 (788)
T ss_pred             cccccc---ccccceEecCCCc-cCCCCCCC---cccceeh--hhcccccc-Cccc------ccccceEEecCCc----c
Confidence            677742   2478888888887 66777543   3455555  44444421 2211      1345556664421    1


Q ss_pred             chhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEc
Q 043450          481 DEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNL  560 (561)
Q Consensus       481 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L  560 (561)
                      . .++.   ..++|+.|++++|.+..               +|..   +.+|+.|++++|.++++|..+.++++|+.|+|
T Consensus       395 t-~LP~---l~s~L~~LdLS~N~Lss---------------IP~l---~~~L~~L~Ls~NqLt~LP~sl~~L~~L~~LdL  452 (788)
T PRK15387        395 T-SLPV---LPSELKELMVSGNRLTS---------------LPML---PSGLLSLSVYRNQLTRLPESLIHLSSETTVNL  452 (788)
T ss_pred             c-CCCC---cccCCCEEEccCCcCCC---------------CCcc---hhhhhhhhhccCcccccChHHhhccCCCeEEC
Confidence            1 1121   12578888888877432               2221   24577788888887778877777888877776


Q ss_pred             C
Q 043450          561 D  561 (561)
Q Consensus       561 ~  561 (561)
                      +
T Consensus       453 s  453 (788)
T PRK15387        453 E  453 (788)
T ss_pred             C
Confidence            4

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

Probab=99.21  E-value=6.4e-13  Score=138.83  Aligned_cols=144  Identities=19%  Similarity=0.243  Sum_probs=101.9

Q ss_pred             eEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhH
Q 043450          244 VRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSI  323 (561)
Q Consensus       244 ~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (561)
                      +..+.+.++....+|..+..+.+|+.|.++.+.                                            ...
T Consensus        47 L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~--------------------------------------------i~~   82 (1081)
T KOG0618|consen   47 LKSLDLSNNQISSFPIQITLLSHLRQLNLSRNY--------------------------------------------IRS   82 (1081)
T ss_pred             eEEeeccccccccCCchhhhHHHHhhcccchhh--------------------------------------------Hhh
Confidence            566667777777777777777777777777661                                            122


Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCcc
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      .|...+.+++|++|.|.+         |.+..+|.++..+++|++|++++|.+..+|..|..++.++.+++++|..+..+
T Consensus        83 vp~s~~~~~~l~~lnL~~---------n~l~~lP~~~~~lknl~~LdlS~N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~l  153 (1081)
T KOG0618|consen   83 VPSSCSNMRNLQYLNLKN---------NRLQSLPASISELKNLQYLDLSFNHFGPIPLVIEVLTAEEELAASNNEKIQRL  153 (1081)
T ss_pred             Cchhhhhhhcchhheecc---------chhhcCchhHHhhhcccccccchhccCCCchhHHhhhHHHHHhhhcchhhhhh
Confidence            334567788888888887         77888888888888888888888888888888888888888888887545555


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCcc
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +...     .+++++..+...+.++.++++++.  .|+  +..|..
T Consensus       154 g~~~-----ik~~~l~~n~l~~~~~~~i~~l~~--~ld--Lr~N~~  190 (1081)
T KOG0618|consen  154 GQTS-----IKKLDLRLNVLGGSFLIDIYNLTH--QLD--LRYNEM  190 (1081)
T ss_pred             cccc-----chhhhhhhhhcccchhcchhhhhe--eee--cccchh
Confidence            5422     666666666666677777777666  455  445544

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

Probab=99.19  E-value=1.2e-12  Score=136.71  Aligned_cols=217  Identities=19%  Similarity=0.209  Sum_probs=117.4

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCc
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      .+|++++.+.+|..++...         |.+..+|..+..+.+|++|.+..|.++.+|+...++++|++|||..|. +..
T Consensus       255 ~lp~wi~~~~nle~l~~n~---------N~l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~-L~~  324 (1081)
T KOG0618|consen  255 NLPEWIGACANLEALNANH---------NRLVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNN-LPS  324 (1081)
T ss_pred             cchHHHHhcccceEecccc---------hhHHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhcc-ccc
Confidence            3446666677777777776         666677776777777777777777777777666667777777777766 666


Q ss_pred             cCcccccC-C-CCCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCC
Q 043450          403 LPTGIGKL-K-NMRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSH  479 (561)
Q Consensus       403 lp~~~~~l-~-~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~  479 (561)
                      +|+.+-.- . .|+.|+.+.+. +..+|.. =..++.|+.|.  +.+|.++   ...+.-+....+|+.|++..    +.
T Consensus       325 lp~~~l~v~~~~l~~ln~s~n~-l~~lp~~~e~~~~~Lq~Ly--lanN~Lt---d~c~p~l~~~~hLKVLhLsy----Nr  394 (1081)
T KOG0618|consen  325 LPDNFLAVLNASLNTLNVSSNK-LSTLPSYEENNHAALQELY--LANNHLT---DSCFPVLVNFKHLKVLHLSY----NR  394 (1081)
T ss_pred             cchHHHhhhhHHHHHHhhhhcc-ccccccccchhhHHHHHHH--HhcCccc---ccchhhhccccceeeeeecc----cc
Confidence            66643222 1 24555555554 4444421 12344566665  5555552   23344455555555555543    22


Q ss_pred             cchhhhcccccccccccEEEEeecCCCCCcc--------cccCCCcchHHHhhcCCCCCCCceEEEeecCCCC--CChhh
Q 043450          480 VDEAERLQLYNKKNLLRLGLQFGRVADGEGE--------EGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI--FPKWL  549 (561)
Q Consensus       480 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--------~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~--lp~~~  549 (561)
                      ........+.++..|+.|+|++|++...+..        ....++.....+| .+..++.|+.+|++.|.++.  +|.-.
T Consensus       395 L~~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~~fP-e~~~l~qL~~lDlS~N~L~~~~l~~~~  473 (1081)
T KOG0618|consen  395 LNSFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLLSFP-ELAQLPQLKVLDLSCNNLSEVTLPEAL  473 (1081)
T ss_pred             cccCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCceeech-hhhhcCcceEEecccchhhhhhhhhhC
Confidence            2223334567888888888888874332110        0001111122233 44555666666666666432  22221


Q ss_pred             hcccCCcEEEcC
Q 043450          550 TLLTNLRDLNLD  561 (561)
Q Consensus       550 ~~l~~L~~L~L~  561 (561)
                      .. ++|+.|||+
T Consensus       474 p~-p~LkyLdlS  484 (1081)
T KOG0618|consen  474 PS-PNLKYLDLS  484 (1081)
T ss_pred             CC-cccceeecc
Confidence            11 566666653

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

Probab=99.18  E-value=1e-11  Score=123.75  Aligned_cols=217  Identities=20%  Similarity=0.171  Sum_probs=138.2

Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCccccc-ccCccccccCc---cCEEecCCCCCc-----cccccccCC-CCccE
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLIR-EIPENVEKLIH---LKYLNLSGLRIE-----SLPETLCEL-YNLQK  391 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~~~l~~---L~~L~l~~~~l~-----~lp~~i~~L-~~L~~  391 (561)
                      ..+...+..+.+|+.|++++|         .+. ..+..+..+.+   |++|++++|.+.     .+...+..+ ++|+.
T Consensus        71 ~~~~~~l~~~~~L~~L~l~~~---------~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~  141 (319)
T cd00116          71 QSLLQGLTKGCGLQELDLSDN---------ALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEK  141 (319)
T ss_pred             HHHHHHHHhcCceeEEEccCC---------CCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceE
Confidence            344556777889999999984         343 34444555554   999999999876     234556677 89999


Q ss_pred             EecCCCCCcC----ccCcccccCCCCCeEEcCCCCCCc----cCcccccCCcCCcccCceeecCccCCCCccC-chhhhc
Q 043450          392 LDIRRCQDLR----ELPTGIGKLKNMRSLLNGDTSSLK----YLPIGISRLTSLRTLEKFVVGGGVDGNNTCR-LESLKN  462 (561)
Q Consensus       392 L~l~~~~~~~----~lp~~~~~l~~L~~L~l~~~~~~~----~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~-~~~l~~  462 (561)
                      |++++|....    .++..+..+++|++|++++|....    .++..+..+++|+.|+  +.++.+....... ...+..
T Consensus       142 L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~--L~~n~i~~~~~~~l~~~~~~  219 (319)
T cd00116         142 LVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLD--LNNNGLTDEGASALAETLAS  219 (319)
T ss_pred             EEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEe--ccCCccChHHHHHHHHHhcc
Confidence            9999998331    344556777889999999987432    3444555667899988  5555543221111 233455


Q ss_pred             cCCCCceEEcCCCCCCCc-chhh-hcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeec
Q 043450          463 LQLLRECRVEGLSNVSHV-DEAE-RLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYY  540 (561)
Q Consensus       463 L~~L~~l~i~~~~~~~~~-~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~  540 (561)
                      +++|+.|++++..- ... .... .........|+.|++++|.+.+.          ....+.+.+..+++|+.|++++|
T Consensus       220 ~~~L~~L~ls~n~l-~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~----------~~~~l~~~~~~~~~L~~l~l~~N  288 (319)
T cd00116         220 LKSLEVLNLGDNNL-TDAGAAALASALLSPNISLLTLSLSCNDITDD----------GAKDLAEVLAEKESLLELDLRGN  288 (319)
T ss_pred             cCCCCEEecCCCcC-chHHHHHHHHHHhccCCCceEEEccCCCCCcH----------HHHHHHHHHhcCCCccEEECCCC
Confidence            67788888877432 210 0011 01111247899999998876432          24455566666789999999999


Q ss_pred             CCCCC-----Chhhhcc-cCCcEEEc
Q 043450          541 GGNIF-----PKWLTLL-TNLRDLNL  560 (561)
Q Consensus       541 ~~~~l-----p~~~~~l-~~L~~L~L  560 (561)
                      .+..-     ...+... ++|+.|++
T Consensus       289 ~l~~~~~~~~~~~~~~~~~~~~~~~~  314 (319)
T cd00116         289 KFGEEGAQLLAESLLEPGNELESLWV  314 (319)
T ss_pred             CCcHHHHHHHHHHHhhcCCchhhccc
Confidence            97643     2223344 67777765

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).

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

Probab=99.15  E-value=1.9e-12  Score=128.48  Aligned_cols=159  Identities=29%  Similarity=0.370  Sum_probs=117.7

Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcC
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLR  401 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~  401 (561)
                      ..+|.-++.+..|..+.|..         |.+..+|+.++.+..|.+|+|+.|++..+|..++.|+ |+.|-+++|+ ++
T Consensus        88 ~elp~~~~~f~~Le~liLy~---------n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sNNk-l~  156 (722)
T KOG0532|consen   88 SELPEEACAFVSLESLILYH---------NCIRTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSNNK-LT  156 (722)
T ss_pred             ccCchHHHHHHHHHHHHHHh---------ccceecchhhhhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEecCc-cc
Confidence            34455566777788888888         8889999999999999999999999999998888766 8899999887 89


Q ss_pred             ccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcc
Q 043450          402 ELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVD  481 (561)
Q Consensus       402 ~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~  481 (561)
                      .+|+.++.+..|.+|+.+.|. +..+|..++.+.+|+.|+  ...|..    .....++..|. |..|+++.     +.-
T Consensus       157 ~lp~~ig~~~tl~~ld~s~ne-i~slpsql~~l~slr~l~--vrRn~l----~~lp~El~~Lp-Li~lDfSc-----Nki  223 (722)
T KOG0532|consen  157 SLPEEIGLLPTLAHLDVSKNE-IQSLPSQLGYLTSLRDLN--VRRNHL----EDLPEELCSLP-LIRLDFSC-----NKI  223 (722)
T ss_pred             cCCcccccchhHHHhhhhhhh-hhhchHHhhhHHHHHHHH--Hhhhhh----hhCCHHHhCCc-eeeeeccc-----Cce
Confidence            999999988899999999888 788898899999999987  555554    33445555544 23344432     112


Q ss_pred             hhhhcccccccccccEEEEeecC
Q 043450          482 EAERLQLYNKKNLLRLGLQFGRV  504 (561)
Q Consensus       482 ~~~~~~l~~l~~L~~L~l~~~~~  504 (561)
                      ..++..|.++++|++|-|.+|.+
T Consensus       224 s~iPv~fr~m~~Lq~l~LenNPL  246 (722)
T KOG0532|consen  224 SYLPVDFRKMRHLQVLQLENNPL  246 (722)
T ss_pred             eecchhhhhhhhheeeeeccCCC
Confidence            33455566666666666665554

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

Probab=99.13  E-value=2.5e-12  Score=127.70  Aligned_cols=180  Identities=25%  Similarity=0.298  Sum_probs=141.6

Q ss_pred             cccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccC
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL  410 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l  410 (561)
                      +..-...|++.         |.+..+|..++.+..|+.+.|..|.+..+|..+.+|..|.+|||+.|. +..+|..+..|
T Consensus        74 ltdt~~aDlsr---------NR~~elp~~~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~Nq-lS~lp~~lC~l  143 (722)
T KOG0532|consen   74 LTDTVFADLSR---------NRFSELPEEACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSSNQ-LSHLPDGLCDL  143 (722)
T ss_pred             ccchhhhhccc---------cccccCchHHHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhccch-hhcCChhhhcC
Confidence            33445567777         889999999999999999999999999999999999999999999998 99999999888


Q ss_pred             CCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccccc
Q 043450          411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYN  490 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~  490 (561)
                      + |+.|-+++|+ ++.+|.+|+.+..|..|+  .+.|.+    ......+..|..|+.|.+..     .....++..+..
T Consensus       144 p-Lkvli~sNNk-l~~lp~~ig~~~tl~~ld--~s~nei----~slpsql~~l~slr~l~vrR-----n~l~~lp~El~~  210 (722)
T KOG0532|consen  144 P-LKVLIVSNNK-LTSLPEEIGLLPTLAHLD--VSKNEI----QSLPSQLGYLTSLRDLNVRR-----NHLEDLPEELCS  210 (722)
T ss_pred             c-ceeEEEecCc-cccCCcccccchhHHHhh--hhhhhh----hhchHHhhhHHHHHHHHHhh-----hhhhhCCHHHhC
Confidence            7 9999898888 899999999888999998  666655    34445555555555544432     122334444554


Q ss_pred             ccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh
Q 043450          491 KKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL  549 (561)
Q Consensus       491 l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~  549 (561)
                      + .|..||+++|+               ...+|-.|..+.+|++|-|.+|++..-|..|
T Consensus       211 L-pLi~lDfScNk---------------is~iPv~fr~m~~Lq~l~LenNPLqSPPAqI  253 (722)
T KOG0532|consen  211 L-PLIRLDFSCNK---------------ISYLPVDFRKMRHLQVLQLENNPLQSPPAQI  253 (722)
T ss_pred             C-ceeeeecccCc---------------eeecchhhhhhhhheeeeeccCCCCCChHHH
Confidence            4 58888999888               4446777889999999999999988777766

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.10  E-value=2.1e-10  Score=123.45  Aligned_cols=48  Identities=21%  Similarity=0.193  Sum_probs=32.1

Q ss_pred             cccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEc
Q 043450          492 KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNL  560 (561)
Q Consensus       492 ~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L  560 (561)
                      .+|+.|+++.|.+.               .+|.   .+++|+.|++++|.+..+|...   .+|+.|+|
T Consensus       382 ~~L~~LdLs~N~Lt---------------~LP~---l~s~L~~LdLS~N~LssIP~l~---~~L~~L~L  429 (788)
T PRK15387        382 SGLKELIVSGNRLT---------------SLPV---LPSELKELMVSGNRLTSLPMLP---SGLLSLSV  429 (788)
T ss_pred             cccceEEecCCccc---------------CCCC---cccCCCEEEccCCcCCCCCcch---hhhhhhhh
Confidence            46788888877643               2232   2367999999999998888643   34455554

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

Probab=99.06  E-value=7.4e-11  Score=117.51  Aligned_cols=225  Identities=19%  Similarity=0.145  Sum_probs=141.8

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCc-cccccccCCCC---ccEEecCCCC
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYN---LQKLDIRRCQ  398 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~---L~~L~l~~~~  398 (561)
                      .+...+...+.++.|+++++....  ....+..++..+..+++|++|++++|.+. ..+..+..+..   |++|++++|+
T Consensus        42 ~i~~~l~~~~~l~~l~l~~~~~~~--~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~  119 (319)
T cd00116          42 ALASALRPQPSLKELCLSLNETGR--IPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNG  119 (319)
T ss_pred             HHHHHHhhCCCceEEeccccccCC--cchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCc
Confidence            345556677778888888732100  00112334556677889999999999876 45555555555   9999999987


Q ss_pred             CcC----ccCcccccC-CCCCeEEcCCCCCCc----cCcccccCCcCCcccCceeecCccCCCC-ccCchhhhccCCCCc
Q 043450          399 DLR----ELPTGIGKL-KNMRSLLNGDTSSLK----YLPIGISRLTSLRTLEKFVVGGGVDGNN-TCRLESLKNLQLLRE  468 (561)
Q Consensus       399 ~~~----~lp~~~~~l-~~L~~L~l~~~~~~~----~lp~~i~~l~~L~~L~~~~~~~~~~~~~-~~~~~~l~~L~~L~~  468 (561)
                      ...    .+...+..+ ++|+.|++++|....    .++..+..+++|++|+  +.++.+.+.. ......+..++.|+.
T Consensus       120 ~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~--l~~n~l~~~~~~~l~~~l~~~~~L~~  197 (319)
T cd00116         120 LGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELN--LANNGIGDAGIRALAEGLKANCNLEV  197 (319)
T ss_pred             cchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEE--CcCCCCchHHHHHHHHHHHhCCCCCE
Confidence            331    233455666 889999999998442    3444566777888887  5556553211 112234555667888


Q ss_pred             eEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcC-CCCCCCceEEEeecCCC----
Q 043450          469 CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEAL-QPPVNVEELWIVYYGGN----  543 (561)
Q Consensus       469 l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l-~~~~~L~~L~l~~~~~~----  543 (561)
                      |++.++.-...........+..+++|+.|++++|.+.+.          ....+...+ .+.++|++|++++|.++    
T Consensus       198 L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~----------~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~  267 (319)
T cd00116         198 LDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDA----------GAAALASALLSPNISLLTLSLSCNDITDDGA  267 (319)
T ss_pred             EeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchH----------HHHHHHHHHhccCCCceEEEccCCCCCcHHH
Confidence            888765422222233445567788999999998875331          122233322 23578999999999874    


Q ss_pred             -CCChhhhcccCCcEEEcC
Q 043450          544 -IFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       544 -~lp~~~~~l~~L~~L~L~  561 (561)
                       .++..+..+++|+.++++
T Consensus       268 ~~l~~~~~~~~~L~~l~l~  286 (319)
T cd00116         268 KDLAEVLAEKESLLELDLR  286 (319)
T ss_pred             HHHHHHHhcCCCccEEECC
Confidence             234455677889998875

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

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

Probab=99.02  E-value=2.2e-11  Score=115.91  Aligned_cols=38  Identities=24%  Similarity=0.284  Sum_probs=32.1

Q ss_pred             ecCCceEEEEeeecCCCCCc-ccccccCceeEEEEccCC
Q 043450          239 FFGEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTS  276 (561)
Q Consensus       239 ~~~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~  276 (561)
                      ..+++...|.++.+.++.+| .+|..+++||.|+++++.
T Consensus        64 ~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~  102 (498)
T KOG4237|consen   64 NLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNN  102 (498)
T ss_pred             cCCCcceEEEeccCCcccCChhhccchhhhceecccccc
Confidence            34667778899999999998 689999999999999883

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.00  E-value=1.5e-10  Score=127.14  Aligned_cols=179  Identities=29%  Similarity=0.332  Sum_probs=128.9

Q ss_pred             cccccEEeccCCCCCCCCCccc--ccccCcc-ccccCccCEEecCCCC-CccccccccCCCCccEEecCCCCCcCccCcc
Q 043450          331 LACLRALVISQPSPIFRPDLNL--IREIPEN-VEKLIHLKYLNLSGLR-IESLPETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~--~~~lp~~-~~~l~~L~~L~l~~~~-l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      .+.|++|-+..         +.  +..++.. |-.++.|++|||++|. +.++|.+|++|-+|++|+++++. +..+|.+
T Consensus       544 ~~~L~tLll~~---------n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~-I~~LP~~  613 (889)
T KOG4658|consen  544 NPKLRTLLLQR---------NSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTG-ISHLPSG  613 (889)
T ss_pred             CCccceEEEee---------cchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCC-ccccchH
Confidence            44688888888         43  5555544 6779999999999987 88999999999999999999988 9999999


Q ss_pred             cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhc
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERL  486 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~  486 (561)
                      +++|.+|.+|++..+..+..+|..+..|++||+|.++....   ......+.++..|+.|+.+.+...+.      ....
T Consensus       614 l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~---~~~~~~l~el~~Le~L~~ls~~~~s~------~~~e  684 (889)
T KOG4658|consen  614 LGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSAL---SNDKLLLKELENLEHLENLSITISSV------LLLE  684 (889)
T ss_pred             HHHHHhhheeccccccccccccchhhhcccccEEEeecccc---ccchhhHHhhhcccchhhheeecchh------HhHh
Confidence            99999999999999988888877677799999998655542   22345577777777777766643221      1111


Q ss_pred             ccccccccc----cEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          487 QLYNKKNLL----RLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       487 ~l~~l~~L~----~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                      .+..+..|.    .+.+.++.               ....+..+..+.+|+.|.+.++.+.
T Consensus       685 ~l~~~~~L~~~~~~l~~~~~~---------------~~~~~~~~~~l~~L~~L~i~~~~~~  730 (889)
T KOG4658|consen  685 DLLGMTRLRSLLQSLSIEGCS---------------KRTLISSLGSLGNLEELSILDCGIS  730 (889)
T ss_pred             hhhhhHHHHHHhHhhhhcccc---------------cceeecccccccCcceEEEEcCCCc
Confidence            122333333    23322211               3344556677888888888888864

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

Probab=98.98  E-value=2.6e-10  Score=117.13  Aligned_cols=184  Identities=28%  Similarity=0.315  Sum_probs=142.3

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccC-ccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLI-HLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~-~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      +..+..+..|++.+         +.+..+|+..+.+. +|+.|++++|.+..+|..+..+++|+.|++++|. +..+|..
T Consensus       112 ~~~~~~l~~L~l~~---------n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~-l~~l~~~  181 (394)
T COG4886         112 LLELTNLTSLDLDN---------NNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFND-LSDLPKL  181 (394)
T ss_pred             hhcccceeEEecCC---------cccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCch-hhhhhhh
Confidence            44557899999999         88999999888885 9999999999999999889999999999999999 9999988


Q ss_pred             cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhc
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERL  486 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~  486 (561)
                      .+.+++|+.|++++|. +..+|..++.+..|++|.  ..+|..    ...+..+..+..+..+.+....     ....+.
T Consensus       182 ~~~~~~L~~L~ls~N~-i~~l~~~~~~~~~L~~l~--~~~N~~----~~~~~~~~~~~~l~~l~l~~n~-----~~~~~~  249 (394)
T COG4886         182 LSNLSNLNNLDLSGNK-ISDLPPEIELLSALEELD--LSNNSI----IELLSSLSNLKNLSGLELSNNK-----LEDLPE  249 (394)
T ss_pred             hhhhhhhhheeccCCc-cccCchhhhhhhhhhhhh--hcCCcc----eecchhhhhcccccccccCCce-----eeeccc
Confidence            7799999999999998 899998887788899997  555532    2233344444444443322211     111245


Q ss_pred             ccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh
Q 043450          487 QLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL  549 (561)
Q Consensus       487 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~  549 (561)
                      .+..+.+|+.|+++.|.+.+               ++. +.+..+|+.|+++++.+...+...
T Consensus       250 ~~~~l~~l~~L~~s~n~i~~---------------i~~-~~~~~~l~~L~~s~n~~~~~~~~~  296 (394)
T COG4886         250 SIGNLSNLETLDLSNNQISS---------------ISS-LGSLTNLRELDLSGNSLSNALPLI  296 (394)
T ss_pred             hhccccccceeccccccccc---------------ccc-ccccCccCEEeccCccccccchhh
Confidence            67888889999999887533               233 778899999999999977655444

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

Probab=98.83  E-value=7.4e-11  Score=112.39  Aligned_cols=112  Identities=28%  Similarity=0.278  Sum_probs=87.8

Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCC-CCCcccccc-ccCCCCccEEecCC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSG-LRIESLPET-LCELYNLQKLDIRR  396 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~-~~l~~lp~~-i~~L~~L~~L~l~~  396 (561)
                      ...++++.|+.+++||.|||+.         |.|+.+ |+.|..++.|..|-+-+ |+|+.+|+. |++|..|+-|.+.-
T Consensus        79 I~~iP~~aF~~l~~LRrLdLS~---------N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNa  149 (498)
T KOG4237|consen   79 ISSIPPGAFKTLHRLRRLDLSK---------NNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNA  149 (498)
T ss_pred             cccCChhhccchhhhceecccc---------cchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcCh
Confidence            4567788899999999999999         778777 78888888888887766 779999864 78899999999988


Q ss_pred             CCCcCccCcccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcccC
Q 043450          397 CQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLE  441 (561)
Q Consensus       397 ~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~  441 (561)
                      |+........+..+++|..|.+.+|. ...++. .+..+.+++++.
T Consensus       150 n~i~Cir~~al~dL~~l~lLslyDn~-~q~i~~~tf~~l~~i~tlh  194 (498)
T KOG4237|consen  150 NHINCIRQDALRDLPSLSLLSLYDNK-IQSICKGTFQGLAAIKTLH  194 (498)
T ss_pred             hhhcchhHHHHHHhhhcchhcccchh-hhhhccccccchhccchHh
Confidence            88444555678888888888888877 566665 456666666665

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

Probab=98.81  E-value=2.2e-09  Score=103.94  Aligned_cols=212  Identities=19%  Similarity=0.140  Sum_probs=136.8

Q ss_pred             CCceEEEEeeecCCCCCc--ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          241 GEKVRHIGLNFQRGASFP--MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~--~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .++++.++++++.+...+  .-...++++|.|.++++                                         .-
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~N-----------------------------------------L~  158 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRN-----------------------------------------LF  158 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecchhh-----------------------------------------hH
Confidence            456778888888776555  35677899999999887                                         11


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCcc--ccccCccCEEecCCCCCc--cccccccCCCCccEEec
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN--VEKLIHLKYLNLSGLRIE--SLPETLCELYNLQKLDI  394 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~--~~~l~~L~~L~l~~~~l~--~lp~~i~~L~~L~~L~l  394 (561)
                      .......++...+++|+.|+|+.         |.+....++  -..+.+|+.|.++.|.++  .+-...-.+++|+.|+|
T Consensus       159 ~nw~~v~~i~eqLp~Le~LNls~---------Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L  229 (505)
T KOG3207|consen  159 HNWFPVLKIAEQLPSLENLNLSS---------NRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYL  229 (505)
T ss_pred             HhHHHHHHHHHhcccchhccccc---------ccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhh
Confidence            12455667778899999999998         444332222  135789999999999987  44445567789999999


Q ss_pred             CCCCCcCccCcccccCCCCCeEEcCCCCCCccCc--ccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEc
Q 043450          395 RRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLP--IGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVE  472 (561)
Q Consensus       395 ~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp--~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~  472 (561)
                      ..|..+..--....-+..|+.|+|++|. +...+  .-++.++.|+.|+  +..++..        ++            
T Consensus       230 ~~N~~~~~~~~~~~i~~~L~~LdLs~N~-li~~~~~~~~~~l~~L~~Ln--ls~tgi~--------si------------  286 (505)
T KOG3207|consen  230 EANEIILIKATSTKILQTLQELDLSNNN-LIDFDQGYKVGTLPGLNQLN--LSSTGIA--------SI------------  286 (505)
T ss_pred             hcccccceecchhhhhhHHhhccccCCc-ccccccccccccccchhhhh--ccccCcc--------hh------------
Confidence            9986344333344567789999999988 44444  3467888888887  3333321        11            


Q ss_pred             CCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          473 GLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       473 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                           .............+++|++|++..|.+.++..             ...+..+++|+.|.+.+|.+.
T Consensus       287 -----~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~s-------------l~~l~~l~nlk~l~~~~n~ln  339 (505)
T KOG3207|consen  287 -----AEPDVESLDKTHTFPKLEYLNISENNIRDWRS-------------LNHLRTLENLKHLRITLNYLN  339 (505)
T ss_pred             -----cCCCccchhhhcccccceeeecccCccccccc-------------cchhhccchhhhhhccccccc
Confidence                 00011111223456778888888877655421             223445666777777777654

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

Probab=98.74  E-value=4.6e-09  Score=107.87  Aligned_cols=157  Identities=27%  Similarity=0.326  Sum_probs=119.2

Q ss_pred             Hhcc-ccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcc
Q 043450          328 FSKL-ACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       328 ~~~l-~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      ...+ .+|+.|+++.         +.+..+|..++.++.|+.|+++.|++..+|...+.+++|+.|++++|. +..+|..
T Consensus       135 ~~~~~~nL~~L~l~~---------N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~-i~~l~~~  204 (394)
T COG4886         135 IGLLKSNLKELDLSD---------NKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNK-ISDLPPE  204 (394)
T ss_pred             cccchhhcccccccc---------cchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCc-cccCchh
Confidence            3344 3899999999         889999888999999999999999999999988899999999999998 9999988


Q ss_pred             cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhc
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERL  486 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~  486 (561)
                      +..+..|+.|.+++|. ....+..+.+++++..|.  ...+..    ......+..+..++.+++.+..-    .. .. 
T Consensus       205 ~~~~~~L~~l~~~~N~-~~~~~~~~~~~~~l~~l~--l~~n~~----~~~~~~~~~l~~l~~L~~s~n~i----~~-i~-  271 (394)
T COG4886         205 IELLSALEELDLSNNS-IIELLSSLSNLKNLSGLE--LSNNKL----EDLPESIGNLSNLETLDLSNNQI----SS-IS-  271 (394)
T ss_pred             hhhhhhhhhhhhcCCc-ceecchhhhhcccccccc--cCCcee----eeccchhccccccceeccccccc----cc-cc-
Confidence            7788889999999986 566677788888888886  444443    11133344444455555543221    11 11 


Q ss_pred             ccccccccccEEEEeecCCCC
Q 043450          487 QLYNKKNLLRLGLQFGRVADG  507 (561)
Q Consensus       487 ~l~~l~~L~~L~l~~~~~~~~  507 (561)
                      .+..+.+|+.|+++.+.+...
T Consensus       272 ~~~~~~~l~~L~~s~n~~~~~  292 (394)
T COG4886         272 SLGSLTNLRELDLSGNSLSNA  292 (394)
T ss_pred             cccccCccCEEeccCcccccc
Confidence            278889999999998875443

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

Probab=98.74  E-value=4.4e-09  Score=92.81  Aligned_cols=80  Identities=29%  Similarity=0.389  Sum_probs=18.7

Q ss_pred             cccccEEeccCCCCCCCCCcccccccCcccc-ccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc-c
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREIPENVE-KLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI-G  408 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~-~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~-~  408 (561)
                      ...++.|+|++         +.++.+. .++ .+.+|+.|++++|.|+.++ .+..++.|++|++++|+ ++.+++.+ .
T Consensus        18 ~~~~~~L~L~~---------n~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~-I~~i~~~l~~   85 (175)
T PF14580_consen   18 PVKLRELNLRG---------NQISTIE-NLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNR-ISSISEGLDK   85 (175)
T ss_dssp             ----------------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--SS----S-CHHHHH
T ss_pred             ccccccccccc---------ccccccc-chhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCC-CCccccchHH
Confidence            33455666665         4454442 243 3555666666666655553 35555666666666655 55554433 2


Q ss_pred             cCCCCCeEEcCCCC
Q 043450          409 KLKNMRSLLNGDTS  422 (561)
Q Consensus       409 ~l~~L~~L~l~~~~  422 (561)
                      .+++|++|++++|.
T Consensus        86 ~lp~L~~L~L~~N~   99 (175)
T PF14580_consen   86 NLPNLQELYLSNNK   99 (175)
T ss_dssp             H-TT--EEE-TTS-
T ss_pred             hCCcCCEEECcCCc
Confidence            45566666665555

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

Probab=98.70  E-value=1.1e-08  Score=90.32  Aligned_cols=102  Identities=30%  Similarity=0.337  Sum_probs=51.2

Q ss_pred             ccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccc-cCCCCccEEecCCCCCcCccCc--c
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL-CELYNLQKLDIRRCQDLRELPT--G  406 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i-~~L~~L~~L~l~~~~~~~~lp~--~  406 (561)
                      .+.+|++|++++         |.++.++. +..+++|++|++++|.|+.+++.+ ..+++|+.|++++|+ +..+-.  .
T Consensus        40 ~l~~L~~L~Ls~---------N~I~~l~~-l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N~-I~~l~~l~~  108 (175)
T PF14580_consen   40 TLDKLEVLDLSN---------NQITKLEG-LPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNNK-ISDLNELEP  108 (175)
T ss_dssp             T-TT--EEE-TT---------S--S--TT-----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS----SCCCCGG
T ss_pred             hhcCCCEEECCC---------CCCccccC-ccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCCc-CCChHHhHH
Confidence            577899999999         78888864 788999999999999999887655 468999999999998 655543  5


Q ss_pred             cccCCCCCeEEcCCCCCCccCc----ccccCCcCCcccCce
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLP----IGISRLTSLRTLEKF  443 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp----~~i~~l~~L~~L~~~  443 (561)
                      +..+++|+.|++.+|.. ...+    ..+..+++|+.||..
T Consensus       109 L~~l~~L~~L~L~~NPv-~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen  109 LSSLPKLRVLSLEGNPV-CEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             GGG-TT--EEE-TT-GG-GGSTTHHHHHHHH-TT-SEETTE
T ss_pred             HHcCCCcceeeccCCcc-cchhhHHHHHHHHcChhheeCCE
Confidence            77889999999999984 3333    236788888888843

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

Probab=98.59  E-value=1.9e-08  Score=92.86  Aligned_cols=138  Identities=12%  Similarity=0.126  Sum_probs=87.4

Q ss_pred             ccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhc
Q 043450          383 LCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKN  462 (561)
Q Consensus       383 i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~  462 (561)
                      +...+.|+++||++|. +..+-+++.-+++++.|++++|. +..+ .++..|++|+.|+  +++|..    ...-+.=.+
T Consensus       280 ~dTWq~LtelDLS~N~-I~~iDESvKL~Pkir~L~lS~N~-i~~v-~nLa~L~~L~~LD--LS~N~L----s~~~Gwh~K  350 (490)
T KOG1259|consen  280 ADTWQELTELDLSGNL-ITQIDESVKLAPKLRRLILSQNR-IRTV-QNLAELPQLQLLD--LSGNLL----AECVGWHLK  350 (490)
T ss_pred             cchHhhhhhccccccc-hhhhhhhhhhccceeEEeccccc-eeee-hhhhhcccceEee--cccchh----HhhhhhHhh
Confidence            3346778888888877 77777777777888888888877 3333 2366777888877  555544    222222223


Q ss_pred             cCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCC
Q 043450          463 LQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGG  542 (561)
Q Consensus       463 L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~  542 (561)
                      |.++..|.+.+      ..-...+.+.++-+|..|+++.|++..            .++ ...++++|.|+.|.+.+|++
T Consensus       351 LGNIKtL~La~------N~iE~LSGL~KLYSLvnLDl~~N~Ie~------------lde-V~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  351 LGNIKTLKLAQ------NKIETLSGLRKLYSLVNLDLSSNQIEE------------LDE-VNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             hcCEeeeehhh------hhHhhhhhhHhhhhheeccccccchhh------------HHH-hcccccccHHHHHhhcCCCc
Confidence            34444443322      111112345667788888888887421            222 34788999999999999998


Q ss_pred             CCCChh
Q 043450          543 NIFPKW  548 (561)
Q Consensus       543 ~~lp~~  548 (561)
                      ..+|+.
T Consensus       412 ~~~vdY  417 (490)
T KOG1259|consen  412 AGSVDY  417 (490)
T ss_pred             cccchH
Confidence            887754

>PLN03150 hypothetical protein; Provisional

Probab=98.55  E-value=1.1e-07  Score=102.47  Aligned_cols=106  Identities=24%  Similarity=0.358  Sum_probs=86.2

Q ss_pred             cccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCccCcccccCC
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLRELPTGIGKLK  411 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~  411 (561)
                      .++.|+|+++        ..-+.+|..++.+++|++|+|++|.+. .+|..++.+++|+.|+|++|.....+|..+++++
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~  490 (623)
T PLN03150        419 FIDGLGLDNQ--------GLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLT  490 (623)
T ss_pred             EEEEEECCCC--------CccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCC
Confidence            4778888883        233467888999999999999999987 8888999999999999999986678999999999


Q ss_pred             CCCeEEcCCCCCCccCcccccCC-cCCcccCceeecCc
Q 043450          412 NMRSLLNGDTSSLKYLPIGISRL-TSLRTLEKFVVGGG  448 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~~i~~l-~~L~~L~~~~~~~~  448 (561)
                      +|+.|++++|...+.+|..++.+ .++..++  +.+|.
T Consensus       491 ~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~--~~~N~  526 (623)
T PLN03150        491 SLRILNLNGNSLSGRVPAALGGRLLHRASFN--FTDNA  526 (623)
T ss_pred             CCCEEECcCCcccccCChHHhhccccCceEE--ecCCc
Confidence            99999999999888999887654 3445554  44443

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

Probab=98.46  E-value=2.2e-08  Score=92.37  Aligned_cols=105  Identities=32%  Similarity=0.354  Sum_probs=79.9

Q ss_pred             ccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccccc
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGK  409 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~  409 (561)
                      ..+.|..+||++         |.+..+.+++.-++.++.|+++.|.|..+-. +..|.+|+.|||++|. +..+...-.+
T Consensus       282 TWq~LtelDLS~---------N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n-La~L~~L~~LDLS~N~-Ls~~~Gwh~K  350 (490)
T KOG1259|consen  282 TWQELTELDLSG---------NLITQIDESVKLAPKLRRLILSQNRIRTVQN-LAELPQLQLLDLSGNL-LAECVGWHLK  350 (490)
T ss_pred             hHhhhhhccccc---------cchhhhhhhhhhccceeEEeccccceeeehh-hhhcccceEeecccch-hHhhhhhHhh
Confidence            456688888888         8888888888888889999999988876643 7788888899998887 6666555557


Q ss_pred             CCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCcc
Q 043450          410 LKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +.|.+.|.++.|. +..+ .++++|.+|..|+  ..+|++
T Consensus       351 LGNIKtL~La~N~-iE~L-SGL~KLYSLvnLD--l~~N~I  386 (490)
T KOG1259|consen  351 LGNIKTLKLAQNK-IETL-SGLRKLYSLVNLD--LSSNQI  386 (490)
T ss_pred             hcCEeeeehhhhh-Hhhh-hhhHhhhhheecc--ccccch
Confidence            7788888888876 4444 4677777777777  555544

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

Probab=98.46  E-value=4.4e-08  Score=95.07  Aligned_cols=207  Identities=17%  Similarity=0.116  Sum_probs=132.9

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccC--ccccccCccCEEecCCCCCc---cccccccCCCCccEEecCCCCCcCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIP--ENVEKLIHLKYLNLSGLRIE---SLPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp--~~~~~l~~L~~L~l~~~~l~---~lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      -+++++|+...|..         ..+...+  +....+++++.|||++|-+.   .+-+-+..|++|+.|+++.|+....
T Consensus       117 Qsn~kkL~~IsLdn---------~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~  187 (505)
T KOG3207|consen  117 QSNLKKLREISLDN---------YRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNF  187 (505)
T ss_pred             hhhHHhhhheeecC---------ccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCC
Confidence            35788999999998         4454444  35677899999999999765   3445577899999999999983322


Q ss_pred             cCc-ccccCCCCCeEEcCCCCCCc-cCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCc
Q 043450          403 LPT-GIGKLKNMRSLLNGDTSSLK-YLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV  480 (561)
Q Consensus       403 lp~-~~~~l~~L~~L~l~~~~~~~-~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~  480 (561)
                      ... .-..++.|+.|.++.|.... .+-...-.+++|++|.  +..|...........   -++.|+.|++.+.   +..
T Consensus       188 ~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~--L~~N~~~~~~~~~~~---i~~~L~~LdLs~N---~li  259 (505)
T KOG3207|consen  188 ISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLY--LEANEIILIKATSTK---ILQTLQELDLSNN---NLI  259 (505)
T ss_pred             ccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhh--hhcccccceecchhh---hhhHHhhccccCC---ccc
Confidence            222 23467889999999998432 2222345678899997  545532222222233   3344455555442   222


Q ss_pred             chhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCCh--hhhcccCCcEE
Q 043450          481 DEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPK--WLTLLTNLRDL  558 (561)
Q Consensus       481 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~--~~~~l~~L~~L  558 (561)
                      ..........++.|+.|+++.+.+.+...+        ..+..+-...+++|++|++..|.+...+.  .+..+++|+.|
T Consensus       260 ~~~~~~~~~~l~~L~~Lnls~tgi~si~~~--------d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l  331 (505)
T KOG3207|consen  260 DFDQGYKVGTLPGLNQLNLSSTGIASIAEP--------DVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHL  331 (505)
T ss_pred             ccccccccccccchhhhhccccCcchhcCC--------CccchhhhcccccceeeecccCccccccccchhhccchhhhh
Confidence            333335678889999999998887654222        22233335568999999999999866552  23445555544


Q ss_pred             E
Q 043450          559 N  559 (561)
Q Consensus       559 ~  559 (561)
                      .
T Consensus       332 ~  332 (505)
T KOG3207|consen  332 R  332 (505)
T ss_pred             h
Confidence            3

>PLN03150 hypothetical protein; Provisional

Probab=98.32  E-value=6.5e-07  Score=96.60  Aligned_cols=93  Identities=22%  Similarity=0.352  Sum_probs=83.3

Q ss_pred             ccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCce
Q 043450          365 HLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKF  443 (561)
Q Consensus       365 ~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~  443 (561)
                      .++.|+|++|.+. .+|..+++|++|+.|+|++|.....+|..++.+++|+.|++++|...+.+|..++++++|+.|+  
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~--  496 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILN--  496 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEE--
Confidence            4788999999987 8899999999999999999996678999999999999999999998889999999999999998  


Q ss_pred             eecCccCCCCccCchh
Q 043450          444 VVGGGVDGNNTCRLES  459 (561)
Q Consensus       444 ~~~~~~~~~~~~~~~~  459 (561)
                      +.+|.+.+..|..+..
T Consensus       497 Ls~N~l~g~iP~~l~~  512 (623)
T PLN03150        497 LNGNSLSGRVPAALGG  512 (623)
T ss_pred             CcCCcccccCChHHhh
Confidence            7788887777765543

>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=98.31  E-value=5.9e-07  Score=64.94  Aligned_cols=57  Identities=28%  Similarity=0.505  Sum_probs=32.3

Q ss_pred             ccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCC
Q 043450          365 HLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTS  422 (561)
Q Consensus       365 ~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~  422 (561)
                      +|++|++++|+++.+|+ .+.++++|++|++++|. +..+|+ .+..+++|++|++++|.
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~-l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNN-LTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSS-ESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCc-cCccCHHHHcCCCCCCEEeCcCCc
Confidence            45566666666655553 34556666666666555 444433 45566666666666554

...

>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=98.29  E-value=8.8e-07  Score=64.01  Aligned_cols=58  Identities=33%  Similarity=0.488  Sum_probs=51.9

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCC
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~  398 (561)
                      ++|++|++++         |.+..+|. .|..+++|++|++++|.++.+|+ .+.++++|++|++++|+
T Consensus         1 p~L~~L~l~~---------n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSN---------NKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETS---------STESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCC---------CCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            4689999999         88999984 67899999999999999998874 68999999999999986

...

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

Probab=98.20  E-value=3.3e-07  Score=94.41  Aligned_cols=174  Identities=26%  Similarity=0.283  Sum_probs=115.2

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|..|++..         |.++.+...+..+.+|++|++++|.|+.+. .+..++.|+.|++++|. +..++. +
T Consensus        91 l~~~~~l~~l~l~~---------n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l~~N~-i~~~~~-~  158 (414)
T KOG0531|consen   91 LSKLKSLEALDLYD---------NKIEKIENLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNLSGNL-ISDISG-L  158 (414)
T ss_pred             cccccceeeeeccc---------cchhhcccchhhhhcchheecccccccccc-chhhccchhhheeccCc-chhccC-C
Confidence            56789999999999         888888776788999999999999998874 47788889999999998 777764 5


Q ss_pred             ccCCCCCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCccCCCCccCchhhhccCCC--CceEEcCCCCCCCcchhh
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLL--RECRVEGLSNVSHVDEAE  484 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L--~~l~i~~~~~~~~~~~~~  484 (561)
                      ..+++|+.+++++|. +..+... ...+.+++.+.  +.++....  ...+..+..+..+  ....+..+..        
T Consensus       159 ~~l~~L~~l~l~~n~-i~~ie~~~~~~~~~l~~l~--l~~n~i~~--i~~~~~~~~l~~~~l~~n~i~~~~~--------  225 (414)
T KOG0531|consen  159 ESLKSLKLLDLSYNR-IVDIENDELSELISLEELD--LGGNSIRE--IEGLDLLKKLVLLSLLDNKISKLEG--------  225 (414)
T ss_pred             ccchhhhcccCCcch-hhhhhhhhhhhccchHHHh--ccCCchhc--ccchHHHHHHHHhhcccccceeccC--------
Confidence            668899999999998 4555432 46777787775  44444321  1112222222211  2122222111        


Q ss_pred             hccccccc--ccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC
Q 043450          485 RLQLYNKK--NLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI  544 (561)
Q Consensus       485 ~~~l~~l~--~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~  544 (561)
                         +..+.  +|+.++++.|.+..               +++.+..++++..|++..+.+..
T Consensus       226 ---l~~~~~~~L~~l~l~~n~i~~---------------~~~~~~~~~~l~~l~~~~n~~~~  269 (414)
T KOG0531|consen  226 ---LNELVMLHLRELYLSGNRISR---------------SPEGLENLKNLPVLDLSSNRISN  269 (414)
T ss_pred             ---cccchhHHHHHHhcccCcccc---------------ccccccccccccccchhhccccc
Confidence               11111  47888888777422               22556677778888887777543

>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=98.14  E-value=2.6e-06  Score=56.46  Aligned_cols=40  Identities=30%  Similarity=0.496  Sum_probs=26.1

Q ss_pred             CccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccC
Q 043450          364 IHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       364 ~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      ++|++|++++|+|+.+|+.+++|++|++|++++|+ +..+|
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~-i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNP-ISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSC-CSBEG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCC-CCCCc
Confidence            35677777777777777667777777777777776 55544

...

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

Probab=98.12  E-value=3.6e-07  Score=94.11  Aligned_cols=189  Identities=30%  Similarity=0.366  Sum_probs=128.5

Q ss_pred             ccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccccc
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGK  409 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~  409 (561)
                      .+..++.+.+..         +.+...-..++.+++|.+|++.+|.|+.+...+..+.+|++|++++|. ++.+. .+..
T Consensus        70 ~l~~l~~l~l~~---------n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~-I~~i~-~l~~  138 (414)
T KOG0531|consen   70 SLTSLKELNLRQ---------NLIAKILNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNK-ITKLE-GLST  138 (414)
T ss_pred             HhHhHHhhccch---------hhhhhhhcccccccceeeeeccccchhhcccchhhhhcchheeccccc-ccccc-chhh
Confidence            456666666777         777775555788999999999999999887668899999999999998 77775 3778


Q ss_pred             CCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchh--hhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          410 LKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLES--LKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~--l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ++.|+.|++++|. +..++ ++..+++|+.++  +..+.+..     +..  +..+..++.+.+.+...      .....
T Consensus       139 l~~L~~L~l~~N~-i~~~~-~~~~l~~L~~l~--l~~n~i~~-----ie~~~~~~~~~l~~l~l~~n~i------~~i~~  203 (414)
T KOG0531|consen  139 LTLLKELNLSGNL-ISDIS-GLESLKSLKLLD--LSYNRIVD-----IENDELSELISLEELDLGGNSI------REIEG  203 (414)
T ss_pred             ccchhhheeccCc-chhcc-CCccchhhhccc--CCcchhhh-----hhhhhhhhccchHHHhccCCch------hcccc
Confidence            8889999999998 55553 566788898888  55554421     222  35555555544443221      11112


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCC--CCceEEEeecCCCCCChhhhcccCCcEEEc
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPV--NVEELWIVYYGGNIFPKWLTLLTNLRDLNL  560 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~--~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L  560 (561)
                      +..+..+..+++..|.+..                .+.+..+.  +|+.+++.+|++...|..+..+.++..|++
T Consensus       204 ~~~~~~l~~~~l~~n~i~~----------------~~~l~~~~~~~L~~l~l~~n~i~~~~~~~~~~~~l~~l~~  262 (414)
T KOG0531|consen  204 LDLLKKLVLLSLLDNKISK----------------LEGLNELVMLHLRELYLSGNRISRSPEGLENLKNLPVLDL  262 (414)
T ss_pred             hHHHHHHHHhhccccccee----------------ccCcccchhHHHHHHhcccCccccccccccccccccccch
Confidence            2333444444555554322                11222333  389999999999887666777788777765

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

Probab=98.11  E-value=7.6e-07  Score=84.33  Aligned_cols=18  Identities=17%  Similarity=0.200  Sum_probs=12.9

Q ss_pred             cccccCceeEEEEccCCC
Q 043450          260 SFFEFDRLRSLLIYDTSH  277 (561)
Q Consensus       260 ~~~~~~~Lr~L~~~~~~~  277 (561)
                      ....+..+..+.++++++
T Consensus        25 ~~~~~~s~~~l~lsgnt~   42 (382)
T KOG1909|consen   25 ELEPMDSLTKLDLSGNTF   42 (382)
T ss_pred             HhcccCceEEEeccCCch
Confidence            445677788888888843

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.06  E-value=7.8e-06  Score=81.24  Aligned_cols=83  Identities=24%  Similarity=0.407  Sum_probs=54.5

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCC-CccccccccCCCCccEEecCCCCCcCccCcc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLR-IESLPETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~-l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      +..+.+++.|++++         +.++.+|. +  ..+|+.|.+++|. ++.+|..+.  .+|+.|++++|..+..+|..
T Consensus        48 ~~~~~~l~~L~Is~---------c~L~sLP~-L--P~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~s  113 (426)
T PRK15386         48 IEEARASGRLYIKD---------CDIESLPV-L--PNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPES  113 (426)
T ss_pred             HHHhcCCCEEEeCC---------CCCcccCC-C--CCCCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccccc
Confidence            44568888888888         45666662 2  2368888888765 677776553  58888888888667777754


Q ss_pred             cccCCCCCeEEcCCCC--CCccCccc
Q 043450          407 IGKLKNMRSLLNGDTS--SLKYLPIG  430 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~--~~~~lp~~  430 (561)
                            |+.|.+..+.  .+..+|.+
T Consensus       114 ------Le~L~L~~n~~~~L~~LPss  133 (426)
T PRK15386        114 ------VRSLEIKGSATDSIKNVPNG  133 (426)
T ss_pred             ------cceEEeCCCCCcccccCcch
Confidence                  4555554433  24555543

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

Probab=98.04  E-value=2.7e-07  Score=95.04  Aligned_cols=123  Identities=28%  Similarity=0.286  Sum_probs=71.4

Q ss_pred             cccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc-ccccCC
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT-GIGKLK  411 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~  411 (561)
                      .|.+.+.++         |.+..+-.++.-++.|+.|+|++|+++..- .+..|++|++|||++|. +..+|. ....+ 
T Consensus       165 ~L~~a~fsy---------N~L~~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~-L~~vp~l~~~gc-  232 (1096)
T KOG1859|consen  165 KLATASFSY---------NRLVLMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNC-LRHVPQLSMVGC-  232 (1096)
T ss_pred             hHhhhhcch---------hhHHhHHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccch-hccccccchhhh-
Confidence            455555555         556666666666677777777777766553 56667777777777776 666665 22222 


Q ss_pred             CCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcC
Q 043450          412 NMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEG  473 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~  473 (561)
                      +|+.|.+.+|. +..+ .+|.+|++|+.|+  ++.|.+.+  .+.+.-|..|..|+.|.+.|
T Consensus       233 ~L~~L~lrnN~-l~tL-~gie~LksL~~LD--lsyNll~~--hseL~pLwsLs~L~~L~LeG  288 (1096)
T KOG1859|consen  233 KLQLLNLRNNA-LTTL-RGIENLKSLYGLD--LSYNLLSE--HSELEPLWSLSSLIVLWLEG  288 (1096)
T ss_pred             hheeeeecccH-HHhh-hhHHhhhhhhccc--hhHhhhhc--chhhhHHHHHHHHHHHhhcC
Confidence            37777777766 5554 3567777777776  44444321  22333344444444444433

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

Probab=97.88  E-value=6e-07  Score=83.10  Aligned_cols=182  Identities=16%  Similarity=0.143  Sum_probs=118.0

Q ss_pred             ccccEEeccCCCCCCCCCccccc--ccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCccCc--c
Q 043450          332 ACLRALVISQPSPIFRPDLNLIR--EIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLRELPT--G  406 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~--~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~lp~--~  406 (561)
                      ..|++|||+.         ..++  .+-.-++.+.+|+.|.+.|+++. .+-..|.+-.+|+.||++.|..+++.-.  -
T Consensus       185 sRlq~lDLS~---------s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll  255 (419)
T KOG2120|consen  185 SRLQHLDLSN---------SVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLL  255 (419)
T ss_pred             hhhHHhhcch---------hheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHH
Confidence            3588999998         5554  23344577789999999999987 6667788899999999999987765532  4


Q ss_pred             cccCCCCCeEEcCCCCCCccCcc-cccC-CcCCcccCceeecCccCCCCccCchhh-hccCCCCceEEcCCCCCCCcchh
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPI-GISR-LTSLRTLEKFVVGGGVDGNNTCRLESL-KNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~-~i~~-l~~L~~L~~~~~~~~~~~~~~~~~~~l-~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      +.+++.|..|+++.|......-. .+.+ -.+|..|++.....++.   .+.+.-| ....+|..|+++.+-.+.   ..
T Consensus       256 ~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~---~sh~~tL~~rcp~l~~LDLSD~v~l~---~~  329 (419)
T KOG2120|consen  256 LSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQ---KSHLSTLVRRCPNLVHLDLSDSVMLK---ND  329 (419)
T ss_pred             HHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhh---hhHHHHHHHhCCceeeeccccccccC---ch
Confidence            67889999999999985433211 1111 23566676332222221   1123333 235566666766543322   24


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecC
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYG  541 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~  541 (561)
                      ....|.+++.|+.|.++.|-             ....+..-.+...|.|.+|++.|+-
T Consensus       330 ~~~~~~kf~~L~~lSlsRCY-------------~i~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  330 CFQEFFKFNYLQHLSLSRCY-------------DIIPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             HHHHHHhcchheeeehhhhc-------------CCChHHeeeeccCcceEEEEecccc
Confidence            45567888889999888654             2222333346677889999988875

>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=97.85  E-value=1.6e-05  Score=52.69  Aligned_cols=41  Identities=32%  Similarity=0.449  Sum_probs=35.4

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPE  381 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~  381 (561)
                      ++|++|++++         |.++.+|+.+++|++|++|++++|.++.+|+
T Consensus         1 ~~L~~L~l~~---------N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSN---------NQITDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEETS---------SS-SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEccC---------CCCcccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            4799999999         8899999989999999999999999987753

...

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

Probab=97.83  E-value=1.1e-06  Score=72.10  Aligned_cols=103  Identities=19%  Similarity=0.194  Sum_probs=76.6

Q ss_pred             cccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCC-CCccEEecCCCCCcCccCccccc
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCEL-YNLQKLDIRRCQDLRELPTGIGK  409 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L-~~L~~L~l~~~~~~~~lp~~~~~  409 (561)
                      -+.+..++|+.|..      -.+...+..+....+|...+|++|.+..+|+.+... +.+++|++++|. +.++|..+..
T Consensus        26 akE~h~ldLssc~l------m~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~ne-isdvPeE~Aa   98 (177)
T KOG4579|consen   26 AKELHFLDLSSCQL------MYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNE-ISDVPEELAA   98 (177)
T ss_pred             HHHhhhcccccchh------hHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhh-hhhchHHHhh
Confidence            44566777877431      112233344556678888899999998888877644 588999999888 8889988889


Q ss_pred             CCCCCeEEcCCCCCCccCcccccCCcCCcccC
Q 043450          410 LKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE  441 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~  441 (561)
                      ++.|+.|+++.|. +...|..|..|.+|-.|+
T Consensus        99 m~aLr~lNl~~N~-l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   99 MPALRSLNLRFNP-LNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             hHHhhhcccccCc-cccchHHHHHHHhHHHhc
Confidence            9999999998888 677788787777777775

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

Probab=97.74  E-value=8.9e-06  Score=77.26  Aligned_cols=216  Identities=19%  Similarity=0.113  Sum_probs=136.6

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCccccc-----ccCccccccCccCEEecCCCC---C-cccccc-------ccCC
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIR-----EIPENVEKLIHLKYLNLSGLR---I-ESLPET-------LCEL  386 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----~lp~~~~~l~~L~~L~l~~~~---l-~~lp~~-------i~~L  386 (561)
                      ........+..+..+++++         |.++     .+-+.+.+.+.|+..+++.--   + .++|+.       +-..
T Consensus        21 ~v~~~~~~~~s~~~l~lsg---------nt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~   91 (382)
T KOG1909|consen   21 DVEEELEPMDSLTKLDLSG---------NTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGC   91 (382)
T ss_pred             hHHHHhcccCceEEEeccC---------CchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcC
Confidence            3445567889999999999         5554     234456667789988887642   2 256543       4456


Q ss_pred             CCccEEecCCCCCcCccCc----ccccCCCCCeEEcCCCCCCccCc--------------ccccCCcCCcccCceeecCc
Q 043450          387 YNLQKLDIRRCQDLRELPT----GIGKLKNMRSLLNGDTSSLKYLP--------------IGISRLTSLRTLEKFVVGGG  448 (561)
Q Consensus       387 ~~L~~L~l~~~~~~~~lp~----~~~~l~~L~~L~l~~~~~~~~lp--------------~~i~~l~~L~~L~~~~~~~~  448 (561)
                      ++|++||||.|-.-...++    -+.++..|++|.+.+|. ++..-              .-++.-+.|+++.  ..+|.
T Consensus        92 ~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~G-lg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i--~~rNr  168 (382)
T KOG1909|consen   92 PKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCG-LGPEAGGRLGRALFELAVNKKAASKPKLRVFI--CGRNR  168 (382)
T ss_pred             CceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCC-CChhHHHHHHHHHHHHHHHhccCCCcceEEEE--eeccc
Confidence            7999999999974444444    35678899999999997 43221              1234556777774  33333


Q ss_pred             cCCCCccC-chhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC
Q 043450          449 VDGNNTCR-LESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ  527 (561)
Q Consensus       449 ~~~~~~~~-~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~  527 (561)
                      ........ -.-++..+.|..+.+....-...-.......+..+++|+.|+|..|..+..          -...+-..++
T Consensus       169 len~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~e----------gs~~LakaL~  238 (382)
T KOG1909|consen  169 LENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLE----------GSVALAKALS  238 (382)
T ss_pred             cccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhH----------HHHHHHHHhc
Confidence            32111111 222344556666666543322222246667788999999999997764321          1334556677


Q ss_pred             CCCCCceEEEeecCCCC-----CChhh-hcccCCcEEEc
Q 043450          528 PPVNVEELWIVYYGGNI-----FPKWL-TLLTNLRDLNL  560 (561)
Q Consensus       528 ~~~~L~~L~l~~~~~~~-----lp~~~-~~l~~L~~L~L  560 (561)
                      ..++|+.|+++.|.++.     +-..+ ...++|+.|.|
T Consensus       239 s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l  277 (382)
T KOG1909|consen  239 SWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLEL  277 (382)
T ss_pred             ccchheeecccccccccccHHHHHHHHhccCCCCceecc
Confidence            77899999999998653     22223 35788888876

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

Probab=97.69  E-value=1.7e-05  Score=85.64  Aligned_cols=134  Identities=25%  Similarity=0.170  Sum_probs=68.3

Q ss_pred             CccCEEecCCCC-Cc-cccccccC-CCCccEEecCCCCCc-CccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcc
Q 043450          364 IHLKYLNLSGLR-IE-SLPETLCE-LYNLQKLDIRRCQDL-RELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRT  439 (561)
Q Consensus       364 ~~L~~L~l~~~~-l~-~lp~~i~~-L~~L~~L~l~~~~~~-~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~  439 (561)
                      .+|++|+++|.. +. .-|..++. |++|+.|.+++-... .++-.-..++++|..||+++++ +..+ .+|++|++||+
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~Tn-I~nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTN-ISNL-SGISRLKNLQV  199 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCC-ccCc-HHHhccccHHH
Confidence            345555555543 21 33334442 466666666552211 1222234466677777777766 4444 56777777777


Q ss_pred             cCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCc--chhhhcccccccccccEEEEeec
Q 043450          440 LEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV--DEAERLQLYNKKNLLRLGLQFGR  503 (561)
Q Consensus       440 L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~--~~~~~~~l~~l~~L~~L~l~~~~  503 (561)
                      |.  ..+-.+  .....+..|=.|++|+.|+++.-......  -......-..+++|+.||.+++.
T Consensus       200 L~--mrnLe~--e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  200 LS--MRNLEF--ESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             Hh--ccCCCC--CchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcc
Confidence            75  222222  11234555666667777777654432221  11112233456777777777554

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

Probab=97.50  E-value=5.5e-06  Score=76.87  Aligned_cols=175  Identities=18%  Similarity=0.170  Sum_probs=119.1

Q ss_pred             CCCCCCcchhHHHHHHhccccccEEeccCCCCCCCCCcccccc-cCccccccCccCEEecCCCC-Ccccc--ccccCCCC
Q 043450          313 SPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIRE-IPENVEKLIHLKYLNLSGLR-IESLP--ETLCELYN  388 (561)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-lp~~~~~l~~L~~L~l~~~~-l~~lp--~~i~~L~~  388 (561)
                      .+++..+..+.+...++.+.+|+.|.+.+         +.+.. +-..+.+-.+|+.|+++.|. +++..  --+.+++.
T Consensus       191 DLS~s~it~stl~~iLs~C~kLk~lSlEg---------~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~  261 (419)
T KOG2120|consen  191 DLSNSVITVSTLHGILSQCSKLKNLSLEG---------LRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSR  261 (419)
T ss_pred             hcchhheeHHHHHHHHHHHHhhhhccccc---------cccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhh
Confidence            34556666778888899999999999999         44432 23456667889999999987 77432  34678999


Q ss_pred             ccEEecCCCCCcCccCc-ccccC-CCCCeEEcCCCCCC---ccCcccccCCcCCcccCceeecCccCCCCccCchhhhcc
Q 043450          389 LQKLDIRRCQDLRELPT-GIGKL-KNMRSLLNGDTSSL---KYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNL  463 (561)
Q Consensus       389 L~~L~l~~~~~~~~lp~-~~~~l-~~L~~L~l~~~~~~---~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L  463 (561)
                      |+.|++++|...+..-. .+... ++|..|++++|...   ..+.--..++++|..|+  ++.+...  .+..+.++-++
T Consensus       262 L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LD--LSD~v~l--~~~~~~~~~kf  337 (419)
T KOG2120|consen  262 LDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLD--LSDSVML--KNDCFQEFFKF  337 (419)
T ss_pred             HhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeec--ccccccc--CchHHHHHHhc
Confidence            99999999985544322 22232 47899999988621   11111235788999999  5554332  24567778888


Q ss_pred             CCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeec
Q 043450          464 QLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGR  503 (561)
Q Consensus       464 ~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  503 (561)
                      ..|+.+.++.|-.+   .......+...+.|.+|++.++-
T Consensus       338 ~~L~~lSlsRCY~i---~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  338 NYLQHLSLSRCYDI---IPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             chheeeehhhhcCC---ChHHeeeeccCcceEEEEecccc
Confidence            88888877766432   22333456788999999997653

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.46  E-value=0.00015  Score=72.22  Aligned_cols=67  Identities=27%  Similarity=0.391  Sum_probs=51.6

Q ss_pred             cccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCccccc
Q 043450          361 EKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGIS  432 (561)
Q Consensus       361 ~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~  432 (561)
                      ..+.+++.|++++|.++.+|. +  ..+|+.|.+++|..+..+|..+  .++|++|++++|..+..+|.++.
T Consensus        49 ~~~~~l~~L~Is~c~L~sLP~-L--P~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP~sLe  115 (426)
T PRK15386         49 EEARASGRLYIKDCDIESLPV-L--PNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLPESVR  115 (426)
T ss_pred             HHhcCCCEEEeCCCCCcccCC-C--CCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccccccc
Confidence            345788899999998888882 2  2479999999988888888755  35899999998866778886543

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

Probab=97.44  E-value=2.3e-05  Score=64.48  Aligned_cols=93  Identities=23%  Similarity=0.302  Sum_probs=80.9

Q ss_pred             HHhccccccEEeccCCCCCCCCCcccccccCccccc-cCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENVEK-LIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~-l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      ...+...|...+|++         |.++.+|+.+.. .+.++.|++++|.|..+|..+..++.|+.|+++.|+ +...|.
T Consensus        48 ~l~~~~el~~i~ls~---------N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~-l~~~p~  117 (177)
T KOG4579|consen   48 MLSKGYELTKISLSD---------NGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNP-LNAEPR  117 (177)
T ss_pred             HHhCCceEEEEeccc---------chhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCc-cccchH
Confidence            356777889999999         899999998854 458999999999999999999999999999999998 888888


Q ss_pred             ccccCCCCCeEEcCCCCCCccCccc
Q 043450          406 GIGKLKNMRSLLNGDTSSLKYLPIG  430 (561)
Q Consensus       406 ~~~~l~~L~~L~l~~~~~~~~lp~~  430 (561)
                      -|..|.+|-.|+..+|. ...+|-.
T Consensus       118 vi~~L~~l~~Lds~~na-~~eid~d  141 (177)
T KOG4579|consen  118 VIAPLIKLDMLDSPENA-RAEIDVD  141 (177)
T ss_pred             HHHHHHhHHHhcCCCCc-cccCcHH
Confidence            88889999999988877 5666644

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

Probab=97.37  E-value=0.0002  Score=77.54  Aligned_cols=92  Identities=26%  Similarity=0.276  Sum_probs=70.9

Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccc--ccccCCCCccEEecCCCC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP--ETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp--~~i~~L~~L~~L~l~~~~  398 (561)
                      ...+...+..+++|+.||+++         ..++.+ ..+++|++|+.|.+.+-.++..+  ..+.+|++|++||+|..+
T Consensus       162 ~~dF~~lc~sFpNL~sLDIS~---------TnI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~  231 (699)
T KOG3665|consen  162 NDDFSQLCASFPNLRSLDISG---------TNISNL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDK  231 (699)
T ss_pred             chhHHHHhhccCccceeecCC---------CCccCc-HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCeeeccccc
Confidence            344666788999999999999         667766 55899999999999998877433  568899999999999866


Q ss_pred             CcCccCc-------ccccCCCCCeEEcCCCCC
Q 043450          399 DLRELPT-------GIGKLKNMRSLLNGDTSS  423 (561)
Q Consensus       399 ~~~~lp~-------~~~~l~~L~~L~l~~~~~  423 (561)
                      ... -+.       .-..||+||.||.+++..
T Consensus       232 ~~~-~~~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  232 NND-DTKIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             ccc-chHHHHHHHHhcccCccccEEecCCcch
Confidence            332 221       123589999999998764

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

Probab=97.16  E-value=1.1e-05  Score=83.39  Aligned_cols=130  Identities=20%  Similarity=0.194  Sum_probs=97.3

Q ss_pred             eecCCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCC
Q 043450          238 NFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNP  317 (561)
Q Consensus       238 ~~~~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (561)
                      ...+.++..+++..+....+..++.-++.+++|.++++..                                        
T Consensus       160 s~~Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~----------------------------------------  199 (1096)
T KOG1859|consen  160 SPVWNKLATASFSYNRLVLMDESLQLLPALESLNLSHNKF----------------------------------------  199 (1096)
T ss_pred             chhhhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhh----------------------------------------
Confidence            3445666777777777777777777788889988888711                                        


Q ss_pred             CcchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCC
Q 043450          318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRC  397 (561)
Q Consensus       318 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~  397 (561)
                          .... .+..+.+|+.|||++         |.+..+|.--..-.+|..|.+++|.++++ ..|.+|++|+.||+++|
T Consensus       200 ----~~v~-~Lr~l~~LkhLDlsy---------N~L~~vp~l~~~gc~L~~L~lrnN~l~tL-~gie~LksL~~LDlsyN  264 (1096)
T KOG1859|consen  200 ----TKVD-NLRRLPKLKHLDLSY---------NCLRHVPQLSMVGCKLQLLNLRNNALTTL-RGIENLKSLYGLDLSYN  264 (1096)
T ss_pred             ----hhhH-HHHhccccccccccc---------chhccccccchhhhhheeeeecccHHHhh-hhHHhhhhhhccchhHh
Confidence                1122 467899999999999         88888875322224599999999999887 46889999999999998


Q ss_pred             CCcCccCc--ccccCCCCCeEEcCCCCC
Q 043450          398 QDLRELPT--GIGKLKNMRSLLNGDTSS  423 (561)
Q Consensus       398 ~~~~~lp~--~~~~l~~L~~L~l~~~~~  423 (561)
                      - +....+  -++.|..|+.|+|.+|..
T Consensus       265 l-l~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  265 L-LSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             h-hhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            6 444322  367788899999999873

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

Probab=96.65  E-value=0.0016  Score=60.22  Aligned_cols=197  Identities=20%  Similarity=0.184  Sum_probs=114.3

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCccccc-----ccCccccccCccCEEecCCCC---Cc-ccc-------ccccCC
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIR-----EIPENVEKLIHLKYLNLSGLR---IE-SLP-------ETLCEL  386 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----~lp~~~~~l~~L~~L~l~~~~---l~-~lp-------~~i~~L  386 (561)
                      .+.. +..+..+..++|++         |-++     .+...|.+-++|+..+++.-.   .. ++|       +.+-+|
T Consensus        22 v~ee-l~~~d~~~evdLSG---------NtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkc   91 (388)
T COG5238          22 VVEE-LEMMDELVEVDLSG---------NTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKC   91 (388)
T ss_pred             HHHH-HHhhcceeEEeccC---------CcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcC
Confidence            3444 34589999999999         5554     344556667889999888643   11 444       346689


Q ss_pred             CCccEEecCCCCCcCccCcc----cccCCCCCeEEcCCCCCCccCccc-c-------------cCCcCCcccCceeec-C
Q 043450          387 YNLQKLDIRRCQDLRELPTG----IGKLKNMRSLLNGDTSSLKYLPIG-I-------------SRLTSLRTLEKFVVG-G  447 (561)
Q Consensus       387 ~~L~~L~l~~~~~~~~lp~~----~~~l~~L~~L~l~~~~~~~~lp~~-i-------------~~l~~L~~L~~~~~~-~  447 (561)
                      ++|++.+||.|-.-.+.|+.    |.+-+.|.||.+++|. ++.+..+ |             .+-+.|++.   .++ |
T Consensus        92 p~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnG-lGp~aG~rigkal~~la~nKKaa~kp~Le~v---icgrN  167 (388)
T COG5238          92 PRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNG-LGPIAGGRIGKALFHLAYNKKAADKPKLEVV---ICGRN  167 (388)
T ss_pred             CcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCC-CCccchhHHHHHHHHHHHHhhhccCCCceEE---Eeccc
Confidence            99999999999866677764    5567889999999987 5544311 2             233455555   333 3


Q ss_pred             ccCC-CCccCchhhhccCCCCceEEcCCCC-CCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhc
Q 043450          448 GVDG-NNTCRLESLKNLQLLRECRVEGLSN-VSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEA  525 (561)
Q Consensus       448 ~~~~-~~~~~~~~l~~L~~L~~l~i~~~~~-~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~  525 (561)
                      .+.. ........+.+=..|..+.+....- -..........+..+.+|+.|+|..|..+..          -...+-..
T Consensus       168 Rlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~----------gS~~La~a  237 (388)
T COG5238         168 RLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLE----------GSRYLADA  237 (388)
T ss_pred             hhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhh----------hHHHHHHH
Confidence            2210 0000111122223444444432110 0112233344556778888888887653321          12233344


Q ss_pred             CCCCCCCceEEEeecCCC
Q 043450          526 LQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       526 l~~~~~L~~L~l~~~~~~  543 (561)
                      ++.-+.|+.|.+..|-++
T Consensus       238 l~~W~~lrEL~lnDClls  255 (388)
T COG5238         238 LCEWNLLRELRLNDCLLS  255 (388)
T ss_pred             hcccchhhhccccchhhc
Confidence            455566888888888754

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

Probab=96.64  E-value=0.0025  Score=56.38  Aligned_cols=99  Identities=24%  Similarity=0.277  Sum_probs=61.6

Q ss_pred             cccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccC-CCCccEEecCCCCCcCccCc--cc
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCE-LYNLQKLDIRRCQDLRELPT--GI  407 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~-L~~L~~L~l~~~~~~~~lp~--~~  407 (561)
                      +.....+||+.         |.+..++. +..++.|.+|.+.+|+|+.+-+.+.. +++|+.|.+.+|. ++++-+  .+
T Consensus        41 ~d~~d~iDLtd---------Ndl~~l~~-lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNs-i~~l~dl~pL  109 (233)
T KOG1644|consen   41 LDQFDAIDLTD---------NDLRKLDN-LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNS-IQELGDLDPL  109 (233)
T ss_pred             ccccceecccc---------cchhhccc-CCCccccceEEecCCcceeeccchhhhccccceEEecCcc-hhhhhhcchh
Confidence            34566677777         66665543 56677778888888887776555554 4667778777776 555532  35


Q ss_pred             ccCCCCCeEEcCCCCCCccCc----ccccCCcCCcccC
Q 043450          408 GKLKNMRSLLNGDTSSLKYLP----IGISRLTSLRTLE  441 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp----~~i~~l~~L~~L~  441 (561)
                      ..+++|+.|.+-+|.. ...+    .-+..+++|++|+
T Consensus       110 a~~p~L~~Ltll~Npv-~~k~~YR~yvl~klp~l~~LD  146 (233)
T KOG1644|consen  110 ASCPKLEYLTLLGNPV-EHKKNYRLYVLYKLPSLRTLD  146 (233)
T ss_pred             ccCCccceeeecCCch-hcccCceeEEEEecCcceEee
Confidence            5666777777666652 2211    1245666677666

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

Probab=96.56  E-value=0.00094  Score=65.34  Aligned_cols=218  Identities=19%  Similarity=0.127  Sum_probs=122.3

Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCcc-------------------c----cccCccCEEecCCCC-C
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN-------------------V----EKLIHLKYLNLSGLR-I  376 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~-------------------~----~~l~~L~~L~l~~~~-l  376 (561)
                      ...+.....++++|++|+++.|..+..   +.++.+-..                   +    +...-+..+++..|. +
T Consensus       205 ~~~Lk~la~gC~kL~~lNlSwc~qi~~---~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~l  281 (483)
T KOG4341|consen  205 DVSLKYLAEGCRKLKYLNLSWCPQISG---NGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQL  281 (483)
T ss_pred             HHHHHHHHHhhhhHHHhhhccCchhhc---CcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccc
Confidence            344555667788888888888754322   111111000                   0    011123445544554 3


Q ss_pred             cc--ccccccCCCCccEEecCCCCCcCccCc-c-cccCCCCCeEEcCCCCCCccCccc-c-cCCcCCcccCceeecCccC
Q 043450          377 ES--LPETLCELYNLQKLDIRRCQDLRELPT-G-IGKLKNMRSLLNGDTSSLKYLPIG-I-SRLTSLRTLEKFVVGGGVD  450 (561)
Q Consensus       377 ~~--lp~~i~~L~~L~~L~l~~~~~~~~lp~-~-~~~l~~L~~L~l~~~~~~~~lp~~-i-~~l~~L~~L~~~~~~~~~~  450 (561)
                      +.  +-..-..+..||.|+.++|..+...+- . ..+..+|+.|.++.|+..+..-.. + .+.+.|+.+++-.++....
T Consensus       282 TD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d  361 (483)
T KOG4341|consen  282 TDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITD  361 (483)
T ss_pred             cchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehh
Confidence            31  111123467889999999886554432 1 235678999999998865443211 1 4566788887444443332


Q ss_pred             CCCccCchhh-hccCCCCceEEcCCCCCCCcch-hhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCC
Q 043450          451 GNNTCRLESL-KNLQLLRECRVEGLSNVSHVDE-AERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQP  528 (561)
Q Consensus       451 ~~~~~~~~~l-~~L~~L~~l~i~~~~~~~~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~  528 (561)
                      +    .+..+ .+.+.|+.+.++.++...+.+. .+...-..+..|+.|.|+.+.             ...+..++.+..
T Consensus       362 ~----tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p-------------~i~d~~Le~l~~  424 (483)
T KOG4341|consen  362 G----TLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCP-------------LITDATLEHLSI  424 (483)
T ss_pred             h----hHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCC-------------CchHHHHHHHhh
Confidence            1    23333 2356677777766554433211 112223456788888888665             457778888888


Q ss_pred             CCCCceEEEeecCCC-C--CChhhhcccCCcEE
Q 043450          529 PVNVEELWIVYYGGN-I--FPKWLTLLTNLRDL  558 (561)
Q Consensus       529 ~~~L~~L~l~~~~~~-~--lp~~~~~l~~L~~L  558 (561)
                      +++|+.+++.++... +  +-..-.++|+++..
T Consensus       425 c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~  457 (483)
T KOG4341|consen  425 CRNLERIELIDCQDVTKEAISRFATHLPNIKVH  457 (483)
T ss_pred             CcccceeeeechhhhhhhhhHHHHhhCccceeh
Confidence            999999999888732 2  11122466666543

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

Probab=96.50  E-value=0.0035  Score=55.49  Aligned_cols=107  Identities=21%  Similarity=0.308  Sum_probs=73.5

Q ss_pred             cCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccccc-CCCCCeEEcCCCCCCccCcc--cccCCcCCcc
Q 043450          363 LIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGK-LKNMRSLLNGDTSSLKYLPI--GISRLTSLRT  439 (561)
Q Consensus       363 l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~-l~~L~~L~l~~~~~~~~lp~--~i~~l~~L~~  439 (561)
                      +.+...+||+.|.+..++ .+..+..|.+|.+++|+ +..+-+.+.. +++|..|.+.+|+ +..+-+  .+..++.|++
T Consensus        41 ~d~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nNr-It~I~p~L~~~~p~l~~L~LtnNs-i~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNNR-ITRIDPDLDTFLPNLKTLILTNNS-IQELGDLDPLASCPKLEY  117 (233)
T ss_pred             ccccceecccccchhhcc-cCCCccccceEEecCCc-ceeeccchhhhccccceEEecCcc-hhhhhhcchhccCCccce
Confidence            346778999999977664 46788999999999998 7777555554 5679999999887 444422  2456777887


Q ss_pred             cCceeecCccCCCCccCchhhhccCCCCceEEcCC
Q 043450          440 LEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGL  474 (561)
Q Consensus       440 L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~  474 (561)
                      |.  +.+|..........--+-.+++|+.|++.++
T Consensus       118 Lt--ll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  118 LT--LLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             ee--ecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            76  5566554444444444556666666666554

>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=96.31  E-value=0.002  Score=35.45  Aligned_cols=19  Identities=42%  Similarity=0.849  Sum_probs=10.4

Q ss_pred             cCEEecCCCCCcccccccc
Q 043450          366 LKYLNLSGLRIESLPETLC  384 (561)
Q Consensus       366 L~~L~l~~~~l~~lp~~i~  384 (561)
                      |++|++++|.++.+|++|+
T Consensus         2 L~~Ldls~n~l~~ip~~~~   20 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFS   20 (22)
T ss_dssp             ESEEEETSSEESEEGTTTT
T ss_pred             ccEEECCCCcCEeCChhhc
Confidence            5555555555555555444

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 ....

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.22  E-value=0.0023  Score=59.97  Aligned_cols=202  Identities=20%  Similarity=0.099  Sum_probs=102.2

Q ss_pred             HhccccccEEeccCCCCCCCCCccccccc---CccccccCccCEEecCCCCCccccccc-cCCCCccEEecCCCCCcC-c
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREI---PENVEKLIHLKYLNLSGLRIESLPETL-CELYNLQKLDIRRCQDLR-E  402 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~l---p~~~~~l~~L~~L~l~~~~l~~lp~~i-~~L~~L~~L~l~~~~~~~-~  402 (561)
                      -.....++.|||.+         |.+...   -.-+.+|++|++|+|+.|.+..-..+. -.+.+|++|-|.+...-. .
T Consensus        67 ~~~~~~v~elDL~~---------N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~  137 (418)
T KOG2982|consen   67 GSSVTDVKELDLTG---------NLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQ  137 (418)
T ss_pred             HHHhhhhhhhhccc---------chhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhh
Confidence            34577788888888         555433   233467888889999888765332222 356788888888766332 2


Q ss_pred             cCcccccCCCCCeEEcCCCCCCccCc---ccccCC-cCCcccCceeecCccCCCCccCchhhhc-cCCCCceEEcCCCCC
Q 043450          403 LPTGIGKLKNMRSLLNGDTSSLKYLP---IGISRL-TSLRTLEKFVVGGGVDGNNTCRLESLKN-LQLLRECRVEGLSNV  477 (561)
Q Consensus       403 lp~~~~~l~~L~~L~l~~~~~~~~lp---~~i~~l-~~L~~L~~~~~~~~~~~~~~~~~~~l~~-L~~L~~l~i~~~~~~  477 (561)
                      ....+..++.++.|.++.|+ +..+-   ..+... +.+++|.  ..++..  ........+.. .+++..+.+..+.- 
T Consensus       138 ~~s~l~~lP~vtelHmS~N~-~rq~n~Dd~c~e~~s~~v~tlh--~~~c~~--~~w~~~~~l~r~Fpnv~sv~v~e~Pl-  211 (418)
T KOG2982|consen  138 STSSLDDLPKVTELHMSDNS-LRQLNLDDNCIEDWSTEVLTLH--QLPCLE--QLWLNKNKLSRIFPNVNSVFVCEGPL-  211 (418)
T ss_pred             hhhhhhcchhhhhhhhccch-hhhhccccccccccchhhhhhh--cCCcHH--HHHHHHHhHHhhcccchheeeecCcc-
Confidence            33455667777777777764 21110   111111 1344443  222211  00111112221 12233222322210 


Q ss_pred             CCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC-C----C--hhhh
Q 043450          478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI-F----P--KWLT  550 (561)
Q Consensus       478 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~-l----p--~~~~  550 (561)
                        ...........++.+--|+|+.+++.++             .-.+.+..+++|..|.+.++++.. +    +  --|+
T Consensus       212 --K~~s~ek~se~~p~~~~LnL~~~~idsw-------------asvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIa  276 (418)
T KOG2982|consen  212 --KTESSEKGSEPFPSLSCLNLGANNIDSW-------------ASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIA  276 (418)
T ss_pred             --cchhhcccCCCCCcchhhhhcccccccH-------------HHHHHHcCCchhheeeccCCcccccccCCcceEEEEe
Confidence              0111112233445555667776665443             123345667788888888877532 1    1  1236


Q ss_pred             cccCCcEEE
Q 043450          551 LLTNLRDLN  559 (561)
Q Consensus       551 ~l~~L~~L~  559 (561)
                      +|++++.|+
T Consensus       277 RL~~v~vLN  285 (418)
T KOG2982|consen  277 RLTKVQVLN  285 (418)
T ss_pred             eccceEEec
Confidence            788887775

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.01  E-value=0.045  Score=62.86  Aligned_cols=174  Identities=14%  Similarity=0.166  Sum_probs=101.2

Q ss_pred             CCCcEEEEEcCchHHH--hhcC-CcceEeCC----CCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhH
Q 043450            3 LPGSKIVVTTRNVSVA--RMMR-STNIISIK----PLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAA   75 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~--~~~~-~~~~~~v~----~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal   75 (561)
                      .++-++|||||...-.  .... .+...++.    +++.+|+.++|......   ..    -.+.+.++.+.|+|.|+++
T Consensus       150 ~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~---~~----~~~~~~~l~~~t~Gwp~~l  222 (903)
T PRK04841        150 PENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS---PI----EAAESSRLCDDVEGWATAL  222 (903)
T ss_pred             CCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC---CC----CHHHHHHHHHHhCChHHHH
Confidence            3566888999984211  1111 13355666    99999999999765421   11    1234788999999999999


Q ss_pred             HHHhhhccccccccccCCcchhHHHHHHHhhhhhhhhh-hcccccchhh-hcccCCCCChhhhhhhhhhcccCCCcccCH
Q 043450           76 KVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEE-IKQGLLAPLL-LSYNDLPSNSMVKRCFSYCAVFPKDYNMNK  153 (561)
Q Consensus        76 ~~~g~~L~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~-~~~~~~~~l~-~Sy~~L~~~~~~k~cfl~~a~fp~~~~i~~  153 (561)
                      ..++..+.+....    .  ....|.         +.. ....+...+. -.++.||+  ..++.+...|+++ .  ++ 
T Consensus       223 ~l~~~~~~~~~~~----~--~~~~~~---------~~~~~~~~~~~~l~~~v~~~l~~--~~~~~l~~~a~~~-~--~~-  281 (903)
T PRK04841        223 QLIALSARQNNSS----L--HDSARR---------LAGINASHLSDYLVEEVLDNVDL--ETRHFLLRCSVLR-S--MN-  281 (903)
T ss_pred             HHHHHHHhhCCCc----h--hhhhHh---------hcCCCchhHHHHHHHHHHhcCCH--HHHHHHHHhcccc-c--CC-
Confidence            9998775432210    0  000010         000 0111222222 23778998  7899999999986 3  33 


Q ss_pred             HHHHHHHHHcCCCCCCcchhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEecHHHHHHHHHhh
Q 043450          154 RELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVS  220 (561)
Q Consensus       154 ~~Li~~w~a~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~mhdlv~~~~~~i~  220 (561)
                      ..+...-     ...       ..+...++.|...+++.....+. +  . +|+.|++++++.+...
T Consensus       282 ~~l~~~l-----~~~-------~~~~~~L~~l~~~~l~~~~~~~~-~--~-~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        282 DALIVRV-----TGE-------ENGQMRLEELERQGLFIQRMDDS-G--E-WFRYHPLFASFLRHRC  332 (903)
T ss_pred             HHHHHHH-----cCC-------CcHHHHHHHHHHCCCeeEeecCC-C--C-EEehhHHHHHHHHHHH
Confidence            2222211     111       12466789999999865322111 1  1 3889999999988764

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.93  E-value=0.00054  Score=63.36  Aligned_cols=101  Identities=24%  Similarity=0.255  Sum_probs=62.9

Q ss_pred             hccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc--c
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT--G  406 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~--~  406 (561)
                      +.+.+.+.|+.-+|         .+..+.- +.+|+.|+.|.|+-|+|+++ ..+..+++|+.|.|+.|. +..+-+  -
T Consensus        16 sdl~~vkKLNcwg~---------~L~DIsi-c~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN~-I~sldEL~Y   83 (388)
T KOG2123|consen   16 SDLENVKKLNCWGC---------GLDDISI-CEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKNC-IESLDELEY   83 (388)
T ss_pred             hHHHHhhhhcccCC---------CccHHHH-HHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhcc-cccHHHHHH
Confidence            34556666666663         3333321 34677777777777777766 346777777777777766 555543  3


Q ss_pred             cccCCCCCeEEcCCCCCCccCccc-----ccCCcCCcccC
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIG-----ISRLTSLRTLE  441 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~-----i~~l~~L~~L~  441 (561)
                      +.++++|+.|.|..|...+.-+..     +.-|++|+.|+
T Consensus        84 LknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   84 LKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            567777777777777655544322     34566666665

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

Probab=95.82  E-value=0.0053  Score=56.66  Aligned_cols=80  Identities=20%  Similarity=0.290  Sum_probs=55.3

Q ss_pred             cccCccCEEecCCCCCccccccccCCCCccEEecCCC--CCcCccCcccccCCCCCeEEcCCCCCCccCcccc---cCCc
Q 043450          361 EKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRC--QDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGI---SRLT  435 (561)
Q Consensus       361 ~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~--~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i---~~l~  435 (561)
                      -.+..|+.|.+.++.++++ ..+..|++|+.|+++.|  +....++....++++|++|++++|.+ +. +.++   ..+.
T Consensus        40 d~~~~le~ls~~n~gltt~-~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki-~~-lstl~pl~~l~  116 (260)
T KOG2739|consen   40 DEFVELELLSVINVGLTTL-TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKI-KD-LSTLRPLKELE  116 (260)
T ss_pred             ccccchhhhhhhccceeec-ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcc-cc-ccccchhhhhc
Confidence            3455677777777776544 23556889999999999  65566766667779999999999983 32 3333   4555


Q ss_pred             CCcccCce
Q 043450          436 SLRTLEKF  443 (561)
Q Consensus       436 ~L~~L~~~  443 (561)
                      +|..|+++
T Consensus       117 nL~~Ldl~  124 (260)
T KOG2739|consen  117 NLKSLDLF  124 (260)
T ss_pred             chhhhhcc
Confidence            66666643

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

Probab=95.74  E-value=0.0011  Score=64.99  Aligned_cols=215  Identities=20%  Similarity=0.117  Sum_probs=109.9

Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCccccccc-Ccc-ccccCccCEEecCCCC-Ccc--ccccccCCCCccEEecC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PEN-VEKLIHLKYLNLSGLR-IES--LPETLCELYNLQKLDIR  395 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~-~~~l~~L~~L~l~~~~-l~~--lp~~i~~L~~L~~L~l~  395 (561)
                      ...+.++-..+.+|+.|++..|.        .++.. -.. ....++|+||++++|. |+.  +-.-..+++.++.+-++
T Consensus       179 d~s~~sla~~C~~l~~l~L~~c~--------~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~k  250 (483)
T KOG4341|consen  179 DSSLLSLARYCRKLRHLNLHSCS--------SITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLK  250 (483)
T ss_pred             HHHHHHHHHhcchhhhhhhcccc--------hhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhc
Confidence            34455555678899999999874        33322 121 2346899999999997 542  32334556666676666


Q ss_pred             CCCCcCccCccc------------------------------ccCCCCCeEEcCCCCCCccCccc--ccCCcCCcccCce
Q 043450          396 RCQDLRELPTGI------------------------------GKLKNMRSLLNGDTSSLKYLPIG--ISRLTSLRTLEKF  443 (561)
Q Consensus       396 ~~~~~~~lp~~~------------------------------~~l~~L~~L~l~~~~~~~~lp~~--i~~l~~L~~L~~~  443 (561)
                      +|.-.. +. .+                              ..+..|+.|+.++|......+-.  ..+..+|++|.+.
T Consensus       251 GC~e~~-le-~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~  328 (483)
T KOG4341|consen  251 GCLELE-LE-ALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELS  328 (483)
T ss_pred             cccccc-HH-HHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEecc
Confidence            654111 10 01                              12334455555555433222211  2344566666532


Q ss_pred             eecCccCCCCccCchhhhc-cCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHH
Q 043450          444 VVGGGVDGNNTCRLESLKN-LQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQL  522 (561)
Q Consensus       444 ~~~~~~~~~~~~~~~~l~~-L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~  522 (561)
                      .+..-.    ...+..+.. ...|+.+++.++.....  ..+...-.+++.|+.|.++.+.....+         -...+
T Consensus       329 ~c~~fs----d~~ft~l~rn~~~Le~l~~e~~~~~~d--~tL~sls~~C~~lr~lslshce~itD~---------gi~~l  393 (483)
T KOG4341|consen  329 GCQQFS----DRGFTMLGRNCPHLERLDLEECGLITD--GTLASLSRNCPRLRVLSLSHCELITDE---------GIRHL  393 (483)
T ss_pred             ccchhh----hhhhhhhhcCChhhhhhcccccceehh--hhHhhhccCCchhccCChhhhhhhhhh---------hhhhh
Confidence            222211    112222322 33455555544433221  122222346788888888866522210         01112


Q ss_pred             hhcCCCCCCCceEEEeecCCCC--CChhhhcccCCcEEEc
Q 043450          523 LEALQPPVNVEELWIVYYGGNI--FPKWLTLLTNLRDLNL  560 (561)
Q Consensus       523 ~~~l~~~~~L~~L~l~~~~~~~--lp~~~~~l~~L~~L~L  560 (561)
                      -..-+.+..|..|.+++++...  .-..+..+++|+.++|
T Consensus       394 ~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l  433 (483)
T KOG4341|consen  394 SSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIEL  433 (483)
T ss_pred             hhccccccccceeeecCCCCchHHHHHHHhhCcccceeee
Confidence            2233567789999999998532  2234467888887664

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

Probab=95.55  E-value=0.014  Score=54.06  Aligned_cols=17  Identities=12%  Similarity=0.073  Sum_probs=11.9

Q ss_pred             ccccCceeEEEEccCCC
Q 043450          261 FFEFDRLRSLLIYDTSH  277 (561)
Q Consensus       261 ~~~~~~Lr~L~~~~~~~  277 (561)
                      +..+..+..+.++++++
T Consensus        26 l~~~d~~~evdLSGNti   42 (388)
T COG5238          26 LEMMDELVEVDLSGNTI   42 (388)
T ss_pred             HHhhcceeEEeccCCcc
Confidence            34467788888888843

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.43  E-value=0.0018  Score=60.04  Aligned_cols=81  Identities=28%  Similarity=0.281  Sum_probs=66.7

Q ss_pred             HHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccc--ccccCCCCccEEecCCCCCcCccC
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP--ETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp--~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      .+.+|+.|++|.|+-         |.|..+-+ +..+++|+.|+|+.|.|..+-  ..+.+|++|++|.|..|+....-+
T Consensus        36 ic~kMp~lEVLsLSv---------NkIssL~p-l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~ENPCc~~ag  105 (388)
T KOG2123|consen   36 ICEKMPLLEVLSLSV---------NKISSLAP-LQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDENPCCGEAG  105 (388)
T ss_pred             HHHhcccceeEEeec---------cccccchh-HHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhccCCcccccc
Confidence            356899999999999         88888744 788999999999999988664  457899999999999988666555


Q ss_pred             cc-----cccCCCCCeEE
Q 043450          405 TG-----IGKLKNMRSLL  417 (561)
Q Consensus       405 ~~-----~~~l~~L~~L~  417 (561)
                      ..     +.-|++|+.||
T Consensus       106 ~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen  106 QNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hhHHHHHHHHcccchhcc
Confidence            43     56789999986

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

Probab=95.25  E-value=0.0086  Score=32.86  Aligned_cols=21  Identities=29%  Similarity=0.558  Sum_probs=12.4

Q ss_pred             CccEEecCCCCCcCccCccccc
Q 043450          388 NLQKLDIRRCQDLRELPTGIGK  409 (561)
Q Consensus       388 ~L~~L~l~~~~~~~~lp~~~~~  409 (561)
                      +|++||+++|. ++.+|.++++
T Consensus         1 ~L~~Ldls~n~-l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNN-LTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSE-ESEEGTTTTT
T ss_pred             CccEEECCCCc-CEeCChhhcC
Confidence            36666666664 5566665443

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 ....

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

Probab=95.24  E-value=0.017  Score=53.38  Aligned_cols=112  Identities=26%  Similarity=0.266  Sum_probs=74.6

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCC--CCc-cccccccCCCCccEEecCCCCCc
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGL--RIE-SLPETLCELYNLQKLDIRRCQDL  400 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~--~l~-~lp~~i~~L~~L~~L~l~~~~~~  400 (561)
                      +......+..|..|.+.++..      ..+..    +..|++|++|.++.|  ++. .++..+-++++|++|++++|+ +
T Consensus        35 ~~gl~d~~~~le~ls~~n~gl------tt~~~----~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nk-i  103 (260)
T KOG2739|consen   35 LGGLTDEFVELELLSVINVGL------TTLTN----FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNK-I  103 (260)
T ss_pred             cccccccccchhhhhhhccce------eeccc----CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCc-c
Confidence            334445566677777666321      22333    445789999999999  554 677667778999999999998 5


Q ss_pred             CccC--cccccCCCCCeEEcCCCCCCccCc----ccccCCcCCcccCceeecC
Q 043450          401 RELP--TGIGKLKNMRSLLNGDTSSLKYLP----IGISRLTSLRTLEKFVVGG  447 (561)
Q Consensus       401 ~~lp--~~~~~l~~L~~L~l~~~~~~~~lp----~~i~~l~~L~~L~~~~~~~  447 (561)
                      ..+-  ..+..+.+|..|++++|.... +-    ..+.-+++|..|+.+.+..
T Consensus       104 ~~lstl~pl~~l~nL~~Ldl~n~~~~~-l~dyre~vf~ll~~L~~LD~~dv~~  155 (260)
T KOG2739|consen  104 KDLSTLRPLKELENLKSLDLFNCSVTN-LDDYREKVFLLLPSLKYLDGCDVDG  155 (260)
T ss_pred             ccccccchhhhhcchhhhhcccCCccc-cccHHHHHHHHhhhhccccccccCC
Confidence            4321  135677888899999988433 21    1245677888887555443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.21  E-value=0.0074  Score=56.65  Aligned_cols=70  Identities=23%  Similarity=0.295  Sum_probs=51.6

Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCc--cccccccCCCCccEEecCCCC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE--SLPETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~--~lp~~i~~L~~L~~L~l~~~~  398 (561)
                      ++..-.++.+++.|++|+++.|+..     ..|..+|   -.+.+|++|-|.|+.+.  ..-..+..++.++.|.++.|.
T Consensus        86 WseI~~ile~lP~l~~LNls~N~L~-----s~I~~lp---~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~  157 (418)
T KOG2982|consen   86 WSEIGAILEQLPALTTLNLSCNSLS-----SDIKSLP---LPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNS  157 (418)
T ss_pred             HHHHHHHHhcCccceEeeccCCcCC-----CccccCc---ccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccch
Confidence            4556667789999999999994321     2344444   34678999999999864  556667788888888888774

>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=94.31  E-value=0.028  Score=28.60  Aligned_cols=14  Identities=50%  Similarity=0.672  Sum_probs=4.8

Q ss_pred             cCEEecCCCCCccc
Q 043450          366 LKYLNLSGLRIESL  379 (561)
Q Consensus       366 L~~L~l~~~~l~~l  379 (561)
                      |+.|++++|+++++
T Consensus         3 L~~L~l~~n~L~~l   16 (17)
T PF13504_consen    3 LRTLDLSNNRLTSL   16 (17)
T ss_dssp             -SEEEETSS--SSE
T ss_pred             cCEEECCCCCCCCC
Confidence            44444444444433

...

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=93.56  E-value=0.31  Score=48.55  Aligned_cols=156  Identities=19%  Similarity=0.154  Sum_probs=85.1

Q ss_pred             CcEEEEEcCchHHHhhcC--CcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhhc
Q 043450            5 GSKIVVTTRNVSVARMMR--STNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLL   82 (561)
Q Consensus         5 GsrIivTTR~~~v~~~~~--~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~L   82 (561)
                      .+-|..|||...+...+.  ...++++++++.++..+++.+.+-..+...    -.+.+..|++.|+|.|=.+..+...+
T Consensus       151 ~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~----~~~~~~~ia~~~~G~pR~a~~~l~~~  226 (328)
T PRK00080        151 FTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEI----DEEGALEIARRSRGTPRIANRLLRRV  226 (328)
T ss_pred             ceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCc----CHHHHHHHHHHcCCCchHHHHHHHHH
Confidence            445667777654443321  145799999999999999998875332222    23458899999999995444333321


Q ss_pred             cccccccccCCcchhHHHHHHHhhhhhhhhhhcccccchhhhcccCCCCChhhhhhhh-hhcccCCCcccCHHHHHHHHH
Q 043450           83 CDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFS-YCAVFPKDYNMNKRELINLWM  161 (561)
Q Consensus        83 ~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl-~~a~fp~~~~i~~~~Li~~w~  161 (561)
                                     ..|-.......-. ...-......+...|..|++  ..+..+. ....|..+ .+..+.+...+ 
T Consensus       227 ---------------~~~a~~~~~~~I~-~~~v~~~l~~~~~~~~~l~~--~~~~~l~~~~~~~~~~-~~~~~~~a~~l-  286 (328)
T PRK00080        227 ---------------RDFAQVKGDGVIT-KEIADKALDMLGVDELGLDE--MDRKYLRTIIEKFGGG-PVGLDTLAAAL-  286 (328)
T ss_pred             ---------------HHHHHHcCCCCCC-HHHHHHHHHHhCCCcCCCCH--HHHHHHHHHHHHcCCC-ceeHHHHHHHH-
Confidence                           1121111000000 00111222335677788887  5666664 55556544 24444433222 


Q ss_pred             HcCCCCCCcchhHHHHHHHHHH-HHHhcCCcccc
Q 043450          162 AQGYLNADEDEEMEMIGEEYFN-ILATRSFFQEF  194 (561)
Q Consensus       162 a~g~~~~~~~~~~~~~~~~~l~-~L~~~~ll~~~  194 (561)
                           ...     ...+++.+. .|++.+|++..
T Consensus       287 -----g~~-----~~~~~~~~e~~Li~~~li~~~  310 (328)
T PRK00080        287 -----GEE-----RDTIEDVYEPYLIQQGFIQRT  310 (328)
T ss_pred             -----CCC-----cchHHHHhhHHHHHcCCcccC
Confidence                 111     223444455 89999999643

>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=93.36  E-value=0.038  Score=28.06  Aligned_cols=17  Identities=18%  Similarity=0.096  Sum_probs=10.1

Q ss_pred             CCCceEEEeecCCCCCC
Q 043450          530 VNVEELWIVYYGGNIFP  546 (561)
Q Consensus       530 ~~L~~L~l~~~~~~~lp  546 (561)
                      ++|+.|++++|.+..+|
T Consensus         1 ~~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS--SSE-
T ss_pred             CccCEEECCCCCCCCCc
Confidence            46888888888877766

...

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

Probab=93.35  E-value=0.027  Score=59.30  Aligned_cols=111  Identities=25%  Similarity=0.241  Sum_probs=63.3

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCccccccc----CccccccCccCEEecCCCC-Cccc-ccccc-CCCCccEEecCC
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREI----PENVEKLIHLKYLNLSGLR-IESL-PETLC-ELYNLQKLDIRR  396 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l----p~~~~~l~~L~~L~l~~~~-l~~l-p~~i~-~L~~L~~L~l~~  396 (561)
                      .......+..|+.|++++|.       ..+...    +.....+.+|+.|+++++. ++.. -..+. .+++|++|.+.+
T Consensus       206 ~~~~~~~~~~L~~L~l~~~~-------~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~  278 (482)
T KOG1947|consen  206 LDALALKCPNLEELDLSGCC-------LLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSN  278 (482)
T ss_pred             HHHHHhhCchhheecccCcc-------cccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCC
Confidence            34445678888888888631       111111    1122345788888888887 5522 22233 377888888887


Q ss_pred             CCCcC--ccCcccccCCCCCeEEcCCCCCCcc--CcccccCCcCCcccC
Q 043450          397 CQDLR--ELPTGIGKLKNMRSLLNGDTSSLKY--LPIGISRLTSLRTLE  441 (561)
Q Consensus       397 ~~~~~--~lp~~~~~l~~L~~L~l~~~~~~~~--lp~~i~~l~~L~~L~  441 (561)
                      |..++  .+-.....+++|++|++++|..+..  +.....++++|+.|.
T Consensus       279 c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~  327 (482)
T KOG1947|consen  279 CSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELK  327 (482)
T ss_pred             CCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhh
Confidence            77432  2223345677788888888875422  222233455555544

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=92.99  E-value=0.4  Score=47.16  Aligned_cols=73  Identities=21%  Similarity=0.115  Sum_probs=49.2

Q ss_pred             CcEEEEEcCchHHHhhc--CCcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhh
Q 043450            5 GSKIVVTTRNVSVARMM--RSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNL   81 (561)
Q Consensus         5 GsrIivTTR~~~v~~~~--~~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~   81 (561)
                      .+-|.+|||...+...+  ....++++++++.++..+++.+.+-.....    --.+....|++.|+|.|-.+..++..
T Consensus       130 ~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~----~~~~al~~ia~~~~G~pR~~~~ll~~  204 (305)
T TIGR00635       130 FTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVE----IEPEAALEIARRSRGTPRIANRLLRR  204 (305)
T ss_pred             eEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCC----cCHHHHHHHHHHhCCCcchHHHHHHH
Confidence            45566778775554332  124578999999999999999887432221    12345788999999999655544443

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.

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

Probab=92.52  E-value=0.0067  Score=54.88  Aligned_cols=85  Identities=18%  Similarity=0.160  Sum_probs=66.6

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..++...+||++.         +.+..+-..++.++.|..|+++.+.+.-+|..++.+..+..+++..|. ....|.++
T Consensus        38 i~~~kr~tvld~~s---------~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~-~~~~p~s~  107 (326)
T KOG0473|consen   38 IASFKRVTVLDLSS---------NRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNN-HSQQPKSQ  107 (326)
T ss_pred             hhccceeeeehhhh---------hHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccc-hhhCCccc
Confidence            45677788888887         666666677777888888888888888888888888888888877766 77888888


Q ss_pred             ccCCCCCeEEcCCCC
Q 043450          408 GKLKNMRSLLNGDTS  422 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~  422 (561)
                      +.++.++++++-++.
T Consensus       108 ~k~~~~k~~e~k~~~  122 (326)
T KOG0473|consen  108 KKEPHPKKNEQKKTE  122 (326)
T ss_pred             cccCCcchhhhccCc
Confidence            888888888777665

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

Probab=91.42  E-value=0.0075  Score=54.57  Aligned_cols=87  Identities=20%  Similarity=0.301  Sum_probs=75.5

Q ss_pred             ccccC-ccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccc
Q 043450          353 IREIP-ENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGI  431 (561)
Q Consensus       353 ~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i  431 (561)
                      +.++| ..|.....-+.||++.|++..+-..++.++.|..||++.|. +..+|..++.+..++++++..|. ....|.++
T Consensus        30 ~s~~~v~ei~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq-~~~~~~d~~q~~e~~~~~~~~n~-~~~~p~s~  107 (326)
T KOG0473|consen   30 LSEIPVREIASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQ-IKFLPKDAKQQRETVNAASHKNN-HSQQPKSQ  107 (326)
T ss_pred             hcccchhhhhccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhh-HhhChhhHHHHHHHHHHHhhccc-hhhCCccc
Confidence            44444 33566788999999999998888889999999999999988 89999999999999999887776 88999999


Q ss_pred             cCCcCCcccC
Q 043450          432 SRLTSLRTLE  441 (561)
Q Consensus       432 ~~l~~L~~L~  441 (561)
                      ++++.++.++
T Consensus       108 ~k~~~~k~~e  117 (326)
T KOG0473|consen  108 KKEPHPKKNE  117 (326)
T ss_pred             cccCCcchhh
Confidence            9999999987

>smart00370 LRR Leucine-rich repeats, outliers

Probab=90.63  E-value=0.19  Score=28.71  Aligned_cols=19  Identities=37%  Similarity=0.511  Sum_probs=10.2

Q ss_pred             CccCEEecCCCCCcccccc
Q 043450          364 IHLKYLNLSGLRIESLPET  382 (561)
Q Consensus       364 ~~L~~L~l~~~~l~~lp~~  382 (561)
                      ++|++|+|++|.++.+|+.
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4455555555555555543

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

Probab=90.63  E-value=0.19  Score=28.71  Aligned_cols=19  Identities=37%  Similarity=0.511  Sum_probs=10.2

Q ss_pred             CccCEEecCCCCCcccccc
Q 043450          364 IHLKYLNLSGLRIESLPET  382 (561)
Q Consensus       364 ~~L~~L~l~~~~l~~lp~~  382 (561)
                      ++|++|+|++|.++.+|+.
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4455555555555555543

>PRK06893 DNA replication initiation factor; Validated

Probab=89.12  E-value=0.97  Score=42.33  Aligned_cols=71  Identities=10%  Similarity=0.142  Sum_probs=49.9

Q ss_pred             CCcEEEEEcCc----------hHHHhhcCCcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChh
Q 043450            4 PGSKIVVTTRN----------VSVARMMRSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPL   73 (561)
Q Consensus         4 ~GsrIivTTR~----------~~v~~~~~~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPL   73 (561)
                      .|+.|||||.+          .++...+....++++++++.++.++++.+.++..+-..    -+++..-+++++.|-.=
T Consensus       123 ~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l----~~~v~~~L~~~~~~d~r  198 (229)
T PRK06893        123 QGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIEL----SDEVANFLLKRLDRDMH  198 (229)
T ss_pred             cCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHhccCCHH
Confidence            36666555444          46666677778999999999999999999987443222    23457788888887665


Q ss_pred             hHHHH
Q 043450           74 AAKVT   78 (561)
Q Consensus        74 al~~~   78 (561)
                      ++..+
T Consensus       199 ~l~~~  203 (229)
T PRK06893        199 TLFDA  203 (229)
T ss_pred             HHHHH
Confidence            55433

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

Probab=88.43  E-value=0.14  Score=53.80  Aligned_cols=60  Identities=27%  Similarity=0.282  Sum_probs=34.2

Q ss_pred             cCccCEEecCCCC-Ccc--ccccccCCCCccEEecCCC-CCcCccC----cccccCCCCCeEEcCCCC
Q 043450          363 LIHLKYLNLSGLR-IES--LPETLCELYNLQKLDIRRC-QDLRELP----TGIGKLKNMRSLLNGDTS  422 (561)
Q Consensus       363 l~~L~~L~l~~~~-l~~--lp~~i~~L~~L~~L~l~~~-~~~~~lp----~~~~~l~~L~~L~l~~~~  422 (561)
                      .+.|+.|.+.++. +..  +-+....+++|+.|++++| ......+    .....+++|+.|+++.+.
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~  254 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCG  254 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhh
Confidence            5677777777775 443  3345566778888888763 2222222    122334566666666655

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.42  E-value=0.14  Score=45.58  Aligned_cols=63  Identities=30%  Similarity=0.353  Sum_probs=36.5

Q ss_pred             ccccccCccCEEecCCCC-Cc-ccccccc-CCCCccEEecCCCCCcCccC-cccccCCCCCeEEcCC
Q 043450          358 ENVEKLIHLKYLNLSGLR-IE-SLPETLC-ELYNLQKLDIRRCQDLRELP-TGIGKLKNMRSLLNGD  420 (561)
Q Consensus       358 ~~~~~l~~L~~L~l~~~~-l~-~lp~~i~-~L~~L~~L~l~~~~~~~~lp-~~~~~l~~L~~L~l~~  420 (561)
                      +.+..++.++.|.+.+|. +. .--+-++ -.++|+.|++++|+.+++-- ..+.++++|+.|.+.+
T Consensus       119 e~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  119 EHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             HHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcC
Confidence            345566667777777775 43 1112233 23677788888777665442 2455666666666544

>smart00370 LRR Leucine-rich repeats, outliers

Probab=86.37  E-value=0.53  Score=26.77  Aligned_cols=21  Identities=19%  Similarity=0.015  Sum_probs=17.6

Q ss_pred             CCCCceEEEeecCCCCCChhh
Q 043450          529 PVNVEELWIVYYGGNIFPKWL  549 (561)
Q Consensus       529 ~~~L~~L~l~~~~~~~lp~~~  549 (561)
                      +++|+.|++++|.+..+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            467999999999999998764

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

Probab=86.37  E-value=0.53  Score=26.77  Aligned_cols=21  Identities=19%  Similarity=0.015  Sum_probs=17.6

Q ss_pred             CCCCceEEEeecCCCCCChhh
Q 043450          529 PVNVEELWIVYYGGNIFPKWL  549 (561)
Q Consensus       529 ~~~L~~L~l~~~~~~~lp~~~  549 (561)
                      +++|+.|++++|.+..+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            467999999999999998764

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

Probab=86.00  E-value=1.7  Score=36.20  Aligned_cols=56  Identities=13%  Similarity=0.262  Sum_probs=20.8

Q ss_pred             cccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcC
Q 043450          361 EKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNG  419 (561)
Q Consensus       361 ~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~  419 (561)
                      ..+.+|+.+.+..+ +..++. .+..+.+|+.+.+.. . +..++. .+..+++|+.+.+.
T Consensus        32 ~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~-~~~i~~~~F~~~~~l~~i~~~   89 (129)
T PF13306_consen   32 SNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-N-LKSIGDNAFSNCTNLKNIDIP   89 (129)
T ss_dssp             TT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-T-T-EE-TTTTTT-TTECEEEET
T ss_pred             cccccccccccccc-ccccceeeeecccccccccccc-c-ccccccccccccccccccccC
Confidence            34444555555443 443332 234444555555543 1 333332 23334555555554

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=83.83  E-value=0.59  Score=26.62  Aligned_cols=19  Identities=21%  Similarity=0.302  Sum_probs=16.7

Q ss_pred             CCCCceEEEeecCCCCCCh
Q 043450          529 PVNVEELWIVYYGGNIFPK  547 (561)
Q Consensus       529 ~~~L~~L~l~~~~~~~lp~  547 (561)
                      +++|+.|++++|.++.+|+
T Consensus         1 P~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        1 PPSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             CcccceeecCCCccccCcc
Confidence            4679999999999999996

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

Probab=82.61  E-value=3.8  Score=33.95  Aligned_cols=77  Identities=16%  Similarity=0.273  Sum_probs=41.5

Q ss_pred             ccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCCCccCcc-cccCCcC
Q 043450          360 VEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLPI-GISRLTS  436 (561)
Q Consensus       360 ~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~  436 (561)
                      |....+|+.+.+.. .++.++. .+..+++|+.+.+..+  +..++. .+.++.+++.+.+.+ . +..++. .+..+++
T Consensus         8 F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~-~-~~~i~~~~F~~~~~   82 (129)
T PF13306_consen    8 FYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN-N-LKSIGDNAFSNCTN   82 (129)
T ss_dssp             TTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS-T-T-EE-TTTTTT-TT
T ss_pred             HhCCCCCCEEEECC-CeeEeChhhccccccccccccccc--ccccceeeeecccccccccccc-c-cccccccccccccc
Confidence            45566788888774 4666654 4667778888888763  666655 466676888888865 2 344443 3556777


Q ss_pred             CcccC
Q 043450          437 LRTLE  441 (561)
Q Consensus       437 L~~L~  441 (561)
                      |+.+.
T Consensus        83 l~~i~   87 (129)
T PF13306_consen   83 LKNID   87 (129)
T ss_dssp             ECEEE
T ss_pred             ccccc
Confidence            77775

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	561
4fcg_A	328	Structure Of The Leucine-Rich Repeat Domain Of The		2e-06
3rfs_A	272	Design Of A Binding Scaffold Based On Variable Lymp		2e-05

>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii Effector Xcv3220 (Xopl) Length = 328

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 55/108 (50%), Gaps = 6/108 (5%)
Query: 353 IREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKN 412
           IR +P ++  L +LK L +    + +L   +  L  L++LD+R C  LR  P   G    
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP 254
Query: 413 MRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESL 460
           ++ L+  D S+L  LP+ I RLT    LEK  + G V   N  RL SL
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQ---LEKLDLRGCV---NLSRLPSL 296

>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte Receptors Of Jawless Vertebrates By Module Engineering Length = 272

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 42/119 (35%), Positives = 69/119 (57%), Gaps = 21/119 (17%)
Query: 327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESLPETLCE 385
           +F KL  L+ LV+ +         N ++ +P+ V +KL +L YLNL+  +++SLP+ + +
Sbjct: 104 VFDKLTNLKELVLVE---------NQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFD 154
Query: 386 -LYNLQKLDIRRCQDLRELPTGI----GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLR 438
            L NL +LD+   Q L+ LP G+     +LK++R   N     LK +P G+  RLTSL+
Sbjct: 155 KLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQN----QLKSVPDGVFDRLTSLQ 208

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	561
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-62
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	5e-56
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-29
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-20
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-16
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-16
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	8e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-05
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	6e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	7e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-08
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-08
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	8e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-06
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	7e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-05
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-06
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	3e-07
3e6j_A	229	Variable lymphocyte receptor diversity region; var	4e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-05
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	4e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	4e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	4e-07
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	7e-07
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	6e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	7e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	6e-07
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	9e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-06
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-04
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	8e-06
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	8e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	4e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	4e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	9e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	6e-04
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	1e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-04
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	3e-04
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	6e-04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	6e-04
3m19_A	251	Variable lymphocyte receptor A diversity region; a	7e-04

>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 =  214 bits (547), Expect = 2e-62
 Identities = 44/251 (17%), Positives = 88/251 (35%), Gaps = 37/251 (14%)

Query: 4   PGSKIVVTTRNVSVARMMRSTNIIS--IKPLPEDEFWSLFERFAFFGHSSVDREKLEPIA 61
              +I++TTR+ SV   +     +      L +++   +   F       + +  L   A
Sbjct: 256 SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVN-----MKKADLPEQA 310

Query: 62  RQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNE-WQRILDSEVWKVEEIKQGLLA 120
             I ++CKG PL   + G LL D         K + N+ ++RI  S  +  E +      
Sbjct: 311 HSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEAL----DE 366

Query: 121 PLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEE 180
            + +S   L  +  +K  ++  ++  KD  +  + L  LW  +               E+
Sbjct: 367 AMSISVEMLRED--IKDYYTDLSILQKDVKVPTKVLCILWDMETE-----------EVED 413

Query: 181 YFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFF 240
                  +S        D +    R  +HD+  DF    +  +         ++L     
Sbjct: 414 ILQEFVNKSLLFC----DRNGKSFRYYLHDLQVDFLTEKNCSQL--------QDLHKKII 461

Query: 241 GEKVRHIGLNF 251
            +  R+   + 
Sbjct: 462 TQFQRYHQPHT 472

>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 =  196 bits (500), Expect = 5e-56
 Identities = 41/255 (16%), Positives = 81/255 (31%), Gaps = 20/255 (7%)

Query: 5   GSKIVVTTRNVSVARMMRST-NIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQ 63
             + +VTTR+V ++     T   I +  L  DE +   E +          EK E +  +
Sbjct: 265 RLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGM---PMPVGEKEEDVLNK 321

Query: 64  IARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQ-GLLAPL 122
                 G P    +       K          + N+ +      V  +       L   L
Sbjct: 322 TIELSSGNPATLMMFFKSCEPKTF---EKMAQLNNKLESRGLVGVECITPYSYKSLAMAL 378

Query: 123 LLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYF 182
                 L      +   ++  V P   ++  +    +        ++E+E+++    +  
Sbjct: 379 QRCVEVLSDE--DRSALAFAVVMPPGVDIPVKLWSCVIPVDIC--SNEEEQLDDEVADRL 434

Query: 183 NILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKECL----WVEINGTKELVIN 238
             L+ R              +L  K+  I+H F + V   + +     +      E+  N
Sbjct: 435 KRLSKRGALL----SGKRMPVLTFKIDHIIHMFLKHVVDAQTIANGISILEQRLLEIGNN 490

Query: 239 FFGEKVRHIGLNFQR 253
                 RHI  +FQ+
Sbjct: 491 NVSVPERHIPSHFQK 505

>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 =  122 bits (306), Expect = 4e-29
 Identities = 66/382 (17%), Positives = 113/382 (29%), Gaps = 106/382 (27%)

Query: 5   GSKIVVTTRNVSVARMMRSTNIISI------KPLPEDEFWSLFERFAFFGHSSVDREKLE 58
             KI++TTR   V   + +     I        L  DE  SL  ++          + L 
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-----DCRPQDL- 318

Query: 59  PIARQIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGL 118
           P  R++       P    +    + D            +  W         K+  I +  
Sbjct: 319 P--REV---LTTNPRRLSIIAESIRDG-----------LATWDNWKHVNCDKLTTIIE-- 360

Query: 119 LAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIG 178
                 S N L      ++ F   +VFP   ++    L  +W      +  + + M ++ 
Sbjct: 361 -----SSLNVLEPAEY-RKMFDRLSVFPPSAHIPTILLSLIW-----FDVIKSDVMVVVN 409

Query: 179 EEYFNILATRSFFQEFEKDDDDD-----DI---LRCK------MHDIVHDFAQFVSRKEC 224
           +     L   S     EK   +       I   L+ K      +H  + D      +   
Sbjct: 410 K-----LHKYSL---VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI-PKTFD 460

Query: 225 LWVEINGTKELVINFFGEKVRHIG------LNFQRGASFPMSFFEFDRLRSLLIYDTSHY 278
                +     +  +F     HIG       + +R   F M F +F  L   + +D++ +
Sbjct: 461 SD---DLIPPYLDQYF---YSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAW 514

Query: 279 NPS-----LFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELF----- 328
           N S       Q +     Y                I D  P    L ++IL  L      
Sbjct: 515 NASGSILNTLQQLKFYKPY----------------ICDNDPKYERLVNAILDFLPKIEEN 558

Query: 329 ---SKLACLRALVISQP-SPIF 346
              SK   L  + +      IF
Sbjct: 559 LICSKYTDLLRIALMAEDEAIF 580

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

 Score = 62.2 bits (150), Expect = 3e-10
 Identities = 78/531 (14%), Positives = 161/531 (30%), Gaps = 132/531 (24%)

Query: 47  FGHSSVDREKLEPIARQIARKCKGLPLAAKVT--GNLLCDKR--TGNLLSSKSIVNEWQR 102
           F   +V R +      ++ +    L  A  V   G L   K     ++  S  +    Q 
Sbjct: 126 FAKYNVSRLQPY---LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV----QC 178

Query: 103 ILDSEV-W---KVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELIN 158
            +D ++ W   K     + +L  L      +  N    R      +     +  + EL  
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN-WTSRSDHSSNI-KLRIHSIQAELRR 236

Query: 159 LWMAQGYLNA----DEDEEMEMIGEEYFNI-----LATRSFFQEFEKDDDDDDIL---RC 206
           L  ++ Y N        +  +      FN+     L TR             D L     
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAW--NAFNLSCKILLTTR--------FKQVTDFLSAATT 286

Query: 207 KMHDIVHD------------FAQFVS-RKECLWVEINGTKELVINFFGEKVRHIGLNFQR 253
               + H               +++  R + L  E+  T    ++   E +R     +  
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346

Query: 254 GASFPMSFFEFDRLRSLLIYDTSHYNPS----LFQSMAISSAYSLVNAVLYLVSSPGLGI 309
              +       D+L +++    +   P+    +F  +++        +    + +  L +
Sbjct: 347 ---WKH--VNCDKLTTIIESSLNVLEPAEYRKMFDRLSV-----FPPSAH--IPTILLSL 394

Query: 310 --DDESPSNPSLNSSILRELFSKLACLRALVISQPSP--IFRPDLNLIREIPENVEKLIH 365
              D   S+  +   ++ +L        +LV  QP    I  P + L  ++    E  +H
Sbjct: 395 IWFDVIKSDVMV---VVNKLHKY-----SLVEKQPKESTISIPSIYLELKVKLENEYALH 446

Query: 366 LK----YLNLSGLRIESLPETLCELY-------------NLQKLDIRRC--QDLRELPTG 406
                 Y        + L     + Y             + +++ + R    D R L   
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE-- 504

Query: 407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLL 466
             K+++  +  N   S L       + L  L+  + ++     D      + ++ +   L
Sbjct: 505 -QKIRHDSTAWNASGSIL-------NTLQQLKFYKPYICDN--DPKYERLVNAILDF--L 552

Query: 467 RECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEG--EEGRRK 515
            +               E L      +LLR+ L      + E   EE  ++
Sbjct: 553 PKI-------------EENLICSKYTDLLRIALMA----EDEAIFEEAHKQ 586

>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 = 57.2 bits (137), Expect = 1e-08
 Identities = 61/440 (13%), Positives = 136/440 (30%), Gaps = 129/440 (29%)

Query: 68  CKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILD------SEVWK--VEEIKQG-- 117
           CK +     +  ++L  +   +++ SK  V+   R+         E+ +  VEE+ +   
Sbjct: 35  CKDVQ---DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY 91

Query: 118 --LLAPLLLSYNDLPS------NSMVKRCFSYCAVFPKDYNMNKRE--------LINL-- 159
             L++P+       PS           R ++   VF K YN+++ +        L+ L  
Sbjct: 92  KFLMSPIKTEQRQ-PSMMTRMYIEQRDRLYNDNQVFAK-YNVSRLQPYLKLRQALLELRP 149

Query: 160 ---------------WMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDIL 204
                          W+A          + +M     F I     F+   +  +  + +L
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCL-SYKVQCKM----DFKI-----FWLNLKNCNSPETVL 199

Query: 205 RCKM-----HDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPM 259
             +M     + I  ++         + + I+  +  +      K             +  
Sbjct: 200 --EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK------------PYE- 244

Query: 260 SFFEFDRLRSLLIYDTSH-YNPSLFQSMAIS------SAYSLVNAVLYLVSSPGLGIDDE 312
                     LL+    +  N   + +  +S      + +  V   L   ++  + +D  
Sbjct: 245 --------NCLLVLL--NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294

Query: 313 SPSNPSLNSSILRELFSK-----LACLRALVISQPSPIFRPDLNLI-REIPENVEKLIHL 366
           S    +L    ++ L  K        L   V+   +P     L++I   I + +    + 
Sbjct: 295 S---MTLTPDEVKSLLLKYLDCRPQDLPREVL-TTNPRR---LSIIAESIRDGLATWDNW 347

Query: 367 KYLNLSGLR------IESL-PETLCELYN------------LQKLDIRRCQDLRELPTGI 407
           K++N   L       +  L P    ++++               L +     ++     +
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407

Query: 408 -GKLKNMRSLLNGDTSSLKY 426
             KL    SL+         
Sbjct: 408 VNKLHK-YSLVEKQPKESTI 426

>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 = 54.9 bits (131), Expect = 6e-08
 Identities = 64/437 (14%), Positives = 129/437 (29%), Gaps = 121/437 (27%)

Query: 171 DEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFV-SRKEC----- 224
           D E      +Y +IL+   F   F  + D  D+          D  + + S++E      
Sbjct: 8   DFETGEHQYQYKDILSV--FEDAFVDNFDCKDVQ---------DMPKSILSKEEIDHIIM 56

Query: 225 -----------LWVEINGTKELVINFFGEKVRHIGLNFQ----------RGASFPMSFFE 263
                       W  ++  +E+V  F  E +R   +N++          R  S     + 
Sbjct: 57  SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR---INYKFLMSPIKTEQRQPSMMTRMYI 113

Query: 264 FDRLRSLLIYDTSHYNPSLFQSMAISSA---YSLVNAVLYLVSSPGLGIDDESPSNPS-L 319
             R       D  + +  +F    +S       L  A+L L  +  + ID    S  + +
Sbjct: 114 EQR-------DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV 166

Query: 320 NSSILRELFSKLACLRALVISQPSPIF--------RPDLNLIREIPENVEKLIHLKYLNL 371
              +             +       IF         P+      + E ++KL++    N 
Sbjct: 167 ALDVCLS--------YKVQCKMDFKIFWLNLKNCNSPE-----TVLEMLQKLLYQIDPNW 213

Query: 372 SGL--RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLL---N-GDTSSLK 425
           +       ++   +  +    + ++RR    +              LL   N  +  +  
Sbjct: 214 TSRSDHSSNIKLRIHSI----QAELRRLLKSKPYE---------NCLLVLLNVQNAKAWN 260

Query: 426 YLPIG-----ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGL-SNVSH 479
              +       +R           V   +    T  +    +   L    V+ L      
Sbjct: 261 AFNLSCKILLTTRFKQ--------VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312

Query: 480 VDEAE-RLQLYNKKNLLRLGLQFG-RVADGEGEEGRRKNENDEQL-------LEALQPPV 530
               +   ++    N  RL +     + DG       K+ N ++L       L  L+P  
Sbjct: 313 CRPQDLPREV-LTTNPRRLSI-IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP-- 368

Query: 531 NVEELWIVYYGGNIFPK 547
              E   ++   ++FP 
Sbjct: 369 --AEYRKMFDRLSVFPP 383

>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 = 51.4 bits (122), Expect = 6e-07
 Identities = 75/536 (13%), Positives = 151/536 (28%), Gaps = 185/536 (34%)

Query: 99  EWQRILDS--EVWKVEEIKQGLLAP-----------LLLSYNDLPSNSMVKRCFSYCAVF 145
           + + + D    +   EEI   +++             LLS        MV++      V 
Sbjct: 34  DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ----EEMVQKFVE--EVL 87

Query: 146 PKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILR 205
             +Y          ++        E  +  M+   Y             ++D        
Sbjct: 88  RINYK---------FLMSPI--KTEQRQPSMMTRMY-----------IEQRD-------- 117

Query: 206 CKMHDIVHDFAQ-FVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRG------ASFP 258
            ++++    FA+  VSR +          EL         +++ ++   G      A   
Sbjct: 118 -RLYNDNQVFAKYNVSRLQPYLKLRQALLEL------RPAKNVLIDGVLGSGKTWVALDV 170

Query: 259 MSFFEFDRLRSLLIY--DTSHYN-PSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPS 315
              ++        I+  +  + N P     M       L    L     P      +  S
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEM-------LQK--LLYQIDPNWTSRSDHSS 221

Query: 316 NPSLNSSILRELFSKL-------ACL-------------------RALVISQPSPIFRPD 349
           N  L    ++    +L        CL                   + L+ ++        
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR-------F 274

Query: 350 LNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDL-RELPTG-- 406
             +   +       I L + +   L   +  E    L  L+ LD  R QDL RE+ T   
Sbjct: 275 KQVTDFLSAATTTHISLDHHS-MTL---TPDEVK-SLL-LKYLDC-RPQDLPREVLTTNP 327

Query: 407 -----IGK-LKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESL 460
                I + +++  +  +       +  +   +LT    +E  +       N    LE  
Sbjct: 328 RRLSIIAESIRDGLATWDN------WKHVNCDKLT--TIIESSL-------NV---LEPA 369

Query: 461 KNLQLLRECRV--EG-------LS----NVSHVDEAERLQLYNKKNLL---------RL- 497
           +  ++     V           LS    +V   D    +   +K +L+          + 
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP 429

Query: 498 GLQFGRVADGEGEEGRRKNENDEQL----LEALQPPVNVEELWIVYYGGNIFPKWL 549
            +           E + K EN+  L    ++    P         +   ++ P +L
Sbjct: 430 SIYL---------ELKVKLENEYALHRSIVDHYNIPKT-------FDSDDLIPPYL 469

>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 = 92.3 bits (230), Expect = 1e-20
 Identities = 38/157 (24%), Positives = 61/157 (38%), Gaps = 25/157 (15%)

Query: 317 PSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRI 376
             L S+        L  L++L +             IR +P ++  L +LK L +    +
Sbjct: 168 EPLASTDASGEHQGLVNLQSLRLEW---------TGIRSLPASIANLQNLKSLKIRNSPL 218

Query: 377 ESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTS 436
            +L   +  L  L++LD+R C  LR  P   G    ++ L+  D S+L  LP+ I RLT 
Sbjct: 219 SALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQ 278

Query: 437 LRTLEKFVVGGGVDGNNTCRLES-------LKNLQLL 466
           L  L        + G     L         L    ++
Sbjct: 279 LEKL-------DLRGCV--NLSRLPSLIAQLPANCII 306

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

 Score = 79.2 bits (196), Expect = 2e-16
 Identities = 35/163 (21%), Positives = 72/163 (44%), Gaps = 28/163 (17%)

Query: 318 SLNSSILREL---FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGL 374
            L S  L +      +L+ L+ + I             + E+P+ +++   L+ L L+  
Sbjct: 87  ELRSVPLPQFPDQAFRLSHLQHMTIDA---------AGLMELPDTMQQFAGLETLTLARN 137

Query: 375 RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLK------NMRSL--LNGDTSSLKY 426
            + +LP ++  L  L++L IR C +L ELP  +           + +L  L  + + ++ 
Sbjct: 138 PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRS 197

Query: 427 LPIGISRLTSLRTLEKFVVGGGVDGNNTCRL-ESLKNLQLLRE 468
           LP  I+ L +L++L+       +  +    L  ++ +L  L E
Sbjct: 198 LPASIANLQNLKSLK-------IRNSPLSALGPAIHHLPKLEE 233

>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 = 70.0 bits (172), Expect = 3e-13
 Identities = 28/118 (23%), Positives = 44/118 (37%), Gaps = 15/118 (12%)

Query: 318 SLNSSILREL---FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGL 374
            + +S L  L      L  L  L +             +R  P        LK L L   
Sbjct: 212 KIRNSPLSALGPAIHHLPKLEELDLR--------GCTALRNYPPIFGGRAPLKRLILKDC 263

Query: 375 -RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLL---NGDTSSLKYLP 428
             + +LP  +  L  L+KLD+R C +L  LP+ I +L     +L   +      ++ P
Sbjct: 264 SNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHRP 321

>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 = 67.7 bits (166), Expect = 1e-12
 Identities = 43/259 (16%), Positives = 76/259 (29%), Gaps = 82/259 (31%)

Query: 320 NSSILRELFSKLACLRALV---ISQPSPIFRP-----------DLNLIREIPENVEKLIH 365
            S+ LR     L+  +       ++    +R                ++   + +E    
Sbjct: 21  GSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQ 80

Query: 366 --LKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNGDTS 422
                L L  + +   P+    L +LQ + I     L ELP  + +   + +L L    +
Sbjct: 81  PGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAG-LMELPDTMQQFAGLETLTLAR--N 137

Query: 423 SLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDE 482
            L+ LP  I+ L  LR L        +       L  L           E L++     E
Sbjct: 138 PLRALPASIASLNRLRELS-------IRACP--ELTELP----------EPLASTDASGE 178

Query: 483 AERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGG 542
            + L      NL  L L++                     + +L                
Sbjct: 179 HQGLV-----NLQSLRLEWTG-------------------IRSL---------------- 198

Query: 543 NIFPKWLTLLTNLRDLNLD 561
              P  +  L NL+ L + 
Sbjct: 199 ---PASIANLQNLKSLKIR 214

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

 Score = 65.7 bits (160), Expect = 2e-11
 Identities = 34/269 (12%), Positives = 78/269 (28%), Gaps = 59/269 (21%)

Query: 243 KVRHIGL-NFQRGASFPMSFFEFDRLRSLLIYD---TSHYNPSLFQSMAISSAYSLVNAV 298
           +V  + L  F      P +  +   L+ L       T        + +    +    + +
Sbjct: 324 RVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRI 383

Query: 299 ------LYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNL 352
                 ++L     L + D      + N  +          L+   I   +       N 
Sbjct: 384 RMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLT-------NR 436

Query: 353 IREIPENVEKLIHLKYLNLSG--------------------LRIESLPETLCELYNLQKL 392
           I  I + +++L  L+ +  +                      + E+   +   L +L  +
Sbjct: 437 ITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDV 496

Query: 393 DIRRCQDLRELPTGIGKLKNMRSL---------LNGDTSSLKYLPIGISRLTSLRTLEKF 443
           ++  C ++ +LP  +  L  ++SL              +    L         ++     
Sbjct: 497 ELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFY-- 554

Query: 444 VVGGGVDGNN------TCRLESLKNLQLL 466
                +  NN      +  L+ +  L LL
Sbjct: 555 -----MGYNNLEEFPASASLQKMVKLGLL 578

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

 Score = 60.7 bits (147), Expect = 7e-10
 Identities = 21/134 (15%), Positives = 42/134 (31%), Gaps = 24/134 (17%)

Query: 317 PSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN--VEKLIHLKYLNLSGL 374
           P  +       +     L  + +           N +  + ++     L +L  +++S  
Sbjct: 713 PENSLKPKDGNYKNTYLLTTIDLRF---------NKLTSLSDDFRATTLPYLSNMDVSYN 763

Query: 375 RIESLPETLCELYNLQKLDIRRCQDL------RELPTGIGKLKNMRSLLNGDTSS--LKY 426
              S P        L+   IR  +D       R+ PTGI    ++  L      S  ++ 
Sbjct: 764 CFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQL---QIGSNDIRK 820

Query: 427 LPIGISRLTSLRTL 440
           +   +     L  L
Sbjct: 821 VDEKL--TPQLYIL 832

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

 Score = 56.0 bits (135), Expect = 2e-08
 Identities = 29/287 (10%), Positives = 80/287 (27%), Gaps = 67/287 (23%)

Query: 301 LVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV 360
                     +++ S+ +         +S L  L  + +         +   + ++P+ +
Sbjct: 460 FTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELY--------NCPNMTQLPDFL 511

Query: 361 EKLIHLKYLNLSGLRIES----------LPETLCELYNLQKLDIRRCQDLRELP--TGIG 408
             L  L+ LN++  R  S          L +       +Q   +     L E P    + 
Sbjct: 512 YDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNN-LEEFPASASLQ 570

Query: 409 KLKNMRSLL---NGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNN-----TCRLESL 460
           K+  +  L    N     +++L         L  L+       +D N             
Sbjct: 571 KMVKLGLLDCVHN----KVRHLEA-FGTNVKLTDLK-------LDYNQIEEIPEDFCAFT 618

Query: 461 KNLQLL--RECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNEN 518
             ++ L     +++ +               +   +  +   + ++          +  N
Sbjct: 619 DQVEGLGFSHNKLKYI--------PNIFNAKSVYVMGSVDFSYNKI--------GSEGRN 662

Query: 519 DEQLLEALQPPVNVEELWIVYYGGN----IFPKWLTLLTNLRDLNLD 561
               ++  +  +N   + +     N       +     + +  + L 
Sbjct: 663 ISCSMDDYKG-INASTVTL---SYNEIQKFPTELFATGSPISTIILS 705

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

 Score = 51.0 bits (122), Expect = 9e-07
 Identities = 19/103 (18%), Positives = 34/103 (33%), Gaps = 17/103 (16%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPE--------TLCELYNLQKLDIRRCQDLR 401
           N I++ P  +      +  + LS   + S+PE             Y L  +D+R  + L 
Sbjct: 683 NEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNK-LT 741

Query: 402 ELPTGI--GKLKNMRSLLNGDTSS--LKYLPIGISRLTSLRTL 440
            L        L  + ++   D S       P      + L+  
Sbjct: 742 SLSDDFRATTLPYLSNM---DVSYNCFSSFPTQPLNSSQLKAF 781

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

 Score = 46.4 bits (110), Expect = 2e-05
 Identities = 28/222 (12%), Positives = 69/222 (31%), Gaps = 16/222 (7%)

Query: 349 DLNLIREIPE-NVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLRELPTG 406
           +L++  + P  +++    +  L+L+G   +  +P+ + +L  L+ L              
Sbjct: 307 ELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHS-ETVSGRL 365

Query: 407 IGKLKNMRSLLNGDTSSLK--YLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQ 464
            G  +    +       ++  Y  + +     L   +               ++   +  
Sbjct: 366 FGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQD-AINRNPEMKPIKKD-SRI 423

Query: 465 LLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLE 524
            L++ ++  L+N          +L     L  +                    +D     
Sbjct: 424 SLKDTQIGNLTNRITFISKAIQRL---TKLQIIYFANSPFTYDNIAVDWEDANSDYAKQY 480

Query: 525 ALQPPV--NVEELWIVY-YGGNI---FPKWLTLLTNLRDLNL 560
             +     N+++L  V  Y        P +L  L  L+ LN+
Sbjct: 481 ENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNI 522

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

 Score = 45.6 bits (108), Expect = 4e-05
 Identities = 40/267 (14%), Positives = 80/267 (29%), Gaps = 67/267 (25%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVE--KLIHLKYLNLSGLRIES 378
             I  +  +    +  L  S          N ++ IP       +  +  ++ S  +I S
Sbjct: 608 EEIPEDFCAFTDQVEGLGFSH---------NKLKYIPNIFNAKSVYVMGSVDFSYNKIGS 658

Query: 379 LPETL------CELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL-LNG------DTSSL 424
               +       +  N   + +   + +++ PT +      + ++ L+         +SL
Sbjct: 659 EGRNISCSMDDYKGINASTVTLSYNE-IQKFPTELFATGSPISTIILSNNLMTSIPENSL 717

Query: 425 KYLPIGISRLTSLRTLEKFVVGGGVDGNN------TCRLESLKNLQLLRECRVEGLSN-- 476
           K           L T++       +  N         R  +L  L  +       +S   
Sbjct: 718 KPKDGNYKNTYLLTTID-------LRFNKLTSLSDDFRATTLPYLSNMD------VSYNC 764

Query: 477 VSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELW 536
            S        Q  N   L   G++  R A+G        N    Q    +    ++ +L 
Sbjct: 765 FSSFPT----QPLNSSQLKAFGIRHQRDAEG--------NRILRQWPTGITTCPSLIQLQ 812

Query: 537 IVYYGGN---IFPKWLTLLTNLRDLNL 560
           I   G N      + L     L  L++
Sbjct: 813 I---GSNDIRKVDEKL--TPQLYILDI 834

>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 = 59.7 bits (145), Expect = 1e-09
 Identities = 15/177 (8%), Positives = 47/177 (26%), Gaps = 25/177 (14%)

Query: 315 SNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGL 374
           S+       +    + +        S             + I ++    +    +     
Sbjct: 134 SDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSN 193

Query: 375 RIESLPETLCELYNLQKLDIRRCQ-------------------DLRELPTGIGKLKNMRS 415
            I  + + +  L  L++  +                         +        LK++  
Sbjct: 194 NITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTD 253

Query: 416 LLNGDTSSLKYLPIGISRLTSLRTLE----KFVVGGGV--DGNNTCRLESLKNLQLL 466
           +   +  +L  LP  +  L  ++ +     + + G  +  D          + +Q++
Sbjct: 254 VEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQII 310

>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 = 57.7 bits (140), Expect = 5e-09
 Identities = 23/134 (17%), Positives = 44/134 (32%), Gaps = 24/134 (17%)

Query: 317 PSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVE--KLIHLKYLNLSGL 374
           P  +     E F     L ++ +           N + ++ ++     L +L  ++LS  
Sbjct: 473 PKNSLKDENENFKNTYLLTSIDLRF---------NKLTKLSDDFRATTLPYLVGIDLSYN 523

Query: 375 RIESLPETLCELYNLQKLDIRRCQDL------RELPTGIGKLKNMRSLLNGDTSS--LKY 426
                P        L+   IR  +D       RE P GI    ++  L      S  ++ 
Sbjct: 524 SFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQL---QIGSNDIRK 580

Query: 427 LPIGISRLTSLRTL 440
           +   I    ++  L
Sbjct: 581 VNEKI--TPNISVL 592

>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 = 31/289 (10%), Positives = 79/289 (27%), Gaps = 71/289 (24%)

Query: 301 LVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV 360
            V+       +   S  +         +  L  L  + +         +   + ++P  +
Sbjct: 218 FVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVY--------NCPNLTKLPTFL 269

Query: 361 EKLIHLKYLNLSGLRIESLPE---------TLCELYNLQKLDIRRCQDLREL--PTGIGK 409
           + L  ++ +N++  R  S  +                +Q + I     L+     T + K
Sbjct: 270 KALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNN-LKTFPVETSLQK 328

Query: 410 LKNMRSL-LNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLES--------L 460
           +K +  L      + L+           L +L        +  N    +           
Sbjct: 329 MKKLGMLECLY--NQLEGKLPAFGSEIKLASL-------NLAYNQ---ITEIPANFCGFT 376

Query: 461 KNLQLL--RECRVEGLSNVSHVDEAERLQLYNKKNLLRLGL---QFGRVADGEGEEGRRK 515
           + ++ L     +++ +               +   +  +     + G V           
Sbjct: 377 EQVENLSFAHNKLKYIP--------NIFDAKSVSVMSAIDFSYNEIGSVD---------- 418

Query: 516 NENDEQLLEALQPPVNVEELWIVYYGGN----IFPKWLTLLTNLRDLNL 560
            +N + L       +NV  +       N       +  +  + L  +NL
Sbjct: 419 GKNFDPLDPTPFKGINVSSI---NLSNNQISKFPKELFSTGSPLSSINL 464

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 47.7 bits (114), Expect = 7e-06
 Identities = 15/100 (15%), Positives = 31/100 (31%), Gaps = 11/100 (11%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQ-------DLRE 402
                +     K I++  +NLS  +I   P E       L  +++            L++
Sbjct: 420 KNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKD 479

Query: 403 LPTGIGKLKNMRSLLNGDTSSLKYLP--IGISRLTSLRTL 440
                     + S ++   + L  L      + L  L  +
Sbjct: 480 ENENFKNTYLLTS-IDLRFNKLTKLSDDFRATTLPYLVGI 518

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 45.0 bits (107), Expect = 6e-05
 Identities = 12/67 (17%), Positives = 24/67 (35%), Gaps = 2/67 (2%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
             +RE PE +     L  L +    I  + E +    N+  LDI+   ++    + +   
Sbjct: 553 RTLREWPEGITLCPSLTQLQIGSNDIRKVNEKITP--NISVLDIKDNPNISIDLSYVCPY 610

Query: 411 KNMRSLL 417
                 +
Sbjct: 611 IEAGMYM 617

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 44.6 bits (106), Expect = 7e-05
 Identities = 23/225 (10%), Positives = 57/225 (25%), Gaps = 47/225 (20%)

Query: 349 DLNLIREIPENVEKLIHLKYLNLS-----GLRIESLPETLCELYNLQKLDIRRCQDLREL 403
                  +P+ + +L  L+ L L             P+ +    + ++    R    +  
Sbjct: 90  GFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTF 149

Query: 404 PTGIGKLK--NMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRL-ESL 460
                +    ++           K +            +       G   NN   + +++
Sbjct: 150 VDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQI-------GQLSNNITFVSKAV 202

Query: 461 KNLQLLRECRVEG--LSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNEN 518
             L  LR+  +        +  +  E       +      L++                 
Sbjct: 203 MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDN--------------- 247

Query: 519 DEQLLEALQPPVNVEELWIVYYGGNI---FPKWLTLLTNLRDLNL 560
               L+ L          +  Y        P +L  L  ++ +N+
Sbjct: 248 ----LKDLT--------DVEVYNCPNLTKLPTFLKALPEMQLINV 280

>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 = 56.1 bits (136), Expect = 6e-09
 Identities = 32/158 (20%), Positives = 59/158 (37%), Gaps = 28/158 (17%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            S+    FS L+ L+ LV  +           +  +       L  LK LN++   I+S 
Sbjct: 89  QSLALGAFSGLSSLQKLVAVE---------TNLASLENFPIGHLKTLKELNVAHNLIQSF 139

Query: 380 PE--TLCELYNLQKLDIRRCQDLRELPTGI----GKLKNMRSLLNGDTSSLKYLPIGISR 433
                   L NL+ LD+   + ++ +         ++  +   L+   + + ++  G  +
Sbjct: 140 KLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFK 198

Query: 434 LTSLRTLE------KFVVGGGVDGNNTCRLESLKNLQL 465
              L+ L       K V  G  D     RL SL+ + L
Sbjct: 199 EIRLKELALDTNQLKSVPDGIFD-----RLTSLQKIWL 231

>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 = 43.8 bits (104), Expect = 8e-05
 Identities = 19/94 (20%), Positives = 38/94 (40%), Gaps = 6/94 (6%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGI- 407
           N +R +          L+ L+LS   I+++ +     L +L  L +     ++ L  G  
Sbjct: 38  NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAF 96

Query: 408 GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTL 440
             L +++  L    ++L  L       L +L+ L
Sbjct: 97  SGLSSLQK-LVAVETNLASLENFPIGHLKTLKEL 129

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 56.7 bits (136), Expect = 1e-08
 Identities = 44/328 (13%), Positives = 96/328 (29%), Gaps = 37/328 (11%)

Query: 142 CAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDD 201
           C        +     +   +          E     G    + +           D    
Sbjct: 256 CLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNRPSHVWLCDLPAASLNDQLPQ 315

Query: 202 DILRCKMHDIVHDFAQFVSRKECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSF 261
              R              S+KEC+ ++         +   E++    L+ ++        
Sbjct: 316 HTFRVIWTG-------SDSQKECVLLKDRPECWCRDSATDEQLFRCELSVEKSTVLQSEL 368

Query: 262 FEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGI--DDESPSNPSL 319
                L+ L   +       +    A+         + Y  +   +            S 
Sbjct: 369 ESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSK 428

Query: 320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESL 379
                  L  + A +R L ++            +  +  ++E+L+ + +L+LS  R+ +L
Sbjct: 429 FLLENSVLKMEYADVRVLHLAH---------KDLTVL-CHLEQLLLVTHLDLSHNRLRAL 478

Query: 380 PETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNG----DTSSLKYLPIGISRL 434
           P  L  L  L+ L       L  +  G+  L  ++ L L       +++++ L       
Sbjct: 479 PPALAALRCLEVLQASDNA-LENVD-GVANLPRLQELLLCNNRLQQSAAIQPL----VSC 532

Query: 435 TSLRTLEKFVVGGGVDGNNTCRLESLKN 462
             L  L        + GN+ C+ E ++ 
Sbjct: 533 PRLVLLN-------LQGNSLCQEEGIQE 553

>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 = 56.4 bits (136), Expect = 1e-08
 Identities = 29/132 (21%), Positives = 42/132 (31%), Gaps = 30/132 (22%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY--------------NLQKLDIRR 396
           N +  +P     L+ L   +     + +LP  LC+L+               LQ+L +  
Sbjct: 91  NQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSD 150

Query: 397 CQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCR 456
            Q L  LP    +L      L    + L  LP+  S L  L           V  N    
Sbjct: 151 NQ-LASLPALPSELCK----LWAYNNQLTSLPMLPSGLQELS----------VSDNQLAS 195

Query: 457 L-ESLKNLQLLR 467
           L      L  L 
Sbjct: 196 LPTLPSELYKLW 207

>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 = 54.5 bits (131), Expect = 7e-08
 Identities = 26/117 (22%), Positives = 39/117 (33%), Gaps = 21/117 (17%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           + +  +P+ +    H+  L +    + SLP        L+ L++   Q L  LP     L
Sbjct: 50  SGLTTLPDCLPA--HITTLVIPDNNLTSLPA---LPPELRTLEVSGNQ-LTSLPVLPPGL 103

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRL-ESLKNLQLL 466
             +    N  T     LP   S L  L           + GN    L      LQ L
Sbjct: 104 LELSIFSNPLTH----LPALPSGLCKLW----------IFGNQLTSLPVLPPGLQEL 146

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 53.4 bits (128), Expect = 1e-07
 Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 9/95 (9%)

Query: 347 RPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG 406
           R    +++++   +        LN+    + +LP+ L    ++  L I     L  LP  
Sbjct: 25  RGRAAVVQKMRACLNN--GNAVLNVGESGLTTLPDCLPA--HITTLVIPDNN-LTSLPAL 79

Query: 407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE 441
             +L+     L    + L  LP+    L  L    
Sbjct: 80  PPELRT----LEVSGNQLTSLPVLPPGLLELSIFS 110

>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 = 49.5 bits (118), Expect = 2e-06
 Identities = 23/87 (26%), Positives = 33/87 (37%), Gaps = 11/87 (12%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           N +  +P        L+ L++S  ++ SLP        L KL     + L  LP     L
Sbjct: 171 NQLTSLPML---PSGLQELSVSDNQLASLPTLPS---ELYKLWAYNNR-LTSLPALPSGL 223

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSL 437
           K +    N     L  LP+  S L  L
Sbjct: 224 KELIVSGN----RLTSLPVLPSELKEL 246

>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 = 46.0 bits (109), Expect = 3e-05
 Identities = 20/143 (13%), Positives = 38/143 (26%), Gaps = 13/143 (9%)

Query: 324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL 383
           L  L    + L+ L++S          N +  +P        L  L++   ++  LPE+L
Sbjct: 233 LTSLPVLPSELKELMVSG---------NRLTSLPML---PSGLLSLSVYRNQLTRLPESL 280

Query: 384 CELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKF 443
             L +   +++     L E      +        +G             R T    L   
Sbjct: 281 IHLSSETTVNLEGNP-LSERTLQALREITSAPGYSGPIIRFDMAGASAPRETRALHLAAA 339

Query: 444 VVGGGVDGNNTCRLESLKNLQLL 466
                         +        
Sbjct: 340 DWLVPAREGEPAPADRWHMFGQE 362

>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 = 55.5 bits (134), Expect = 2e-08
 Identities = 43/252 (17%), Positives = 84/252 (33%), Gaps = 42/252 (16%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           + I      +   L+ALV++          N I  I E+    L  L++L+LS   + +L
Sbjct: 65  TYISNSDLQRCVNLQALVLTS---------NGINTIEEDSFSSLGSLEHLDLSYNYLSNL 115

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTGI--GKLKNMRSLLNGDTSSLKYLPIGI-SRLT 435
                  L +L  L++      + L        L  ++ L  G+  +   +     + LT
Sbjct: 116 SSSWFKPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLT 174

Query: 436 SLRTLEKFVVGGGVDGNNTCRLE--SLKNLQLLRECRVEG--LSNVSHV--DEAERLQLY 489
            L  LE       +D ++    E  SLK++Q +    +       +  +  D    ++  
Sbjct: 175 FLEELE-------IDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECL 227

Query: 490 NKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL 549
             ++       F  ++ GE                +L        + I         K L
Sbjct: 228 ELRDTDLDTFHFSELSTGE--------------TNSLIKKFTFRNVKITDESLFQVMKLL 273

Query: 550 TLLTNLRDLNLD 561
             ++ L +L   
Sbjct: 274 NQISGLLELEFS 285

>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 = 42.8 bits (101), Expect = 2e-04
 Identities = 14/97 (14%), Positives = 38/97 (39%), Gaps = 2/97 (2%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP 380
             +L       + +  L +            L      ++ K    + + ++   +  + 
Sbjct: 211 ILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVM 270

Query: 381 ETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL 416
           + L ++  L +L+  R Q L+ +P GI  +L +++ +
Sbjct: 271 KLLNQISGLLELEFSRNQ-LKSVPDGIFDRLTSLQKI 306

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

 Score = 55.9 bits (135), Expect = 2e-08
 Identities = 31/124 (25%), Positives = 51/124 (41%), Gaps = 16/124 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            +I    F+ LA L  L +           N +  IP      L  LK L L    IES+
Sbjct: 101 RTIEIGAFNGLANLNTLELFD---------NRLTTIPNGAFVYLSKLKELWLRNNPIESI 151

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGISRLTS 436
           P      + +L++LD+   + L  +  G    + + +L  LN    +L+ +P  ++ L  
Sbjct: 152 PSYAFNRIPSLRRLDLGELKRLSYISEGA--FEGLSNLRYLNLAMCNLREIP-NLTPLIK 208

Query: 437 LRTL 440
           L  L
Sbjct: 209 LDEL 212

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

 Score = 51.3 bits (123), Expect = 5e-07
 Identities = 36/150 (24%), Positives = 62/150 (41%), Gaps = 27/150 (18%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP 380
           S I    F  L+ LR L ++            +REIP  +  LI L  L+LSG  + ++ 
Sbjct: 174 SYISEGAFEGLSNLRYLNLAM---------CNLREIPN-LTPLIKLDELDLSGNHLSAIR 223

Query: 381 E-TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGI-SRLTS 436
             +   L +LQKL + + Q ++ +        N++SL  +N   ++L  LP  + + L  
Sbjct: 224 PGSFQGLMHLQKLWMIQSQ-IQVIERNA--FDNLQSLVEINLAHNNLTLLPHDLFTPLHH 280

Query: 437 LRTLEKFVVGGGVDGNN---TCRLESLKNL 463
           L  +        +  N     C +  L   
Sbjct: 281 LERIH-------LHHNPWNCNCDILWLSWW 303

>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 = 53.8 bits (130), Expect = 2e-08
 Identities = 19/146 (13%), Positives = 54/146 (36%), Gaps = 15/146 (10%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
             + ++   +E   ++K L ++ +   +    +  L NL++L I       +    +  L
Sbjct: 54  INVTDL-TGIEYAHNIKDLTINNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGL 111

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCR----LESLKNLQLL 466
            ++  L    ++    +   I+ L  + +++       +  N        L++L  L+ L
Sbjct: 112 TSLTLLDISHSAHDDSILTKINTLPKVNSID-------LSYNGAITDIMPLKTLPELKSL 164

Query: 467 --RECRVEGLSNVSHVDEAERLQLYN 490
             +   V     +    +  +L  ++
Sbjct: 165 NIQFDGVHDYRGIEDFPKLNQLYAFS 190

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 56.1 bits (135), Expect = 2e-08
 Identities = 32/173 (18%), Positives = 53/173 (30%), Gaps = 39/173 (22%)

Query: 314 PSNPSLN--SSILRELFSKLACLRALVIS---------QPSPIFRPDL-------NLIRE 355
             N   N  S    + FS         +                             +  
Sbjct: 14  SQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSS 73

Query: 356 IPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRS 415
           +P+N+     +  L ++   + SLPE      +L+ LD    + L  LP     LK+   
Sbjct: 74  LPDNLPP--QITVLEITQNALISLPELPA---SLEYLDACDNR-LSTLPELPASLKH--- 124

Query: 416 LLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNN-TCRLESLKNLQLLR 467
            L+ D + L  LP   + L  +            D N  T   E   +L++L 
Sbjct: 125 -LDVDNNQLTMLPELPALLEYIN----------ADNNQLTMLPELPTSLEVLS 166

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 53.8 bits (129), Expect = 8e-08
 Identities = 31/117 (26%), Positives = 47/117 (40%), Gaps = 22/117 (18%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           N +  +PE       L+YL+    R+ +LPE      +L+ LD+   Q L  LP     L
Sbjct: 90  NALISLPELPA---SLEYLDACDNRLSTLPELPA---SLKHLDVDNNQ-LTMLPELPALL 142

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRL-ESLKNLQLL 466
           +     +N D + L  LP   + L  L           V  N    L E  ++L+ L
Sbjct: 143 EY----INADNNQLTMLPELPTSLEVLS----------VRNNQLTFLPELPESLEAL 185

>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 = 55.5 bits (134), Expect = 3e-08
 Identities = 38/156 (24%), Positives = 57/156 (36%), Gaps = 28/156 (17%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            SI    F+++  L  L +         +L  +  I E   E L +LKYLNL    I+ +
Sbjct: 160 ESIPSYAFNRVPSLMRLDLG--------ELKKLEYISEGAFEGLFNLKYLNLGMCNIKDM 211

Query: 380 PETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIG-ISRLTS 436
           P  L  L  L++L++       E+  G      + SL  L    S +  +       L S
Sbjct: 212 P-NLTPLVGLEELEMSGNH-FPEIRPGS--FHGLSSLKKLWVMNSQVSLIERNAFDGLAS 267

Query: 437 LRTLEKFVVGGGVDGNNTCRL-----ESLKNLQLLR 467
           L  L        +  NN   L       L+ L  L 
Sbjct: 268 LVELN-------LAHNNLSSLPHDLFTPLRYLVELH 296

>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 = 53.6 bits (129), Expect = 1e-07
 Identities = 31/124 (25%), Positives = 50/124 (40%), Gaps = 16/124 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             I    F+ LA L  L +           N +  IP    E L  L+ L L    IES+
Sbjct: 112 RQIEVGAFNGLASLNTLELFD---------NWLTVIPSGAFEYLSKLRELWLRNNPIESI 162

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGISRLTS 436
           P      + +L +LD+   + L  +  G    + + +L  LN    ++K +P  ++ L  
Sbjct: 163 PSYAFNRVPSLMRLDLGELKKLEYISEGA--FEGLFNLKYLNLGMCNIKDMP-NLTPLVG 219

Query: 437 LRTL 440
           L  L
Sbjct: 220 LEEL 223

>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 = 15/123 (12%), Positives = 36/123 (29%), Gaps = 16/123 (13%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN--VEKLIHLKYLNLSGLRIES 378
           + +        + ++ L +           N I  +           L++LNL    I  
Sbjct: 133 TMLRDLDEGCRSRVQYLDLKL---------NEIDTVNFAELAASSDTLEHLNLQYNFIYD 183

Query: 379 LPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNGDTSSLKYLPIGISRLTSL 437
           +   +     L+ LD+   + L  +         +  + L    + L  +   +    +L
Sbjct: 184 VKGQVV-FAKLKTLDLSSNK-LAFMGPEFQSAAGVTWISLRN--NKLVLIEKALRFSQNL 239

Query: 438 RTL 440
              
Sbjct: 240 EHF 242

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 51.9 bits (125), Expect = 2e-07
 Identities = 21/158 (13%), Positives = 47/158 (29%), Gaps = 24/158 (15%)

Query: 324 LRELFSKLACLRALVISQ------PSPIFRPDL-------NLIREIPENVEKLIHLKYLN 370
             EL +    L  L +           +    L       N +  +    +    + +++
Sbjct: 161 FAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWIS 220

Query: 371 LSGLRIESLPETLCELYNLQKLDIRRCQ-DLRELPTGIGKLKNMRSLLNGDTSSLKYLPI 429
           L   ++  + + L    NL+  D+R        L     K + ++++      ++K L  
Sbjct: 221 LRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAK---QTVKKLTG 277

Query: 430 GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR 467
                 ++ TL  +       G   C          L 
Sbjct: 278 QNEEECTVPTLGHY-------GAYCCEDLPAPFADRLI 308

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 47.3 bits (113), Expect = 7e-06
 Identities = 33/254 (12%), Positives = 82/254 (32%), Gaps = 49/254 (19%)

Query: 324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESLP-E 381
           + E+       +   ++          + +++   ++ +   ++K L+LSG  +  +   
Sbjct: 2   IHEIKQNGNRYKIEKVTD---------SSLKQALASLRQSAWNVKELDLSGNPLSQISAA 52

Query: 382 TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNGDTSSLKYLPIGISRLTSLRTL 440
            L     L+ L++     L E    +  L  +R+L LN   + ++ L        S+ TL
Sbjct: 53  DLAPFTKLELLNLSSNV-LYETLD-LESLSTLRTLDLNN--NYVQELL----VGPSIETL 104

Query: 441 EKFVVGGGVDGNN--TCRLESLKNLQLLRECRVEGLSN--VSHVDEAERLQLYNKKNLLR 496
                      NN         +  + +       L+N  ++ + + +         +  
Sbjct: 105 H-------AANNNISRVSCSRGQGKKNIY------LANNKITMLRDLDEGCR---SRVQY 148

Query: 497 LGLQFGRVADGEGEEGRRKNENDEQL------LEALQPPVNVEELWIVYYGGN---IFPK 547
           L L+   +      E    ++  E L      +  ++  V   +L  +    N       
Sbjct: 149 LDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGP 208

Query: 548 WLTLLTNLRDLNLD 561
                  +  ++L 
Sbjct: 209 EFQSAAGVTWISLR 222

>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 = 54.4 bits (131), Expect = 7e-08
 Identities = 41/213 (19%), Positives = 80/213 (37%), Gaps = 27/213 (12%)

Query: 5   GSKIVVTTRNVSVA-RMMRSTNIISIKP-LPEDEFWSLFERFAFFGHSSVDREKLEPIAR 62
             +I++TTR+ SV   +M   +++ ++  L  ++   +   F         +E L   A 
Sbjct: 257 QCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNM-----KKEDLPAEAH 311

Query: 63  QIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPL 122
            I ++CKG PL   + G LL D         + + N+  + +           + L   +
Sbjct: 312 SIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKS---SSYDYEALDEAM 368

Query: 123 LLSYNDLPSNSMVKRCFSYCAVFPKDYNMNKRELINLWMAQGYLNADEDEEMEMIGEEYF 182
            +S   L  +   K  ++  ++  KD  +  + L  LW          D E E + E+  
Sbjct: 369 SISVEMLREDI--KDYYTDLSILQKDVKVPTKVLCVLW----------DLETEEV-EDIL 415

Query: 183 NILATRSFFQEFEKDDDDDDILRCKMHDIVHDF 215
                +S       + +        +HD+  DF
Sbjct: 416 QEFVNKSL---LFCNRNGKSFCYY-LHDLQVDF 444

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 52.7 bits (127), Expect = 2e-07
 Identities = 35/165 (21%), Positives = 59/165 (35%), Gaps = 39/165 (23%)

Query: 319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIES 378
           LN+  L  L      L +LV S          N + E+PE  + L  L   N +   +  
Sbjct: 78  LNNLGLSSLPELPPHLESLVASC---------NSLTELPELPQSLKSLLVDNNNLKALSD 128

Query: 379 LPETLCELY----------------NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTS 422
           LP  L  L                  L+ +D+     L++LP     L+ + +  N    
Sbjct: 129 LPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNS-LKKLPDLPPSLEFIAAGNN---- 183

Query: 423 SLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRL-ESLKNLQLL 466
            L+ LP  +  L  L  +         D N+  +L +   +L+ +
Sbjct: 184 QLEELP-ELQNLPFLTAIY-------ADNNSLKKLPDLPLSLESI 220

>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 = 51.5 bits (124), Expect = 4e-07
 Identities = 25/116 (21%), Positives = 44/116 (37%), Gaps = 21/116 (18%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           N IR + +       L+ LN+S  ++  LP        L++L       L E+P     L
Sbjct: 307 NEIRSLCDL---PPSLEELNVSNNKLIELPALPP---RLERLIASFNH-LAEVPELPQNL 359

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLL 466
           K     L+ + + L+  P     +  LR          ++ +     E  +NL+ L
Sbjct: 360 KQ----LHVEYNPLREFPDIPESVEDLR----------MNSHLAEVPELPQNLKQL 401

>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 = 51.1 bits (123), Expect = 5e-07
 Identities = 23/114 (20%), Positives = 44/114 (38%), Gaps = 18/114 (15%)

Query: 324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL 383
           L++L      L ++V            N++ E+PE ++ L  L  +      +++LP+  
Sbjct: 207 LKKLPDLPLSLESIVAGN---------NILEELPE-LQNLPFLTTIYADNNLLKTLPDLP 256

Query: 384 CELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSL 437
               +L+ L++R    L +LP     L  +    N  +     L      L  L
Sbjct: 257 P---SLEALNVRDNY-LTDLPELPQSLTFLDVSENIFSG----LSELPPNLYYL 302

>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 = 51.1 bits (123), Expect = 5e-07
 Identities = 24/118 (20%), Positives = 45/118 (38%), Gaps = 16/118 (13%)

Query: 324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL 383
           L++L      L  +             N + E+PE ++ L  L  +      ++ LP+  
Sbjct: 165 LKKLPDLPPSLEFIAAGN---------NQLEELPE-LQNLPFLTAIYADNNSLKKLPD-- 212

Query: 384 CELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE 441
               +L+ +       L ELP  +  L  + + +  D + LK LP     L +L   +
Sbjct: 213 -LPLSLESIVAGNNI-LEELPE-LQNLPFLTT-IYADNNLLKTLPDLPPSLEALNVRD 266

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 47.7 bits (114), Expect = 7e-06
 Identities = 43/235 (18%), Positives = 78/235 (33%), Gaps = 59/235 (25%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
               + L+ + +           N ++++P+       L+++     ++E LPE L  L 
Sbjct: 149 LQNSSFLKIIDVDN---------NSLKKLPDL---PPSLEFIAAGNNQLEELPE-LQNLP 195

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG 447
            L  +       L++LP     L++    +    + L+ LP  +  L  L T+       
Sbjct: 196 FLTAIYADNNS-LKKLPDLPLSLES----IVAGNNILEELP-ELQNLPFLTTIY------ 243

Query: 448 GVDGNNTCRL-ESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVAD 506
             D N    L +   +L+ L       + +    D  E  Q     +L  L +       
Sbjct: 244 -ADNNLLKTLPDLPPSLEALN------VRDNYLTDLPELPQ-----SLTFLDVS------ 285

Query: 507 GEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD 561
                     EN    L  L  P N+  L       N       L  +L +LN+ 
Sbjct: 286 ----------ENIFSGLSEL--PPNLYYLNA---SSNEIRSLCDLPPSLEELNVS 325

>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 = 45.8 bits (109), Expect = 3e-05
 Identities = 42/267 (15%), Positives = 82/267 (30%), Gaps = 69/267 (25%)

Query: 318 SLNSSI--LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLR 375
            +      ++              + P          +  + + +++      L L+ L 
Sbjct: 25  EMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDR--QAHELELNNLG 82

Query: 376 IESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTS------SLKYLPI 429
           + SLPE      +L+ L       L ELP     LK++    N   +       L+YL +
Sbjct: 83  LSSLPE---LPPHLESLVASCNS-LTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGV 138

Query: 430 G---------ISRLTSLRTLEKFVVGGGVDGNNTCRL-ESLKNLQLLRECRVEGLSN--V 477
                     +   + L+ ++       VD N+  +L +   +L+ +         N  +
Sbjct: 139 SNNQLEKLPELQNSSFLKIID-------VDNNSLKKLPDLPPSLEFIA------AGNNQL 185

Query: 478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQP-PVNVEELW 536
             + E + L       L  +                    N    L+ L   P+++E + 
Sbjct: 186 EELPELQNL-----PFLTAIYAD----------------NN---SLKKLPDLPLSLESIV 221

Query: 537 IVYYGGNIF--PKWLTLLTNLRDLNLD 561
               G NI      L  L  L  +  D
Sbjct: 222 A---GNNILEELPELQNLPFLTTIYAD 245

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 43.8 bits (104), Expect = 1e-04
 Identities = 27/115 (23%), Positives = 44/115 (38%), Gaps = 21/115 (18%)

Query: 324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL 383
           L EL +    L  L+ S          N + E+PE      +LK L++    +   P+  
Sbjct: 329 LIELPALPPRLERLIASF---------NHLAEVPEL---PQNLKQLHVEYNPLREFPDIP 376

Query: 384 CELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLR 438
             + +L     R    L E+P     LK     L+ +T+ L+  P     +  LR
Sbjct: 377 ESVEDL-----RMNSHLAEVPELPQNLKQ----LHVETNPLREFPDIPESVEDLR 422

>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 = 51.9 bits (125), Expect = 2e-07
 Identities = 33/150 (22%), Positives = 62/150 (41%), Gaps = 27/150 (18%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             +   LF  LA L+ L +           N ++ +P++    L +L +L L G RI S+
Sbjct: 118 QELGPGLFRGLAALQYLYLQD---------NALQALPDDTFRDLGNLTHLFLHGNRISSV 168

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGI-SRLT 435
           PE     L++L +L + + + +  +       +++  L  L    ++L  LP    + L 
Sbjct: 169 PERAFRGLHSLDRLLLHQNR-VAHVHPHA--FRDLGRLMTLYLFANNLSALPTEALAPLR 225

Query: 436 SLRTLEKFVVGGGVDGNN---TCRLESLKN 462
           +L+ L        ++ N     CR   L  
Sbjct: 226 ALQYLR-------LNDNPWVCDCRARPLWA 248

>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 = 46.1 bits (110), Expect = 1e-05
 Identities = 31/125 (24%), Positives = 47/125 (37%), Gaps = 16/125 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           + I    F+ LA L  L +S        D   +R +       L  L  L+L    ++ L
Sbjct: 69  ARIDAAAFTGLALLEQLDLS--------DNAQLRSVDPATFHGLGRLHTLHLDRCGLQEL 120

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL-LNGDTSSLKYLPIGI-SRLT 435
                  L  LQ L ++    L+ LP      L N+  L L+G  + +  +P      L 
Sbjct: 121 GPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHG--NRISSVPERAFRGLH 177

Query: 436 SLRTL 440
           SL  L
Sbjct: 178 SLDRL 182

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 45.0 bits (107), Expect = 3e-05
 Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 7/95 (7%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGI- 407
           N I  +P        +L  L L    +  +       L  L++LD+     LR +     
Sbjct: 42  NRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATF 101

Query: 408 GKLKNMRSL-LNGDTSSLKYLPIGI-SRLTSLRTL 440
             L  + +L L+     L+ L  G+   L +L+ L
Sbjct: 102 HGLGRLHTLHLDRC--GLQELGPGLFRGLAALQYL 134

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 52.2 bits (125), Expect = 2e-07
 Identities = 27/126 (21%), Positives = 49/126 (38%), Gaps = 16/126 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           + I  E F  +  LR L +S          N +  + E +   L  L+ L L    I  +
Sbjct: 77  NFISSEAFVPVPNLRYLDLSS---------NHLHTLDEFLFSDLQALEVLLLYNNHIVVV 127

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL--LNGDTSSLKYLPIG-ISRL 434
                 ++  LQKL + + Q +   P  +      +  L  L+  ++ LK LP+  + +L
Sbjct: 128 DRNAFEDMAQLQKLYLSQNQ-ISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKL 186

Query: 435 TSLRTL 440
            +    
Sbjct: 187 PAWVKN 192

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 45.2 bits (107), Expect = 4e-05
 Identities = 16/97 (16%), Positives = 35/97 (36%), Gaps = 9/97 (9%)

Query: 351 NLIREIPENV--EKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGI 407
           N +  +       +L +L  L LS   +  +       + NL+ LD+     L  L   +
Sbjct: 49  NNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNH-LHTLDEFL 107

Query: 408 GKLKNMRSL--LNGDTSSLKYLPIGI-SRLTSLRTLE 441
               ++++L  L    + +  +       +  L+ L 
Sbjct: 108 --FSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLY 142

>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 = 2e-07
 Identities = 21/124 (16%), Positives = 45/124 (36%), Gaps = 15/124 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP 380
           ++I    F +L  L+ L IS            +  +  N    ++L  L+++   + ++P
Sbjct: 189 NAIRDYSFKRLYRLKVLEIS--------HWPYLDTMTPNCLYGLNLTSLSITHCNLTAVP 240

Query: 381 E-TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGI-SRLTS 436
              +  L  L+ L++     +  +   +  L  +  L  +      L  +       L  
Sbjct: 241 YLAVRHLVYLRFLNLSYNP-ISTIEGSM--LHELLRLQEIQLVGGQLAVVEPYAFRGLNY 297

Query: 437 LRTL 440
           LR L
Sbjct: 298 LRVL 301

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

 Score = 50.1 bits (120), Expect = 1e-06
 Identities = 27/126 (21%), Positives = 52/126 (41%), Gaps = 17/126 (13%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            ++ ++ F+    L  L +++         N++  +       L +L+ L L   R++ +
Sbjct: 45  KTLNQDEFASFPHLEELELNE---------NIVSAVEPGAFNNLFNLRTLGLRSNRLKLI 95

Query: 380 P-ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGI-SRLT 435
           P      L NL KLDI   + +  L   +   +++ +L  L    + L Y+     S L 
Sbjct: 96  PLGVFTGLSNLTKLDISENK-IVILLDYM--FQDLYNLKSLEVGDNDLVYISHRAFSGLN 152

Query: 436 SLRTLE 441
           SL  L 
Sbjct: 153 SLEQLT 158

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

 Score = 51.8 bits (125), Expect = 3e-07
 Identities = 41/254 (16%), Positives = 85/254 (33%), Gaps = 60/254 (23%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
              L  LR L +++         + I +I   +  L  +  LNL      S    L  + 
Sbjct: 106 LQNLTNLRELYLNE---------DNISDIS-PLANLTKMYSLNLGANHNLSDLSPLSNMT 155

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG 447
            L  L +   + ++++   I  L ++ SL       ++ +   ++ LTSL          
Sbjct: 156 GLNYLTVTESK-VKDVT-PIANLTDLYSLSLNYN-QIEDIS-PLASLTSLHYFT------ 205

Query: 448 GVDGNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQL-YNK---------- 491
               N    +  + N+  L        ++  LS ++++ +   L++  N+          
Sbjct: 206 -AYVNQITDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDINAVKDL 264

Query: 492 KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN----IFPK 547
             L  L +   +++D                +  L     +  L++     N       +
Sbjct: 265 TKLKMLNVGSNQISD----------------ISVLNNLSQLNSLFL---NNNQLGNEDME 305

Query: 548 WLTLLTNLRDLNLD 561
            +  LTNL  L L 
Sbjct: 306 VIGGLTNLTTLFLS 319

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

 Score = 51.0 bits (123), Expect = 5e-07
 Identities = 33/169 (19%), Positives = 71/169 (42%), Gaps = 28/169 (16%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
             +L  +  LV++            +  I   +E L +L+YLNL+G +I  +   L  L 
Sbjct: 40  QEELESITKLVVAG---------EKVASIQG-IEYLTNLEYLNLNGNQITDISP-LSNLV 88

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG 447
            L  L I   + + ++   +  L N+R L   +  ++  +   ++ LT + +L       
Sbjct: 89  KLTNLYIGTNK-ITDIS-ALQNLTNLRELYLNED-NISDIS-PLANLTKMYSLN------ 138

Query: 448 GVDGNNTCR----LESLKNLQLLR--ECRVEGLSNVSHVDEAERLQLYN 490
            +  N+       L ++  L  L   E +V+ ++ ++++ +   L L  
Sbjct: 139 -LGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNY 186

>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 = 47.5 bits (114), Expect = 7e-06
 Identities = 32/240 (13%), Positives = 78/240 (32%), Gaps = 69/240 (28%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           N        +  +  L YL ++  +++ +   +  L +L  L +   Q + ++   +  L
Sbjct: 142 NHNLSDLSPLSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQ-IEDIS-PLASL 198

Query: 411 KNMRSL-LN----------GDTSSLKYL---------PIGISRLTSLRTLEKFVVGGGVD 450
            ++                 + + L  L            ++ L+ L  LE       + 
Sbjct: 199 TSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLE-------IG 251

Query: 451 GNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVA 505
            N    + ++K+L  L+       ++  +S ++++ +   L L N               
Sbjct: 252 TNQISDINAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNN--------------- 296

Query: 506 DGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN----IFPKWLTLLTNLRDLNLD 561
                     N+   + +E +    N+  L++     N    I P  L  L+ +   +  
Sbjct: 297 ----------NQLGNEDMEVIGGLTNLTTLFL---SQNHITDIRP--LASLSKMDSADFA 341

>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 = 51.3 bits (123), Expect = 3e-07
 Identities = 29/123 (23%), Positives = 47/123 (38%), Gaps = 16/123 (13%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP 380
            +           L  L + +           + ++  +   L  L  L+LS  +++SLP
Sbjct: 44  YTFSLATLMPYTRLTQLNLDR---------AELTKLQVD-GTLPVLGTLDLSHNQLQSLP 93

Query: 381 ETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL-LNGDTSSLKYLPIGI-SRLTSL 437
                L  L  LD+   + L  LP G    L  ++ L L G+   LK LP G+ +    L
Sbjct: 94  LLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGN--ELKTLPPGLLTPTPKL 150

Query: 438 RTL 440
             L
Sbjct: 151 EKL 153

>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} Length = 229

 Score = 50.5 bits (121), Expect = 4e-07
 Identities = 39/126 (30%), Positives = 56/126 (44%), Gaps = 16/126 (12%)

Query: 349 DLNLIREIPENV-EKLIHLKYLNLSGLRIESLPETLC-ELYNLQKLDIRRCQDLRELPTG 406
             N I ++   V + LI+LK L L   ++ +LP  +   L  L  LD+   Q L  LP+ 
Sbjct: 48  HDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQ-LTVLPSA 106

Query: 407 I-GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE------KFVVGGGVDGNNTCRLES 459
           +  +L ++   L    + L  LP GI RLT L  L       K +  G  D     RL S
Sbjct: 107 VFDRLVHL-KELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFD-----RLSS 160

Query: 460 LKNLQL 465
           L +  L
Sbjct: 161 LTHAYL 166

>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 = 51.2 bits (123), Expect = 4e-07
 Identities = 34/158 (21%), Positives = 59/158 (37%), Gaps = 30/158 (18%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV---EKLIHLKYLNLSGLRIE 377
            S+   +F KL  L  L +S          N +               LKYL+LS   + 
Sbjct: 41  QSLPHGVFDKLTQLTKLSLSS---------NGLSFKGCCSQSDFGTTSLKYLDLSFNGVI 91

Query: 378 SLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGI-SRL 434
           ++      L  L+ LD +    L+++        ++R+L  L+   +  +    GI + L
Sbjct: 92  TMSSNFLGLEQLEHLDFQHSN-LKQMSEF-SVFLSLRNLIYLDISHTHTRVAFNGIFNGL 149

Query: 435 TSLRTLEKFVVGGGVDGNNTCR------LESLKNLQLL 466
           +SL  L+       + GN+            L+NL  L
Sbjct: 150 SSLEVLK-------MAGNSFQENFLPDIFTELRNLTFL 180

>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 = 45.0 bits (107), Expect = 3e-05
 Identities = 28/151 (18%), Positives = 53/151 (35%), Gaps = 27/151 (17%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
                 +F+ L+ L  L ++          +       ++  +L +L +L+LS  ++E L
Sbjct: 139 RVAFNGIFNGLSSLEVLKMA--------GNSFQENFLPDIFTELRNLTFLDLSQCQLEQL 190

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGI--SRL 434
                  L +LQ L++        L T     K + SL  L+   + +            
Sbjct: 191 SPTAFNSLSSLQVLNMSHNN-FFSLDTFP--YKCLNSLQVLDYSLNHIMTSKKQELQHFP 247

Query: 435 TSLRTLEKFVVGGGVDGNN---TCRLESLKN 462
           +SL  L        +  N+   TC  +S   
Sbjct: 248 SSLAFLN-------LTQNDFACTCEHQSFLQ 271

>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 = 50.0 bits (120), Expect = 4e-07
 Identities = 28/119 (23%), Positives = 50/119 (42%), Gaps = 17/119 (14%)

Query: 327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESLPETLCE 385
           +F KL  LR +  S          N I +I E   E    +  + L+  R+E++   + +
Sbjct: 52  IFKKLPQLRKINFSN---------NKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFK 102

Query: 386 -LYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL-LNGDTSSLKYLPIGI-SRLTSLRTL 440
            L +L+ L +R  + +  +       L ++R L L    + +  +  G    L SL TL
Sbjct: 103 GLESLKTLMLRSNR-ITCVGNDSFIGLSSVRLLSLY--DNQITTVAPGAFDTLHSLSTL 158

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 50.7 bits (122), Expect = 4e-07
 Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 6/94 (6%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPETLC-ELYNLQKLDIRRCQDLRELPTGI- 407
           N +  +P     +L  L+ L L+  ++++LP  +  EL NL+ L +   + L+ LP G+ 
Sbjct: 47  NKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK-LQALPIGVF 105

Query: 408 GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTL 440
            +L N+   L  D + LK LP  +   LT L  L
Sbjct: 106 DQLVNLAE-LRLDRNQLKSLPPRVFDSLTKLTYL 138

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 45.7 bits (109), Expect = 2e-05
 Identities = 33/124 (26%), Positives = 61/124 (49%), Gaps = 15/124 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            ++   +F +L  L  L + +         N ++ +P  V + L  L YL+L    ++SL
Sbjct: 98  QALPIGVFDQLVNLAELRLDR---------NQLKSLPPRVFDSLTKLTYLSLGYNELQSL 148

Query: 380 PETLCE-LYNLQKLDIRRCQDLRELPTGI-GKLKNMRSLLNGDTSSLKYLPIGI-SRLTS 436
           P+ + + L +L++L +   Q L+ +P G   KL  +++ L  D + LK +P G    L  
Sbjct: 149 PKGVFDKLTSLKELRLYNNQ-LKRVPEGAFDKLTELKT-LKLDNNQLKRVPEGAFDSLEK 206

Query: 437 LRTL 440
           L+ L
Sbjct: 207 LKML 210

>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 = 51.6 bits (123), Expect = 4e-07
 Identities = 34/220 (15%), Positives = 73/220 (33%), Gaps = 54/220 (24%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
             + +      +L  +  +  +   I+S+ + +  L N+ KL +   + L ++   +  L
Sbjct: 31  KSVTDA-VTQNELNSIDQIIANNSDIKSV-QGIQYLPNVTKLFLNGNK-LTDI-KPLTNL 86

Query: 411 KNMRSLLNGDT--SSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRE 468
           KN+  L   +     L      +  L  L++L        ++ N    +  L +L  L  
Sbjct: 87  KNLGWLFLDENKIKDLS----SLKDLKKLKSLS-------LEHNGISDINGLVHLPQLES 135

Query: 469 -----CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLL 523
                 ++  ++ +S               L  L L+  +++D                +
Sbjct: 136 LYLGNNKITDITVLS-----------RLTKLDTLSLEDNQISD----------------I 168

Query: 524 EALQPPVNVEELWIVYYGGNIFPKW--LTLLTNLRDLNLD 561
             L     ++ L++     N       L  L NL  L L 
Sbjct: 169 VPLAGLTKLQNLYL---SKNHISDLRALAGLKNLDVLELF 205

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 50.9 bits (121), Expect = 7e-07
 Identities = 27/141 (19%), Positives = 60/141 (42%), Gaps = 22/141 (15%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
            + L  L  L + +         N I+++  +++ L  LK L+L    I  +   L  L 
Sbjct: 83  LTNLKNLGWLFLDE---------NKIKDL-SSLKDLKKLKSLSLEHNGISDI-NGLVHLP 131

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG 447
            L+ L +   + + ++ T + +L  + + L+ + + +  +   ++ LT L+ L       
Sbjct: 132 QLESLYLGNNK-ITDI-TVLSRLTKLDT-LSLEDNQISDIV-PLAGLTKLQNLY------ 181

Query: 448 GVDGNNTCRLESLKNLQLLRE 468
            +  N+   L +L  L+ L  
Sbjct: 182 -LSKNHISDLRALAGLKNLDV 201

>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 = 47.0 bits (111), Expect = 1e-05
 Identities = 40/226 (17%), Positives = 66/226 (29%), Gaps = 20/226 (8%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
              L  L +L +           N I +I   + +L  L  L+L   +I  +   L  L 
Sbjct: 127 LVHLPQLESLYLGN---------NKITDI-TVLSRLTKLDTLSLEDNQISDIVP-LAGLT 175

Query: 388 NLQKLDIRRCQ--DLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKF-- 443
            LQ L + +    DLR L      LKN+  L       L       S L    T++    
Sbjct: 176 KLQNLYLSKNHISDLRAL----AGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDG 231

Query: 444 VVGGGVDGNNTCRLESLKNLQ-LLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFG 502
            +      ++    E       L              V   +    ++ +    L   + 
Sbjct: 232 SLVTPEIISDDGDYEKPNVKWHLPEFTNEVSFIFYQPVTIGKAKARFHGRVTQPLKEVYT 291

Query: 503 RVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKW 548
              D +G   + K E   ++     P          Y   N   +W
Sbjct: 292 VSYDVDGTVIKTKVEAGTRITAPKPPTKQGYVFKGWYTEKNGGHEW 337

>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 = 51.3 bits (123), Expect = 5e-07
 Identities = 40/124 (32%), Positives = 60/124 (48%), Gaps = 15/124 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            ++L+ +FS    L  L ++Q         N I +I +N    L HL  LNLS   + S+
Sbjct: 288 FALLKSVFSHFTDLEQLTLAQ---------NEINKIDDNAFWGLTHLLKLNLSQNFLGSI 338

Query: 380 PETLCE-LYNLQKLDIRRCQDLRELPTGI-GKLKNMRSLLNGDTSSLKYLPIGI-SRLTS 436
              + E L  L+ LD+     +R L       L N++  L  DT+ LK +P GI  RLTS
Sbjct: 339 DSRMFENLDKLEVLDLSYNH-IRALGDQSFLGLPNLKE-LALDTNQLKSVPDGIFDRLTS 396

Query: 437 LRTL 440
           L+ +
Sbjct: 397 LQKI 400

>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 = 26/207 (12%), Positives = 63/207 (30%), Gaps = 18/207 (8%)

Query: 315 SNPSLNSSILRELFSKLACLRALVISQ------PSPIFRPDL-------NLIREIPENVE 361
               +++    EL +    L  L +           +    L       N +  +    +
Sbjct: 152 KLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQ 211

Query: 362 KLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQ-DLRELPTGIGKLKNMRSLLNGD 420
               + +++L   ++  + + L    NL+  D+R        L     K + ++++    
Sbjct: 212 SAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQT 271

Query: 421 TSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV 480
              L         + +L     +      +       + L  L+      + G  + +  
Sbjct: 272 VKKLTGQNEEECTVPTLGHYGAYC----CEDLPAPFADRLIALKRKEHALLSGQGSETER 327

Query: 481 DEAERLQLYNKKNLLRLGLQFGRVADG 507
            E ER     ++ +  L  Q+  V D 
Sbjct: 328 LECERENQARQREIDALKEQYRTVIDQ 354

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 44.5 bits (105), Expect = 7e-05
 Identities = 20/149 (13%), Positives = 49/149 (32%), Gaps = 29/149 (19%)

Query: 324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL-PE 381
           + E+       +   ++          + +++   ++ +   ++K L+LSG  +  +   
Sbjct: 2   IHEIKQNGNRYKIEKVTD---------SSLKQALASLRQSAWNVKELDLSGNPLSQISAA 52

Query: 382 TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIG-ISRLTSLRTL 440
            L     L+ L++     L E    +  L  +R+L       L    +  +    S+ TL
Sbjct: 53  DLAPFTKLELLNLSSNV-LYETLD-LESLSTLRTL------DLNNNYVQELLVGPSIETL 104

Query: 441 EKFVVGGGVDGNN--TCRLESLKNLQLLR 467
                      NN         +  + + 
Sbjct: 105 H-------AANNNISRVSCSRGQGKKNIY 126

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 50.8 bits (122), Expect = 6e-07
 Identities = 17/96 (17%), Positives = 33/96 (34%), Gaps = 12/96 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP 380
             I+   F K+  L  L IS          N +  +    + +  LK L+LS   +  + 
Sbjct: 261 EKIMYHPFVKMQRLERLYISN---------NRLVALNLYGQPIPTLKVLDLSHNHLLHVE 311

Query: 381 ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL 416
               +   L+ L +     +  L         +++L
Sbjct: 312 RNQPQFDRLENLYLDHNS-IVTLKLST--HHTLKNL 344

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 48.9 bits (117), Expect = 2e-06
 Identities = 27/151 (17%), Positives = 48/151 (31%), Gaps = 25/151 (16%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             I    F+    ++ L +           N IR +P +V + +  L  L L    + SL
Sbjct: 82  EEIDTYAFAYAHTIQKLYMGF---------NAIRYLPPHVFQNVPLLTVLVLERNDLSSL 132

Query: 380 P-ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGISRLTS 436
           P         L  L +     L  +       +   SL  L   ++ L ++ + +  + S
Sbjct: 133 PRGIFHNTPKLTTLSMSNNN-LERIEDDT--FQATTSLQNLQLSSNRLTHVDLSL--IPS 187

Query: 437 LRTLEKFVVGGGVDGNNTCRLESLKNLQLLR 467
           L           V  N    L     ++ L 
Sbjct: 188 LFHA-------NVSYNLLSTLAIPIAVEELD 211

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 15/92 (16%), Positives = 35/92 (38%), Gaps = 6/92 (6%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGIGK 409
           N + +    +     L  ++LS   +E +      ++  L++L I   + L  L      
Sbjct: 236 NNLTDTA-WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR-LVALNLYGQP 293

Query: 410 LKNMRSL-LNGDTSSLKYLPIGISRLTSLRTL 440
           +  ++ L L+   + L ++     +   L  L
Sbjct: 294 IPTLKVLDLSH--NHLLHVERNQPQFDRLENL 323

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 20/131 (15%), Positives = 42/131 (32%), Gaps = 17/131 (12%)

Query: 314 PSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSG 373
           P  P     I   L          +  Q   ++    ++          L + K +    
Sbjct: 5   PRQPEY-KCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDI---------TLNNQKIVTFKN 54

Query: 374 LRIESLP-ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIG 430
             +  LP   L     ++ L++   Q + E+ T         ++  L    ++++YLP  
Sbjct: 55  STMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYA--FAYAHTIQKLYMGFNAIRYLPPH 111

Query: 431 I-SRLTSLRTL 440
           +   +  L  L
Sbjct: 112 VFQNVPLLTVL 122

>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 = 9e-07
 Identities = 35/209 (16%), Positives = 61/209 (29%), Gaps = 32/209 (15%)

Query: 263 EFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSS 322
           +      L + D  +          +SS     N  L L  +   GI+  +  +    S 
Sbjct: 148 KGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSL 207

Query: 323 ILREL-----------FSKLACLRALVISQ------PSPIFRP---------DL--NLIR 354
                            S +  L                +F           +L  +   
Sbjct: 208 NFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFF 267

Query: 355 EIPENV-EKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG-IGKLKN 412
            I  N       L+ L+L+   +  LP  L  L  L+KL +   +    L         +
Sbjct: 268 NISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANK-FENLCQISASNFPS 326

Query: 413 MRSL-LNGDTSSLKYLPIGISRLTSLRTL 440
           +  L + G+T  L+     +  L +LR L
Sbjct: 327 LTHLSIKGNTKRLELGTGCLENLENLREL 355

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

 Score = 45.0 bits (107), Expect = 5e-05
 Identities = 56/348 (16%), Positives = 100/348 (28%), Gaps = 74/348 (21%)

Query: 256 SFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPS 315
                 F+    +SL  +  +     +F+ +  S+  SL              I      
Sbjct: 193 GIEPGAFDSAVFQSL-NFGGTQNLLVIFKGLKNSTIQSLWL--GTFEDMDDEDISPAVFE 249

Query: 316 NPSLNS------------SILRELFSKLACLRALV-----ISQPSPIFRP-------DL- 350
                S            +I    F   + L+ L      +S+               L 
Sbjct: 250 GLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLS 309

Query: 351 -NLIREIPENV-EKLIHLKYLNLSG--LRIESLPETLCELYNLQKLDIRRCQDLRELPTG 406
            N    + +        L +L++ G   R+E     L  L NL++LD+     +      
Sbjct: 310 ANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDD-IETSDCC 368

Query: 407 IGKLKNMRSL--LNGDTSSLKYLPIGI-SRLTSLRTLEKFVVGGGVDGNNTCRLES---- 459
             +L+N+  L  LN   +    L          L  L+       +        ++    
Sbjct: 369 NLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLD-------LAFTRLKVKDAQSPF 421

Query: 460 --LKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNE 517
             L  L++L       LS+ S +D +          L  L LQ           G    +
Sbjct: 422 QNLHLLKVLN------LSH-SLLDISSEQLFDGLPALQHLNLQ-----------GNHFPK 463

Query: 518 NDEQLLEALQPPVNVEELWIVYYGGN----IFPKWLTLLTNLRDLNLD 561
            + Q   +LQ    +E L +          I     T L  +  ++L 
Sbjct: 464 GNIQKTNSLQTLGRLEILVL---SFCDLSSIDQHAFTSLKMMNHVDLS 508

>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 = 44.6 bits (106), Expect = 6e-05
 Identities = 21/125 (16%), Positives = 42/125 (33%), Gaps = 17/125 (13%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            +I    FS+L  L  L +++           I  I E+  +    L  L L+   +  +
Sbjct: 46  PTIQNTTFSRLINLTFLDLTR---------CQIYWIHEDTFQSQHRLDTLVLTANPLIFM 96

Query: 380 P-ETLCELYNLQKLDIRRCQDLRELPTG-IGKLKNMRSL-LNGDTSSLKYLPIG-ISRLT 435
               L     L+ L   +   +  +    +   K + SL L    + +  + +       
Sbjct: 97  AETALSGPKALKHLFFIQTG-ISSIDFIPLHNQKTLESLYLGS--NHISSIKLPKGFPTE 153

Query: 436 SLRTL 440
            L+ L
Sbjct: 154 KLKVL 158

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

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 17/95 (17%), Positives = 38/95 (40%), Gaps = 8/95 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTGIG 408
           N++  I      +LI+L +L+L+  +I  +  +T    + L  L +     L  +     
Sbjct: 43  NVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP-LIFMAETA- 100

Query: 409 KLKNMRSL--LNGDTSSLKYLPIG-ISRLTSLRTL 440
            L   ++L  L    + +  +    +    +L +L
Sbjct: 101 -LSGPKALKHLFFIQTGISSIDFIPLHNQKTLESL 134

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

 Score = 50.5 bits (121), Expect = 9e-07
 Identities = 30/126 (23%), Positives = 50/126 (39%), Gaps = 18/126 (14%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             +    F     L+ L +S+           I+ I +   + L HL  L L+G  I+SL
Sbjct: 41  RHLGSYSFFSFPELQVLDLSR---------CEIQTIEDGAYQSLSHLSTLILTGNPIQSL 91

Query: 380 P-ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIG--ISRL 434
                  L +LQKL       L  L      + ++++L  LN   + ++   +    S L
Sbjct: 92  ALGAFSGLSSLQKLVAVETN-LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNL 148

Query: 435 TSLRTL 440
           T+L  L
Sbjct: 149 TNLEHL 154

>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 = 1e-05
 Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 5/94 (5%)

Query: 350 LNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGK 409
           L+      ++      LKYL+LS   + ++      L  L+ LD +    L+++      
Sbjct: 359 LSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSN-LKQMSEF-SV 416

Query: 410 LKNMRSLLNGDTSS--LKYLPIGI-SRLTSLRTL 440
             ++R+L+  D S    +    GI + L+SL  L
Sbjct: 417 FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVL 450

>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 = 4e-04
 Identities = 26/92 (28%), Positives = 45/92 (48%), Gaps = 9/92 (9%)

Query: 353 IREIPENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPTG-IGKL 410
             +IP+N+      K L+LS   +  L          LQ LD+ RC+ ++ +  G    L
Sbjct: 19  FYKIPDNLPF--STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSL 75

Query: 411 KNMRSL-LNGDTSSLKYLPIGI-SRLTSLRTL 440
            ++ +L L G  + ++ L +G  S L+SL+ L
Sbjct: 76  SHLSTLILTG--NPIQSLALGAFSGLSSLQKL 105

>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 = 50.5 bits (121), Expect = 1e-06
 Identities = 29/157 (18%), Positives = 58/157 (36%), Gaps = 27/157 (17%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           + I        A L+ L++           + I  I  +    L  L++L+LS   + SL
Sbjct: 39  TYIGHGDLRACANLQVLILKS---------SRINTIEGDAFYSLGSLEHLDLSDNHLSSL 89

Query: 380 P-ETLCELYNLQKLDIRRCQDLRELPTG--IGKLKNMRSLLNGDTSSLKYLPIG-ISRLT 435
                  L +L+ L++      + L        L N+++L  G+  +   +     + LT
Sbjct: 90  SSSWFGPLSSLKYLNLMGNP-YQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLT 148

Query: 436 SLRTLEKFVVGGGVDGNNTCRLE-----SLKNLQLLR 467
           SL  LE       +   +    +     S++++  L 
Sbjct: 149 SLNELE-------IKALSLRNYQSQSLKSIRDIHHLT 178

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

 Score = 49.3 bits (118), Expect = 2e-06
 Identities = 40/251 (15%), Positives = 78/251 (31%), Gaps = 47/251 (18%)

Query: 225 LWVEINGTKELVINFFG--EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYN--- 279
           L + ++ +  L+  F      VR++ L     A F  S    D + S +       +   
Sbjct: 177 LTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLT 236

Query: 280 PSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVI 339
              F  +     Y L  + +        G+ D    NPS +  +      +   +R L I
Sbjct: 237 DESFNELLKLLRYILELSEVEFDDCTLNGLGD---FNPSESDVVSELGKVETVTIRRLHI 293

Query: 340 SQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESLPETLCE-LYNLQKLDIRRC 397
            Q           +      V   L  +K + +   ++  +P +  + L +L+ LD+   
Sbjct: 294 PQ---------FYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSEN 344

Query: 398 Q--------------------------DLRELPTGIGKLKNMRSLLNGDTS--SLKYLPI 429
                                       LR +      L  +++L + D S  +   +P 
Sbjct: 345 LMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPD 404

Query: 430 GISRLTSLRTL 440
                  +R L
Sbjct: 405 SCQWPEKMRFL 415

>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 = 45.9 bits (109), Expect = 3e-05
 Identities = 36/251 (14%), Positives = 76/251 (30%), Gaps = 42/251 (16%)

Query: 315 SNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSG 373
                 +  +  LF  L  L+ L I         ++    EI       L  L  L +  
Sbjct: 106 MGNPYQTLGVTSLFPNLTNLQTLRIG--------NVETFSEIRRIDFAGLTSLNELEIKA 157

Query: 374 LRIESL-PETLCELYNLQKLDIRRCQDLRELPTGIGK-LKNMRSLLNGDTSSLKYLPIGI 431
           L + +   ++L  + ++  L +   +    L       L ++R L       L+   +  
Sbjct: 158 LSLRNYQSQSLKSIRDIHHLTLHLSE-SAFLLEIFADILSSVRYL------ELRDTNLAR 210

Query: 432 SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNK 491
            + + L   E           +  +  + +   L  E   E L  + ++ E   ++    
Sbjct: 211 FQFSPLPVDEVS---------SPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFD-- 259

Query: 492 KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVY-YGGNIFPKWLT 550
            +    GL                +E+D          V +  L I   Y         +
Sbjct: 260 -DCTLNGLGD-----------FNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYS 307

Query: 551 LLTNLRDLNLD 561
           LL  ++ + ++
Sbjct: 308 LLEKVKRITVE 318

>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 = 45.5 bits (108), Expect = 3e-05
 Identities = 24/116 (20%), Positives = 46/116 (39%), Gaps = 20/116 (17%)

Query: 327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENVE---KLIHLKYLNLSGLRIESLPETL 383
                  L+ LV+SQ         N +R + +  E    L +L  L++S      +P++ 
Sbjct: 356 CKGAWPSLQTLVLSQ---------NHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSC 406

Query: 384 CELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSS--LKYLPIGISRLTSL 437
                ++ L++     +R + T I   + +  L   D S+  L    + + RL  L
Sbjct: 407 QWPEKMRFLNLSSTG-IRVVKTCI--PQTLEVL---DVSNNNLDSFSLFLPRLQEL 456

>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 = 50.3 bits (120), Expect = 1e-06
 Identities = 27/151 (17%), Positives = 48/151 (31%), Gaps = 25/151 (16%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             I    F+    ++ L +           N IR +P +V + +  L  L L    + SL
Sbjct: 88  EEIDTYAFAYAHTIQKLYMGF---------NAIRYLPPHVFQNVPLLTVLVLERNDLSSL 138

Query: 380 P-ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGISRLTS 436
           P         L  L +     L  +       +   SL  L   ++ L ++ + +  + S
Sbjct: 139 PRGIFHNTPKLTTLSMSNNN-LERIEDDT--FQATTSLQNLQLSSNRLTHVDLSL--IPS 193

Query: 437 LRTLEKFVVGGGVDGNNTCRLESLKNLQLLR 467
           L           V  N    L     ++ L 
Sbjct: 194 LFHA-------NVSYNLLSTLAIPIAVEELD 217

>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 = 48.8 bits (116), Expect = 3e-06
 Identities = 17/96 (17%), Positives = 34/96 (35%), Gaps = 12/96 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP 380
             I+   F K+  L  L IS          N +  +    + +  LK L+LS   +  + 
Sbjct: 267 EKIMYHPFVKMQRLERLYISN---------NRLVALNLYGQPIPTLKVLDLSHNHLLHVE 317

Query: 381 ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL 416
               +   L+ L +     +  L   +     +++L
Sbjct: 318 RNQPQFDRLENLYLDHNS-IVTLK--LSTHHTLKNL 350

>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 = 47.6 bits (113), Expect = 8e-06
 Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 8/95 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELPTGIG 408
           + +R++P  + +    ++ LNL+ L+IE +        + +QKL +     +R LP  + 
Sbjct: 61  STMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHV- 118

Query: 409 KLKNMRSL--LNGDTSSLKYLPIGI-SRLTSLRTL 440
             +N+  L  L  + + L  LP GI      L TL
Sbjct: 119 -FQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTL 152

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

 Score = 50.0 bits (120), Expect = 1e-06
 Identities = 52/261 (19%), Positives = 96/261 (36%), Gaps = 67/261 (25%)

Query: 334 LRALVISQPSPI--FRPDLNLIREI-----------PENVEKLIHLKYLNLSGLRIESLP 380
           L +  I+Q +PI     D  L  ++             +   L  +  L    L I+S+ 
Sbjct: 3   LGSATITQDTPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSID 62

Query: 381 ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNGDTSSLKYLPIGISRLTSLRT 439
             +  L NL +++    Q L ++   +  L  +  + +N   + +  +   ++ LT+L  
Sbjct: 63  G-VEYLNNLTQINFSNNQ-LTDIT-PLKNLTKLVDILMNN--NQIADIT-PLANLTNLTG 116

Query: 440 LEKFVVGGGVDGNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQLYNK--- 491
           L        +  N    ++ LKNL  L         +  +S +S +   ++L   N+   
Sbjct: 117 LT-------LFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTD 169

Query: 492 -------KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN- 543
                    L RL +   +V+D                +  L    N+E L       N 
Sbjct: 170 LKPLANLTTLERLDISSNKVSD----------------ISVLAKLTNLESLIA---TNNQ 210

Query: 544 ---IFPKWLTLLTNLRDLNLD 561
              I P  L +LTNL +L+L+
Sbjct: 211 ISDITP--LGILTNLDELSLN 229

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

 Score = 49.2 bits (118), Expect = 2e-06
 Identities = 49/252 (19%), Positives = 93/252 (36%), Gaps = 60/252 (23%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
            S L  L+ L             N + ++ + +  L  L+ L++S  ++  +   L +L 
Sbjct: 152 LSGLTSLQQLSFG----------NQVTDL-KPLANLTTLERLDISSNKVSDISV-LAKLT 199

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG 447
           NL+ L     Q + ++   +G L N+  L + + + LK +   ++ LT+L  L+      
Sbjct: 200 NLESLIATNNQ-ISDIT-PLGILTNLDEL-SLNGNQLKDIG-TLASLTNLTDLD------ 249

Query: 448 GVDGNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQLY-----------NK 491
            +  N    L  L  L  L E      ++  +S ++ +     L+L            N 
Sbjct: 250 -LANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNL 308

Query: 492 KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIF--PKWL 549
           KNL  L L F  ++D                +  +     ++ L+      N       L
Sbjct: 309 KNLTYLTLYFNNISD----------------ISPVSSLTKLQRLFF---YNNKVSDVSSL 349

Query: 550 TLLTNLRDLNLD 561
             LTN+  L+  
Sbjct: 350 ANLTNINWLSAG 361

>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 = 47.7 bits (114), Expect = 7e-06
 Identities = 42/243 (17%), Positives = 83/243 (34%), Gaps = 64/243 (26%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
              L  L  ++++          N I +I   +  L +L  L L   +I  +   L  L 
Sbjct: 86  LKNLTKLVDILMNN---------NQIADIT-PLANLTNLTGLTLFNNQITDID-PLKNLT 134

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG 447
           NL +L++     + ++   +  L +++ L  G+  +       ++ LT+L  L+      
Sbjct: 135 NLNRLELSSNT-ISDIS-ALSGLTSLQQLSFGNQVTD---LKPLANLTTLERLD------ 183

Query: 448 GVDGNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFG 502
            +  N    +  L  L  L        ++  ++ +               NL  L L   
Sbjct: 184 -ISSNKVSDISVLAKLTNLESLIATNNQISDITPLG-----------ILTNLDELSLNGN 231

Query: 503 RVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN----IFPKWLTLLTNLRDL 558
           ++ D                +  L    N+ +L +     N    + P  L+ LT L +L
Sbjct: 232 QLKD----------------IGTLASLTNLTDLDL---ANNQISNLAP--LSGLTKLTEL 270

Query: 559 NLD 561
            L 
Sbjct: 271 KLG 273

>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 = 46.1 bits (110), Expect = 2e-05
 Identities = 17/113 (15%), Positives = 36/113 (31%), Gaps = 13/113 (11%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
            S L  L+ L             N + ++   +  L ++ +L+    +I  L   L  L 
Sbjct: 327 VSSLTKLQRLFFYN---------NKVSDVSS-LANLTNINWLSAGHNQISDLTP-LANLT 375

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTL 440
            + +L +         P       ++ + +  + +     P  IS   S    
Sbjct: 376 RITQLGLNDQA-WTNAPVNYKANVSIPNTVK-NVTGALIAPATISDGGSYTEP 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 = 43.4 bits (103), Expect = 2e-04
 Identities = 26/142 (18%), Positives = 49/142 (34%), Gaps = 24/142 (16%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
            S L  L  L +           N I  I   +  L  L  L L+  ++E +   +  L 
Sbjct: 261 LSGLTKLTELKLGA---------NQISNIS-PLAGLTALTNLELNENQLEDISP-ISNLK 309

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNGDTSSLKYLPIGISRLTSLRTLEKFVVG 446
           NL  L +     + ++   +  L  ++ L      + +  +   ++ LT++  L      
Sbjct: 310 NLTYLTLYFNN-ISDIS-PVSSLTKLQRLFFYN--NKVSDVS-SLANLTNINWLS----- 359

Query: 447 GGVDGNNTCRLESLKNLQLLRE 468
                N    L  L NL  + +
Sbjct: 360 --AGHNQISDLTPLANLTRITQ 379

>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 = 48.1 bits (115), Expect = 2e-06
 Identities = 30/124 (24%), Positives = 50/124 (40%), Gaps = 15/124 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             I    FS    LR + +S          N I E+  +  + L  L  L L G +I  L
Sbjct: 45  KVIPPGAFSPYKKLRRIDLSN---------NQISELAPDAFQGLRSLNSLVLYGNKITEL 95

Query: 380 P-ETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSLLNGDTSSLKYLPIGI-SRLTS 436
           P      L++LQ L +   + +  L       L N+   L+   + L+ +  G  S L +
Sbjct: 96  PKSLFEGLFSLQLLLLNANK-INCLRVDAFQDLHNLNL-LSLYDNKLQTIAKGTFSPLRA 153

Query: 437 LRTL 440
           ++T+
Sbjct: 154 IQTM 157

>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 = 47.9 bits (114), Expect = 4e-06
 Identities = 38/181 (20%), Positives = 57/181 (31%), Gaps = 33/181 (18%)

Query: 321 SSILRELFSKLACLRALVISQ------PSPIFRPDLNL----------IREIPENV-EKL 363
             I  E F  L  L+ L+IS       P       L            I  I  N    L
Sbjct: 93  LYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGL 152

Query: 364 -IHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSLLNGDT 421
                 L L+   I+ +  +      L +L++    +L ELP  +         +L+   
Sbjct: 153 SFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPV-ILDISR 211

Query: 422 SSLKYLPIGI-SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV 480
           + +  LP      L  LR              N  +L +L+ L  L E     L+  SH 
Sbjct: 212 TRIHSLPSYGLENLKKLRAR---------STYNLKKLPTLEKLVALMEAS---LTYPSHC 259

Query: 481 D 481
            
Sbjct: 260 C 260

>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 = 46.7 bits (111), Expect = 1e-05
 Identities = 14/93 (15%), Positives = 37/93 (39%), Gaps = 5/93 (5%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGI-G 408
           + + EIP ++    +   L     ++  + +       +L+K++I +   L  +   +  
Sbjct: 19  SKVTEIPSDL--PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFS 76

Query: 409 KLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTL 440
            L  +  +     ++L Y+       L +L+ L
Sbjct: 77  NLPKLHEIRIEKANNLLYINPEAFQNLPNLQYL 109

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

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 15/97 (15%), Positives = 35/97 (36%), Gaps = 8/97 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESL--PETLCELYNLQKLDIRRCQDLRELPTGI 407
             +R I +        L+ + +S   +  +   +    L  L ++ I +  +L  +    
Sbjct: 40  TKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEA 99

Query: 408 GKLKNMRSL--LNGDTSSLKYLPIGI-SRLTSLRTLE 441
              +N+ +L  L    + +K+LP            L+
Sbjct: 100 --FQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLD 134

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 47.3 bits (113), Expect = 5e-06
 Identities = 27/146 (18%), Positives = 49/146 (33%), Gaps = 21/146 (14%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
             I ++      L +    NL    +  L  +  EL  +Q  +      ++ L  G+   
Sbjct: 7   TPINQV-FPDPGLANAVKQNLGKQSVTDL-VSQKELSGVQNFNGDNSN-IQSL-AGMQFF 62

Query: 411 KNMRSLL--NGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQL--- 465
            N++ L   +   S L      +  LT L  L        V+ N    L  + +  L   
Sbjct: 63  TNLKELHLSHNQISDLS----PLKDLTKLEELS-------VNRNRLKNLNGIPSACLSRL 111

Query: 466 -LRECRVEGLSNVSHVDEAERLQLYN 490
            L    +    ++ H+   E L + N
Sbjct: 112 FLDNNELRDTDSLIHLKNLEILSIRN 137

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 29/169 (17%), Positives = 58/169 (34%), Gaps = 40/169 (23%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQ----------DL 400
           + I+ +   ++   +LK L+LS  +I  L   L +L  L++L + R +           L
Sbjct: 51  SNIQSL-AGMQFFTNLKELHLSHNQISDL-SPLKDLTKLEELSVNRNRLKNLNGIPSACL 108

Query: 401 REL---------PTGIGKLKNMRSLLNGDTSSLKYLPI----GISRLTSLRTLEKFVVGG 447
             L            +  LKN+  L      S++   +     +  L+ L  L+      
Sbjct: 109 SRLFLDNNELRDTDSLIHLKNLEIL------SIRNNKLKSIVMLGFLSKLEVLD------ 156

Query: 448 GVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLR 496
            + GN       L  L+ +    + G       +  +        N ++
Sbjct: 157 -LHGNEITNTGGLTRLKKVNWIDLTG--QKCVNEPVKYQPELYITNTVK 202

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 47.9 bits (114), Expect = 6e-06
 Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 8/94 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPETLCE-LYNLQKLDIRRCQDLRELPTGIG 408
           N I E+  +    L  L+ L +S  RI+ L  ++ +    L+ LD+   + L ++     
Sbjct: 31  NYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK-LVKIS--CH 87

Query: 409 KLKNMRSLLNGDTSSLKYLPIG--ISRLTSLRTL 440
              N++  L+   ++   LPI      ++ L+ L
Sbjct: 88  PTVNLK-HLDLSFNAFDALPICKEFGNMSQLKFL 120

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 35/178 (19%), Positives = 60/178 (33%), Gaps = 46/178 (25%)

Query: 320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIES 378
              +     SK++    L  S          NL+ +        L  L+ L L   +++ 
Sbjct: 312 TRMVHMLCPSKISPFLHLDFSN---------NLLTDTVFENCGHLTELETLILQMNQLKE 362

Query: 379 LPET---LCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSLLNGD-----------TSS 423
           L +      ++ +LQ+LDI +     +   G     K++ SL                  
Sbjct: 363 LSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPR 422

Query: 424 LKYL----------PIGISRLTSLRTLE------KFVVGGGVDGNNTCRLESLKNLQL 465
           +K L          P  + +L +L+ L       K V  G  D     RL SL+ + L
Sbjct: 423 IKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLKSVPDGIFD-----RLTSLQKIWL 475

>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 = 45.8 bits (109), Expect = 8e-06
 Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 5/95 (5%)

Query: 349 DLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLC-ELYNLQKLDIRRCQDLRELPTGI 407
           D N    +P+ +    HL  ++LS  RI +L       +  L  L +   + LR +P   
Sbjct: 39  DGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNR-LRCIPPRT 97

Query: 408 -GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTL 440
              LK++R LL+   + +  +P G  + L++L  L
Sbjct: 98  FDGLKSLR-LLSLHGNDISVVPEGAFNDLSALSHL 131

>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 = 40.0 bits (94), Expect = 8e-04
 Identities = 29/142 (20%), Positives = 52/142 (36%), Gaps = 28/142 (19%)

Query: 356 IPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMR 414
           IP +V +L       L G +   +P+ L    +L  +D+   + +  L       +  + 
Sbjct: 29  IPRDVTEL------YLDGNQFTLVPKELSNYKHLTLIDLSNNR-ISTLSNQSFSNMTQL- 80

Query: 415 SLLNGDTSSLKYLPIGI-SRLTSLRTLE------KFVVGGGVDGNNTCRLESLKNLQLLR 467
             L    + L+ +P      L SLR L         V  G  +      L +L +L +  
Sbjct: 81  LTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFN-----DLSALSHLAIGA 135

Query: 468 -----ECRVEGLSN--VSHVDE 482
                +C ++ LS+   S   E
Sbjct: 136 NPLYCDCNMQWLSDWVKSEYKE 157

>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 = 45.4 bits (108), Expect = 1e-05
 Identities = 35/161 (21%), Positives = 63/161 (39%), Gaps = 32/161 (19%)

Query: 349 DLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIG 408
            +  I ++   +  L   K+L LS   IE +  +L  + NL+ L + R          I 
Sbjct: 33  MIPPIEKMDATLSTLKACKHLALSTNNIEKI-SSLSGMENLRILSLGRNL--------IK 83

Query: 409 KLKNMRSLLNGDTSSLKYLPI---------GISRLTSLRTLEKFVVGGGVDGN---NTCR 456
           K++N+ ++ +    +L+ L I         GI +L +LR L        +  N   N   
Sbjct: 84  KIENLDAVAD----TLEELWISYNQIASLSGIEKLVNLRVLY-------MSNNKITNWGE 132

Query: 457 LESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRL 497
           ++ L  L  L +  + G    +   E      Y  + + RL
Sbjct: 133 IDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRL 173

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 46.2 bits (110), Expect = 2e-05
 Identities = 33/174 (18%), Positives = 64/174 (36%), Gaps = 38/174 (21%)

Query: 339 ISQPSPIFR--PDLNLIREI-----------PENVEKLIHLKYLNLSGLRIESLPETLCE 385
           I+QP+ I    PD  L   I                 L  +  L+  G  + ++ E +  
Sbjct: 3   ITQPTAINVIFPDPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTI-EGVQY 61

Query: 386 LYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPI----GISRLTSLRTLE 441
           L NL  L+++  Q + +L   +  L  +  L       L   P+     I+ L S++TL+
Sbjct: 62  LNNLIGLELKDNQ-ITDLA-PLKNLTKITEL------ELSGNPLKNVSAIAGLQSIKTLD 113

Query: 442 KFVVGGGVDGNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQLYN 490
                  +       +  L  L  L+       ++  +S ++ +   + L + N
Sbjct: 114 -------LTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGN 160

>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 = 45.8 bits (109), Expect = 2e-05
 Identities = 31/165 (18%), Positives = 66/165 (40%), Gaps = 36/165 (21%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           N I ++   ++ L  +  L LSG  ++++   +  L +++ LD+   Q + ++   +  L
Sbjct: 73  NQITDL-APLKNLTKITELELSGNPLKNV-SAIAGLQSIKTLDLTSTQ-ITDVT-PLAGL 128

Query: 411 KNMRSL-LNG----DTSSLKYLP---------------IGISRLTSLRTLEKFVVGGGVD 450
            N++ L L+     + S L  L                  ++ L+ L TL+        D
Sbjct: 129 SNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLK-------AD 181

Query: 451 GNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQLYN 490
            N    +  L +L  L E      ++  +S +++      + L N
Sbjct: 182 DNKISDISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTN 226

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 45.8 bits (109), Expect = 2e-05
 Identities = 30/168 (17%), Positives = 66/168 (39%), Gaps = 27/168 (16%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
            + L  +  L               +  I E V+ L +L  L L   +I  L   L  L 
Sbjct: 37  QADLDGITTLSAFG---------TGVTTI-EGVQYLNNLIGLELKDNQITDLAP-LKNLT 85

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG 447
            + +L++     L+ +   I  L+++++L    T  +  +   ++ L++L+ L       
Sbjct: 86  KITELELSGNP-LKNVS-AIAGLQSIKTLDLTST-QITDVT-PLAGLSNLQVLY------ 135

Query: 448 GVDGNNTCRLESLKNLQLLRE-----CRVEGLSNVSHVDEAERLQLYN 490
            +D N    +  L  L  L+       +V  L+ ++++ +   L+  +
Sbjct: 136 -LDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADD 182

>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 = 46.6 bits (111), Expect = 2e-05
 Identities = 29/171 (16%), Positives = 55/171 (32%), Gaps = 20/171 (11%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIES- 378
            S     FS L  L  LV  +           +  +      +LI LK LN++   I S 
Sbjct: 93  QSFSPGSFSGLTSLENLVAVE---------TKLASLESFPIGQLITLKKLNVAHNFIHSC 143

Query: 379 -LPETLCELYNLQKLDIRRCQDLRELPTG-IGKLKNMRSL---LNGDTSSLKYLPIGISR 433
            LP     L NL  +D+     ++ +    +  L+    +   L+   + + ++     +
Sbjct: 144 KLPAYFSNLTNLVHVDLSYNY-IQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQ 202

Query: 434 LTSLRTLE--KFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDE 482
              L  L          +       L  L   +L+     +   N+   + 
Sbjct: 203 GIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILG-EFKDERNLEIFEP 252

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 29/129 (22%), Positives = 45/129 (34%), Gaps = 17/129 (13%)

Query: 318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV---EKLIHLKYLNLSGL 374
           ++N   +      L  L  L +S+         N +               L++L+LS  
Sbjct: 336 TMNKGSISFKKVALPSLSYLDLSR---------NALSFSGCCSYSDLGTNSLRHLDLSFN 386

Query: 375 RIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTS--SLKYLPIGI- 431
               +      L  LQ LD +    L+ +        ++  LL  D S  + K    GI 
Sbjct: 387 GAIIMSANFMGLEELQHLDFQHST-LKRVTE-FSAFLSLEKLLYLDISYTNTKIDFDGIF 444

Query: 432 SRLTSLRTL 440
             LTSL TL
Sbjct: 445 LGLTSLNTL 453

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 14/101 (13%)

Query: 318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRI 376
           S   + L  +F+    L  L +S+           + +I   V + L  L+ LN+S   +
Sbjct: 459 SFKDNTLSNVFANTTNLTFLDLSK---------CQLEQISWGVFDTLHRLQLLNMSHNNL 509

Query: 377 ESLP-ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL 416
             L      +LY+L  LD    + +      +      +SL
Sbjct: 510 LFLDSSHYNQLYSLSTLDCSFNR-IETSKGIL--QHFPKSL 547

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 42.3 bits (100), Expect = 4e-04
 Identities = 47/341 (13%), Positives = 82/341 (24%), Gaps = 78/341 (22%)

Query: 250 NFQRGASFPMSFFEFDRLRSL---LIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPG 306
           NF               L      L       N  +F+   +     +      L     
Sbjct: 214 NFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRL----- 268

Query: 307 LGIDDESPSNPSLNSSILRELFSKLACLRALVISQ------PSPIFRPDL-------NLI 353
                      + + S     F  LA + A+ ++                         +
Sbjct: 269 ---------TYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQL 319

Query: 354 REIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNM 413
           ++ P     L  LK L L+  +  S+      L +L  LD+ R   L             
Sbjct: 320 KQFPTL--DLPFLKSLTLTMNKG-SISFKKVALPSLSYLDLSRNA-LSFSGCCSYSDLGT 375

Query: 414 RSL--LNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNN------TCRLESLKNLQL 465
            SL  L+   +    +      L  L+ L+          +            SL+ L  
Sbjct: 376 NSLRHLDLSFNGAIIMSANFMGLEELQHLD-------FQHSTLKRVTEFSAFLSLEKLLY 428

Query: 466 LRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLL-E 524
           L       +S  ++             +L  L +                N   +  L  
Sbjct: 429 LD------ISY-TNTKIDFDGIFLGLTSLNTLKMAG--------------NSFKDNTLSN 467

Query: 525 ALQPPVNVEELWIVYYGGN----IFPKWLTLLTNLRDLNLD 561
                 N+  L +          I       L  L+ LN+ 
Sbjct: 468 VFANTTNLTFLDL---SKCQLEQISWGVFDTLHRLQLLNMS 505

>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 = 41.9 bits (99), Expect = 5e-04
 Identities = 19/95 (20%), Positives = 40/95 (42%), Gaps = 8/95 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTG-I 407
           N ++ +          L++L+LS   IE++  +    L++L  L +     ++    G  
Sbjct: 42  NPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP-IQSFSPGSF 100

Query: 408 GKLKNMRSL-LNGDTSSLKYLPIG-ISRLTSLRTL 440
             L ++ +L      + L  L    I +L +L+ L
Sbjct: 101 SGLTSLENLVAVE--TKLASLESFPIGQLITLKKL 133

>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 = 41.2 bits (97), Expect = 8e-04
 Identities = 27/162 (16%), Positives = 53/162 (32%), Gaps = 21/162 (12%)

Query: 318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-----EKLIHLKYLNLS 372
            ++S  L   FS L  L  + +S          N I+ I  N      E       L++S
Sbjct: 139 FIHSCKLPAYFSNLTNLVHVDLSY---------NYIQTITVNDLQFLRENPQVNLSLDMS 189

Query: 373 GLRIESLPETLCELYNLQKLDIRRCQDLRELP-TGIGKLKNMRSL-----LNGDTSSLKY 426
              I+ + +   +   L +L +R   +   +  T +  L  +           D  +L+ 
Sbjct: 190 LNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEI 249

Query: 427 LPIGI-SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR 467
               I   L  +   E  +       ++  +   L N+  + 
Sbjct: 250 FEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMS 291

>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 = 46.4 bits (111), Expect = 2e-05
 Identities = 28/126 (22%), Positives = 50/126 (39%), Gaps = 27/126 (21%)

Query: 355 EIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLR-ELPTGIGKLKN 412
            IP ++  L  L+ L L    +E  +P+ L  +  L+ L +     L  E+P+G+    N
Sbjct: 433 TIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFND-LTGEIPSGLSNCTN 491

Query: 413 MRSL------LNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNN-----TCRLESLK 461
           +  +      L G+      +P  I RL +L  L+       +  N+        L   +
Sbjct: 492 LNWISLSNNRLTGE------IPKWIGRLENLAILK-------LSNNSFSGNIPAELGDCR 538

Query: 462 NLQLLR 467
           +L  L 
Sbjct: 539 SLIWLD 544

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 42.2 bits (100), Expect = 4e-04
 Identities = 28/150 (18%), Positives = 52/150 (34%), Gaps = 34/150 (22%)

Query: 318 SLNSSILRELFSKLACLRALVISQ-------PSPIFRPDLNLIR----------EIPENV 360
           + +  +  +   K+  L+ L +S        P  +     +L+            I  N+
Sbjct: 329 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNL 388

Query: 361 EK--LIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLR-ELPTGIGKLKNMRSL 416
            +     L+ L L        +P TL     L  L +     L   +P+ +G L  +R L
Sbjct: 389 CQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNY-LSGTIPSSLGSLSKLRDL 447

Query: 417 ------LNGDTSSLKYLPIGISRLTSLRTL 440
                 L G+      +P  +  + +L TL
Sbjct: 448 KLWLNMLEGE------IPQELMYVKTLETL 471

>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 = 45.8 bits (109), Expect = 2e-05
 Identities = 25/145 (17%), Positives = 61/145 (42%), Gaps = 18/145 (12%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           + I+ + + ++ L ++  L L+G ++  + + L  L NL  L +   + +++L + +  L
Sbjct: 56  SDIKSV-QGIQYLPNVTKLFLNGNKLTDI-KPLANLKNLGWLFLDENK-VKDL-SSLKDL 111

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRE-- 468
           K ++SL       +  +  G+  L  L +L        +  N    +  L  L  L    
Sbjct: 112 KKLKSLSLEHN-GISDIN-GLVHLPQLESLY-------LGNNKITDITVLSRLTKLDTLS 162

Query: 469 ---CRVEGLSNVSHVDEAERLQLYN 490
               ++  +  ++ + + + L L  
Sbjct: 163 LEDNQISDIVPLAGLTKLQNLYLSK 187

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 44.7 bits (106), Expect = 4e-05
 Identities = 34/220 (15%), Positives = 73/220 (33%), Gaps = 54/220 (24%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
             + +      +L  +  +  +   I+S+ + +  L N+ KL +   + L ++   +  L
Sbjct: 34  KSVTDA-VTQNELNSIDQIIANNSDIKSV-QGIQYLPNVTKLFLNGNK-LTDI-KPLANL 89

Query: 411 KNMRSLLNGDT--SSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRE 468
           KN+  L   +     L      +  L  L++L        ++ N    +  L +L  L  
Sbjct: 90  KNLGWLFLDENKVKDLS----SLKDLKKLKSLS-------LEHNGISDINGLVHLPQLES 138

Query: 469 -----CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLL 523
                 ++  ++ +S               L  L L+  +++D                +
Sbjct: 139 LYLGNNKITDITVLS-----------RLTKLDTLSLEDNQISD----------------I 171

Query: 524 EALQPPVNVEELWIVYYGGNIFPKW--LTLLTNLRDLNLD 561
             L     ++ L++     N       L  L NL  L L 
Sbjct: 172 VPLAGLTKLQNLYL---SKNHISDLRALAGLKNLDVLELF 208

>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 = 42.0 bits (99), Expect = 3e-04
 Identities = 27/147 (18%), Positives = 60/147 (40%), Gaps = 24/147 (16%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY 387
            + L  L  L + +         N ++++  +++ L  LK L+L    I  +   L  L 
Sbjct: 86  LANLKNLGWLFLDE---------NKVKDL-SSLKDLKKLKSLSLEHNGISDI-NGLVHLP 134

Query: 388 NLQKLDIRRCQDLRELPTGIGKLKNMRSL-LNGDTSSLKYLPIGISRLTSLRTLEKFVVG 446
            L+ L +   + + ++ T + +L  + +L L    + +  +   ++ LT L+ L      
Sbjct: 135 QLESLYLGNNK-ITDI-TVLSRLTKLDTLSLED--NQISDIV-PLAGLTKLQNLY----- 184

Query: 447 GGVDGNNTCRLESLKNLQLLRECRVEG 473
             +  N+   L +L  L+ L    +  
Sbjct: 185 --LSKNHISDLRALAGLKNLDVLELFS 209

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

 Score = 45.0 bits (107), Expect = 4e-05
 Identities = 20/130 (15%), Positives = 40/130 (30%), Gaps = 20/130 (15%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
            +I  E   + + L  L +           N IR I       L  L+ L+L   ++  +
Sbjct: 206 QAIELEDLLRYSKLYRLGLGH---------NQIRMIENGSLSFLPTLRELHLDNNKLSRV 256

Query: 380 PETLCELYNLQKLDIRRCQDLRELPTGI-------GKLKNMRSL-LNGDTSSLKYLPIGI 431
           P  L +L  LQ + +     + ++            K      + L  +      +    
Sbjct: 257 PAGLPDLKLLQVVYLHTNN-ITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPAT 315

Query: 432 -SRLTSLRTL 440
              +T    +
Sbjct: 316 FRCVTDRLAI 325

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

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 14/98 (14%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           S + ++ F  L  L ALV+           N I +I E     L  L+ L +S   +  +
Sbjct: 67  SELRKDDFKGLQHLYALVLVN---------NKISKIHEKAFSPLRKLQKLYISKNHLVEI 117

Query: 380 PETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL 416
           P  L    +L +L I   + +R++P G+   L+NM  +
Sbjct: 118 PPNL--PSSLVELRIHDNR-IRKVPKGVFSGLRNMNCI 152

>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 = 4e-05
 Identities = 32/167 (19%), Positives = 54/167 (32%), Gaps = 25/167 (14%)

Query: 315 SNPSLNSSILRELFSKLAC--LRALVISQPSPIFRPDLNLIREIPENV---EKLIHLKYL 369
           +N  L  S+  +L  +LA   +R L +S          + +           K  +L  L
Sbjct: 203 NNVQLGPSLTEKLCLELANTSIRNLSLSN---------SQLSTTSNTTFLGLKWTNLTML 253

Query: 370 NLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL------LNGDTS 422
           +LS   +  +  ++   L  L+   +            +  L N+R L           S
Sbjct: 254 DLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSIS 313

Query: 423 SLKYLPIGISRLTSLRTLEKFVVGG----GVDGNNTCRLESLKNLQL 465
                 I       L+ LE   +      G+  N    L +LK L L
Sbjct: 314 LASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSL 360

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

 Score = 44.6 bits (106), Expect = 8e-05
 Identities = 48/256 (18%), Positives = 86/256 (33%), Gaps = 52/256 (20%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           S +  + F+    L  L +           N I++I  N   K  +L  L+LS   + S 
Sbjct: 86  SQLSDKTFAFCTNLTELHLMS---------NSIQKIKNNPFVKQKNLITLDLSHNGLSST 136

Query: 380 -PETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIG-ISRLT 435
              T  +L NLQ+L +   + ++ L +    +    SL  L   ++ +K    G    + 
Sbjct: 137 KLGTQVQLENLQELLLSNNK-IQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIG 195

Query: 436 SLRTLE----KFVVGGGVDGNNTCRLESLKNLQLL--RECRVEGLSNVSHVDEAERLQLY 489
            L  L     +    G       C   +  +++ L     ++   SN +           
Sbjct: 196 RLFGLFLNNVQL---GPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTT-------FLGL 245

Query: 490 NKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN----IF 545
              NL  L L +              N  +    ++      +E  ++     N    +F
Sbjct: 246 KWTNLTMLDLSY--------------NNLNVVGNDSFAWLPQLEYFFL---EYNNIQHLF 288

Query: 546 PKWLTLLTNLRDLNLD 561
              L  L N+R LNL 
Sbjct: 289 SHSLHGLFNVRYLNLK 304

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

 Score = 44.2 bits (105), Expect = 1e-04
 Identities = 27/125 (21%), Positives = 53/125 (42%), Gaps = 17/125 (13%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             +    F++ + L +L +           N I ++   + +KL  LK LNL    +  L
Sbjct: 38  RRLPAANFTRYSQLTSLDVGF---------NTISKLEPELCQKLPMLKVLNLQHNELSQL 88

Query: 380 PE-TLCELYNLQKLDIRRCQDLRELPTG-IGKLKNMRSL-LNGDTSSLKYLPIG-ISRLT 435
            + T     NL +L +     ++++      K KN+ +L L+   + L    +G   +L 
Sbjct: 89  SDKTFAFCTNLTELHLMSNS-IQKIKNNPFVKQKNLITLDLSH--NGLSSTKLGTQVQLE 145

Query: 436 SLRTL 440
           +L+ L
Sbjct: 146 NLQEL 150

>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 = 42.7 bits (101), Expect = 3e-04
 Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 8/95 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTG-I 407
           N +R +P     +   L  L++    I  L PE   +L  L+ L+++  + L +L     
Sbjct: 35  NQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE-LSQLSDKTF 93

Query: 408 GKLKNMRSL-LNGDTSSLKYL-PIGISRLTSLRTL 440
               N+  L L    +S++ +      +  +L TL
Sbjct: 94  AFCTNLTELHLMS--NSIQKIKNNPFVKQKNLITL 126

>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 = 42.3 bits (100), Expect = 4e-04
 Identities = 19/137 (13%), Positives = 45/137 (32%), Gaps = 25/137 (18%)

Query: 318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRI 376
            +   +  + +  L  +  + +S          N   ++  N    +  L+ L L  + +
Sbjct: 416 EIGQELTGQEWRGLENIFEIYLSY---------NKYLQLTRNSFALVPSLQRLMLRRVAL 466

Query: 377 ESL---PETLCELYNLQKLDIRRCQDLRELPTG-IGKLKNMRSL---------LNGDTSS 423
           +++   P     L NL  LD+     +  +    +  L+ +  L         L    + 
Sbjct: 467 KNVDSSPSPFQPLRNLTILDLSNNN-IANINDDMLEGLEKLEILDLQHNNLARLWKHANP 525

Query: 424 LKYLPIGISRLTSLRTL 440
              +   +  L+ L  L
Sbjct: 526 GGPIYF-LKGLSHLHIL 541

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

 Score = 42.3 bits (100), Expect = 4e-04
 Identities = 42/256 (16%), Positives = 76/256 (29%), Gaps = 43/256 (16%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN---VEKLIHLKYLNLSGLRIE 377
           SS       +L  L+ L++S          N I+ +      +     LK L LS  +I+
Sbjct: 134 SSTKLGTQVQLENLQELLLSN---------NKIQALKSEELDIFANSSLKKLELSSNQIK 184

Query: 378 SL-PETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL--LNGDTSSLKYLPIGISRL 434
              P     +  L  L +   Q    L   +       S+  L+   S L          
Sbjct: 185 EFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLG 244

Query: 435 TSLRTLEKFVVGG----GVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ-LY 489
                L    +       V  ++   L  L+   L     ++ L +   +     ++ L 
Sbjct: 245 LKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFL-EYNNIQHLFS-HSLHGLFNVRYLN 302

Query: 490 NKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN----IF 545
            K++  +  +                    +    + Q    +E L +     N    I 
Sbjct: 303 LKRSFTKQSISL--------------ASLPKIDDFSFQWLKCLEHLNM---EDNDIPGIK 345

Query: 546 PKWLTLLTNLRDLNLD 561
               T L NL+ L+L 
Sbjct: 346 SNMFTGLINLKYLSLS 361

>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 = 44.6 bits (106), Expect = 4e-05
 Identities = 17/130 (13%), Positives = 42/130 (32%), Gaps = 20/130 (15%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           + +       L  L  L +S          N I  +         HL+ L+L+  ++  +
Sbjct: 205 TKVDAASLKGLNNLAKLGLSF---------NSISAVDNGSLANTPHLRELHLNNNKLVKV 255

Query: 380 PETLCELYNLQKLDIRRCQDLRELPTG----IGKLKNMRSL--LNGDTSSLKYLPIG--- 430
           P  L +   +Q + +     +  + +      G      S   ++  ++ ++Y  I    
Sbjct: 256 PGGLADHKYIQVVYLHNNN-ISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPST 314

Query: 431 ISRLTSLRTL 440
              +     +
Sbjct: 315 FRCVYVRAAV 324

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

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 24/124 (19%), Positives = 46/124 (37%), Gaps = 16/124 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
           + I    F  L  L  L++           N I +I       L+ L+ L LS  +++ L
Sbjct: 65  TEIKDGDFKNLKNLHTLILIN---------NKISKISPGAFAPLVKLERLYLSKNQLKEL 115

Query: 380 PETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSL-LNGDTSSLKYLPIGI-SRLTS 436
           PE +     LQ+L +   + + ++   +   L  M  + L  +      +  G    +  
Sbjct: 116 PEKM--PKTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKK 172

Query: 437 LRTL 440
           L  +
Sbjct: 173 LSYI 176

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 44.9 bits (106), Expect = 6e-05
 Identities = 24/94 (25%), Positives = 39/94 (41%), Gaps = 8/94 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPETLCE-LYNLQKLDIRRCQDLRELPTGIG 408
           N I E+       L  L+ L LS  RI SL   +     +L+ LD+   + L+ +     
Sbjct: 62  NSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR-LQNISC--C 118

Query: 409 KLKNMRSLLNGDTSSLKYLPIG--ISRLTSLRTL 440
            + ++R  L+   +    LP+      LT L  L
Sbjct: 119 PMASLRH-LDLSFNDFDVLPVCKEFGNLTKLTFL 151

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 44.5 bits (105), Expect = 9e-05
 Identities = 39/242 (16%), Positives = 76/242 (31%), Gaps = 42/242 (17%)

Query: 259 MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS 318
             FF    +  L IY+       + +     S  +L + ++  V +       E+  +  
Sbjct: 270 FQFFWPRPVEYLNIYN-LTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVF 328

Query: 319 LNSSILRELFSKLACLRALVISQPSPIFRPDL--NLIREIPENV-EKLIHLKYLNLSGLR 375
              +I     S    +  +    PS     +   N+  +        L  L+ L L    
Sbjct: 329 AEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNG 388

Query: 376 IESLPETLCELYNLQKLDIRRCQDLRELPTGI-----GKLKNMRSL-LNGD--------- 420
           +++  +      N+  L+      L  L +          +++  L L+ +         
Sbjct: 389 LKNFFKVALMTKNMSSLETLDVS-LNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRC 447

Query: 421 -TSSLKYL----------PIGISRLTSLRTLE------KFVVGGGVDGNNTCRLESLKNL 463
               +K L          P  ++ L +L+ L       K V  G  D     RL SL+ +
Sbjct: 448 LPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDGVFD-----RLTSLQYI 502

Query: 464 QL 465
            L
Sbjct: 503 WL 504

>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 = 44.2 bits (105), Expect = 9e-05
 Identities = 34/125 (27%), Positives = 47/125 (37%), Gaps = 16/125 (12%)

Query: 321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESL 379
             +    F     L+ L +S+           I+ I +   + L HL  L L+G  I+SL
Sbjct: 41  RHLGSYSFFSFPELQVLDLSR---------CEIQTIEDGAYQSLSHLSTLILTGNPIQSL 91

Query: 380 -PETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLL---NGDTSSLKYLPIGISRLT 435
                  L +LQKL              IG LK ++ L    N   S    LP   S LT
Sbjct: 92  ALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFK--LPEYFSNLT 149

Query: 436 SLRTL 440
           +L  L
Sbjct: 150 NLEHL 154

>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 = 43.5 bits (103), Expect = 1e-04
 Identities = 25/126 (19%), Positives = 48/126 (38%), Gaps = 18/126 (14%)

Query: 350 LNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGK 409
           L+      ++      LKYL+LS   + ++      L  L+ LD +     +     +  
Sbjct: 359 LSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSV-- 416

Query: 410 LKNMRSL--LNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGVDGNN------TCRLESL 460
             ++R+L  L+   +  +    G  + L+SL  L+       + GN+            L
Sbjct: 417 FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLK-------MAGNSFQENFLPDIFTEL 469

Query: 461 KNLQLL 466
           +NL  L
Sbjct: 470 RNLTFL 475

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 41.9 bits (99), Expect = 5e-04
 Identities = 44/262 (16%), Positives = 83/262 (31%), Gaps = 35/262 (13%)

Query: 318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKY----LNLS 372
            + S  L E FS L  L  L +S          N I+ I   ++  L  +      L+LS
Sbjct: 135 LIQSFKLPEYFSNLTNLEHLDLSS---------NKIQSIYCTDLRVLHQMPLLNLSLDLS 185

Query: 373 GLRIESLPETLCELYNLQKLDIRRCQDLRELP----TGIGKLKNMRSLLNGDTSSLKYLP 428
              +  +     +   L KL +R   D   +      G+  L+  R +L    +      
Sbjct: 186 LNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEK 245

Query: 429 IGISRLTSLRTLE----KFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAE 484
              S L  L  L     +         +       L N+          L +V+     +
Sbjct: 246 FDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFS------LVSVTIERVKD 299

Query: 485 RLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN- 543
               +  ++L  +  +FG+    + +  +R      +        V++  L  +    N 
Sbjct: 300 FSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGN-AFSEVDLPSLEFLDLSRNG 358

Query: 544 -----IFPKWLTLLTNLRDLNL 560
                   +     T+L+ L+L
Sbjct: 359 LSFKGCCSQSDFGTTSLKYLDL 380

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 41.6 bits (98), Expect = 6e-04
 Identities = 17/95 (17%), Positives = 32/95 (33%), Gaps = 8/95 (8%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTGIG 408
           N +R +          L+ L+LS   I+++       L +L  L +              
Sbjct: 38  NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFS 97

Query: 409 KLKNMRSLL---NGDTSSLKYLPIGISRLTSLRTL 440
            L +++ L+       S        I  L +L+ L
Sbjct: 98  GLSSLQKLVAVETNLASL---ENFPIGHLKTLKEL 129

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 40/127 (31%), Positives = 66/127 (51%), Gaps = 17/127 (13%)

Query: 349 DLNLIREIPENV-EKLIHLKYLNLSGLRIESLPETLC-ELYNLQKLDIRRCQDLRELPTG 406
           + N ++ +P  V ++L  L  L L G +++SLP  +  +L +L  L++   Q L+ LP G
Sbjct: 36  ETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ-LQSLPNG 94

Query: 407 I-GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTLE------KFVVGGGVDGNNTCRLE 458
           +  KL  ++  L  +T+ L+ LP G+  +LT L+ L       K V  G  D     RL 
Sbjct: 95  VFDKLTQLK-ELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFD-----RLT 148

Query: 459 SLKNLQL 465
           SL+ + L
Sbjct: 149 SLQYIWL 155

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

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 24/121 (19%), Positives = 46/121 (38%), Gaps = 15/121 (12%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGI- 407
             +  +   V E L  LK LNL+  +I  + +     L NLQ L++     L EL +   
Sbjct: 276 GFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNL-LGELYSSNF 334

Query: 408 GKLKNMRSL-LNGDTSSLKYLPIGI-SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQL 465
             L  +  + L    + +  +       L  L+TL+       +  N    +  + ++  
Sbjct: 335 YGLPKVAYIDLQK--NHIAIIQDQTFKFLEKLQTLD-------LRDNALTTIHFIPSIPD 385

Query: 466 L 466
           +
Sbjct: 386 I 386

>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 = 42.0 bits (99), Expect = 1e-04
 Identities = 29/128 (22%), Positives = 52/128 (40%), Gaps = 17/128 (13%)

Query: 324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL 383
           +  L + L    A+  S          N IR++ +    L  LK L ++  RI  + E L
Sbjct: 34  IENLGATLDQFDAIDFSD---------NEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGL 83

Query: 384 CE-LYNLQKLDIRRCQ--DLRELPTGIGKLKNMRSLLNGD---TSSLKYLPIGISRLTSL 437
            + L +L +L +      +L +L   +  LK++  L       T+   Y    I ++  +
Sbjct: 84  DQALPDLTELILTNNSLVELGDL-DPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQV 142

Query: 438 RTLEKFVV 445
           R L+   V
Sbjct: 143 RVLDFQKV 150

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 29/105 (27%), Positives = 41/105 (39%), Gaps = 14/105 (13%)

Query: 315 SNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGL 374
            N   N   L  L  +   L  L               +  I  N+ KL  LK L LS  
Sbjct: 25  DNSRSNEGKLEGLTDEFEELEFLSTIN---------VGLTSI-ANLPKLNKLKKLELSDN 74

Query: 375 RIESLPETLCE-LYNLQKLDIRRCQ--DLRELPTGIGKLKNMRSL 416
           R+    E L E   NL  L++   +  DL  +   + KL+N++SL
Sbjct: 75  RVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTI-EPLKKLENLKSL 118

>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 = 26/120 (21%), Positives = 44/120 (36%), Gaps = 22/120 (18%)

Query: 328 FSKLACLRALVISQPSPIFRPDLNLIR-EIPENVEKLIHLKYLNLSGLRIE-SLPETLCE 385
            + L  L  L I          +N +   IP  + KL  L YL ++   +  ++P+ L +
Sbjct: 72  LANLPYLNFLYIG--------GINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQ 123

Query: 386 LYNLQKLDIRRCQDLRELPTGIGKLKNMRSL------LNGDTSSLKYLPIGISRLTSLRT 439
           +  L  LD         LP  I  L N+  +      ++G       +P      + L T
Sbjct: 124 IKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGA------IPDSYGSFSKLFT 177

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 42.5 bits (101), Expect = 2e-04
 Identities = 23/100 (23%), Positives = 43/100 (43%), Gaps = 14/100 (14%)

Query: 349 DLNLIREIPENVEKLIHLKYLNLSGL-RIE-SLPETLCELYNLQKLDIRRCQDLRELPTG 406
           +L     IP ++  L +L +L + G+  +   +P  + +L  L  L I        +P  
Sbjct: 61  NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDF 120

Query: 407 IGKLKNMRSL------LNGDTSSLKYLPIGISRLTSLRTL 440
           + ++K + +L      L+G       LP  IS L +L  +
Sbjct: 121 LSQIKTLVTLDFSYNALSGT------LPPSISSLPNLVGI 154

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 41.3 bits (97), Expect = 2e-04
 Identities = 32/137 (23%), Positives = 52/137 (37%), Gaps = 17/137 (12%)

Query: 315 SNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGL 374
            N   N   +  L ++   L  L +             +  +  N+ KL  LK L LS  
Sbjct: 32  DNCKSNDGKIEGLTAEFVNLEFLSLIN---------VGLISV-SNLPKLPKLKKLELSEN 81

Query: 375 RIESLPETLCE-LYNLQKLDIRRCQ--DLRELPTGIGKLKNMRSLLNGD---TSSLKYLP 428
           RI    + L E L NL  L++   +  D+  L   + KL+ ++SL   +   T+   Y  
Sbjct: 82  RIFGGLDMLAEKLPNLTHLNLSGNKLKDISTL-EPLKKLECLKSLDLFNCEVTNLNDYRE 140

Query: 429 IGISRLTSLRTLEKFVV 445
                L  L  L+ +  
Sbjct: 141 SVFKLLPQLTYLDGYDR 157

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

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 18/90 (20%), Positives = 29/90 (32%), Gaps = 9/90 (10%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           N + EI   V  L  L Y + S   +  L  +      L  L   +   L E+   +   
Sbjct: 222 NKLTEID--VTPLTQLTYFDCSVNPLTELDVSTLS--KLTTLHCIQTD-LLEID--LTHN 274

Query: 411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTL 440
             +          +K L   ++  T L  L
Sbjct: 275 TQLIYFQAEGCRKIKELD--VTHNTQLYLL 302

>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 = 3e-04
 Identities = 19/98 (19%), Positives = 38/98 (38%), Gaps = 9/98 (9%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSG-LRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGI 407
             +R IP +    L ++  + +S  + ++ L   +   L  +  ++IR  ++L  +    
Sbjct: 41  THLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDA 100

Query: 408 GKLKNMRSL--LNGDTSSLKYLP--IGISRLTSLRTLE 441
             LK +  L  L    + LK  P    +        LE
Sbjct: 101 --LKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILE 136

>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 = 41.1 bits (97), Expect = 4e-04
 Identities = 14/78 (17%), Positives = 31/78 (39%), Gaps = 3/78 (3%)

Query: 366 LKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMRSLLNGDTSS 423
            + L L    + ++P      L N+ ++ +     L++L +     L  +  +   +T +
Sbjct: 33  TQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRN 92

Query: 424 LKYLPIGI-SRLTSLRTL 440
           L Y+       L  L+ L
Sbjct: 93  LTYIDPDALKELPLLKFL 110

>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 = 41.1 bits (97), Expect = 4e-04
 Identities = 25/147 (17%), Positives = 44/147 (29%), Gaps = 22/147 (14%)

Query: 315 SNPSLNSSILRELFSKLACLRALVISQ------PSPIFRPDL-----------NLIREIP 357
           +  +L + I  +   +L  L+ L I        P                     +  IP
Sbjct: 89  NTRNL-TYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIP 147

Query: 358 ENV-EKLI-HLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI-GKLKNMR 414
            N  + L      L L      S+         L  + + + + L  +     G + +  
Sbjct: 148 VNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGP 207

Query: 415 SLLNGDTSSLKYLPIGI-SRLTSLRTL 440
           SLL+   +S+  LP      L  L   
Sbjct: 208 SLLDVSQTSVTALPSKGLEHLKELIAR 234

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 42/125 (33%), Positives = 67/125 (53%), Gaps = 17/125 (13%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPETLC-ELYNLQKLDIRRCQDLRELPTGI- 407
           N ++ +P  V +KL +LK L L   +++SLP+ +  +L NL  L++   Q L+ LP G+ 
Sbjct: 95  NQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQ-LQSLPKGVF 153

Query: 408 GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTLE------KFVVGGGVDGNNTCRLESL 460
            KL N+ + L+   + L+ LP G+  +LT L+ L       K V  G  D     RL SL
Sbjct: 154 DKLTNL-TELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFD-----RLTSL 207

Query: 461 KNLQL 465
           + + L
Sbjct: 208 QYIWL 212

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 39.9 bits (94), Expect = 6e-04
 Identities = 35/96 (36%), Positives = 56/96 (58%), Gaps = 6/96 (6%)

Query: 349 DLNLIREIPENV-EKLIHLKYLNLSGLRIESLPETLC-ELYNLQKLDIRRCQDLRELPTG 406
           + N ++ +P  V +KL  L  L+LS  +I+SLP+ +  +L  L  L +   + L+ LP G
Sbjct: 36  ESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK-LQSLPNG 94

Query: 407 I-GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTL 440
           +  KL  ++  L  DT+ LK +P GI  RLTSL+ +
Sbjct: 95  VFDKLTQLKE-LALDTNQLKSVPDGIFDRLTSLQKI 129

>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 Length = 347

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 18/105 (17%), Positives = 38/105 (36%), Gaps = 8/105 (7%)

Query: 340 SQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLR-IESLP-ETLCELYNLQKLDIRRC 397
              S +       + +   ++    +L  L +   + ++ L    L  L  L+ L I + 
Sbjct: 8   HGSSGLRCTRDGAL-DSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS 66

Query: 398 QDLRELPTGI-GKLKNMRSL-LNGDTSSLKYLPIGISRLTSLRTL 440
             LR +          +  L L+   ++L+ L     +  SL+ L
Sbjct: 67  G-LRFVAPDAFHFTPRLSRLNLSF--NALESLSWKTVQGLSLQEL 108

>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 Length = 251

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 30/94 (31%), Positives = 52/94 (55%), Gaps = 6/94 (6%)

Query: 351 NLIREIPENV-EKLIHLKYLNLSGLRIESLPETLCE-LYNLQKLDIRRCQDLRELPTGI- 407
           N +  +P  V + L  L  L L G +++SLP  + + L  L++L +   Q L+ +P G  
Sbjct: 93  NQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ-LQSIPAGAF 151

Query: 408 GKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTL 440
            KL N+++ L+  T+ L+ +P G   RL  L+T+
Sbjct: 152 DKLTNLQT-LSLSTNQLQSVPHGAFDRLGKLQTI 184

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	561
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.95
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.88
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.85
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.85
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.85
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.84
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.84
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.83
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.82
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.82
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.81
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.81
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.81
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.8
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.8
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.8
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.8
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.79
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.79
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.79
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.79
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.78
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.78
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.77
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.77
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.77
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.77
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.77
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.77
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.77
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.77
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.77
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.76
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.76
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.76
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.76
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.76
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.76
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.75
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.75
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.74
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.74
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.74
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.73
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.73
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.73
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.73
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.73
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.73
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.72
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.72
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.71
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.71
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.71
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.71
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.71
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.71
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.7
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.69
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.69
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.69
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.69
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.68
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.68
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.68
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.68
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.67
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.67
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.66
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.64
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.63
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.63
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.63
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.62
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.61
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.61
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.6
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.6
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.59
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.59
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.58
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.58
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.56
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.56
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.56
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.56
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.55
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.55
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.55
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.54
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.54
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.53
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.51
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.51
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.49
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.49
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.47
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.46
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.45
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.44
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.44
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.43
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.42
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.42
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.39
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.38
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.38
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.38
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.38
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.38
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.37
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.35
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.34
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.33
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.33
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.33
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.33
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.32
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.32
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.3
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.29
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.26
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.26
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.26
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.25
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.2
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.2
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.19
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.19
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.15
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.13
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.1
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.07
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.97
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.96
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.91
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.81
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.75
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.73
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.51
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.48
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.45
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.43
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.42
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.36
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.32
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.21
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.86
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.76
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.71
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.63
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.54
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.35
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	96.5
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	96.16
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	95.92
2fna_A	357	Conserved hypothetical protein; structural genomic	95.66
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.51
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.4
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	94.93
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	94.66
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	94.05
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	90.8
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	90.48
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	90.18
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	89.97
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	84.58
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	83.41
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	82.2

>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=99.95  E-value=2.6e-28  Score=258.88  Aligned_cols=194  Identities=19%  Similarity=0.267  Sum_probs=153.0

Q ss_pred             CCcEEEEEcCchHHHhhcC-CcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhhc
Q 043450            4 PGSKIVVTTRNVSVARMMR-STNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLL   82 (561)
Q Consensus         4 ~GsrIivTTR~~~v~~~~~-~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~L   82 (561)
                      +||+||||||++.|+..++ ...+|+|++|+.+|||+||+++||....   ++.+++++++|+++|+|+||||+++|+.|
T Consensus       264 ~gs~ilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~---~~~~~~~~~~I~~~c~GlPLAl~~~g~~l  340 (549)
T 2a5y_B          264 LRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV---GEKEEDVLNKTIELSSGNPATLMMFFKSC  340 (549)
T ss_dssp             TTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTC
T ss_pred             CCCEEEEEcCCHHHHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCC---chhHHHHHHHHHHHhCCChHHHHHHHHHh
Confidence            7999999999999998876 4468999999999999999999985432   36788899999999999999999999996


Q ss_pred             cccccccccCCcchhHHHHHHHhhhhhhhhhhcccccchhhhcccCCCCChhhhhhhh-----------hhcccCCCccc
Q 043450           83 CDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFS-----------YCAVFPKDYNM  151 (561)
Q Consensus        83 ~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl-----------~~a~fp~~~~i  151 (561)
                      +.+.          + +|...+....+..  ....+..++.+||++||+  .+|.||+           |||+||+++.+
T Consensus       341 ~~~~----------w-~~~~~l~~~l~~~--~~~~i~~~l~~Sy~~L~~--~lk~~f~~Ls~~er~l~~~ls~fp~~~~i  405 (549)
T 2a5y_B          341 EPKT----------F-EKMAQLNNKLESR--GLVGVECITPYSYKSLAM--ALQRCVEVLSDEDRSALAFAVVMPPGVDI  405 (549)
T ss_dssp             CSSS----------H-HHHHHHHHHHHHH--CSSTTCCCSSSSSSSHHH--HHHHHHHTSCHHHHHHTTGGGSSCTTCCE
T ss_pred             ccch----------H-HHHHHhHHHhhcc--cHHHHHHHHhcccccccH--HHHHHHhccchhhhhHhhheeeeCCCCee
Confidence            5431          1 2222233222221  346788999999999999  8999999           99999999988


Q ss_pred             CHHHHHHHHHHc--CCCCCCc-chhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEecHHHHHHHHHhhccce
Q 043450          152 NKRELINLWMAQ--GYLNADE-DEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKEC  224 (561)
Q Consensus       152 ~~~~Li~~w~a~--g~~~~~~-~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~mhdlv~~~~~~i~~~e~  224 (561)
                      +    ++.|+|+  ||+.... ...++++++ ++++|++++|++....+   ... +|+|||++|++|++++.+++
T Consensus       406 ~----i~~w~a~~~G~i~~~~~~~~~~~~~~-~l~~L~~rsLl~~~~~~---~~~-~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          406 P----VKLWSCVIPVDICSNEEEQLDDEVAD-RLKRLSKRGALLSGKRM---PVL-TFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             E----HHHHHHHSCC-------CCCTHHHHH-HHHHTTTBSSCSEEECS---SSC-EEECCHHHHHHHHTTSCTHH
T ss_pred             e----eeeeeeeccceeccCCCCCCHHHHHH-HHHHHHHcCCeeEecCC---Cce-EEEeChHHHHHHHHHHHHHH
Confidence            8    8999999  9998765 445677777 99999999999986543   222 39999999999999987764

>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=99.88  E-value=5.5e-23  Score=203.96  Aligned_cols=200  Identities=22%  Similarity=0.277  Sum_probs=172.4

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +.++.+|++|++++         |.+..+|..++.+++|++|++++|.++.+|..++++++|++|++++|..++.+|..+
T Consensus       100 l~~l~~L~~L~L~~---------n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~  170 (328)
T 4fcg_A          100 AFRLSHLQHMTIDA---------AGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPL  170 (328)
T ss_dssp             GGGGTTCSEEEEES---------SCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEEEETTCCCCCSCS
T ss_pred             hhhCCCCCEEECCC---------CCccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECCCCCCccccChhH
Confidence            56799999999999         778899999999999999999999999999999999999999999998899999887


Q ss_pred             cc---------CCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCC
Q 043450          408 GK---------LKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVS  478 (561)
Q Consensus       408 ~~---------l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~  478 (561)
                      +.         +++|++|++++|. +..+|..++++++|++|+  +.+|.+.+    ....+..+++|+.|++.++..  
T Consensus       171 ~~~~~~~~~~~l~~L~~L~L~~n~-l~~lp~~l~~l~~L~~L~--L~~N~l~~----l~~~l~~l~~L~~L~Ls~n~~--  241 (328)
T 4fcg_A          171 ASTDASGEHQGLVNLQSLRLEWTG-IRSLPASIANLQNLKSLK--IRNSPLSA----LGPAIHHLPKLEELDLRGCTA--  241 (328)
T ss_dssp             EEEC-CCCEEESTTCCEEEEEEEC-CCCCCGGGGGCTTCCEEE--EESSCCCC----CCGGGGGCTTCCEEECTTCTT--
T ss_pred             hhccchhhhccCCCCCEEECcCCC-cCcchHhhcCCCCCCEEE--ccCCCCCc----CchhhccCCCCCEEECcCCcc--
Confidence            65         9999999999998 669999999999999998  77777643    333577788888888876443  


Q ss_pred             CcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecC-CCCCChhhhcccCCcE
Q 043450          479 HVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYG-GNIFPKWLTLLTNLRD  557 (561)
Q Consensus       479 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~-~~~lp~~~~~l~~L~~  557 (561)
                        ....+..+.++++|+.|++++|.+              ...+|..+..+++|+.|++++|. ...+|.++.++++|+.
T Consensus       242 --~~~~p~~~~~l~~L~~L~L~~n~~--------------~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~  305 (328)
T 4fcg_A          242 --LRNYPPIFGGRAPLKRLILKDCSN--------------LLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCI  305 (328)
T ss_dssp             --CCBCCCCTTCCCCCCEEECTTCTT--------------CCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCE
T ss_pred             --hhhhHHHhcCCCCCCEEECCCCCc--------------hhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceE
Confidence              334566788999999999998764              34567778899999999999988 5579999999999999


Q ss_pred             EEcC
Q 043450          558 LNLD  561 (561)
Q Consensus       558 L~L~  561 (561)
                      ++++
T Consensus       306 l~l~  309 (328)
T 4fcg_A          306 ILVP  309 (328)
T ss_dssp             EECC
T ss_pred             EeCC
Confidence            9874

>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=99.85  E-value=1.7e-21  Score=215.72  Aligned_cols=207  Identities=18%  Similarity=0.198  Sum_probs=140.5

Q ss_pred             HHHhccccccEEeccCCCCCCCCCccccc-ccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCcc
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIR-EIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      ..+..+++|++|++++         |.+. .+|..++.+++|++|++++|.+. .+|..++++++|++|++++|+....+
T Consensus       436 ~~l~~l~~L~~L~L~~---------n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~  506 (768)
T 3rgz_A          436 SSLGSLSKLRDLKLWL---------NMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEI  506 (768)
T ss_dssp             GGGGGCTTCCEEECCS---------SCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCC
T ss_pred             HHHhcCCCCCEEECCC---------CcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcC
Confidence            3456677777777777         3443 56667777777777777777766 56777777777777777777755567


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchh------------------------
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLES------------------------  459 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~------------------------  459 (561)
                      |..++.+++|++|++++|...+.+|..++++++|+.|+  +.+|.+.+..|..+..                        
T Consensus       507 p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~--Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  584 (768)
T 3rgz_A          507 PKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLD--LNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK  584 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEE--CCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCC
T ss_pred             ChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEE--CCCCccCCcCChHHhcccchhhhhcccccccccccccccc
Confidence            77777777777777777776667777777777777776  5555554443333222                        


Q ss_pred             -------------------------------------------hhccCCCCceEEcCCCCCCCcchhhhccccccccccc
Q 043450          460 -------------------------------------------LKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLR  496 (561)
Q Consensus       460 -------------------------------------------l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~  496 (561)
                                                                 +..++.|+.+++++    +...+..+..+.++++|+.
T Consensus       585 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~----N~l~g~ip~~l~~l~~L~~  660 (768)
T 3rgz_A          585 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSY----NMLSGYIPKEIGSMPYLFI  660 (768)
T ss_dssp             TTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCS----SCCBSCCCGGGGGCTTCCE
T ss_pred             ccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcC----CcccccCCHHHhccccCCE
Confidence                                                       12233344444443    2333445556677777777


Q ss_pred             EEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhcccCCcEEEcC
Q 043450          497 LGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       497 L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~L~  561 (561)
                      |+|++|.+              .+.+|+.+..+++|+.|++++|.++ .+|..+.++++|+.|+|+
T Consensus       661 L~Ls~N~l--------------~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls  712 (768)
T 3rgz_A          661 LNLGHNDI--------------SGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLS  712 (768)
T ss_dssp             EECCSSCC--------------CSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECC
T ss_pred             EeCcCCcc--------------CCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECc
Confidence            77776653              4457888888899999999999876 788888899999999885

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.85  E-value=3.6e-22  Score=196.87  Aligned_cols=242  Identities=17%  Similarity=0.166  Sum_probs=191.5

Q ss_pred             CceEEEEeeecCCC---CCcccccccCceeEEEEcc-CCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCC
Q 043450          242 EKVRHIGLNFQRGA---SFPMSFFEFDRLRSLLIYD-TSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNP  317 (561)
Q Consensus       242 ~~~~~l~l~~~~~~---~~~~~~~~~~~Lr~L~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (561)
                      ..++.+.+..+...   .+|..+..+++|++|.+.+ +..                                        
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l----------------------------------------   89 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNL----------------------------------------   89 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTE----------------------------------------
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcc----------------------------------------
Confidence            57899999998876   5788899999999999985 411                                        


Q ss_pred             CcchhHHHHHHhccccccEEeccCCCCCCCCCccccc-ccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecC
Q 043450          318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIR-EIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIR  395 (561)
Q Consensus       318 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~  395 (561)
                         ....+..+.++++|++|++++         +.+. .+|..++.+++|++|++++|.++ .+|..++.+++|++|+++
T Consensus        90 ---~~~~p~~l~~l~~L~~L~Ls~---------n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~  157 (313)
T 1ogq_A           90 ---VGPIPPAIAKLTQLHYLYITH---------TNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFD  157 (313)
T ss_dssp             ---ESCCCGGGGGCTTCSEEEEEE---------ECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECC
T ss_pred             ---cccCChhHhcCCCCCEEECcC---------CeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECc
Confidence               112334478899999999999         6676 78888999999999999999988 789999999999999999


Q ss_pred             CCCCcCccCcccccCC-CCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCC
Q 043450          396 RCQDLRELPTGIGKLK-NMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGL  474 (561)
Q Consensus       396 ~~~~~~~lp~~~~~l~-~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~  474 (561)
                      +|.....+|..++.++ +|++|++++|...+.+|..++.++ |++|+  +.+|.+.+..+..   +..++.|+.|.+.+.
T Consensus       158 ~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~--Ls~N~l~~~~~~~---~~~l~~L~~L~L~~N  231 (313)
T 1ogq_A          158 GNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVD--LSRNMLEGDASVL---FGSDKNTQKIHLAKN  231 (313)
T ss_dssp             SSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEE--CCSSEEEECCGGG---CCTTSCCSEEECCSS
T ss_pred             CCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEEE--CcCCcccCcCCHH---HhcCCCCCEEECCCC
Confidence            9995558999999998 999999999997678999999887 99998  6677765444433   445566666666553


Q ss_pred             CCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhccc
Q 043450          475 SNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLT  553 (561)
Q Consensus       475 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~  553 (561)
                      .    ..... ..+..+++|+.|++++|.+              .+.+|..+..+++|+.|++++|.+. .+|.. .+++
T Consensus       232 ~----l~~~~-~~~~~l~~L~~L~Ls~N~l--------------~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~-~~l~  291 (313)
T 1ogq_A          232 S----LAFDL-GKVGLSKNLNGLDLRNNRI--------------YGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQ  291 (313)
T ss_dssp             E----ECCBG-GGCCCCTTCCEEECCSSCC--------------EECCCGGGGGCTTCCEEECCSSEEEEECCCS-TTGG
T ss_pred             c----eeeec-CcccccCCCCEEECcCCcc--------------cCcCChHHhcCcCCCEEECcCCcccccCCCC-cccc
Confidence            2    11222 2367789999999998874              3346778888999999999999976 67765 7888


Q ss_pred             CCcEEEcC
Q 043450          554 NLRDLNLD  561 (561)
Q Consensus       554 ~L~~L~L~  561 (561)
                      +|+.|+++
T Consensus       292 ~L~~l~l~  299 (313)
T 1ogq_A          292 RFDVSAYA  299 (313)
T ss_dssp             GSCGGGTC
T ss_pred             ccChHHhc
Confidence            88888764

>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=2.9e-21  Score=191.53  Aligned_cols=197  Identities=22%  Similarity=0.271  Sum_probs=168.7

Q ss_pred             ccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccccc
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGK  409 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~  409 (561)
                      ....+++|++++         +.++.+|..++.+++|++|++++|.++.+|..++++++|++|++++|. +..+|..+++
T Consensus        79 ~~~~l~~L~L~~---------n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~-l~~lp~~l~~  148 (328)
T 4fcg_A           79 TQPGRVALELRS---------VPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNP-LRALPASIAS  148 (328)
T ss_dssp             TSTTCCEEEEES---------SCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCC-CCCCCGGGGG
T ss_pred             cccceeEEEccC---------CCchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCc-cccCcHHHhc
Confidence            458899999999         788999999999999999999999999999999999999999999998 7799999999


Q ss_pred             CCCCCeEEcCCCCCCccCcccccC---------CcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCc
Q 043450          410 LKNMRSLLNGDTSSLKYLPIGISR---------LTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV  480 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~~i~~---------l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~  480 (561)
                      +++|++|++++|...+.+|..++.         +++|++|+  +.+|.+. ..   ...+..+++|+.|.+.+..- .  
T Consensus       149 l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~--L~~n~l~-~l---p~~l~~l~~L~~L~L~~N~l-~--  219 (328)
T 4fcg_A          149 LNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLR--LEWTGIR-SL---PASIANLQNLKSLKIRNSPL-S--  219 (328)
T ss_dssp             CTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEE--EEEECCC-CC---CGGGGGCTTCCEEEEESSCC-C--
T ss_pred             CcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEE--CcCCCcC-cc---hHhhcCCCCCCEEEccCCCC-C--
Confidence            999999999999889999988765         99999998  6666653 22   34567788888888887542 2  


Q ss_pred             chhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecC-CCCCChhhhcccCCcEEE
Q 043450          481 DEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYG-GNIFPKWLTLLTNLRDLN  559 (561)
Q Consensus       481 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~-~~~lp~~~~~l~~L~~L~  559 (561)
                        ..+..+..+++|+.|++++|.+              ...+|..+..+++|+.|++++|. ...+|.++.++++|+.|+
T Consensus       220 --~l~~~l~~l~~L~~L~Ls~n~~--------------~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~  283 (328)
T 4fcg_A          220 --ALGPAIHHLPKLEELDLRGCTA--------------LRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD  283 (328)
T ss_dssp             --CCCGGGGGCTTCCEEECTTCTT--------------CCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEE
T ss_pred             --cCchhhccCCCCCEEECcCCcc--------------hhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEe
Confidence              2344688999999999998764              33467788999999999999987 557899999999999999


Q ss_pred             cC
Q 043450          560 LD  561 (561)
Q Consensus       560 L~  561 (561)
                      |+
T Consensus       284 L~  285 (328)
T 4fcg_A          284 LR  285 (328)
T ss_dssp             CT
T ss_pred             CC
Confidence            85

>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=99.84  E-value=2.4e-21  Score=226.60  Aligned_cols=188  Identities=22%  Similarity=0.321  Sum_probs=149.6

Q ss_pred             CCCcEEEEEcCchHHHhh-cCCcceEeCCC-CChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhh
Q 043450            3 LPGSKIVVTTRNVSVARM-MRSTNIISIKP-LPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGN   80 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~~~-~~~~~~~~v~~-L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~   80 (561)
                      ++|||||||||++.++.. ++...++++++ |+++||++||+..++..     .+++++++++|+++|+|+||||+++|+
T Consensus       255 ~~~~~ilvTtR~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~-----~~~~~~~~~~i~~~~~glPLal~~~~~  329 (1249)
T 3sfz_A          255 DNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK-----KEDLPAEAHSIIKECKGSPLVVSLIGA  329 (1249)
T ss_dssp             CSSCEEEEEESSTTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC-----STTCCTHHHHHHHHTTTCHHHHHHHHH
T ss_pred             cCCCEEEEEcCCHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC-----hhhCcHHHHHHHHHhCCCHHHHHHHHH
Confidence            689999999999999854 45568999996 99999999999998532     234556799999999999999999999


Q ss_pred             hccccccccccCCcchhHHHHHHHhhhhhhh--------hhhcccccchhhhcccCCCCChhhhhhhhhhcccCCCcccC
Q 043450           81 LLCDKRTGNLLSSKSIVNEWQRILDSEVWKV--------EEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNMN  152 (561)
Q Consensus        81 ~L~~~~~~~~l~~~~~~~~w~~~~~~~~~~~--------~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a~fp~~~~i~  152 (561)
                      +|+.++           ..|+..+.......        ......+..++.+||+.|++  ..|.||+|||+||+++.|+
T Consensus       330 ~l~~~~-----------~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~--~~~~~~~~l~~f~~~~~i~  396 (1249)
T 3sfz_A          330 LLRDFP-----------NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE--DIKDYYTDLSILQKDVKVP  396 (1249)
T ss_dssp             HHHHSS-----------SCHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCT--TTHHHHHHGGGSCTTCCEE
T ss_pred             HhhcCh-----------hHHHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCH--HHHHHHHHhCccCCCCeeC
Confidence            987764           12444443321111        11124578889999999999  7899999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCCcchhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEecHHHHHHHHHhhccc
Q 043450          153 KRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVSRKE  223 (561)
Q Consensus       153 ~~~Li~~w~a~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~mhdlv~~~~~~i~~~e  223 (561)
                      +..++..|.++           ++.++.++++|++++|++....   +.... |+||++++++++....++
T Consensus       397 ~~~~~~~~~~~-----------~~~~~~~l~~L~~~sl~~~~~~---~~~~~-~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          397 TKVLCVLWDLE-----------TEEVEDILQEFVNKSLLFCNRN---GKSFC-YYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HHHHHHHHTCC-----------HHHHHHHHHHHHHTTSCEEEES---SSSEE-EECCHHHHHHHHHHTGGG
T ss_pred             HHHHHHHhCCC-----------HHHHHHHHHHHHhccceEEecC---CCceE-EEecHHHHHHHHhhhhHH
Confidence            99999999554           3567889999999999986542   22333 999999999999987765

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.84  E-value=3.5e-21  Score=189.72  Aligned_cols=203  Identities=20%  Similarity=0.253  Sum_probs=168.7

Q ss_pred             HHHhccccccEEeccC-CCCCCCCCcccccccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCcc
Q 043450          326 ELFSKLACLRALVISQ-PSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      ..+.++++|++|++++ +        +....+|..++.+++|++|++++|.++ .+|..++++++|++|++++|.....+
T Consensus        70 ~~l~~l~~L~~L~L~~~n--------~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~  141 (313)
T 1ogq_A           70 SSLANLPYLNFLYIGGIN--------NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTL  141 (313)
T ss_dssp             GGGGGCTTCSEEEEEEET--------TEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCC
T ss_pred             hhHhCCCCCCeeeCCCCC--------cccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcC
Confidence            4578899999999994 2        445578999999999999999999998 88999999999999999999955589


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCc-CCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcch
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLT-SLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDE  482 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~-~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~  482 (561)
                      |..++.+++|++|++++|...+.+|..+++++ +|++|+  +.+|.+.+..+..+..   ++ |+.|++.+.    ....
T Consensus       142 p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~--L~~N~l~~~~~~~~~~---l~-L~~L~Ls~N----~l~~  211 (313)
T 1ogq_A          142 PPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMT--ISRNRLTGKIPPTFAN---LN-LAFVDLSRN----MLEG  211 (313)
T ss_dssp             CGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEE--CCSSEEEEECCGGGGG---CC-CSEEECCSS----EEEE
T ss_pred             ChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEE--CcCCeeeccCChHHhC---Cc-ccEEECcCC----cccC
Confidence            99999999999999999996669999999998 999998  6777765444544444   44 777777652    3344


Q ss_pred             hhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhcccCCcEEEcC
Q 043450          483 AERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       483 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~L~  561 (561)
                      ..+..+..+++|+.|++++|.+..               .+..+..+++|++|++++|.+. .+|.++..+++|+.|+|+
T Consensus       212 ~~~~~~~~l~~L~~L~L~~N~l~~---------------~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls  276 (313)
T 1ogq_A          212 DASVLFGSDKNTQKIHLAKNSLAF---------------DLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVS  276 (313)
T ss_dssp             CCGGGCCTTSCCSEEECCSSEECC---------------BGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECC
T ss_pred             cCCHHHhcCCCCCEEECCCCceee---------------ecCcccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECc
Confidence            566778899999999999887532               2334778899999999999987 799999999999999985

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

Probab=99.83  E-value=2.8e-21  Score=208.72  Aligned_cols=167  Identities=19%  Similarity=0.222  Sum_probs=133.1

Q ss_pred             CCcEEEEEcCchHHHhhcCCcceEeCC------CCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHH
Q 043450            4 PGSKIVVTTRNVSVARMMRSTNIISIK------PLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKV   77 (561)
Q Consensus         4 ~GsrIivTTR~~~v~~~~~~~~~~~v~------~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~   77 (561)
                      +|||||||||++.++..+....+|+|+      +|+.+||++||++.. +..       ..+++.+|   |+|+||||++
T Consensus       264 pGSRILVTTRd~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~-------~eeL~~eI---CgGLPLALkL  332 (1221)
T 1vt4_I          264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR-------PQDLPREV---LTTNPRRLSI  332 (1221)
T ss_dssp             SSCCEEEECSCSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC-------TTTHHHHH---CCCCHHHHHH
T ss_pred             CCeEEEEeccChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC-------HHHHHHHH---hCCCHHHHHH
Confidence            799999999999998765545577787      999999999999984 221       12234444   9999999999


Q ss_pred             HhhhccccccccccCCcchhHHHHHHHhhhhhhhhhhcccccchhhhcccCCCCChhh-hhhhhhhcccCCCcccCHHHH
Q 043450           78 TGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMV-KRCFSYCAVFPKDYNMNKREL  156 (561)
Q Consensus        78 ~g~~L~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~-k~cfl~~a~fp~~~~i~~~~L  156 (561)
                      +|+.|+++..        ....|+..          ....+..+++.||+.|++  .. |+||+|||+||+++.|+++.+
T Consensus       333 aGs~Lr~k~~--------s~eeW~~~----------~~~~I~aaLelSYd~Lp~--eelK~cFL~LAIFPed~~I~~elL  392 (1221)
T 1vt4_I          333 IAESIRDGLA--------TWDNWKHV----------NCDKLTTIIESSLNVLEP--AEYRKMFDRLSVFPPSAHIPTILL  392 (1221)
T ss_dssp             HHHHHHHSCS--------SHHHHHHC----------SCHHHHHHHHHHHHHSCT--THHHHHHHHTTSSCTTSCEEHHHH
T ss_pred             HHHHHhCCCC--------CHHHHhcC----------ChhHHHHHHHHHHHhCCH--HHHHHHHHHHhCCCCCCCCCHHHH
Confidence            9999877631        35678653          134577889999999999  77 999999999999999999999


Q ss_pred             HHHHHHcCCCCCCcchhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEecHHHHHHHH
Q 043450          157 INLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQ  217 (561)
Q Consensus       157 i~~w~a~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~mhdlv~~~~~  217 (561)
                      +.+|+++|          ++.++.++++|++++|++....     .. +|+|||++++++.
T Consensus       393 a~LW~aeG----------eedAe~~L~eLvdRSLLq~d~~-----~~-rYrMHDLllELr~  437 (1221)
T 1vt4_I          393 SLIWFDVI----------KSDVMVVVNKLHKYSLVEKQPK-----ES-TISIPSIYLELKV  437 (1221)
T ss_dssp             HHHHCSSC----------SHHHHHHHHHHHTSSSSSBCSS-----SS-EEBCCCHHHHHHH
T ss_pred             HHHhcCCC----------HHHHHHHHHHHHhhCCEEEeCC-----CC-EEEehHHHHHHhc
Confidence            99998887          1247789999999999987311     11 3999999998653

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.82  E-value=5.6e-20  Score=198.88  Aligned_cols=275  Identities=12%  Similarity=0.116  Sum_probs=153.1

Q ss_pred             CCceEEEEeeecC-CCCCcccccccCceeEEEEccCC-CCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          241 GEKVRHIGLNFQR-GASFPMSFFEFDRLRSLLIYDTS-HYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       241 ~~~~~~l~l~~~~-~~~~~~~~~~~~~Lr~L~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      ...++.+.+..+. .+.+|..+.++++|++|.+.++. ...      ..++..+..+...........+.+..     ..
T Consensus       248 l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~------~~lp~~~~~L~~~~~l~~L~~L~L~~-----n~  316 (636)
T 4eco_A          248 LKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISG------EQLKDDWQALADAPVGEKIQIIYIGY-----NN  316 (636)
T ss_dssp             CTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCH------HHHHHHHHHHHHSGGGGTCCEEECCS-----SC
T ss_pred             cCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCcc------ccchHHHHhhhccccCCCCCEEECCC-----Cc
Confidence            5678999999887 46788889999999999999883 200      01111111110000000111111111     11


Q ss_pred             cchhHHHH--HHhccccccEEeccCCCCCCCCCccccc-ccCccccccCccCEEecCCCCCccccccccCCCC-ccEEec
Q 043450          319 LNSSILRE--LFSKLACLRALVISQPSPIFRPDLNLIR-EIPENVEKLIHLKYLNLSGLRIESLPETLCELYN-LQKLDI  394 (561)
Q Consensus       319 ~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~-L~~L~l  394 (561)
                      +.  .+|.  .+..+++|++|++++         |.+. .+| .++.+++|++|++++|.++.+|..++++++ |++|++
T Consensus       317 l~--~ip~~~~l~~l~~L~~L~L~~---------N~l~g~ip-~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~L  384 (636)
T 4eco_A          317 LK--TFPVETSLQKMKKLGMLECLY---------NQLEGKLP-AFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSF  384 (636)
T ss_dssp             CS--SCCCHHHHTTCTTCCEEECCS---------CCCEEECC-CCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEEC
T ss_pred             CC--ccCchhhhccCCCCCEEeCcC---------CcCccchh-hhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEc
Confidence            11  1222  566777777777777         5555 666 677777777777777777777777777777 777777


Q ss_pred             CCCCCcCccCcccccCC--CCCeEEcCCCCCCccCccccc-------CCcCCcccCceeecCccCCCCccCchhhhccCC
Q 043450          395 RRCQDLRELPTGIGKLK--NMRSLLNGDTSSLKYLPIGIS-------RLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQL  465 (561)
Q Consensus       395 ~~~~~~~~lp~~~~~l~--~L~~L~l~~~~~~~~lp~~i~-------~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~  465 (561)
                      ++|. +..+|..++.+.  +|+.|++++|...+..|..++       .+++|++|+  +.+|.+.. .+  ..-+..++.
T Consensus       385 s~N~-l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~--Ls~N~l~~-lp--~~~~~~l~~  458 (636)
T 4eco_A          385 AHNK-LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSIN--LSNNQISK-FP--KELFSTGSP  458 (636)
T ss_dssp             CSSC-CSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEE--CCSSCCCS-CC--THHHHTTCC
T ss_pred             cCCc-CcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEE--CcCCccCc-CC--HHHHccCCC
Confidence            7776 557777666544  677777777776666666666       666777776  55555531 11  111234566


Q ss_pred             CCceEEcCCCCCCCcchhhh----cccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC--CCCCCceEEEee
Q 043450          466 LRECRVEGLSNVSHVDEAER----LQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ--PPVNVEELWIVY  539 (561)
Q Consensus       466 L~~l~i~~~~~~~~~~~~~~----~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~--~~~~L~~L~l~~  539 (561)
                      |+.|.+.+..- ........    ..+.++++|+.|++++|.+..               +|..+.  .+++|+.|++++
T Consensus       459 L~~L~Ls~N~l-~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~---------------lp~~~~~~~l~~L~~L~Ls~  522 (636)
T 4eco_A          459 LSSINLMGNML-TEIPKNSLKDENENFKNTYLLTSIDLRFNKLTK---------------LSDDFRATTLPYLVGIDLSY  522 (636)
T ss_dssp             CSEEECCSSCC-SBCCSSSSEETTEECTTGGGCCEEECCSSCCCB---------------CCGGGSTTTCTTCCEEECCS
T ss_pred             CCEEECCCCCC-CCcCHHHhccccccccccCCccEEECcCCcCCc---------------cChhhhhccCCCcCEEECCC
Confidence            66666654321 11111000    011223378888887776542               333333  445555555555


Q ss_pred             cCCCCCChhhhcccCCcEEEc
Q 043450          540 YGGNIFPKWLTLLTNLRDLNL  560 (561)
Q Consensus       540 ~~~~~lp~~~~~l~~L~~L~L  560 (561)
                      |.+..+|.++.++++|+.|+|
T Consensus       523 N~l~~ip~~~~~l~~L~~L~L  543 (636)
T 4eco_A          523 NSFSKFPTQPLNSSTLKGFGI  543 (636)
T ss_dssp             SCCSSCCCGGGGCSSCCEEEC
T ss_pred             CCCCCcChhhhcCCCCCEEEC
Confidence            554445544444555555544

>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=99.82  E-value=1.3e-20  Score=196.17  Aligned_cols=138  Identities=17%  Similarity=0.167  Sum_probs=83.5

Q ss_pred             cCCceEEEEeeecCCCCC-cccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASF-PMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~-~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++.+.+..+.+..+ +..+..+++|++|.+.++...                                        
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~----------------------------------------   67 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPG----------------------------------------   67 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTT----------------------------------------
T ss_pred             CCCccCEEEecCCccCcCChhHhccCccccEEECcCCccc----------------------------------------
Confidence            457899999999988776 567899999999999887220                                        


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcc-cccc--ccCCCCccEEec
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIES-LPET--LCELYNLQKLDI  394 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~-lp~~--i~~L~~L~~L~l  394 (561)
                        ..+.+..+.++++|++|++++         +.+..+ |..++.+++|++|++++|.++. +|..  ++++++|++|++
T Consensus        68 --~~i~~~~~~~l~~L~~L~Ls~---------n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L  136 (455)
T 3v47_A           68 --LVIRNNTFRGLSSLIILKLDY---------NQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVL  136 (455)
T ss_dssp             --CEECTTTTTTCTTCCEEECTT---------CTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEEC
T ss_pred             --ceECcccccccccCCEEeCCC---------CccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEEC
Confidence              111122345566666666666         444443 4555666666666666666552 3333  556666666666


Q ss_pred             CCCCCcCccCcc-cccCCCCCeEEcCCCCCCccCc
Q 043450          395 RRCQDLRELPTG-IGKLKNMRSLLNGDTSSLKYLP  428 (561)
Q Consensus       395 ~~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~lp  428 (561)
                      ++|......|.. ++++++|++|++++|...+..|
T Consensus       137 ~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  171 (455)
T 3v47_A          137 RDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICE  171 (455)
T ss_dssp             CSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCT
T ss_pred             CCCccCccCcccccCCCCcccEEeCCCCcccccCh
Confidence            666522222433 5566666666666665433333

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.81  E-value=6.4e-20  Score=186.78  Aligned_cols=239  Identities=17%  Similarity=0.152  Sum_probs=140.7

Q ss_pred             CCceEEEEeeecCCCCCccc-ccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          241 GEKVRHIGLNFQRGASFPMS-FFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~-~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      ..+++.+.+..+..+.+|.. +..+++|++|.+.++..                                          
T Consensus        44 l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i------------------------------------------   81 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQI------------------------------------------   81 (390)
T ss_dssp             GCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCC------------------------------------------
T ss_pred             cCCceEEEecCCchhhCChhHhcccccCcEEECCCCcc------------------------------------------
Confidence            35677788877777777743 56778888888877622                                          


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRC  397 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~  397 (561)
                       ....+..+..+++|++|++++         +.+..+| ..++.+++|++|++++|.++.+|.. ++++++|++|++++|
T Consensus        82 -~~~~~~~~~~l~~L~~L~L~~---------n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n  151 (390)
T 3o6n_A           82 -EEIDTYAFAYAHTIQKLYMGF---------NAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN  151 (390)
T ss_dssp             -CEECTTTTTTCTTCCEEECCS---------SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             -cccChhhccCCCCcCEEECCC---------CCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCC
Confidence             011112244556666666665         4454443 3345566666666666666655544 355666666666665


Q ss_pred             CCcCcc-CcccccCCCCCeEEcCCCCCCccCcccccCCc----------------------------------------C
Q 043450          398 QDLREL-PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLT----------------------------------------S  436 (561)
Q Consensus       398 ~~~~~l-p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~----------------------------------------~  436 (561)
                      . +..+ |..++.+++|++|++++|. +..++  ++.++                                        +
T Consensus       152 ~-l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~--~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~  227 (390)
T 3o6n_A          152 N-LERIEDDTFQATTSLQNLQLSSNR-LTHVD--LSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVE  227 (390)
T ss_dssp             C-CCBCCTTTTSSCTTCCEEECCSSC-CSBCC--GGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSS
T ss_pred             c-cCccChhhccCCCCCCEEECCCCc-CCccc--cccccccceeecccccccccCCCCcceEEECCCCeeeecccccccc
Confidence            5 3333 3345556666666666555 22222  22223                                        3


Q ss_pred             CcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCC
Q 043450          437 LRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKN  516 (561)
Q Consensus       437 L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n  516 (561)
                      |+.|+  +.++.+.     .+..+..++.|+.|++++.    ......+..+..+++|+.|++++|.+.           
T Consensus       228 L~~L~--l~~n~l~-----~~~~l~~l~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------  285 (390)
T 3o6n_A          228 LTILK--LQHNNLT-----DTAWLLNYPGLVEVDLSYN----ELEKIMYHPFVKMQRLERLYISNNRLV-----------  285 (390)
T ss_dssp             CCEEE--CCSSCCC-----CCGGGGGCTTCSEEECCSS----CCCEEESGGGTTCSSCCEEECCSSCCC-----------
T ss_pred             ccEEE--CCCCCCc-----ccHHHcCCCCccEEECCCC----cCCCcChhHccccccCCEEECCCCcCc-----------
Confidence            33333  2233321     1234555666666666653    223334556777788888888877632           


Q ss_pred             cchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          517 ENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       517 ~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                          .++..+..+++|+.|++++|.+..+|..+..+++|+.|+|+
T Consensus       286 ----~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~  326 (390)
T 3o6n_A          286 ----ALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLD  326 (390)
T ss_dssp             ----EEECSSSCCTTCCEEECCSSCCCCCGGGHHHHTTCSEEECC
T ss_pred             ----ccCcccCCCCCCCEEECCCCcceecCccccccCcCCEEECC
Confidence                23445567788888888888888888888888888888874

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

Probab=99.81  E-value=1.2e-19  Score=200.28  Aligned_cols=251  Identities=15%  Similarity=0.213  Sum_probs=147.8

Q ss_pred             cCCceEEEEeeecC-CCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQR-GASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~-~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      ...+++.+.+..+. ...+|..+.++++|+.|.+.++..                                         
T Consensus       489 ~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~-----------------------------------------  527 (876)
T 4ecn_A          489 NLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRG-----------------------------------------  527 (876)
T ss_dssp             GCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTT-----------------------------------------
T ss_pred             cCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCC-----------------------------------------
Confidence            35678999998887 577888899999999999988721                                         


Q ss_pred             cchhHHHHHHhccc-------cccEEeccCCCCCCCCCcccccccCc--cccccCccCEEecCCCCCccccccccCCCCc
Q 043450          319 LNSSILRELFSKLA-------CLRALVISQPSPIFRPDLNLIREIPE--NVEKLIHLKYLNLSGLRIESLPETLCELYNL  389 (561)
Q Consensus       319 ~~~~~~~~~~~~l~-------~L~~L~l~~~~~~~~~~~~~~~~lp~--~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L  389 (561)
                      +....+|..+..+.       +|++|++++         |.+..+|.  .++.+++|++|++++|.++.+| .++.+++|
T Consensus       528 lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~---------N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp-~~~~L~~L  597 (876)
T 4ecn_A          528 ISAAQLKADWTRLADDEDTGPKIQIFYMGY---------NNLEEFPASASLQKMVKLGLLDCVHNKVRHLE-AFGTNVKL  597 (876)
T ss_dssp             SCHHHHHHHHHHHHHCTTTTTTCCEEECCS---------SCCCBCCCHHHHTTCTTCCEEECTTSCCCBCC-CCCTTSEE
T ss_pred             cccccchHHHHhhhhcccccCCccEEEeeC---------CcCCccCChhhhhcCCCCCEEECCCCCcccch-hhcCCCcc
Confidence            11112232233333       666666666         45556665  5666666666666666666665 56666666


Q ss_pred             cEEecCCCCCcCccCcccccCCC-CCeEEcCCCCCCccCcccccCCcC--CcccCceeecCccCCCCccCchhh------
Q 043450          390 QKLDIRRCQDLRELPTGIGKLKN-MRSLLNGDTSSLKYLPIGISRLTS--LRTLEKFVVGGGVDGNNTCRLESL------  460 (561)
Q Consensus       390 ~~L~l~~~~~~~~lp~~~~~l~~-L~~L~l~~~~~~~~lp~~i~~l~~--L~~L~~~~~~~~~~~~~~~~~~~l------  460 (561)
                      +.|++++|. +..+|..+..+++ |+.|++++|. +..+|..++.++.  |+.|+  +.+|.+.+..+.....+      
T Consensus       598 ~~L~Ls~N~-l~~lp~~l~~l~~~L~~L~Ls~N~-L~~lp~~~~~~~~~~L~~L~--Ls~N~l~g~ip~l~~~l~~~~~~  673 (876)
T 4ecn_A          598 TDLKLDYNQ-IEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVD--FSYNKIGSEGRNISCSMDDYKGI  673 (876)
T ss_dssp             SEEECCSSC-CSCCCTTSCEECTTCCEEECCSSC-CCSCCSCCCTTCSSCEEEEE--CCSSCTTTTSSSCSSCTTTCCCC
T ss_pred             eEEECcCCc-cccchHHHhhccccCCEEECcCCC-CCcCchhhhccccCCCCEEE--CcCCcCCCccccchhhhccccCC
Confidence            666666665 4466666666665 6666666665 3455655554433  55555  44444433222211111      


Q ss_pred             --------------------hccCCCCceEEcCCCCCCCcchhhhc----ccccccccccEEEEeecCCCCCcccccCCC
Q 043450          461 --------------------KNLQLLRECRVEGLSNVSHVDEAERL----QLYNKKNLLRLGLQFGRVADGEGEEGRRKN  516 (561)
Q Consensus       461 --------------------~~L~~L~~l~i~~~~~~~~~~~~~~~----~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n  516 (561)
                                          ..++.|+.|.+++..- .........    .+.++++|+.|+|+.|.+            
T Consensus       674 ~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L-~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L------------  740 (876)
T 4ecn_A          674 NASTVTLSYNEIQKFPTELFATGSPISTIILSNNLM-TSIPENSLKPKDGNYKNTYLLTTIDLRFNKL------------  740 (876)
T ss_dssp             CEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCC-SCCCTTSSSCTTSCCTTGGGCCEEECCSSCC------------
T ss_pred             CcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcC-CccChHHhccccccccccCCccEEECCCCCC------------
Confidence                                1333444444433211 111000000    011233555666655543            


Q ss_pred             cchHHHhhcCC--CCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          517 ENDEQLLEALQ--PPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       517 ~~~~~~~~~l~--~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                         ..+|..+.  .+++|+.|++++|.+..+|.++.++++|+.|+|+
T Consensus       741 ---~~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~l~~L~~L~~L~Ls  784 (876)
T 4ecn_A          741 ---TSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIR  784 (876)
T ss_dssp             ---CCCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCTTCCEEECC
T ss_pred             ---ccchHHhhhccCCCcCEEEeCCCCCCccchhhhcCCCCCEEECC
Confidence               24666776  8899999999999988899999999999999884

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.81  E-value=1.5e-20  Score=203.27  Aligned_cols=217  Identities=16%  Similarity=0.155  Sum_probs=163.8

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccc------------------cCcccc--ccCccCEEecCCCCCc-ccccc
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIRE------------------IPENVE--KLIHLKYLNLSGLRIE-SLPET  382 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~------------------lp~~~~--~l~~L~~L~l~~~~l~-~lp~~  382 (561)
                      +|..++++++|++|+|++         |.+..                  +|..++  .+++|++|++++|.+. .+|..
T Consensus       198 ip~~l~~l~~L~~L~Ls~---------n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~  268 (636)
T 4eco_A          198 VSKAVMRLTKLRQFYMGN---------SPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTF  268 (636)
T ss_dssp             ECGGGGGCTTCCEEEEES---------CCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTT
T ss_pred             CCHHHhcccCCCEEECcC---------CccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHH
Confidence            566689999999999999         66766                  999999  9999999999999965 88999


Q ss_pred             ccCCCCccEEecCCCC-CcC-ccCcccccC------CCCCeEEcCCCCCCccCcc--cccCCcCCcccCceeecCccCCC
Q 043450          383 LCELYNLQKLDIRRCQ-DLR-ELPTGIGKL------KNMRSLLNGDTSSLKYLPI--GISRLTSLRTLEKFVVGGGVDGN  452 (561)
Q Consensus       383 i~~L~~L~~L~l~~~~-~~~-~lp~~~~~l------~~L~~L~l~~~~~~~~lp~--~i~~l~~L~~L~~~~~~~~~~~~  452 (561)
                      ++++++|++|++++|. ... .+|..++.+      ++|++|++++|. +..+|.  .++++++|++|+  +.+|.+.+.
T Consensus       269 l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~-l~~ip~~~~l~~l~~L~~L~--L~~N~l~g~  345 (636)
T 4eco_A          269 LKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNN-LKTFPVETSLQKMKKLGMLE--CLYNQLEGK  345 (636)
T ss_dssp             TTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSC-CSSCCCHHHHTTCTTCCEEE--CCSCCCEEE
T ss_pred             HhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCc-CCccCchhhhccCCCCCEEe--CcCCcCccc
Confidence            9999999999999998 444 689988887      999999999998 558998  899999999998  667766444


Q ss_pred             CccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccc-cccEEEEeecCCCCCcccc-----------cCCCcchH
Q 043450          453 NTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKN-LLRLGLQFGRVADGEGEEG-----------RRKNENDE  520 (561)
Q Consensus       453 ~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~~~~-----------~~~n~~~~  520 (561)
                      .+ .   +..+++|+.|.+.+..    .. ..+..+.++++ |+.|++++|.+...+....           ...|....
T Consensus       346 ip-~---~~~l~~L~~L~L~~N~----l~-~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~  416 (636)
T 4eco_A          346 LP-A---FGSEIKLASLNLAYNQ----IT-EIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGS  416 (636)
T ss_dssp             CC-C---CEEEEEESEEECCSSE----EE-ECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTT
T ss_pred             hh-h---hCCCCCCCEEECCCCc----cc-cccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCC
Confidence            44 3   4444555555554421    12 44556777777 8888888877653221111           12334445


Q ss_pred             HHhhcCC-------CCCCCceEEEeecCCCCCChhh-hcccCCcEEEcC
Q 043450          521 QLLEALQ-------PPVNVEELWIVYYGGNIFPKWL-TLLTNLRDLNLD  561 (561)
Q Consensus       521 ~~~~~l~-------~~~~L~~L~l~~~~~~~lp~~~-~~l~~L~~L~L~  561 (561)
                      .+|..+.       .+++|+.|++++|.+..+|..+ ..+++|+.|+|+
T Consensus       417 ~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls  465 (636)
T 4eco_A          417 VDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLM  465 (636)
T ss_dssp             TTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECC
T ss_pred             cchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECC
Confidence            5566666       6678999999999988888776 458888888875

>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=99.80  E-value=3.3e-20  Score=186.25  Aligned_cols=209  Identities=17%  Similarity=0.150  Sum_probs=102.3

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCcc-ccccCccCEEecCCCCCccccc--cccCCCCccEEecCCCCCcCcc-
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPEN-VEKLIHLKYLNLSGLRIESLPE--TLCELYNLQKLDIRRCQDLREL-  403 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~~l~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~~~~~l-  403 (561)
                      +.++++|++|++++         |.++.+|.. ++.+++|++|++++|.++.+|.  .+.++++|++|++++|..+..+ 
T Consensus        96 ~~~l~~L~~L~Ls~---------n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~  166 (353)
T 2z80_A           96 FSSLGSLEHLDLSY---------NYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQ  166 (353)
T ss_dssp             TTTCTTCCEEECCS---------SCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEEC
T ss_pred             cCCCCCCCEEECCC---------CcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccC
Confidence            33444555555554         444444433 4445555555555555544443  3444555555555554323333 


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      |..++.+++|++|++++|...+..|..++++++|++|+  +.++.... .+  ......++.|+.|++.+..- ......
T Consensus       167 ~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~--l~~n~l~~-~~--~~~~~~~~~L~~L~L~~n~l-~~~~~~  240 (353)
T 2z80_A          167 RKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLI--LHMKQHIL-LL--EIFVDVTSSVECLELRDTDL-DTFHFS  240 (353)
T ss_dssp             TTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEE--EECSCSTT-HH--HHHHHHTTTEEEEEEESCBC-TTCCCC
T ss_pred             HHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeec--CCCCcccc-ch--hhhhhhcccccEEECCCCcc-cccccc
Confidence            23444455555555555443333344444555555554  33333210 00  00111233333444433211 000000


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh-hcccCCcEEEcC
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL-TLLTNLRDLNLD  561 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~-~~l~~L~~L~L~  561 (561)
                      ..........++.++++.+.+..          .....+|+.+..+++|+.|++++|.+..+|.++ .++++|+.|+|+
T Consensus       241 ~l~~~~~~~~l~~l~L~~~~l~~----------~~l~~l~~~l~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~  309 (353)
T 2z80_A          241 ELSTGETNSLIKKFTFRNVKITD----------ESLFQVMKLLNQISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLH  309 (353)
T ss_dssp             ------CCCCCCEEEEESCBCCH----------HHHHHHHHHHHTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             ccccccccchhhccccccccccC----------cchhhhHHHHhcccCCCEEECCCCCCCccCHHHHhcCCCCCEEEee
Confidence            00011223344444444433211          124467888889999999999999999999886 899999999985

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

Probab=99.80  E-value=1.7e-19  Score=179.34  Aligned_cols=240  Identities=17%  Similarity=0.202  Sum_probs=169.9

Q ss_pred             CCceEEEEeeecCCCCCcc-cccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          241 GEKVRHIGLNFQRGASFPM-SFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~-~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      ...++.+.+..+..+.++. .+..+++|++|.+.++..                                          
T Consensus        51 ~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l------------------------------------------   88 (330)
T 1xku_A           51 PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI------------------------------------------   88 (330)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC------------------------------------------
T ss_pred             CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcC------------------------------------------
Confidence            4577888888888777764 677888888888887621                                          


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~  398 (561)
                       ....+..+..+++|++|++++         |.++.+|..+.  ++|++|++++|.++.+|. .+.++++|++|++++|.
T Consensus        89 -~~~~~~~~~~l~~L~~L~Ls~---------n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  156 (330)
T 1xku_A           89 -SKISPGAFAPLVKLERLYLSK---------NQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNP  156 (330)
T ss_dssp             -CCBCTTTTTTCTTCCEEECCS---------SCCSBCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSC
T ss_pred             -CeeCHHHhcCCCCCCEEECCC---------CcCCccChhhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCCc
Confidence             112233466788888888888         67778877665  688888998888886654 47888889999998887


Q ss_pred             CcC--ccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCC
Q 043450          399 DLR--ELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSN  476 (561)
Q Consensus       399 ~~~--~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~  476 (561)
                      ...  ..|..+..+++|++|++++|. +..+|..+.  ++|++|+  +.++.+.+..   ...+..+++|+.|++.+.. 
T Consensus       157 l~~~~~~~~~~~~l~~L~~L~l~~n~-l~~l~~~~~--~~L~~L~--l~~n~l~~~~---~~~~~~l~~L~~L~Ls~n~-  227 (330)
T 1xku_A          157 LKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQGLP--PSLTELH--LDGNKITKVD---AASLKGLNNLAKLGLSFNS-  227 (330)
T ss_dssp             CCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCSSCC--TTCSEEE--CTTSCCCEEC---TGGGTTCTTCCEEECCSSC-
T ss_pred             CCccCcChhhccCCCCcCEEECCCCc-cccCCcccc--ccCCEEE--CCCCcCCccC---HHHhcCCCCCCEEECCCCc-
Confidence            321  456678888889999988887 667777654  7888887  5566553222   3345566667777776532 


Q ss_pred             CCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh-h-----
Q 043450          477 VSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL-T-----  550 (561)
Q Consensus       477 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~-~-----  550 (561)
                         .....+..+..+++|+.|++++|.+.               .+|..+..+++|+.|++++|.++.+|... .     
T Consensus       228 ---l~~~~~~~~~~l~~L~~L~L~~N~l~---------------~lp~~l~~l~~L~~L~l~~N~i~~~~~~~f~~~~~~  289 (330)
T 1xku_A          228 ---ISAVDNGSLANTPHLRELHLNNNKLV---------------KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYN  289 (330)
T ss_dssp             ---CCEECTTTGGGSTTCCEEECCSSCCS---------------SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCC
T ss_pred             ---CceeChhhccCCCCCCEEECCCCcCc---------------cCChhhccCCCcCEEECCCCcCCccChhhcCCcccc
Confidence               22333445778888999999887742               45667788888999999999888776433 1     


Q ss_pred             -cccCCcEEEcC
Q 043450          551 -LLTNLRDLNLD  561 (561)
Q Consensus       551 -~l~~L~~L~L~  561 (561)
                       ..+.|+.|+++
T Consensus       290 ~~~~~l~~l~l~  301 (330)
T 1xku_A          290 TKKASYSGVSLF  301 (330)
T ss_dssp             TTSCCCSEEECC
T ss_pred             cccccccceEee
Confidence             24677777764

>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=99.80  E-value=5.1e-20  Score=203.77  Aligned_cols=271  Identities=18%  Similarity=0.185  Sum_probs=179.9

Q ss_pred             CCceEEEEeeecCCC-CCccccccc-CceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          241 GEKVRHIGLNFQRGA-SFPMSFFEF-DRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~-~~~~~~~~~-~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      ...++.+.+..+... .+|..+... ++|+.|.+.++.....       .+..+.....           +....+....
T Consensus       268 l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~-------~p~~~~~l~~-----------L~~L~L~~n~  329 (768)
T 3rgz_A          268 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGA-------VPPFFGSCSL-----------LESLALSSNN  329 (768)
T ss_dssp             CTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEEC-------CCGGGGGCTT-----------CCEEECCSSE
T ss_pred             cCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCc-------cchHHhcCCC-----------ccEEECCCCc
Confidence            456778888777754 566555553 7888888877622100       0000000000           0000011112


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCccccc-ccCccccccC-ccCEEecCCCCCc-cccccccC--CCCccEEe
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIR-EIPENVEKLI-HLKYLNLSGLRIE-SLPETLCE--LYNLQKLD  393 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~~~l~-~L~~L~l~~~~l~-~lp~~i~~--L~~L~~L~  393 (561)
                      +...++...+.++++|++|++++         +.+. .+|..+..+. +|++|++++|.+. .+|+.+..  +++|++|+
T Consensus       330 l~~~ip~~~l~~l~~L~~L~Ls~---------n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~  400 (768)
T 3rgz_A          330 FSGELPMDTLLKMRGLKVLDLSF---------NEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELY  400 (768)
T ss_dssp             EEEECCHHHHTTCTTCCEEECCS---------SEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEE
T ss_pred             ccCcCCHHHHhcCCCCCEEeCcC---------CccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEE
Confidence            22233445577888888888888         5554 6787787776 8888888888876 66776666  77888888


Q ss_pred             cCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcC
Q 043450          394 IRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEG  473 (561)
Q Consensus       394 l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~  473 (561)
                      +++|.....+|..++++++|+.|++++|...+.+|..++++++|+.|+  +.+|.+.+..+.   .+..++.|+.|.+.+
T Consensus       401 L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~--L~~n~l~~~~p~---~~~~l~~L~~L~L~~  475 (768)
T 3rgz_A          401 LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLK--LWLNMLEGEIPQ---ELMYVKTLETLILDF  475 (768)
T ss_dssp             CCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEE--CCSSCCCSCCCG---GGGGCTTCCEEECCS
T ss_pred             CCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEE--CCCCcccCcCCH---HHcCCCCceEEEecC
Confidence            888885557788888888888888888886667888888888888887  566666544443   344555566666655


Q ss_pred             CCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhcc
Q 043450          474 LSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLL  552 (561)
Q Consensus       474 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l  552 (561)
                      ..    ..+..+..+.++++|+.|++++|.+.              +.+|.++..+++|+.|++++|.+. .+|..+.++
T Consensus       476 N~----l~~~~p~~l~~l~~L~~L~L~~N~l~--------------~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l  537 (768)
T 3rgz_A          476 ND----LTGEIPSGLSNCTNLNWISLSNNRLT--------------GEIPKWIGRLENLAILKLSNNSFSGNIPAELGDC  537 (768)
T ss_dssp             SC----CCSCCCGGGGGCTTCCEEECCSSCCC--------------SCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGC
T ss_pred             Cc----ccCcCCHHHhcCCCCCEEEccCCccC--------------CcCChHHhcCCCCCEEECCCCcccCcCCHHHcCC
Confidence            32    23345566778888888888877643              335667777888888888888876 678888888


Q ss_pred             cCCcEEEcC
Q 043450          553 TNLRDLNLD  561 (561)
Q Consensus       553 ~~L~~L~L~  561 (561)
                      ++|+.|+|+
T Consensus       538 ~~L~~L~Ls  546 (768)
T 3rgz_A          538 RSLIWLDLN  546 (768)
T ss_dssp             TTCCEEECC
T ss_pred             CCCCEEECC
Confidence            888888874

>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=99.80  E-value=1.5e-19  Score=194.29  Aligned_cols=207  Identities=18%  Similarity=0.114  Sum_probs=117.0

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcC
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLR  401 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~  401 (561)
                      ++..+..+++|++|++++         +.+..+|+ .|+.+++|++|+|++|.++.+|+ .++++++|++|++++|. +.
T Consensus        67 p~~~~~~l~~L~~L~L~~---------n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~  136 (597)
T 3oja_B           67 PAALLDSFRQVELLNLND---------LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERND-LS  136 (597)
T ss_dssp             CTHHHHHCCCCSEEECTT---------SCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CC
T ss_pred             CHHHHccCCCCcEEECCC---------CCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCC-CC
Confidence            334455666666666666         44555443 55666666666666666665543 34666666666666665 55


Q ss_pred             ccCcc-cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCc-----------------------
Q 043450          402 ELPTG-IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRL-----------------------  457 (561)
Q Consensus       402 ~lp~~-~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~-----------------------  457 (561)
                      .+|.. ++++++|++|++++|...+..|..++.+++|++|+  +.+|.+.+.....+                       
T Consensus       137 ~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~--L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~  214 (597)
T 3oja_B          137 SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQ--LSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVE  214 (597)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEE--CTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCS
T ss_pred             CCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEE--CcCCCCCCcChhhhhhhhhhhcccCccccccCCchhh
Confidence            55544 35666666666666664444444566666666665  34443322111111                       


Q ss_pred             ---------------------------------hhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecC
Q 043450          458 ---------------------------------ESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRV  504 (561)
Q Consensus       458 ---------------------------------~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  504 (561)
                                                       ..+..++.|+.|++++.    ......+..+..+++|+.|+|++|. 
T Consensus       215 ~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N----~l~~~~~~~~~~l~~L~~L~Ls~N~-  289 (597)
T 3oja_B          215 ELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYN----ELEKIMYHPFVKMQRLERLYISNNR-  289 (597)
T ss_dssp             EEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSS----CCCEEESGGGTTCSSCCEEECTTSC-
T ss_pred             eeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCC----ccCCCCHHHhcCccCCCEEECCCCC-
Confidence                                             11222333333333321    1122223344445555555555444 


Q ss_pred             CCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          505 ADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       505 ~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                                    ...++..+..+++|+.|++++|.+..+|.++..+++|+.|+|+
T Consensus       290 --------------l~~l~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~l~~L~~L~L~  332 (597)
T 3oja_B          290 --------------LVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLD  332 (597)
T ss_dssp             --------------CCEEECSSSCCTTCCEEECCSSCCCCCGGGHHHHTTCSEEECC
T ss_pred             --------------CCCCCcccccCCCCcEEECCCCCCCccCcccccCCCCCEEECC
Confidence                          2234556677889999999999988899888889999998875

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

Probab=99.79  E-value=4.8e-19  Score=176.13  Aligned_cols=195  Identities=18%  Similarity=0.160  Sum_probs=109.8

Q ss_pred             HHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCc--Ccc
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDL--REL  403 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~--~~l  403 (561)
                      .+.++++|++|++++         |.+..+|..+.  ++|++|++++|.++.+|. .+.++++|++|++++|...  ...
T Consensus        97 ~~~~l~~L~~L~L~~---------n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  165 (332)
T 2ft3_A           97 AFSPLRKLQKLYISK---------NHLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFE  165 (332)
T ss_dssp             GSTTCTTCCEEECCS---------SCCCSCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSC
T ss_pred             HhhCcCCCCEEECCC---------CcCCccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCC
Confidence            355666666777666         55666665554  566677777666666554 3566667777777666621  133


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      |..+..+ +|++|++++|. +..+|..+.  ++|++|+  +.+|.+....+..+.   .+++|+.|++.+.    .....
T Consensus       166 ~~~~~~l-~L~~L~l~~n~-l~~l~~~~~--~~L~~L~--l~~n~i~~~~~~~l~---~l~~L~~L~L~~N----~l~~~  232 (332)
T 2ft3_A          166 PGAFDGL-KLNYLRISEAK-LTGIPKDLP--ETLNELH--LDHNKIQAIELEDLL---RYSKLYRLGLGHN----QIRMI  232 (332)
T ss_dssp             TTSSCSC-CCSCCBCCSSB-CSSCCSSSC--SSCSCCB--CCSSCCCCCCTTSST---TCTTCSCCBCCSS----CCCCC
T ss_pred             cccccCC-ccCEEECcCCC-CCccCcccc--CCCCEEE--CCCCcCCccCHHHhc---CCCCCCEEECCCC----cCCcC
Confidence            4455555 66666666666 455665543  5666666  455554333333333   3334444444432    11222


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh-hc------ccCCc
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL-TL------LTNLR  556 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~-~~------l~~L~  556 (561)
                      .+..+..+++|+.|++++|.+.               .+|..+..+++|+.|++++|.++.+|... ..      .++|+
T Consensus       233 ~~~~~~~l~~L~~L~L~~N~l~---------------~lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~  297 (332)
T 2ft3_A          233 ENGSLSFLPTLRELHLDNNKLS---------------RVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYN  297 (332)
T ss_dssp             CTTGGGGCTTCCEEECCSSCCC---------------BCCTTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBS
T ss_pred             ChhHhhCCCCCCEEECCCCcCe---------------ecChhhhcCccCCEEECCCCCCCccChhHcccccccccccccc
Confidence            2334566677777777766532               34555666777777777777766655322 11      35566


Q ss_pred             EEEc
Q 043450          557 DLNL  560 (561)
Q Consensus       557 ~L~L  560 (561)
                      .|++
T Consensus       298 ~L~l  301 (332)
T 2ft3_A          298 GISL  301 (332)
T ss_dssp             EEEC
T ss_pred             ceEe
Confidence            6665

>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=99.79  E-value=1.3e-19  Score=189.68  Aligned_cols=264  Identities=19%  Similarity=0.196  Sum_probs=137.0

Q ss_pred             cCCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++.+.+..+....++ ..+..+++|++|.+.++..                                         
T Consensus        30 ~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i-----------------------------------------   68 (477)
T 2id5_A           30 IPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIV-----------------------------------------   68 (477)
T ss_dssp             CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCC-----------------------------------------
T ss_pred             CCCCCcEEECCCCccceECHhHccCCCCCCEEECCCCcc-----------------------------------------
Confidence            3567888999888887764 5788899999999988722                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCcc-ccccCccCEEecCCCCCccc-cccccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN-VEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~  396 (561)
                        ....+..|.++.+|++|+|++         |.+..+|.. ++.+++|++|++++|.+..+ |..+.++++|++|++++
T Consensus        69 --~~~~~~~~~~l~~L~~L~L~~---------n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~  137 (477)
T 2id5_A           69 --SAVEPGAFNNLFNLRTLGLRS---------NRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD  137 (477)
T ss_dssp             --CEECTTTTTTCTTCCEEECCS---------SCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECC
T ss_pred             --CEeChhhhhCCccCCEEECCC---------CcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCC
Confidence              111122344555666666665         445555433 35555566666665555533 34455555555555555


Q ss_pred             CCCcCccCcccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          397 CQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       397 ~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      |......|..+..+++|+.|++++|. +..+|. .++++++|+.|+  +.++.+....+..+   ..++.|+.|++.+..
T Consensus       138 n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~l~~l~~L~~L~--l~~n~i~~~~~~~~---~~l~~L~~L~l~~~~  211 (477)
T 2id5_A          138 NDLVYISHRAFSGLNSLEQLTLEKCN-LTSIPTEALSHLHGLIVLR--LRHLNINAIRDYSF---KRLYRLKVLEISHWP  211 (477)
T ss_dssp             TTCCEECTTSSTTCTTCCEEEEESCC-CSSCCHHHHTTCTTCCEEE--EESCCCCEECTTCS---CSCTTCCEEEEECCT
T ss_pred             CccceeChhhccCCCCCCEEECCCCc-CcccChhHhcccCCCcEEe--CCCCcCcEeChhhc---ccCcccceeeCCCCc
Confidence            55222223345555555555555554 333332 345555555554  33333322111112   122222222222211


Q ss_pred             CC--------------------CCcchhhhcccccccccccEEEEeecCCCCCccc----------ccCCCcchHHHhhc
Q 043450          476 NV--------------------SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEE----------GRRKNENDEQLLEA  525 (561)
Q Consensus       476 ~~--------------------~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~----------~~~~n~~~~~~~~~  525 (561)
                      ..                    +.........+..+++|+.|+|++|.+.......          ....|......+..
T Consensus       212 ~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~  291 (477)
T 2id5_A          212 YLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYA  291 (477)
T ss_dssp             TCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEECTTT
T ss_pred             cccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceECHHH
Confidence            00                    0011111123445555666666555432211100          00112223334566


Q ss_pred             CCCCCCCceEEEeecCCCCCChh-hhcccCCcEEEcC
Q 043450          526 LQPPVNVEELWIVYYGGNIFPKW-LTLLTNLRDLNLD  561 (561)
Q Consensus       526 l~~~~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~L~  561 (561)
                      +..+++|+.|++++|.+..+|.. +..+++|+.|+|+
T Consensus       292 ~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  328 (477)
T 2id5_A          292 FRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILD  328 (477)
T ss_dssp             BTTCTTCCEEECCSSCCSCCCGGGBSCGGGCCEEECC
T ss_pred             hcCcccCCEEECCCCcCceeCHhHcCCCcccCEEEcc
Confidence            77788888888888888777754 4778888888874

>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=99.79  E-value=3.9e-19  Score=184.56  Aligned_cols=199  Identities=23%  Similarity=0.278  Sum_probs=110.2

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      |.++.+|++|+|++         |.+..++ ..+..+++|++|+|++|.++.+|.. +..+++|++|++++|. +..+|.
T Consensus        95 ~~~l~~L~~L~Ls~---------n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~  164 (452)
T 3zyi_A           95 FRHLHHLEVLQLGR---------NSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNP-IESIPS  164 (452)
T ss_dssp             TTTCTTCCEEECCS---------SCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCC-CCEECT
T ss_pred             cCCCCCCCEEECCC---------CccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCCCC-cceeCH
Confidence            45566666666666         4455443 4456666666666666666655543 5556666666666665 444443


Q ss_pred             -ccccCCCCCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          406 -GIGKLKNMRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       406 -~~~~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                       .+.++++|+.|++++|..++.+|.. +..+++|+.|+  +.+|.+..     +..+..+.+|+.|++++.    .....
T Consensus       165 ~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~--L~~n~l~~-----~~~~~~l~~L~~L~Ls~N----~l~~~  233 (452)
T 3zyi_A          165 YAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLN--LGMCNIKD-----MPNLTPLVGLEELEMSGN----HFPEI  233 (452)
T ss_dssp             TTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEE--CTTSCCSS-----CCCCTTCTTCCEEECTTS----CCSEE
T ss_pred             hHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEE--CCCCcccc-----cccccccccccEEECcCC----cCccc
Confidence             4556666666666665555555543 55666666665  44444321     223444555555555442    22333


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChh-hhcccCCcEEEcC
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKW-LTLLTNLRDLNLD  561 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~L~  561 (561)
                      .+..|.++++|+.|++++|.+..              ..+..+..+++|+.|++++|.+..+|.. +..+++|+.|+|+
T Consensus       234 ~~~~~~~l~~L~~L~L~~n~l~~--------------~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  298 (452)
T 3zyi_A          234 RPGSFHGLSSLKKLWVMNSQVSL--------------IERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLH  298 (452)
T ss_dssp             CGGGGTTCTTCCEEECTTSCCCE--------------ECTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEECC
T ss_pred             CcccccCccCCCEEEeCCCcCce--------------ECHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEEcc
Confidence            34455666666666666554321              1234455566666666666666655543 3556666666653

>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=99.79  E-value=1.6e-19  Score=194.89  Aligned_cols=202  Identities=17%  Similarity=0.053  Sum_probs=155.5

Q ss_pred             HhccccccEEeccCCCCCCCCCccccccc---CccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccC
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREI---PENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~l---p~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      +..+++|++|++++         +.+..+   |..++.+++|++|++++|.+..+|..+..+++|++|++++|......|
T Consensus       346 ~~~l~~L~~L~ls~---------n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~  416 (606)
T 3vq2_A          346 KVALPSLSYLDLSR---------NALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTE  416 (606)
T ss_dssp             CCCCTTCCEEECCS---------SCEEEEEECCHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTT
T ss_pred             hccCCCCCEEECcC---------CccCCCcchhhhhccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccC
Confidence            45678888888888         556555   677888899999999999988888888899999999999988444445


Q ss_pred             -cccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCC-CccCchhhhccCCCCceEEcCCCCCCCcch
Q 043450          405 -TGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGN-NTCRLESLKNLQLLRECRVEGLSNVSHVDE  482 (561)
Q Consensus       405 -~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~-~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~  482 (561)
                       ..+..+++|++|++++|......|..++++++|++|+  +.++.+.+. .+.   .+..++.|+.|++++.    ....
T Consensus       417 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~~~~---~~~~l~~L~~L~Ls~n----~l~~  487 (606)
T 3vq2_A          417 FSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLK--MAGNSFKDNTLSN---VFANTTNLTFLDLSKC----QLEQ  487 (606)
T ss_dssp             TTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEE--CTTCEEGGGEECS---CCTTCTTCCEEECTTS----CCCE
T ss_pred             hhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEE--CCCCcCCCcchHH---hhccCCCCCEEECCCC----cCCc
Confidence             4788899999999999987677788888999999997  666655321 232   3455666777777654    2334


Q ss_pred             hhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhccc-CCcEEEcC
Q 043450          483 AERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLT-NLRDLNLD  561 (561)
Q Consensus       483 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~-~L~~L~L~  561 (561)
                      ..+..+.++++|+.|++++|.+.              ...|..+..+++|+.|++++|.++.+|.++..++ +|+.|+|+
T Consensus       488 ~~~~~~~~l~~L~~L~Ls~N~l~--------------~~~~~~~~~l~~L~~L~l~~N~l~~~p~~~~~l~~~L~~l~l~  553 (606)
T 3vq2_A          488 ISWGVFDTLHRLQLLNMSHNNLL--------------FLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLT  553 (606)
T ss_dssp             ECTTTTTTCTTCCEEECCSSCCS--------------CEEGGGTTTCTTCCEEECTTSCCCCEESCGGGSCTTCCEEECC
T ss_pred             cChhhhcccccCCEEECCCCcCC--------------CcCHHHccCCCcCCEEECCCCcCcccCHhHhhhcccCcEEEcc
Confidence            45566788899999999988743              2346778888999999999999888998888887 59998874

>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=1.9e-19  Score=176.87  Aligned_cols=231  Identities=16%  Similarity=0.137  Sum_probs=172.9

Q ss_pred             cCCceEEEEeeecCCCCCccc-ccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFPMS-FFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~~~-~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      ....++.+.+..+..+.++.. +.++++|+.|.+.++..                                        .
T Consensus        26 ~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l----------------------------------------~   65 (306)
T 2z66_A           26 IPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGL----------------------------------------S   65 (306)
T ss_dssp             CCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCC----------------------------------------C
T ss_pred             CCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCcc----------------------------------------C
Confidence            346889999999888888754 68899999999988721                                        0


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccc--cccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPE--TLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~  396 (561)
                       .....+..+..+.+|++|++++         +.+..+|..+..+++|++|++++|.++.+|.  .+..+++|++|++++
T Consensus        66 -~~~~~~~~~~~~~~L~~L~Ls~---------n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~  135 (306)
T 2z66_A           66 -FKGCCSQSDFGTTSLKYLDLSF---------NGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH  135 (306)
T ss_dssp             -EEEEEEHHHHSCSCCCEEECCS---------CSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTT
T ss_pred             -cccCcccccccccccCEEECCC---------CccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCC
Confidence             0011122345689999999999         7788888889999999999999999987764  688999999999999


Q ss_pred             CCCcCccCcccccCCCCCeEEcCCCCCCc-cCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          397 CQDLRELPTGIGKLKNMRSLLNGDTSSLK-YLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       397 ~~~~~~lp~~~~~l~~L~~L~l~~~~~~~-~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      |......|..+..+++|++|++++|...+ .+|..++.+++|++|+  +.++.+.+..+   ..+..++.|+.|.+.+..
T Consensus       136 n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~--Ls~n~l~~~~~---~~~~~l~~L~~L~L~~N~  210 (306)
T 2z66_A          136 THTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLD--LSQCQLEQLSP---TAFNSLSSLQVLNMSHNN  210 (306)
T ss_dssp             SCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEE--CTTSCCCEECT---TTTTTCTTCCEEECTTSC
T ss_pred             CcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEE--CCCCCcCCcCH---HHhcCCCCCCEEECCCCc
Confidence            98555566778899999999999998544 4788899999999998  66666643333   334556667777776533


Q ss_pred             CCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCC-CCCceEEEeecCCC
Q 043450          476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPP-VNVEELWIVYYGGN  543 (561)
Q Consensus       476 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~-~~L~~L~l~~~~~~  543 (561)
                          ........+..+++|+.|++++|.+...              .+..+..+ ++|+.|++++|++.
T Consensus       211 ----l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------------~~~~~~~~~~~L~~L~L~~N~~~  261 (306)
T 2z66_A          211 ----FFSLDTFPYKCLNSLQVLDYSLNHIMTS--------------KKQELQHFPSSLAFLNLTQNDFA  261 (306)
T ss_dssp             ----CSBCCSGGGTTCTTCCEEECTTSCCCBC--------------SSSSCCCCCTTCCEEECTTCCEE
T ss_pred             ----cCccChhhccCcccCCEeECCCCCCccc--------------CHHHHHhhhccCCEEEccCCCee
Confidence                2222333577889999999998875332              34556666 48999999999864

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

Probab=99.78  E-value=5.5e-19  Score=182.78  Aligned_cols=103  Identities=29%  Similarity=0.409  Sum_probs=46.9

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      |.++.+|++|+|++         |.++.+|. .+..+++|++|++++|.++.+|. .+.++++|++|++++|..+..+|.
T Consensus       108 ~~~l~~L~~L~L~~---------n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~  178 (440)
T 3zyj_A          108 FNGLANLNTLELFD---------NRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISE  178 (440)
T ss_dssp             GTTCSSCCEEECCS---------SCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECT
T ss_pred             ccCCccCCEEECCC---------CcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCc
Confidence            34444455555544         34444433 24444455555555554444432 344445555555544443444433


Q ss_pred             -ccccCCCCCeEEcCCCCCCccCcccccCCcCCcccC
Q 043450          406 -GIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE  441 (561)
Q Consensus       406 -~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~  441 (561)
                       .+.++++|++|++++|. +..+| .+..+++|+.|+
T Consensus       179 ~~~~~l~~L~~L~L~~n~-l~~~~-~~~~l~~L~~L~  213 (440)
T 3zyj_A          179 GAFEGLSNLRYLNLAMCN-LREIP-NLTPLIKLDELD  213 (440)
T ss_dssp             TTTTTCSSCCEEECTTSC-CSSCC-CCTTCSSCCEEE
T ss_pred             chhhcccccCeecCCCCc-Ccccc-ccCCCcccCEEE
Confidence             34444455555554444 33444 244444444444

>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=2e-18  Score=180.62  Aligned_cols=195  Identities=22%  Similarity=0.242  Sum_probs=148.3

Q ss_pred             EEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHH
Q 043450          246 HIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILR  325 (561)
Q Consensus       246 ~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (561)
                      .+.........+|..+  .++++.|.+.++..                                           ....+
T Consensus        15 ~v~c~~~~l~~ip~~~--~~~l~~L~L~~n~l-------------------------------------------~~~~~   49 (477)
T 2id5_A           15 AVLCHRKRFVAVPEGI--PTETRLLDLGKNRI-------------------------------------------KTLNQ   49 (477)
T ss_dssp             EEECCSCCCSSCCSCC--CTTCSEEECCSSCC-------------------------------------------CEECT
T ss_pred             EEEeCCCCcCcCCCCC--CCCCcEEECCCCcc-------------------------------------------ceECH
Confidence            3444455566777544  36899999988722                                           12223


Q ss_pred             HHHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCcc
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      ..|.++++|++|+|++         +.+..+ |..++.+++|++|+|++|.++.+|.. +.++++|++|++++|......
T Consensus        50 ~~~~~l~~L~~L~L~~---------n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~  120 (477)
T 2id5_A           50 DEFASFPHLEELELNE---------NIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILL  120 (477)
T ss_dssp             TTTTTCTTCCEEECTT---------SCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEEC
T ss_pred             hHccCCCCCCEEECCC---------CccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCC
Confidence            3477899999999999         777776 77899999999999999999988865 789999999999999944455


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      |..+..+++|++|++++|......|..++.+++|+.|+  +.++.+....   ...+..++.|+.|.+.+..    ....
T Consensus       121 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~---~~~l~~l~~L~~L~l~~n~----i~~~  191 (477)
T 2id5_A          121 DYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLT--LEKCNLTSIP---TEALSHLHGLIVLRLRHLN----INAI  191 (477)
T ss_dssp             TTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEE--EESCCCSSCC---HHHHTTCTTCCEEEEESCC----CCEE
T ss_pred             hhHccccccCCEEECCCCccceeChhhccCCCCCCEEE--CCCCcCcccC---hhHhcccCCCcEEeCCCCc----CcEe
Confidence            77899999999999999996566677899999999998  7777663322   2346677788888887643    2233


Q ss_pred             hhcccccccccccEEEEeec
Q 043450          484 ERLQLYNKKNLLRLGLQFGR  503 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~  503 (561)
                      ....+..+++|+.|++++|.
T Consensus       192 ~~~~~~~l~~L~~L~l~~~~  211 (477)
T 2id5_A          192 RDYSFKRLYRLKVLEISHWP  211 (477)
T ss_dssp             CTTCSCSCTTCCEEEEECCT
T ss_pred             ChhhcccCcccceeeCCCCc
Confidence            44567788888888888765

>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=99.77  E-value=3.9e-18  Score=170.69  Aligned_cols=190  Identities=19%  Similarity=0.250  Sum_probs=119.2

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|++|++++         +.+..+|. +..+++|++|++++|.....++.+..+++|++|++++|. +..++. +
T Consensus       106 ~~~l~~L~~L~l~~---------n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~-~  173 (347)
T 4fmz_A          106 LQNLTNLRELYLNE---------DNISDISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESK-VKDVTP-I  173 (347)
T ss_dssp             GTTCTTCSEEECTT---------SCCCCCGG-GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSC-CCCCGG-G
T ss_pred             HcCCCcCCEEECcC---------CcccCchh-hccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCC-cCCchh-h
Confidence            45566666666666         45555554 566666666666666533333336666666666666665 444444 6


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++|+.|++++|. +..++. +..+++|+.|+  +.++....     +..+..++.|+.|.+.+..- ...    +. 
T Consensus       174 ~~l~~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~--l~~n~l~~-----~~~~~~~~~L~~L~l~~n~l-~~~----~~-  238 (347)
T 4fmz_A          174 ANLTDLYSLSLNYNQ-IEDISP-LASLTSLHYFT--AYVNQITD-----ITPVANMTRLNSLKIGNNKI-TDL----SP-  238 (347)
T ss_dssp             GGCTTCSEEECTTSC-CCCCGG-GGGCTTCCEEE--CCSSCCCC-----CGGGGGCTTCCEEECCSSCC-CCC----GG-
T ss_pred             ccCCCCCEEEccCCc-cccccc-ccCCCccceee--cccCCCCC-----CchhhcCCcCCEEEccCCcc-CCC----cc-
Confidence            666677777776666 444443 56666666665  33443321     12255666666666665432 111    11 


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      +..+++|+.|++++|.+..                .+.+..+++|+.|++++|.+..+| .+..+++|+.|+|+
T Consensus       239 ~~~l~~L~~L~l~~n~l~~----------------~~~~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~L~  295 (347)
T 4fmz_A          239 LANLSQLTWLEIGTNQISD----------------INAVKDLTKLKMLNVGSNQISDIS-VLNNLSQLNSLFLN  295 (347)
T ss_dssp             GTTCTTCCEEECCSSCCCC----------------CGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECC
T ss_pred             hhcCCCCCEEECCCCccCC----------------ChhHhcCCCcCEEEccCCccCCCh-hhcCCCCCCEEECc
Confidence            6677788888888776432                135678889999999999988875 57899999999875

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.77  E-value=7.4e-19  Score=178.89  Aligned_cols=208  Identities=17%  Similarity=0.195  Sum_probs=150.1

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCc
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDL  400 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~  400 (561)
                      .++..+..+++|++|++++         +.+..+|. .++.+++|++|++++|.++.+| ..++++++|++|++++|. +
T Consensus        60 l~~~~~~~l~~L~~L~L~~---------n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l  129 (390)
T 3o6n_A           60 LPAALLDSFRQVELLNLND---------LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERND-L  129 (390)
T ss_dssp             ECTHHHHHCCCCSEEECTT---------SCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-C
T ss_pred             CChhHhcccccCcEEECCC---------CcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCc-c
Confidence            4455678899999999999         77877764 7899999999999999999775 458999999999999998 7


Q ss_pred             CccCcc-cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccC---------------
Q 043450          401 RELPTG-IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQ---------------  464 (561)
Q Consensus       401 ~~lp~~-~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~---------------  464 (561)
                      ..+|.. ++.+++|++|++++|......|..++.+++|++|+  +.++.+....   +..+++|+               
T Consensus       130 ~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~---~~~l~~L~~L~l~~n~l~~~~~~  204 (390)
T 3o6n_A          130 SSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQ--LSSNRLTHVD---LSLIPSLFHANVSYNLLSTLAIP  204 (390)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEE--CCSSCCSBCC---GGGCTTCSEEECCSSCCSEEECC
T ss_pred             CcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEE--CCCCcCCccc---cccccccceeecccccccccCCC
Confidence            888876 58999999999999995555566799999999998  6666654322   22222221               


Q ss_pred             -CCCceEEcCCCCC-----------------CCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcC
Q 043450          465 -LLRECRVEGLSNV-----------------SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEAL  526 (561)
Q Consensus       465 -~L~~l~i~~~~~~-----------------~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l  526 (561)
                       .|+.+.+.+..-.                 +....  ...+..+++|+.|++++|.+              ....+..+
T Consensus       205 ~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~--~~~l~~l~~L~~L~Ls~n~l--------------~~~~~~~~  268 (390)
T 3o6n_A          205 IAVEELDASHNSINVVRGPVNVELTILKLQHNNLTD--TAWLLNYPGLVEVDLSYNEL--------------EKIMYHPF  268 (390)
T ss_dssp             SSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCC--------------CEEESGGG
T ss_pred             CcceEEECCCCeeeeccccccccccEEECCCCCCcc--cHHHcCCCCccEEECCCCcC--------------CCcChhHc
Confidence             1222222211100                 00000  12355666777777776653              22346677


Q ss_pred             CCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          527 QPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       527 ~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      ..+++|+.|++++|.+..+|..+..+++|+.|+|+
T Consensus       269 ~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~  303 (390)
T 3o6n_A          269 VKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLS  303 (390)
T ss_dssp             TTCSSCCEEECCSSCCCEEECSSSCCTTCCEEECC
T ss_pred             cccccCCEEECCCCcCcccCcccCCCCCCCEEECC
Confidence            88889999999999988888777888999999875

>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=1.8e-18  Score=171.79  Aligned_cols=245  Identities=14%  Similarity=0.104  Sum_probs=139.5

Q ss_pred             CCceEEEEeeecCCCCC-cccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          241 GEKVRHIGLNFQRGASF-PMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~-~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      ...++.+.+..+....+ +..+..+++|++|.+.++...                                       . 
T Consensus        75 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~---------------------------------------~-  114 (330)
T 1xku_A           75 LKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK---------------------------------------E-  114 (330)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCS---------------------------------------B-
T ss_pred             CCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCC---------------------------------------c-
Confidence            34567777777666555 456667777777777666110                                       0 


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCc---cccccccCCCCccEEecC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIE---SLPETLCELYNLQKLDIR  395 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~---~lp~~i~~L~~L~~L~l~  395 (561)
                          ++.  .-.++|++|++++         +.+..++. .+..+++|++|++++|.+.   ..|..+.++++|++|+++
T Consensus       115 ----l~~--~~~~~L~~L~l~~---------n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~  179 (330)
T 1xku_A          115 ----LPE--KMPKTLQELRVHE---------NEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIA  179 (330)
T ss_dssp             ----CCS--SCCTTCCEEECCS---------SCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECC
T ss_pred             ----cCh--hhcccccEEECCC---------CcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECC
Confidence                000  0114677777777         55655543 3566777777777777764   335566777777777777


Q ss_pred             CCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          396 RCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       396 ~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      +|. +..+|..+.  ++|++|++++|......|..++.+++|+.|+  +.++.+.+..+   ..+..++.|+.|++++..
T Consensus       180 ~n~-l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--Ls~n~l~~~~~---~~~~~l~~L~~L~L~~N~  251 (330)
T 1xku_A          180 DTN-ITTIPQGLP--PSLTELHLDGNKITKVDAASLKGLNNLAKLG--LSFNSISAVDN---GSLANTPHLRELHLNNNK  251 (330)
T ss_dssp             SSC-CCSCCSSCC--TTCSEEECTTSCCCEECTGGGTTCTTCCEEE--CCSSCCCEECT---TTGGGSTTCCEEECCSSC
T ss_pred             CCc-cccCCcccc--ccCCEEECCCCcCCccCHHHhcCCCCCCEEE--CCCCcCceeCh---hhccCCCCCCEEECCCCc
Confidence            776 666666443  6777777777764444456677777777776  45554432222   234445556666665432


Q ss_pred             CCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC---CCChhhhcc
Q 043450          476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN---IFPKWLTLL  552 (561)
Q Consensus       476 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~---~lp~~~~~l  552 (561)
                      - .    ..+..+..+++|+.|++++|.+.......       .. ........+.|+.|++++|++.   ..|..+..+
T Consensus       252 l-~----~lp~~l~~l~~L~~L~l~~N~i~~~~~~~-------f~-~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~  318 (330)
T 1xku_A          252 L-V----KVPGGLADHKYIQVVYLHNNNISAIGSND-------FC-PPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCV  318 (330)
T ss_dssp             C-S----SCCTTTTTCSSCCEEECCSSCCCCCCTTS-------SS-CSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTC
T ss_pred             C-c----cCChhhccCCCcCEEECCCCcCCccChhh-------cC-CcccccccccccceEeecCcccccccCccccccc
Confidence            1 1    23344666777777777777654331110       00 0000112356777777777754   234555666


Q ss_pred             cCCcEEEcC
Q 043450          553 TNLRDLNLD  561 (561)
Q Consensus       553 ~~L~~L~L~  561 (561)
                      ++|+.++|+
T Consensus       319 ~~l~~l~L~  327 (330)
T 1xku_A          319 YVRAAVQLG  327 (330)
T ss_dssp             CCGGGEEC-
T ss_pred             cceeEEEec
Confidence            777777664

>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=99.77  E-value=1.6e-18  Score=187.02  Aligned_cols=147  Identities=20%  Similarity=0.211  Sum_probs=111.3

Q ss_pred             cCCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++.+.+..+....++ ..+.++++|++|.+.++..                                         
T Consensus        30 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l-----------------------------------------   68 (606)
T 3vq2_A           30 IPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEI-----------------------------------------   68 (606)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCC-----------------------------------------
T ss_pred             CCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcc-----------------------------------------
Confidence            3467888888888877666 3778888888888887721                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~  396 (561)
                        ....+..|.++++|++|++++         |.+..+ |..|+.+++|++|++++|.++.+| ..++++++|++|++++
T Consensus        69 --~~i~~~~~~~l~~L~~L~Ls~---------n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  137 (606)
T 3vq2_A           69 --ETIEDKAWHGLHHLSNLILTG---------NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAH  137 (606)
T ss_dssp             --CEECTTTTTTCTTCCEEECTT---------CCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCS
T ss_pred             --cccCHHHhhchhhcCEeECCC---------CcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCC
Confidence              122334467888899999988         667766 777888889999999998888766 6688889999999998


Q ss_pred             CCCcC-ccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCc
Q 043450          397 CQDLR-ELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLR  438 (561)
Q Consensus       397 ~~~~~-~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~  438 (561)
                      |.... .+|..++++++|++|++++|...+..|..++.+++|+
T Consensus       138 n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  180 (606)
T 3vq2_A          138 NFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENP  180 (606)
T ss_dssp             SCCCCCCCCGGGGTCTTCCEEECCSSCCCEECTTTTHHHHHCT
T ss_pred             CcccceechHhHhhcCCCCEEEccCCcceecChhhhhhhhccc
Confidence            88333 5788888899999999988885555555666666655

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

Probab=99.77  E-value=2.1e-18  Score=192.84  Aligned_cols=151  Identities=21%  Similarity=0.219  Sum_probs=101.2

Q ss_pred             cCCceEEEEeeecCCCCC-cccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASF-PMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~-~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++.+.+..+.+..+ +..+..+++|++|.+.++..                                         
T Consensus        22 lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~-----------------------------------------   60 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYT-----------------------------------------   60 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCC-----------------------------------------
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCC-----------------------------------------
Confidence            567899999999988766 47889999999999988721                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcc-cccc--ccCCCCccEEec
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIES-LPET--LCELYNLQKLDI  394 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~-lp~~--i~~L~~L~~L~l  394 (561)
                       ...+.+..|.++++|++|+|++         |.+..+ |..|+.+++|++|+|++|.+.. +|..  ++++++|++|++
T Consensus        61 -~~~i~~~~f~~L~~L~~L~Ls~---------N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~L  130 (844)
T 3j0a_A           61 -PLTIDKEAFRNLPNLRILDLGS---------SKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDL  130 (844)
T ss_dssp             -CCEECTTTTSSCTTCCEEECTT---------CCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEE
T ss_pred             -ccccCHHHhcCCCCCCEEECCC---------CcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEEC
Confidence             1122234466777777777777         555554 6667777777777777777663 4544  677777777777


Q ss_pred             CCCCCcCccC-cccccCCCCCeEEcCCCCCCccCcccccCC--cCCcccC
Q 043450          395 RRCQDLRELP-TGIGKLKNMRSLLNGDTSSLKYLPIGISRL--TSLRTLE  441 (561)
Q Consensus       395 ~~~~~~~~lp-~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l--~~L~~L~  441 (561)
                      ++|......| ..++++++|++|++++|......|..++.+  ++|+.|+
T Consensus       131 s~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~  180 (844)
T 3j0a_A          131 SKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFS  180 (844)
T ss_dssp             ESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCE
T ss_pred             CCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceEE
Confidence            7776333222 457777777777777776544455555444  4455554

>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=99.77  E-value=4.8e-18  Score=170.04  Aligned_cols=191  Identities=19%  Similarity=0.288  Sum_probs=148.4

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|++|++++         +.+..++. ++.+++|++|++++|.+..++. +..+++|+.|++++|. +..++. +
T Consensus       151 ~~~l~~L~~L~l~~---------~~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~-l~~~~~-~  217 (347)
T 4fmz_A          151 LSNMTGLNYLTVTE---------SKVKDVTP-IANLTDLYSLSLNYNQIEDISP-LASLTSLHYFTAYVNQ-ITDITP-V  217 (347)
T ss_dssp             GTTCTTCCEEECCS---------SCCCCCGG-GGGCTTCSEEECTTSCCCCCGG-GGGCTTCCEEECCSSC-CCCCGG-G
T ss_pred             hhhCCCCcEEEecC---------CCcCCchh-hccCCCCCEEEccCCccccccc-ccCCCccceeecccCC-CCCCch-h
Confidence            66788888888888         55666655 7788889999999998887776 8888999999999887 666655 7


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++|++|++++|. +..+|. +..+++|++|+  +.++.+..     +..+..+++|+.|.+.+.. +...     ..
T Consensus       218 ~~~~~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~--l~~n~l~~-----~~~~~~l~~L~~L~l~~n~-l~~~-----~~  282 (347)
T 4fmz_A          218 ANMTRLNSLKIGNNK-ITDLSP-LANLSQLTWLE--IGTNQISD-----INAVKDLTKLKMLNVGSNQ-ISDI-----SV  282 (347)
T ss_dssp             GGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEE--CCSSCCCC-----CGGGTTCTTCCEEECCSSC-CCCC-----GG
T ss_pred             hcCCcCCEEEccCCc-cCCCcc-hhcCCCCCEEE--CCCCccCC-----ChhHhcCCCcCEEEccCCc-cCCC-----hh
Confidence            888999999999988 566665 88889999987  55665422     3456777788888887653 2221     34


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      +..+++|+.|++++|.+              ....++.+..+++|+.|++++|.+..+|. +..+++|+.|+++
T Consensus       283 ~~~l~~L~~L~L~~n~l--------------~~~~~~~l~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~  341 (347)
T 4fmz_A          283 LNNLSQLNSLFLNNNQL--------------GNEDMEVIGGLTNLTTLFLSQNHITDIRP-LASLSKMDSADFA  341 (347)
T ss_dssp             GGGCTTCSEEECCSSCC--------------CGGGHHHHHTCTTCSEEECCSSSCCCCGG-GGGCTTCSEESSS
T ss_pred             hcCCCCCCEEECcCCcC--------------CCcChhHhhccccCCEEEccCCccccccC-hhhhhccceeehh
Confidence            77889999999998764              33445667788999999999999988876 8899999999985

>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=99.77  E-value=2.1e-18  Score=182.54  Aligned_cols=134  Identities=17%  Similarity=0.191  Sum_probs=92.5

Q ss_pred             CceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          242 EKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       242 ~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      ..++.+.+..+....++ ..+..+++|++|.+.++..                                           
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l-------------------------------------------   57 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILIISHNRI-------------------------------------------   57 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCC-------------------------------------------
T ss_pred             ccccEEECCCCcccccChhhccccccccEEecCCCcc-------------------------------------------
Confidence            67788888887776665 4677788888888877621                                           


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcc--ccccccCCCCccEEecCCCC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIES--LPETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~--lp~~i~~L~~L~~L~l~~~~  398 (561)
                      ....+..+.++++|++|++++         |.++.+|..  .+++|++|++++|.++.  +|..++++++|++|++++|.
T Consensus        58 ~~~~~~~~~~l~~L~~L~Ls~---------N~l~~lp~~--~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~  126 (520)
T 2z7x_B           58 QYLDISVFKFNQELEYLDLSH---------NKLVKISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTH  126 (520)
T ss_dssp             CEEEGGGGTTCTTCCEEECCS---------SCCCEEECC--CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESS
T ss_pred             CCcChHHhhcccCCCEEecCC---------CceeecCcc--ccCCccEEeccCCccccccchhhhccCCcceEEEecCcc
Confidence            122334467788888888888         677777766  67888888888888774  56778888888888888877


Q ss_pred             CcCccCcccccCCCC--CeEEcCCCCC--CccCccccc
Q 043450          399 DLRELPTGIGKLKNM--RSLLNGDTSS--LKYLPIGIS  432 (561)
Q Consensus       399 ~~~~lp~~~~~l~~L--~~L~l~~~~~--~~~lp~~i~  432 (561)
                       +..  ..+..+++|  +.|++++|..  .+..|..++
T Consensus       127 -l~~--~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~l~  161 (520)
T 2z7x_B          127 -LEK--SSVLPIAHLNISKVLLVLGETYGEKEDPEGLQ  161 (520)
T ss_dssp             -CCG--GGGGGGTTSCEEEEEEEECTTTTSSCCTTTTT
T ss_pred             -cch--hhccccccceeeEEEeeccccccccccccccc
Confidence             433  245556666  7777766654  334444333

>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=5.7e-19  Score=183.64  Aligned_cols=202  Identities=17%  Similarity=0.194  Sum_probs=135.1

Q ss_pred             HhccccccEEeccCCCCCCCCCccccccc-Ccc-ccccCccCEEecCCCCCccc-ccccc--------------------
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREI-PEN-VEKLIHLKYLNLSGLRIESL-PETLC--------------------  384 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~-~~~l~~L~~L~l~~~~l~~l-p~~i~--------------------  384 (561)
                      +..+++|++|++++         |.+..+ |.. ++.+++|++|++++|.++.+ |..+.                    
T Consensus       125 ~~~l~~L~~L~L~~---------n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~  195 (455)
T 3v47_A          125 FKPLTSLEMLVLRD---------NNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDM  195 (455)
T ss_dssp             TTTCTTCCEEECCS---------SBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCBCTTC
T ss_pred             ccCcccCCEEECCC---------CccCccCcccccCCCCcccEEeCCCCcccccChhhhhccccccccccccccCccccc
Confidence            55666777777776         555554 433 56667777777777766533 33333                    


Q ss_pred             --------------CCCCccEEecCCCCCcCccCccccc---------------------------------------CC
Q 043450          385 --------------ELYNLQKLDIRRCQDLRELPTGIGK---------------------------------------LK  411 (561)
Q Consensus       385 --------------~L~~L~~L~l~~~~~~~~lp~~~~~---------------------------------------l~  411 (561)
                                    .+++|++|++++|......|..+..                                       .+
T Consensus       196 ~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  275 (455)
T 3v47_A          196 NEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEAS  275 (455)
T ss_dssp             STTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTS
T ss_pred             chhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccCccccccccccc
Confidence                          3356777777777633333332221                                       25


Q ss_pred             CCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccc
Q 043450          412 NMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNK  491 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l  491 (561)
                      +|+.|++++|......|..++++++|++|+  +.++.+.+..+.   .+..++.|+.|++++.    ......+..+.++
T Consensus       276 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--Ls~n~l~~~~~~---~~~~l~~L~~L~Ls~N----~l~~~~~~~~~~l  346 (455)
T 3v47_A          276 GVKTCDLSKSKIFALLKSVFSHFTDLEQLT--LAQNEINKIDDN---AFWGLTHLLKLNLSQN----FLGSIDSRMFENL  346 (455)
T ss_dssp             CCCEEECCSSCCCEECTTTTTTCTTCCEEE--CTTSCCCEECTT---TTTTCTTCCEEECCSS----CCCEECGGGGTTC
T ss_pred             CceEEEecCccccccchhhcccCCCCCEEE--CCCCcccccChh---HhcCcccCCEEECCCC----ccCCcChhHhcCc
Confidence            788888888876666677788889999988  666666433333   3445666777777653    2334445667888


Q ss_pred             cccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh-hcccCCcEEEcC
Q 043450          492 KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL-TLLTNLRDLNLD  561 (561)
Q Consensus       492 ~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~-~~l~~L~~L~L~  561 (561)
                      ++|+.|++++|.+.              ...+..+..+++|++|++++|.+..+|..+ ..+++|+.|+|+
T Consensus       347 ~~L~~L~Ls~N~l~--------------~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  403 (455)
T 3v47_A          347 DKLEVLDLSYNHIR--------------ALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLH  403 (455)
T ss_dssp             TTCCEEECCSSCCC--------------EECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             ccCCEEECCCCccc--------------ccChhhccccccccEEECCCCccccCCHhHhccCCcccEEEcc
Confidence            99999999988742              223667888999999999999988887654 889999999885

>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=99.77  E-value=1.4e-18  Score=187.45  Aligned_cols=273  Identities=19%  Similarity=0.162  Sum_probs=191.4

Q ss_pred             CCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      ...++.+.+..+....+|..+..+++|++|.+.++............       .....      .+.+.     .....
T Consensus       277 l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~-------l~~L~------~L~l~-----~n~~~  338 (606)
T 3t6q_A          277 FSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASN-------FPSLT------HLSIK-----GNTKR  338 (606)
T ss_dssp             CTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGG-------CTTCS------EEECC-----SCSSC
T ss_pred             ccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhc-------cCcCC------EEECC-----CCCcc
Confidence            46789999999999999988999999999999988332110000000       00000      00000     00111


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCccccccc---CccccccCccCEEecCCCCCccc-cccccCCCCccEEecCC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREI---PENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRR  396 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l---p~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~  396 (561)
                      ....+..+..+++|++|++++         +.+..+   |..++.+++|++|++++|.+..+ |..+..+++|++|++++
T Consensus       339 ~~~~~~~~~~l~~L~~L~l~~---------n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  409 (606)
T 3t6q_A          339 LELGTGCLENLENLRELDLSH---------DDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAF  409 (606)
T ss_dssp             CBCCSSTTTTCTTCCEEECCS---------SCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTT
T ss_pred             cccchhhhhccCcCCEEECCC---------CccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCC
Confidence            112223356788888888888         555554   56678889999999999988754 66788899999999999


Q ss_pred             CCCcCccCc-ccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          397 CQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       397 ~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      |......|. .+..+++|+.|++++|......|..++.+++|++|+  +.+|.+.+........+..++.|+.|++++..
T Consensus       410 n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~  487 (606)
T 3t6q_A          410 TRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLN--LQGNHFPKGNIQKTNSLQTLGRLEILVLSFCD  487 (606)
T ss_dssp             CCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEE--CTTCBCGGGEECSSCGGGGCTTCCEEECTTSC
T ss_pred             CcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEE--CCCCCCCccccccchhhccCCCccEEECCCCc
Confidence            884444444 478889999999999986666677788899999998  66666533222233456777778888887643


Q ss_pred             CCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCC-hhhhcccC
Q 043450          476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFP-KWLTLLTN  554 (561)
Q Consensus       476 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp-~~~~~l~~  554 (561)
                          .....+..+.++++|+.|++++|.+              ....++.+..+++| .|++++|.++.+| ..+..+++
T Consensus       488 ----l~~~~~~~~~~l~~L~~L~Ls~N~l--------------~~~~~~~l~~l~~L-~L~L~~N~l~~~~~~~~~~l~~  548 (606)
T 3t6q_A          488 ----LSSIDQHAFTSLKMMNHVDLSHNRL--------------TSSSIEALSHLKGI-YLNLASNHISIILPSLLPILSQ  548 (606)
T ss_dssp             ----CCEECTTTTTTCTTCCEEECCSSCC--------------CGGGGGGGTTCCSC-EEECCSSCCCCCCGGGHHHHHT
T ss_pred             ----cCccChhhhccccCCCEEECCCCcc--------------CcCChhHhCccccc-EEECcCCcccccCHhhcccCCC
Confidence                3344456788899999999998764              44567788899999 9999999988765 45689999


Q ss_pred             CcEEEcC
Q 043450          555 LRDLNLD  561 (561)
Q Consensus       555 L~~L~L~  561 (561)
                      |+.|+|+
T Consensus       549 L~~L~l~  555 (606)
T 3t6q_A          549 QRTINLR  555 (606)
T ss_dssp             SSEEECT
T ss_pred             CCEEeCC
Confidence            9999985

>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=99.76  E-value=1e-18  Score=191.13  Aligned_cols=249  Identities=18%  Similarity=0.216  Sum_probs=164.4

Q ss_pred             cCCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+.+++++.+..+....++ ..+.++++|++|.+.++..                                         
T Consensus        23 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l-----------------------------------------   61 (680)
T 1ziw_A           23 LPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTI-----------------------------------------   61 (680)
T ss_dssp             SCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCC-----------------------------------------
T ss_pred             cCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCcc-----------------------------------------
Confidence            3478999999999887777 4688999999999988722                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCcccc-ccccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~  396 (561)
                        ....+..+.++++|++|++++         +.+..+|. .|+.+++|++|++++|.+..+| ..++++++|++|++++
T Consensus        62 --~~~~~~~~~~l~~L~~L~L~~---------n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~  130 (680)
T 1ziw_A           62 --SKLEPELCQKLPMLKVLNLQH---------NELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH  130 (680)
T ss_dssp             --CCCCTTHHHHCTTCCEEECCS---------SCCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCS
T ss_pred             --CccCHHHHhcccCcCEEECCC---------CccCccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCC
Confidence              122344577899999999998         77888876 5889999999999999988776 5689999999999999


Q ss_pred             CCCcCccCcccccCCCCCeEEcCCCCCCccCccccc--CCcCCcccCceeecCccCCCCccCchhhhcc-----------
Q 043450          397 CQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGIS--RLTSLRTLEKFVVGGGVDGNNTCRLESLKNL-----------  463 (561)
Q Consensus       397 ~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~--~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L-----------  463 (561)
                      |......|..++++++|++|++++|...+..|..++  .+++|++|+  +.++.+.+..+..+..+.+|           
T Consensus       131 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~--L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  208 (680)
T 1ziw_A          131 NGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLE--LSSNQIKEFSPGCFHAIGRLFGLFLNNVQLG  208 (680)
T ss_dssp             SCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEE--CTTCCCCCBCTTGGGGSSEECEEECTTCCCH
T ss_pred             CcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEE--CCCCcccccChhhhhhhhhhhhhhccccccC
Confidence            985555566788999999999999884443344343  557888887  55665554444444444433           


Q ss_pred             -------------CCCCceEEcCCCCCCCcchhhhcccccccc--cccEEEEeecCCCCCcccccCCCcchHHHhhcCCC
Q 043450          464 -------------QLLRECRVEGLSNVSHVDEAERLQLYNKKN--LLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQP  528 (561)
Q Consensus       464 -------------~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~--L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~  528 (561)
                                   +.|+.|.+.+.    ......+..+.++..  |+.|++++|.+..              ..+..+..
T Consensus       209 ~~~~~~~~~~l~~~~L~~L~L~~n----~l~~~~~~~~~~l~~~~L~~L~Ls~n~l~~--------------~~~~~~~~  270 (680)
T 1ziw_A          209 PSLTEKLCLELANTSIRNLSLSNS----QLSTTSNTTFLGLKWTNLTMLDLSYNNLNV--------------VGNDSFAW  270 (680)
T ss_dssp             HHHHHHHHHHHTTSCCCEEECTTS----CCCEECTTTTGGGGGSCCCEEECTTSCCCE--------------ECTTTTTT
T ss_pred             hhhHHHHHHHhhhccccEEEccCC----cccccChhHhhccCcCCCCEEECCCCCcCc--------------cCcccccC
Confidence                         23444444432    112223334444443  7777777665321              12334455


Q ss_pred             CCCCceEEEeecCCCC-CChhhhcccCCcEEEc
Q 043450          529 PVNVEELWIVYYGGNI-FPKWLTLLTNLRDLNL  560 (561)
Q Consensus       529 ~~~L~~L~l~~~~~~~-lp~~~~~l~~L~~L~L  560 (561)
                      +++|++|++++|.+.. .|.++..+++|+.|+|
T Consensus       271 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  303 (680)
T 1ziw_A          271 LPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNL  303 (680)
T ss_dssp             CTTCCEEECCSCCBSEECTTTTTTCTTCCEEEC
T ss_pred             cccccEeeCCCCccCccChhhhcCCCCccEEec
Confidence            5555555555555432 2334444444444443

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.76  E-value=8.1e-19  Score=188.58  Aligned_cols=184  Identities=22%  Similarity=0.293  Sum_probs=140.5

Q ss_pred             CCCcEEEEEcCchHHHhhcCCcceEeC---CCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHh
Q 043450            3 LPGSKIVVTTRNVSVARMMRSTNIISI---KPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTG   79 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~~~~~~~~~~~v---~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g   79 (561)
                      ++||+||||||++.++..+. ...|++   ++|+.+||++||...++..     .....+.+.+|+++|+|+||||+++|
T Consensus       255 ~~~~~ilvTsR~~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~-----~~~~~~~~~~i~~~~~G~PLal~~~a  328 (591)
T 1z6t_A          255 DSQCQILLTTRDKSVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMK-----KADLPEQAHSIIKECKGSPLVVSLIG  328 (591)
T ss_dssp             CSSCEEEEEESCGGGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSC-----GGGSCTHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCCeEEEECCCcHHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCC-----cccccHHHHHHHHHhCCCcHHHHHHH
Confidence            57999999999999887654 345555   5899999999999998632     12234568999999999999999999


Q ss_pred             hhccccccccccCCcchhHHHHHHHhhhhhhh--------hhhcccccchhhhcccCCCCChhhhhhhhhhcccCCCccc
Q 043450           80 NLLCDKRTGNLLSSKSIVNEWQRILDSEVWKV--------EEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYNM  151 (561)
Q Consensus        80 ~~L~~~~~~~~l~~~~~~~~w~~~~~~~~~~~--------~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a~fp~~~~i  151 (561)
                      ++++.++           ..|...+.......        ......+..++..||+.|++  ..|.||+++|+||+|+.+
T Consensus       329 ~~l~~~~-----------~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~--~~~~~l~~la~f~~~~~i  395 (591)
T 1z6t_A          329 ALLRDFP-----------NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE--DIKDYYTDLSILQKDVKV  395 (591)
T ss_dssp             HHHHHST-----------TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCT--TTHHHHHHGGGCCTTCCE
T ss_pred             HHHhcCc-----------hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCH--HHHHHHHHccccCCCCcc
Confidence            9986653           24655544322111        11224567789999999999  789999999999999999


Q ss_pred             CHHHHHHHHHHcCCCCCCcchhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEecHHHHHHHHHhh
Q 043450          152 NKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKMHDIVHDFAQFVS  220 (561)
Q Consensus       152 ~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~mhdlv~~~~~~i~  220 (561)
                      +...+...|.++           .+.+..++..|++++|++....+   ... +|+||++++++++...
T Consensus       396 ~~~~l~~l~~~~-----------~~~~~~~l~~L~~~~Ll~~~~~~---~~~-~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          396 PTKVLCILWDME-----------TEEVEDILQEFVNKSLLFCDRNG---KSF-RYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             EHHHHHHHHTCC-----------HHHHHHHHHHHHHTTSSEEEEET---TEE-EEECCHHHHHHHHHHT
T ss_pred             CHHHHHHHhccC-----------HHHHHHHHHHHHhCcCeEEecCC---Ccc-EEEEcHHHHHHHHhhh
Confidence            999999999543           23467789999999999854322   222 3999999999998874

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

Probab=99.76  E-value=2.3e-18  Score=171.23  Aligned_cols=193  Identities=18%  Similarity=0.182  Sum_probs=135.9

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCcc-ccccCccCEEecCCCCCc---cccccccCCCCccEEecCCCCCcCccCccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPEN-VEKLIHLKYLNLSGLRIE---SLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~~l~~L~~L~l~~~~l~---~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      .+|++|++++         +.+..+|.. +..+++|++|++++|.++   ..|..+..+ +|++|++++|. +..+|..+
T Consensus       123 ~~L~~L~l~~---------n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~-l~~l~~~~  191 (332)
T 2ft3_A          123 SSLVELRIHD---------NRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAK-LTGIPKDL  191 (332)
T ss_dssp             TTCCEEECCS---------SCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSB-CSSCCSSS
T ss_pred             ccCCEEECCC---------CccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCC-CCccCccc
Confidence            6788889988         677777654 688889999999988876   345667777 88899998887 77788765


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      .  ++|++|++++|......|..++.+++|++|+  +.+|.+.+..+.   .+..++.|+.|++.+..- .    ..+..
T Consensus       192 ~--~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~--L~~N~l~~~~~~---~~~~l~~L~~L~L~~N~l-~----~lp~~  259 (332)
T 2ft3_A          192 P--ETLNELHLDHNKIQAIELEDLLRYSKLYRLG--LGHNQIRMIENG---SLSFLPTLRELHLDNNKL-S----RVPAG  259 (332)
T ss_dssp             C--SSCSCCBCCSSCCCCCCTTSSTTCTTCSCCB--CCSSCCCCCCTT---GGGGCTTCCEEECCSSCC-C----BCCTT
T ss_pred             c--CCCCEEECCCCcCCccCHHHhcCCCCCCEEE--CCCCcCCcCChh---HhhCCCCCCEEECCCCcC-e----ecChh
Confidence            4  6888899988885444456788888888888  666666433332   345566677777765321 1    34455


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC------CCCCCceEEEeecCCC---CCChhhhcccCCcEE
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ------PPVNVEELWIVYYGGN---IFPKWLTLLTNLRDL  558 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~------~~~~L~~L~l~~~~~~---~lp~~~~~l~~L~~L  558 (561)
                      +..+++|+.|++++|.+....              +..+.      ..++|+.|++++|++.   ..|..+..+++|+.|
T Consensus       260 l~~l~~L~~L~l~~N~l~~~~--------------~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l  325 (332)
T 2ft3_A          260 LPDLKLLQVVYLHTNNITKVG--------------VNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAI  325 (332)
T ss_dssp             GGGCTTCCEEECCSSCCCBCC--------------TTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTE
T ss_pred             hhcCccCCEEECCCCCCCccC--------------hhHccccccccccccccceEeecCcccccccCcccccccchhhhh
Confidence            778888999999888764432              11222      2467888999888865   345667788888888


Q ss_pred             EcC
Q 043450          559 NLD  561 (561)
Q Consensus       559 ~L~  561 (561)
                      +|+
T Consensus       326 ~l~  328 (332)
T 2ft3_A          326 QFG  328 (332)
T ss_dssp             EC-
T ss_pred             hcc
Confidence            874

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

Probab=99.76  E-value=5.5e-19  Score=194.92  Aligned_cols=247  Identities=12%  Similarity=0.125  Sum_probs=181.0

Q ss_pred             CCceEEEEeeecCCCC------------------Cccccc--ccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhh
Q 043450          241 GEKVRHIGLNFQRGAS------------------FPMSFF--EFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLY  300 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~------------------~~~~~~--~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (561)
                      ..+++.+.+..+....                  +|..+.  ++++|+.|.+.++..                       
T Consensus       447 L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l-----------------------  503 (876)
T 4ecn_A          447 LTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPN-----------------------  503 (876)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTT-----------------------
T ss_pred             CCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCC-----------------------
Confidence            4678999999999877                  887776  999999999998721                       


Q ss_pred             hccCCCCCCCCCCCCCCCcchhHHHHHHhccccccEEeccCCCCCCCCCccc-cc--ccCccccccC-------ccCEEe
Q 043450          301 LVSSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNL-IR--EIPENVEKLI-------HLKYLN  370 (561)
Q Consensus       301 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~-~~--~lp~~~~~l~-------~L~~L~  370 (561)
                                          ...+|..+.++++|++|++++         |. +.  .+|..++.+.       +|++|+
T Consensus       504 --------------------~~~iP~~l~~L~~L~~L~Ls~---------N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~  554 (876)
T 4ecn_A          504 --------------------MTQLPDFLYDLPELQSLNIAC---------NRGISAAQLKADWTRLADDEDTGPKIQIFY  554 (876)
T ss_dssp             --------------------CCSCCGGGGGCSSCCEEECTT---------CTTSCHHHHHHHHHHHHHCTTTTTTCCEEE
T ss_pred             --------------------CccChHHHhCCCCCCEEECcC---------CCCcccccchHHHHhhhhcccccCCccEEE
Confidence                                112334578999999999999         54 65  4888787776       999999


Q ss_pred             cCCCCCccccc--cccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcC-CcccCceeecC
Q 043450          371 LSGLRIESLPE--TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTS-LRTLEKFVVGG  447 (561)
Q Consensus       371 l~~~~l~~lp~--~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~-L~~L~~~~~~~  447 (561)
                      +++|.++.+|.  .++++++|++|++++|. +..+| .++.+++|+.|++++|. +..+|..++++++ |+.|+  +.+|
T Consensus       555 Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~-l~~lp-~~~~L~~L~~L~Ls~N~-l~~lp~~l~~l~~~L~~L~--Ls~N  629 (876)
T 4ecn_A          555 MGYNNLEEFPASASLQKMVKLGLLDCVHNK-VRHLE-AFGTNVKLTDLKLDYNQ-IEEIPEDFCAFTDQVEGLG--FSHN  629 (876)
T ss_dssp             CCSSCCCBCCCHHHHTTCTTCCEEECTTSC-CCBCC-CCCTTSEESEEECCSSC-CSCCCTTSCEECTTCCEEE--CCSS
T ss_pred             eeCCcCCccCChhhhhcCCCCCEEECCCCC-cccch-hhcCCCcceEEECcCCc-cccchHHHhhccccCCEEE--CcCC
Confidence            99999999999  99999999999999998 66999 89999999999999999 5599999999999 99998  6677


Q ss_pred             ccCCCCccCchhhhccCCCCceEEcCCCCC-------------------------CCcchhhhcccccccccccEEEEee
Q 043450          448 GVDGNNTCRLESLKNLQLLRECRVEGLSNV-------------------------SHVDEAERLQLYNKKNLLRLGLQFG  502 (561)
Q Consensus       448 ~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~-------------------------~~~~~~~~~~l~~l~~L~~L~l~~~  502 (561)
                      .+. ..+..+..+. .+.|+.|.+++..-.                         +.........+..+++|+.|+|++|
T Consensus       630 ~L~-~lp~~~~~~~-~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N  707 (876)
T 4ecn_A          630 KLK-YIPNIFNAKS-VYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNN  707 (876)
T ss_dssp             CCC-SCCSCCCTTC-SSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSC
T ss_pred             CCC-cCchhhhccc-cCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCC
Confidence            654 3443333221 122444444332110                         0001111111224455555555555


Q ss_pred             cCCCCCcccccCCCcchHHHhhcCC--------CCCCCceEEEeecCCCCCChhhh--cccCCcEEEcC
Q 043450          503 RVADGEGEEGRRKNENDEQLLEALQ--------PPVNVEELWIVYYGGNIFPKWLT--LLTNLRDLNLD  561 (561)
Q Consensus       503 ~~~~~~~~~~~~~n~~~~~~~~~l~--------~~~~L~~L~l~~~~~~~lp~~~~--~l~~L~~L~L~  561 (561)
                      .+.               .+|..+.        ++++|+.|++++|.+..+|..+.  .+++|+.|+|+
T Consensus       708 ~L~---------------~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~l~~L~~L~Ls  761 (876)
T 4ecn_A          708 LMT---------------SIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVS  761 (876)
T ss_dssp             CCS---------------CCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGSTTTCTTCCEEECC
T ss_pred             cCC---------------ccChHHhccccccccccCCccEEECCCCCCccchHHhhhccCCCcCEEEeC
Confidence            432               3343332        23489999999999999999887  99999999985

>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=99.76  E-value=4.3e-19  Score=174.37  Aligned_cols=238  Identities=18%  Similarity=0.124  Sum_probs=181.3

Q ss_pred             EEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHH
Q 043450          246 HIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILR  325 (561)
Q Consensus       246 ~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (561)
                      .+.......+.+|..+  .++++.|.+.++..                                           ..+.+
T Consensus        11 ~l~c~~~~l~~ip~~~--~~~l~~L~L~~n~l-------------------------------------------~~i~~   45 (306)
T 2z66_A           11 EIRCNSKGLTSVPTGI--PSSATRLELESNKL-------------------------------------------QSLPH   45 (306)
T ss_dssp             EEECCSSCCSSCCSCC--CTTCCEEECCSSCC-------------------------------------------CCCCT
T ss_pred             EEEcCCCCcccCCCCC--CCCCCEEECCCCcc-------------------------------------------CccCH
Confidence            4555555667777544  36899999988722                                           11223


Q ss_pred             HHHhccccccEEeccCCCCCCCCCccccccc---CccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCc
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIREI---PENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l---p~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      ..+.++++|++|++++         +.+..+   |..+..+++|++|++++|.+..+|..+..+++|++|++++|. +..
T Consensus        46 ~~~~~l~~L~~L~L~~---------n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n~-l~~  115 (306)
T 2z66_A           46 GVFDKLTQLTKLSLSS---------NGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSN-LKQ  115 (306)
T ss_dssp             TTTTTCTTCSEEECCS---------SCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSE-EES
T ss_pred             hHhhccccCCEEECCC---------CccCcccCcccccccccccCEEECCCCccccChhhcCCCCCCCEEECCCCc-ccc
Confidence            3467899999999999         666544   667778999999999999999999999999999999999998 666


Q ss_pred             cCc--ccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCC-CCccCchhhhccCCCCceEEcCCCCCCC
Q 043450          403 LPT--GIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDG-NNTCRLESLKNLQLLRECRVEGLSNVSH  479 (561)
Q Consensus       403 lp~--~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~-~~~~~~~~l~~L~~L~~l~i~~~~~~~~  479 (561)
                      +|.  .+..+++|++|++++|......|..++.+++|++|+  +.++.+.+ ..+   ..+..+++|+.|++++.    .
T Consensus       116 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~~~---~~~~~l~~L~~L~Ls~n----~  186 (306)
T 2z66_A          116 MSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLK--MAGNSFQENFLP---DIFTELRNLTFLDLSQC----Q  186 (306)
T ss_dssp             STTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEE--CTTCEEGGGEEC---SCCTTCTTCCEEECTTS----C
T ss_pred             cccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEE--CCCCccccccch---hHHhhCcCCCEEECCCC----C
Confidence            654  789999999999999996666777789999999998  66665532 123   33455667777777653    2


Q ss_pred             cchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC-CChhhhcc-cCCcE
Q 043450          480 VDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI-FPKWLTLL-TNLRD  557 (561)
Q Consensus       480 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~-lp~~~~~l-~~L~~  557 (561)
                      .....+..+..+++|+.|++++|.+...              .+..+..+++|+.|++++|.+.. .|..+..+ ++|+.
T Consensus       187 l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~  252 (306)
T 2z66_A          187 LEQLSPTAFNSLSSLQVLNMSHNNFFSL--------------DTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAF  252 (306)
T ss_dssp             CCEECTTTTTTCTTCCEEECTTSCCSBC--------------CSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCE
T ss_pred             cCCcCHHHhcCCCCCCEEECCCCccCcc--------------ChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCE
Confidence            3344456788899999999998875432              12346778999999999999765 56677787 49999


Q ss_pred             EEcC
Q 043450          558 LNLD  561 (561)
Q Consensus       558 L~L~  561 (561)
                      |+|+
T Consensus       253 L~L~  256 (306)
T 2z66_A          253 LNLT  256 (306)
T ss_dssp             EECT
T ss_pred             EEcc
Confidence            9985

>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=99.76  E-value=4.1e-18  Score=180.34  Aligned_cols=82  Identities=21%  Similarity=0.165  Sum_probs=66.0

Q ss_pred             CCceEEEEeeecCCCCC-cccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          241 GEKVRHIGLNFQRGASF-PMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~-~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      ...++.+.+..+....+ |..+..+++|++|.+.++..                                          
T Consensus        44 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l------------------------------------------   81 (520)
T 2z7x_B           44 LSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKL------------------------------------------   81 (520)
T ss_dssp             CTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCC------------------------------------------
T ss_pred             cccccEEecCCCccCCcChHHhhcccCCCEEecCCCce------------------------------------------
Confidence            46899999999998777 56889999999999998822                                          


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcccccc--cCccccccCccCEEecCCCCCc
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIRE--IPENVEKLIHLKYLNLSGLRIE  377 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~--lp~~~~~l~~L~~L~l~~~~l~  377 (561)
                       .. ++..  .+.+|++|++++         |.+..  +|..++.+++|++|++++|.++
T Consensus        82 -~~-lp~~--~l~~L~~L~L~~---------N~l~~~~~p~~~~~l~~L~~L~L~~n~l~  128 (520)
T 2z7x_B           82 -VK-ISCH--PTVNLKHLDLSF---------NAFDALPICKEFGNMSQLKFLGLSTTHLE  128 (520)
T ss_dssp             -CE-EECC--CCCCCSEEECCS---------SCCSSCCCCGGGGGCTTCCEEEEEESSCC
T ss_pred             -ee-cCcc--ccCCccEEeccC---------CccccccchhhhccCCcceEEEecCcccc
Confidence             01 1111  689999999999         66765  5788999999999999998765

>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=99.75  E-value=4e-18  Score=165.62  Aligned_cols=199  Identities=19%  Similarity=0.207  Sum_probs=157.1

Q ss_pred             cccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCcc-Cccc
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLREL-PTGI  407 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~l-p~~~  407 (561)
                      ..+|++|++++         +.++.+| ..+..+++|++|++++|.++.+ |..+.++++|++|++++|..+..+ |..+
T Consensus        31 ~~~l~~L~l~~---------n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~  101 (285)
T 1ozn_A           31 PAASQRIFLHG---------NRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATF  101 (285)
T ss_dssp             CTTCSEEECTT---------SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTT
T ss_pred             CCCceEEEeeC---------CcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHh
Confidence            46899999999         7788776 4588999999999999999876 678999999999999999756666 6789


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++|++|++++|......|..++++++|++|+  +.++.+....+..   +..+++|+.|++.+.    .........
T Consensus       102 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~~~~---~~~l~~L~~L~l~~n----~l~~~~~~~  172 (285)
T 1ozn_A          102 HGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLY--LQDNALQALPDDT---FRDLGNLTHLFLHGN----RISSVPERA  172 (285)
T ss_dssp             TTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE--CCSSCCCCCCTTT---TTTCTTCCEEECCSS----CCCEECTTT
T ss_pred             cCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEE--CCCCcccccCHhH---hccCCCccEEECCCC----cccccCHHH
Confidence            9999999999999995555567789999999998  6677664333322   455666777777653    222333445


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCCh-hhhcccCCcEEEcC
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPK-WLTLLTNLRDLNLD  561 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~L~  561 (561)
                      +.++++|+.|++++|.+.              ...+..+..+++|+.|++++|.+..+|. .+..+++|+.|+|+
T Consensus       173 ~~~l~~L~~L~l~~n~l~--------------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  233 (285)
T 1ozn_A          173 FRGLHSLDRLLLHQNRVA--------------HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN  233 (285)
T ss_dssp             TTTCTTCCEEECCSSCCC--------------EECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECC
T ss_pred             hcCccccCEEECCCCccc--------------ccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEecc
Confidence            788999999999988743              2236678889999999999999888875 47899999999985

>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=99.75  E-value=4.7e-19  Score=190.46  Aligned_cols=195  Identities=16%  Similarity=0.184  Sum_probs=130.1

Q ss_pred             HHHhccccccEEeccCCCCCCCCCcccccccCccc-cccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCcc
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIREIPENV-EKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~-~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      ..|..+++|++|+|++         |.+..+|..+ +.+++|++|++++|.+..+| ..++++++|++|++++|. +..+
T Consensus       117 ~~~~~l~~L~~L~L~~---------n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~  186 (597)
T 3oja_B          117 HVFQNVPLLTVLVLER---------NDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHV  186 (597)
T ss_dssp             TTTTTCTTCCEEECCS---------SCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSC-CSBC
T ss_pred             HHHcCCCCCCEEEeeC---------CCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCC-CCCc
Confidence            3456677777777777         6666776653 67777777777777777554 357777777777777776 4444


Q ss_pred             CcccccCCC----------------------------------------CCeEEcCCCCCCccCcccccCCcCCcccCce
Q 043450          404 PTGIGKLKN----------------------------------------MRSLLNGDTSSLKYLPIGISRLTSLRTLEKF  443 (561)
Q Consensus       404 p~~~~~l~~----------------------------------------L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~  443 (561)
                      |  ++.+++                                        |+.|++++|. +.. |..++.+++|+.|+  
T Consensus       187 ~--~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~-l~~-~~~l~~l~~L~~L~--  260 (597)
T 3oja_B          187 D--LSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNN-LTD-TAWLLNYPGLVEVD--  260 (597)
T ss_dssp             C--GGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSC-CCC-CGGGGGCTTCSEEE--
T ss_pred             C--hhhhhhhhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCCCC-CCC-ChhhccCCCCCEEE--
Confidence            3  222333                                        3333333333 112 24567778888887  


Q ss_pred             eecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHh
Q 043450          444 VVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLL  523 (561)
Q Consensus       444 ~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~  523 (561)
                      +.+|.+.+..+   ..+..++.|+.|.+.+..-     ...+..+..+++|+.|+|++|.+.               .+|
T Consensus       261 Ls~N~l~~~~~---~~~~~l~~L~~L~Ls~N~l-----~~l~~~~~~l~~L~~L~Ls~N~l~---------------~i~  317 (597)
T 3oja_B          261 LSYNELEKIMY---HPFVKMQRLERLYISNNRL-----VALNLYGQPIPTLKVLDLSHNHLL---------------HVE  317 (597)
T ss_dssp             CCSSCCCEEES---GGGTTCSSCCEEECTTSCC-----CEEECSSSCCTTCCEEECCSSCCC---------------CCG
T ss_pred             CCCCccCCCCH---HHhcCccCCCEEECCCCCC-----CCCCcccccCCCCcEEECCCCCCC---------------ccC
Confidence            66666543333   3455667777777766321     123455677899999999998753               345


Q ss_pred             hcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          524 EALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       524 ~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      ..+..+++|+.|++++|.+..+|  +..+++|+.|+|+
T Consensus       318 ~~~~~l~~L~~L~L~~N~l~~~~--~~~~~~L~~L~l~  353 (597)
T 3oja_B          318 RNQPQFDRLENLYLDHNSIVTLK--LSTHHTLKNLTLS  353 (597)
T ss_dssp             GGHHHHTTCSEEECCSSCCCCCC--CCTTCCCSEEECC
T ss_pred             cccccCCCCCEEECCCCCCCCcC--hhhcCCCCEEEee
Confidence            56677899999999999998876  6788999999985

>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=99.74  E-value=4.1e-18  Score=183.89  Aligned_cols=269  Identities=19%  Similarity=0.108  Sum_probs=158.6

Q ss_pred             ceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcch
Q 043450          243 KVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNS  321 (561)
Q Consensus       243 ~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (561)
                      .++.+.+..+....++ ..+..+++|+.|.+.++...        .++..+.....           +....+.... ..
T Consensus       255 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~--------~lp~~l~~l~~-----------L~~L~l~~n~-l~  314 (606)
T 3t6q_A          255 SVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLS--------ELPSGLVGLST-----------LKKLVLSANK-FE  314 (606)
T ss_dssp             EEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTSCCS--------CCCSSCCSCTT-----------CCEEECTTCC-CS
T ss_pred             ceeEEEeecCccCccCHHHhccccCCCEEeccCCccC--------CCChhhccccc-----------CCEEECccCC-cC
Confidence            7899999999887777 45889999999999988321        00000000000           0000000000 11


Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCccccc-ccCc-cccccCccCEEecCCCCCccc---cccccCCCCccEEecCC
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLIR-EIPE-NVEKLIHLKYLNLSGLRIESL---PETLCELYNLQKLDIRR  396 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~-~~~~l~~L~~L~l~~~~l~~l---p~~i~~L~~L~~L~l~~  396 (561)
                      ...+..+..+++|++|++++         +.+. .+|. .++.+++|++|++++|.++.+   |..++.+++|++|++++
T Consensus       315 ~~~~~~~~~l~~L~~L~l~~---------n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~  385 (606)
T 3t6q_A          315 NLCQISASNFPSLTHLSIKG---------NTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSY  385 (606)
T ss_dssp             BGGGGCGGGCTTCSEEECCS---------CSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCS
T ss_pred             cCchhhhhccCcCCEEECCC---------CCcccccchhhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCC
Confidence            22233456666777777776         3332 4443 366677777777777776644   45667777777777777


Q ss_pred             CCCcCccCcccccCCCCCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          397 CQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       397 ~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      |......|..++.+++|++|++++|......|.. ++++++|++|+  +.++...+..+..   +..++.|+.|.+.+..
T Consensus       386 n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~--l~~n~l~~~~~~~---~~~l~~L~~L~L~~n~  460 (606)
T 3t6q_A          386 NEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLN--LSHSLLDISSEQL---FDGLPALQHLNLQGNH  460 (606)
T ss_dssp             CSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEE--CTTCCCBTTCTTT---TTTCTTCCEEECTTCB
T ss_pred             CcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEE--CCCCccCCcCHHH---HhCCCCCCEEECCCCC
Confidence            7643444556777777777777777644444433 66777777776  5555543333333   3344555556655432


Q ss_pred             CCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC-CChhhhcccC
Q 043450          476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI-FPKWLTLLTN  554 (561)
Q Consensus       476 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~-lp~~~~~l~~  554 (561)
                      - ..........+..+++|+.|++++|.+.              ...+..+..+++|+.|++++|.+.. .|.++.++++
T Consensus       461 l-~~~~~~~~~~~~~l~~L~~L~Ls~n~l~--------------~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~  525 (606)
T 3t6q_A          461 F-PKGNIQKTNSLQTLGRLEILVLSFCDLS--------------SIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKG  525 (606)
T ss_dssp             C-GGGEECSSCGGGGCTTCCEEECTTSCCC--------------EECTTTTTTCTTCCEEECCSSCCCGGGGGGGTTCCS
T ss_pred             C-CccccccchhhccCCCccEEECCCCccC--------------ccChhhhccccCCCEEECCCCccCcCChhHhCcccc
Confidence            1 0000011234667777777877766532              2335677788889999998888764 4667788888


Q ss_pred             CcEEEcC
Q 043450          555 LRDLNLD  561 (561)
Q Consensus       555 L~~L~L~  561 (561)
                      | .|+|+
T Consensus       526 L-~L~L~  531 (606)
T 3t6q_A          526 I-YLNLA  531 (606)
T ss_dssp             C-EEECC
T ss_pred             c-EEECc
Confidence            8 88774

>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=99.74  E-value=4.2e-18  Score=181.49  Aligned_cols=172  Identities=17%  Similarity=0.199  Sum_probs=82.3

Q ss_pred             CCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          241 GEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      ...++.+.+..+....++ ..+..+++|++|.+.++.......       ..+....      ....+.     +.... 
T Consensus        25 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~-------~~~~~l~------~L~~L~-----Ls~n~-   85 (549)
T 2z81_A           25 TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEG-------DAFYSLG------SLEHLD-----LSDNH-   85 (549)
T ss_dssp             CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECT-------TTTTTCT------TCCEEE-----CTTSC-
T ss_pred             CCCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccCh-------hhccccc------cCCEEE-----CCCCc-
Confidence            357888888888876664 567888889998888873210000       0000000      000000     00000 


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcccccc--cCccccccCccCEEecCCCC-Ccccc-ccccCCCCccEEecC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIRE--IPENVEKLIHLKYLNLSGLR-IESLP-ETLCELYNLQKLDIR  395 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~--lp~~~~~l~~L~~L~l~~~~-l~~lp-~~i~~L~~L~~L~l~  395 (561)
                      .....+..+.++++|++|++++         |.+..  .|..++.+++|++|++++|. +..+| ..++++++|++|+++
T Consensus        86 l~~~~~~~~~~l~~L~~L~Ls~---------n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~  156 (549)
T 2z81_A           86 LSSLSSSWFGPLSSLKYLNLMG---------NPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIK  156 (549)
T ss_dssp             CCSCCHHHHTTCTTCCEEECTT---------CCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEE
T ss_pred             cCccCHHHhccCCCCcEEECCC---------CcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeecc
Confidence            0122333345555555555555         34442  23445555555555555555 44444 345555555555555


Q ss_pred             CCCCcCccCcccccCCCCCeEEcCCCCCCccCcccc-cCCcCCcccC
Q 043450          396 RCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTLE  441 (561)
Q Consensus       396 ~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i-~~l~~L~~L~  441 (561)
                      +|......|..++.+++|++|+++.|. ...+|..+ +.+++|++|+
T Consensus       157 ~n~l~~~~~~~l~~l~~L~~L~l~~n~-~~~~~~~~~~~l~~L~~L~  202 (549)
T 2z81_A          157 ALSLRNYQSQSLKSIRDIHHLTLHLSE-SAFLLEIFADILSSVRYLE  202 (549)
T ss_dssp             ETTCCEECTTTTTTCSEEEEEEEECSB-STTHHHHHHHSTTTBSEEE
T ss_pred             CCcccccChhhhhccccCceEecccCc-ccccchhhHhhcccccEEE
Confidence            555333345455544444444444443 22233221 2345555554

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

Probab=99.74  E-value=6.3e-18  Score=174.82  Aligned_cols=236  Identities=20%  Similarity=0.262  Sum_probs=185.7

Q ss_pred             EEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHH
Q 043450          246 HIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILR  325 (561)
Q Consensus       246 ~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (561)
                      .+.........+|..+.  ++++.|.+.++..                                           ....+
T Consensus        47 ~v~c~~~~l~~iP~~~~--~~l~~L~L~~n~i-------------------------------------------~~~~~   81 (440)
T 3zyj_A           47 KVICVRKNLREVPDGIS--TNTRLLNLHENQI-------------------------------------------QIIKV   81 (440)
T ss_dssp             EEECCSCCCSSCCSCCC--TTCSEEECCSCCC-------------------------------------------CEECT
T ss_pred             EEEeCCCCcCcCCCCCC--CCCcEEEccCCcC-------------------------------------------CeeCH
Confidence            45555555677775443  6889999888722                                           11222


Q ss_pred             HHHhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCcc
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      ..|.++++|++|+|++         |.+..++ ..|..+++|++|+|++|.++.+|. .+..+++|++|++++|. +..+
T Consensus        82 ~~~~~l~~L~~L~Ls~---------n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~-i~~~  151 (440)
T 3zyj_A           82 NSFKHLRHLEILQLSR---------NHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNP-IESI  151 (440)
T ss_dssp             TTTSSCSSCCEEECCS---------SCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCC-CCEE
T ss_pred             HHhhCCCCCCEEECCC---------CcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCc-cccc
Confidence            3477899999999999         7777775 668899999999999999998876 58999999999999998 6777


Q ss_pred             Cc-ccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcc
Q 043450          404 PT-GIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVD  481 (561)
Q Consensus       404 p~-~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~  481 (561)
                      |. .+..+++|++|++++|..+..+|. .+.++++|++|+  +.+|.+.     .+..+..+++|+.|++++.    ...
T Consensus       152 ~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~--L~~n~l~-----~~~~~~~l~~L~~L~Ls~N----~l~  220 (440)
T 3zyj_A          152 PSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLN--LAMCNLR-----EIPNLTPLIKLDELDLSGN----HLS  220 (440)
T ss_dssp             CTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEE--CTTSCCS-----SCCCCTTCSSCCEEECTTS----CCC
T ss_pred             CHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeec--CCCCcCc-----cccccCCCcccCEEECCCC----ccC
Confidence            65 788999999999999887888876 588999999998  6666653     2335677788888888764    334


Q ss_pred             hhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChh-hhcccCCcEEEc
Q 043450          482 EAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKW-LTLLTNLRDLNL  560 (561)
Q Consensus       482 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~L  560 (561)
                      ...+..|.++++|+.|++++|.+..              ..+..+..+++|+.|++++|.++.+|.. +..+++|+.|+|
T Consensus       221 ~~~~~~~~~l~~L~~L~L~~n~l~~--------------~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  286 (440)
T 3zyj_A          221 AIRPGSFQGLMHLQKLWMIQSQIQV--------------IERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHL  286 (440)
T ss_dssp             EECTTTTTTCTTCCEEECTTCCCCE--------------ECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEEC
T ss_pred             ccChhhhccCccCCEEECCCCceeE--------------EChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEc
Confidence            4556778999999999999887532              2355678899999999999999888765 488999999998


Q ss_pred             C
Q 043450          561 D  561 (561)
Q Consensus       561 ~  561 (561)
                      +
T Consensus       287 ~  287 (440)
T 3zyj_A          287 H  287 (440)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.73  E-value=2.1e-17  Score=172.27  Aligned_cols=189  Identities=23%  Similarity=0.307  Sum_probs=106.0

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCC---------------------
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCEL---------------------  386 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L---------------------  386 (561)
                      +..+++|++|++++         +.+..+|. ++.+++|++|++++|.+..+|. ++.+                     
T Consensus       108 ~~~l~~L~~L~L~~---------n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~l  176 (466)
T 1o6v_A          108 LANLTNLTGLTLFN---------NQITDIDP-LKNLTNLNRLELSSNTISDISA-LSGLTSLQQLSFGNQVTDLKPLANL  176 (466)
T ss_dssp             GTTCTTCCEEECCS---------SCCCCCGG-GTTCTTCSEEEEEEEEECCCGG-GTTCTTCSEEEEEESCCCCGGGTTC
T ss_pred             hcCCCCCCEEECCC---------CCCCCChH-HcCCCCCCEEECCCCccCCChh-hccCCcccEeecCCcccCchhhccC
Confidence            66778888888887         56666665 7778888888888887766543 4444                     


Q ss_pred             CCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCC
Q 043450          387 YNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLL  466 (561)
Q Consensus       387 ~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L  466 (561)
                      ++|++|++++|. +..++ .+..+++|++|++++|. +..++. ++.+++|+.|+  +.++...     .+..+..+++|
T Consensus       177 ~~L~~L~l~~n~-l~~~~-~l~~l~~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~--l~~n~l~-----~~~~l~~l~~L  245 (466)
T 1o6v_A          177 TTLERLDISSNK-VSDIS-VLAKLTNLESLIATNNQ-ISDITP-LGILTNLDELS--LNGNQLK-----DIGTLASLTNL  245 (466)
T ss_dssp             TTCCEEECCSSC-CCCCG-GGGGCTTCSEEECCSSC-CCCCGG-GGGCTTCCEEE--CCSSCCC-----CCGGGGGCTTC
T ss_pred             CCCCEEECcCCc-CCCCh-hhccCCCCCEEEecCCc-cccccc-ccccCCCCEEE--CCCCCcc-----cchhhhcCCCC
Confidence            444444444444 33332 24444445555554444 222221 44444555554  3333321     12334444555


Q ss_pred             CceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCC
Q 043450          467 RECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFP  546 (561)
Q Consensus       467 ~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp  546 (561)
                      +.|++.+..- ..   ..  .+..+++|+.|++++|.+..               ++. +..+++|+.|++++|.+..+|
T Consensus       246 ~~L~l~~n~l-~~---~~--~~~~l~~L~~L~l~~n~l~~---------------~~~-~~~l~~L~~L~L~~n~l~~~~  303 (466)
T 1o6v_A          246 TDLDLANNQI-SN---LA--PLSGLTKLTELKLGANQISN---------------ISP-LAGLTALTNLELNENQLEDIS  303 (466)
T ss_dssp             SEEECCSSCC-CC---CG--GGTTCTTCSEEECCSSCCCC---------------CGG-GTTCTTCSEEECCSSCCSCCG
T ss_pred             CEEECCCCcc-cc---ch--hhhcCCCCCEEECCCCccCc---------------ccc-ccCCCccCeEEcCCCcccCch
Confidence            5555544321 11   11  14555666666666555322               122 567788888888888877766


Q ss_pred             hhhhcccCCcEEEcC
Q 043450          547 KWLTLLTNLRDLNLD  561 (561)
Q Consensus       547 ~~~~~l~~L~~L~L~  561 (561)
                      . +..+++|+.|+|+
T Consensus       304 ~-~~~l~~L~~L~L~  317 (466)
T 1o6v_A          304 P-ISNLKNLTYLTLY  317 (466)
T ss_dssp             G-GGGCTTCSEEECC
T ss_pred             h-hcCCCCCCEEECc
Confidence            5 6788888888875

>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=99.73  E-value=1.1e-17  Score=164.09  Aligned_cols=188  Identities=20%  Similarity=0.187  Sum_probs=143.8

Q ss_pred             hccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIG  408 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~  408 (561)
                      ..+.+|++|++++         +.+..+| .+..+++|++|++++|.++.+|. +..+++|++|++++|. +..+| .+.
T Consensus        38 ~~l~~L~~L~l~~---------~~i~~l~-~~~~l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n~-l~~~~-~~~  104 (308)
T 1h6u_A           38 ADLDGITTLSAFG---------TGVTTIE-GVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNP-LKNVS-AIA  104 (308)
T ss_dssp             HHHHTCCEEECTT---------SCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCC-CSCCG-GGT
T ss_pred             HHcCCcCEEEeeC---------CCccCch-hhhccCCCCEEEccCCcCCCChh-HccCCCCCEEEccCCc-CCCch-hhc
Confidence            4578899999998         6677776 57888999999999999888877 8899999999999988 77776 588


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQL  488 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l  488 (561)
                      .+++|++|++++|. +..+|. ++.+++|++|+  +.++.+.+     +..+..++.|+.|.+.+..- ..    .+. +
T Consensus       105 ~l~~L~~L~l~~n~-l~~~~~-l~~l~~L~~L~--l~~n~l~~-----~~~l~~l~~L~~L~l~~n~l-~~----~~~-l  169 (308)
T 1h6u_A          105 GLQSIKTLDLTSTQ-ITDVTP-LAGLSNLQVLY--LDLNQITN-----ISPLAGLTNLQYLSIGNAQV-SD----LTP-L  169 (308)
T ss_dssp             TCTTCCEEECTTSC-CCCCGG-GTTCTTCCEEE--CCSSCCCC-----CGGGGGCTTCCEEECCSSCC-CC----CGG-G
T ss_pred             CCCCCCEEECCCCC-CCCchh-hcCCCCCCEEE--CCCCccCc-----CccccCCCCccEEEccCCcC-CC----Chh-h
Confidence            89999999999988 566664 88889999987  56665532     22366777788888776432 22    111 7


Q ss_pred             ccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          489 YNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       489 ~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      ..+++|+.|++++|.+...               + .+..+++|+.|++++|.+..+|. +..+++|+.|+|+
T Consensus       170 ~~l~~L~~L~l~~n~l~~~---------------~-~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~l~  225 (308)
T 1h6u_A          170 ANLSKLTTLKADDNKISDI---------------S-PLASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLT  225 (308)
T ss_dssp             TTCTTCCEEECCSSCCCCC---------------G-GGGGCTTCCEEECTTSCCCBCGG-GTTCTTCCEEEEE
T ss_pred             cCCCCCCEEECCCCccCcC---------------h-hhcCCCCCCEEEccCCccCcccc-ccCCCCCCEEEcc
Confidence            7888999999988875432               1 15677888999998888887774 7888888888874

>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=99.73  E-value=3.5e-17  Score=170.54  Aligned_cols=262  Identities=18%  Similarity=0.243  Sum_probs=177.0

Q ss_pred             cCCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          240 FGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      ....++.+.+..+....++. +..+++|+.|.+.++.......     +    ...      .....+.+...     .+
T Consensus        66 ~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~-----~----~~l------~~L~~L~L~~n-----~l  124 (466)
T 1o6v_A           66 YLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITP-----L----ANL------TNLTGLTLFNN-----QI  124 (466)
T ss_dssp             GCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-----G----TTC------TTCCEEECCSS-----CC
T ss_pred             hhcCCCEEECCCCccCCchh-hhccccCCEEECCCCccccChh-----h----cCC------CCCCEEECCCC-----CC
Confidence            34567778887777777664 7777888888877763321110     0    000      00000011111     10


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcc------------cccccCccccccCccCEEecCCCCCccccccccCCC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLN------------LIREIPENVEKLIHLKYLNLSGLRIESLPETLCELY  387 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~------------~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~  387 (561)
                      . .. +. +..+++|++|++++|.....+...            .+..++ .++.+++|++|++++|.++.++ .+..++
T Consensus       125 ~-~~-~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~l~~L~~L~l~~n~l~~~~-~l~~l~  199 (466)
T 1o6v_A          125 T-DI-DP-LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLK-PLANLTTLERLDISSNKVSDIS-VLAKLT  199 (466)
T ss_dssp             C-CC-GG-GTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCG-GGTTCTTCCEEECCSSCCCCCG-GGGGCT
T ss_pred             C-CC-hH-HcCCCCCCEEECCCCccCCChhhccCCcccEeecCCcccCch-hhccCCCCCEEECcCCcCCCCh-hhccCC
Confidence            0 11 11 788999999999984321111100            011112 2677889999999999988875 488999


Q ss_pred             CccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCC
Q 043450          388 NLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR  467 (561)
Q Consensus       388 ~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~  467 (561)
                      +|++|++++|. +..++. ++.+++|+.|++++|. +..++ .++.+++|++|+  +.++...+..     .+..++.|+
T Consensus       200 ~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~l~~n~-l~~~~-~l~~l~~L~~L~--l~~n~l~~~~-----~~~~l~~L~  268 (466)
T 1o6v_A          200 NLESLIATNNQ-ISDITP-LGILTNLDELSLNGNQ-LKDIG-TLASLTNLTDLD--LANNQISNLA-----PLSGLTKLT  268 (466)
T ss_dssp             TCSEEECCSSC-CCCCGG-GGGCTTCCEEECCSSC-CCCCG-GGGGCTTCSEEE--CCSSCCCCCG-----GGTTCTTCS
T ss_pred             CCCEEEecCCc-cccccc-ccccCCCCEEECCCCC-cccch-hhhcCCCCCEEE--CCCCccccch-----hhhcCCCCC
Confidence            99999999998 666654 7889999999999998 56664 588999999998  6666653322     266777788


Q ss_pred             ceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCCh
Q 043450          468 ECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPK  547 (561)
Q Consensus       468 ~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~  547 (561)
                      .|.+.+..- ..   . +. +..+++|+.|++++|.+...               + .+..+++|+.|++++|.+..++.
T Consensus       269 ~L~l~~n~l-~~---~-~~-~~~l~~L~~L~L~~n~l~~~---------------~-~~~~l~~L~~L~L~~n~l~~~~~  326 (466)
T 1o6v_A          269 ELKLGANQI-SN---I-SP-LAGLTALTNLELNENQLEDI---------------S-PISNLKNLTYLTLYFNNISDISP  326 (466)
T ss_dssp             EEECCSSCC-CC---C-GG-GTTCTTCSEEECCSSCCSCC---------------G-GGGGCTTCSEEECCSSCCSCCGG
T ss_pred             EEECCCCcc-Cc---c-cc-ccCCCccCeEEcCCCcccCc---------------h-hhcCCCCCCEEECcCCcCCCchh
Confidence            888876432 21   1 11 77899999999998875432               1 26778999999999999887765


Q ss_pred             hhhcccCCcEEEcC
Q 043450          548 WLTLLTNLRDLNLD  561 (561)
Q Consensus       548 ~~~~l~~L~~L~L~  561 (561)
                       +..+++|+.|+++
T Consensus       327 -~~~l~~L~~L~l~  339 (466)
T 1o6v_A          327 -VSSLTKLQRLFFY  339 (466)
T ss_dssp             -GGGCTTCCEEECC
T ss_pred             -hccCccCCEeECC
Confidence             7899999999985

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

Probab=99.73  E-value=1.3e-17  Score=172.98  Aligned_cols=226  Identities=23%  Similarity=0.255  Sum_probs=180.2

Q ss_pred             cCCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++.+.+..+.+..++ ..+..+++|+.|.+.++..                                         
T Consensus        73 ~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i-----------------------------------------  111 (452)
T 3zyi_A           73 IPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSI-----------------------------------------  111 (452)
T ss_dssp             CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC-----------------------------------------
T ss_pred             CCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCcc-----------------------------------------
Confidence            3568899999999887764 6788999999999998722                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCcc-ccccCccCEEecCCCCCccccc-cccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPEN-VEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~  396 (561)
                        ..+.+..|.++.+|++|+|++         |.+..+|.. +..+++|++|++++|.++.+|. .+.++++|+.|++++
T Consensus       112 --~~~~~~~~~~l~~L~~L~L~~---------n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~  180 (452)
T 3zyi_A          112 --RQIEVGAFNGLASLNTLELFD---------NWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGE  180 (452)
T ss_dssp             --CEECTTTTTTCTTCCEEECCS---------SCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCC
T ss_pred             --CCcChhhccCcccCCEEECCC---------CcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCC
Confidence              122334477899999999999         778888765 7889999999999999998875 688999999999999


Q ss_pred             CCCcCccCc-ccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          397 CQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       397 ~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      |..+..+|. .+..+++|++|++++|. +..+| .+..+++|+.|+  +.+|.+.+..+   ..+..+++|+.|.+.+. 
T Consensus       181 ~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~-~~~~l~~L~~L~--Ls~N~l~~~~~---~~~~~l~~L~~L~L~~n-  252 (452)
T 3zyi_A          181 LKKLEYISEGAFEGLFNLKYLNLGMCN-IKDMP-NLTPLVGLEELE--MSGNHFPEIRP---GSFHGLSSLKKLWVMNS-  252 (452)
T ss_dssp             CTTCCEECTTTTTTCTTCCEEECTTSC-CSSCC-CCTTCTTCCEEE--CTTSCCSEECG---GGGTTCTTCCEEECTTS-
T ss_pred             CCCccccChhhccCCCCCCEEECCCCc-ccccc-cccccccccEEE--CcCCcCcccCc---ccccCccCCCEEEeCCC-
Confidence            888888876 58899999999999998 67776 588999999998  77777644333   34556667777777653 


Q ss_pred             CCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCC
Q 043450          476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGG  542 (561)
Q Consensus       476 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~  542 (561)
                         ......+..+.++++|+.|+|++|.+...              .++.+..+++|+.|++++|++
T Consensus       253 ---~l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------------~~~~~~~l~~L~~L~L~~Np~  302 (452)
T 3zyi_A          253 ---QVSLIERNAFDGLASLVELNLAHNNLSSL--------------PHDLFTPLRYLVELHLHHNPW  302 (452)
T ss_dssp             ---CCCEECTTTTTTCTTCCEEECCSSCCSCC--------------CTTSSTTCTTCCEEECCSSCE
T ss_pred             ---cCceECHHHhcCCCCCCEEECCCCcCCcc--------------ChHHhccccCCCEEEccCCCc
Confidence               33444556788999999999999886432              234567889999999999984

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

Probab=99.73  E-value=2.9e-17  Score=170.10  Aligned_cols=219  Identities=16%  Similarity=0.158  Sum_probs=132.2

Q ss_pred             CCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      ...++.+.+..+....+| .+..+++|++|.+.++....                                         
T Consensus        41 l~~L~~L~Ls~n~l~~~~-~l~~l~~L~~L~Ls~n~l~~-----------------------------------------   78 (457)
T 3bz5_A           41 LATLTSLDCHNSSITDMT-GIEKLTGLTKLICTSNNITT-----------------------------------------   78 (457)
T ss_dssp             HTTCCEEECCSSCCCCCT-TGGGCTTCSEEECCSSCCSC-----------------------------------------
T ss_pred             cCCCCEEEccCCCcccCh-hhcccCCCCEEEccCCcCCe-----------------------------------------
Confidence            456788888888877776 67888899999888872200                                         


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCc
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDL  400 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~  400 (561)
                         ++  +..+++|++|++++         |.++.+|  ++.+++|++|++++|.++.+|  ++.+++|++|++++|. +
T Consensus        79 ---~~--~~~l~~L~~L~Ls~---------N~l~~~~--~~~l~~L~~L~L~~N~l~~l~--~~~l~~L~~L~l~~N~-l  139 (457)
T 3bz5_A           79 ---LD--LSQNTNLTYLACDS---------NKLTNLD--VTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLNCARNT-L  139 (457)
T ss_dssp             ---CC--CTTCTTCSEEECCS---------SCCSCCC--CTTCTTCCEEECCSSCCSCCC--CTTCTTCCEEECTTSC-C
T ss_pred             ---Ec--cccCCCCCEEECcC---------CCCceee--cCCCCcCCEEECCCCcCCeec--CCCCCcCCEEECCCCc-c
Confidence               01  45566777777777         5555554  666777777777777776664  6677777777777766 5


Q ss_pred             CccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCc
Q 043450          401 RELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV  480 (561)
Q Consensus       401 ~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~  480 (561)
                      ..+|  ++.+++|+.|++++|..++.+  .++.+++|++|+  +.++.+.+. +     +..++.|+.|.+.+..- ...
T Consensus       140 ~~l~--l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~--ls~n~l~~l-~-----l~~l~~L~~L~l~~N~l-~~~  206 (457)
T 3bz5_A          140 TEID--VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLD--CSFNKITEL-D-----VSQNKLLNRLNCDTNNI-TKL  206 (457)
T ss_dssp             SCCC--CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEE--CCSSCCCCC-C-----CTTCTTCCEEECCSSCC-SCC
T ss_pred             ceec--cccCCcCCEEECCCCCccccc--ccccCCcCCEEE--CCCCcccee-c-----cccCCCCCEEECcCCcC-Cee
Confidence            5554  566777777777777555555  356667777776  445544321 1     34445555555543221 111


Q ss_pred             chhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEE
Q 043450          481 DEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDL  558 (561)
Q Consensus       481 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L  558 (561)
                            .+..+++|+.|++++|.+..               +|  +..+++|+.|++++|.+..+|  +..+++|+.|
T Consensus       207 ------~l~~l~~L~~L~Ls~N~l~~---------------ip--~~~l~~L~~L~l~~N~l~~~~--~~~l~~L~~L  259 (457)
T 3bz5_A          207 ------DLNQNIQLTFLDCSSNKLTE---------------ID--VTPLTQLTYFDCSVNPLTELD--VSTLSKLTTL  259 (457)
T ss_dssp             ------CCTTCTTCSEEECCSSCCSC---------------CC--CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEE
T ss_pred             ------ccccCCCCCEEECcCCcccc---------------cC--ccccCCCCEEEeeCCcCCCcC--HHHCCCCCEE
Confidence                  25566666667666665321               22  455566666666666655554  2334444433

>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=99.73  E-value=1e-17  Score=178.98  Aligned_cols=126  Identities=17%  Similarity=0.159  Sum_probs=90.0

Q ss_pred             CCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          241 GEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      +..++.+.+..+.+..++ ..+..+++|++|.+.++..                                          
T Consensus        51 ~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l------------------------------------------   88 (562)
T 3a79_B           51 PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRI------------------------------------------   88 (562)
T ss_dssp             CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCC------------------------------------------
T ss_pred             CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCC------------------------------------------
Confidence            367888888888877776 5778888888888887721                                          


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccc--cccccCCCCccEEecCCC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESL--PETLCELYNLQKLDIRRC  397 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~l--p~~i~~L~~L~~L~l~~~  397 (561)
                       ....+..|.++++|++|++++         |.++.+|..  .+++|++|++++|.++.+  |..++++++|++|++++|
T Consensus        89 -~~~~~~~~~~l~~L~~L~Ls~---------N~l~~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n  156 (562)
T 3a79_B           89 -RSLDFHVFLFNQDLEYLDVSH---------NRLQNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAA  156 (562)
T ss_dssp             -CEECTTTTTTCTTCCEEECTT---------SCCCEECSC--CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECS
T ss_pred             -CcCCHHHhCCCCCCCEEECCC---------CcCCccCcc--ccccCCEEECCCCCccccCchHhhcccCcccEEecCCC
Confidence             122234467788888888888         677777776  688888888888887765  367888888888888887


Q ss_pred             CCcCccCcccccCCCC--CeEEcCCCCC
Q 043450          398 QDLRELPTGIGKLKNM--RSLLNGDTSS  423 (561)
Q Consensus       398 ~~~~~lp~~~~~l~~L--~~L~l~~~~~  423 (561)
                      . +..  ..+..+++|  +.|++++|..
T Consensus       157 ~-l~~--~~~~~l~~L~L~~L~L~~n~l  181 (562)
T 3a79_B          157 K-FRQ--LDLLPVAHLHLSCILLDLVSY  181 (562)
T ss_dssp             B-CCT--TTTGGGTTSCEEEEEEEESSC
T ss_pred             c-ccc--CchhhhhhceeeEEEeecccc
Confidence            7 433  234455555  7777777664

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

Probab=99.72  E-value=9.3e-18  Score=179.68  Aligned_cols=146  Identities=19%  Similarity=0.258  Sum_probs=110.5

Q ss_pred             cCCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++.+.+..+....++ .++..+++|++|.+.++..                                         
T Consensus        26 l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i-----------------------------------------   64 (570)
T 2z63_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEI-----------------------------------------   64 (570)
T ss_dssp             SCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCC-----------------------------------------
T ss_pred             ccccccEEEccCCccCccChhHhhCCCCceEEECCCCcC-----------------------------------------
Confidence            3567899999998887765 5788899999999988721                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCccccc-cccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~  396 (561)
                        ....+..|.++.+|++|++++         +.+..+| ..|+.+++|++|++++|.++.+|. .++++++|++|++++
T Consensus        65 --~~i~~~~~~~l~~L~~L~L~~---------n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~  133 (570)
T 2z63_A           65 --QTIEDGAYQSLSHLSTLILTG---------NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH  133 (570)
T ss_dssp             --CEECTTTTTTCTTCCEEECTT---------CCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCS
T ss_pred             --CccCcccccCchhCCEEeCcC---------CcCCccCHhhhcCccccccccccccccccCCCccccccccccEEecCC
Confidence              122233467788888888888         6676665 567888888888888888887765 588888888888888


Q ss_pred             CCCcC-ccCcccccCCCCCeEEcCCCCCCccCcccccCCcCC
Q 043450          397 CQDLR-ELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSL  437 (561)
Q Consensus       397 ~~~~~-~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L  437 (561)
                      |.... .+|..++++++|++|++++|......|..++.+++|
T Consensus       134 n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  175 (570)
T 2z63_A          134 NLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM  175 (570)
T ss_dssp             SCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHHTC
T ss_pred             CccceecChhhhcccCCCCEEeCcCCccceecHHHccchhcc
Confidence            87333 368888888888888888887544445667777777

>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=99.72  E-value=3e-17  Score=159.55  Aligned_cols=197  Identities=20%  Similarity=0.170  Sum_probs=148.3

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCccCcc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      +..+.+++.+++++         +.++.+|..+.  +++++|++++|.++.+ |..+..+++|++|++++|. +..+|..
T Consensus         6 ~~~l~~l~~l~~~~---------~~l~~ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~   73 (290)
T 1p9a_G            6 VSKVASHLEVNCDK---------RNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE-LTKLQVD   73 (290)
T ss_dssp             EECSTTCCEEECTT---------SCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC-CCEEECC
T ss_pred             ccccCCccEEECCC---------CCCCcCCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCc-cCcccCC
Confidence            45678888999988         77888887665  6889999999998866 4668889999999999987 7777664


Q ss_pred             cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhc
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERL  486 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~  486 (561)
                       +.+++|++|++++|. +..+|..+..+++|++|+  +.+|.+....+..   +..+++|+.|.+.+..    .....+.
T Consensus        74 -~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~L~~L~--l~~N~l~~l~~~~---~~~l~~L~~L~L~~N~----l~~~~~~  142 (290)
T 1p9a_G           74 -GTLPVLGTLDLSHNQ-LQSLPLLGQTLPALTVLD--VSFNRLTSLPLGA---LRGLGELQELYLKGNE----LKTLPPG  142 (290)
T ss_dssp             -SCCTTCCEEECCSSC-CSSCCCCTTTCTTCCEEE--CCSSCCCCCCSST---TTTCTTCCEEECTTSC----CCCCCTT
T ss_pred             -CCCCcCCEEECCCCc-CCcCchhhccCCCCCEEE--CCCCcCcccCHHH---HcCCCCCCEEECCCCC----CCccChh
Confidence             788899999999887 678888888888999887  6667664433333   4455566666666532    2233344


Q ss_pred             ccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          487 QLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       487 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      .+..+++|+.|+|+.|.+...              .+..+..+++|+.|++++|.+..+|.++..+++|+.|+|+
T Consensus       143 ~~~~l~~L~~L~L~~N~l~~l--------------~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~  203 (290)
T 1p9a_G          143 LLTPTPKLEKLSLANNNLTEL--------------PAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (290)
T ss_dssp             TTTTCTTCCEEECTTSCCSCC--------------CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             hcccccCCCEEECCCCcCCcc--------------CHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeC
Confidence            567888999999988875432              1234567888999999999988899888888888888874

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.71  E-value=5.2e-18  Score=167.42  Aligned_cols=195  Identities=14%  Similarity=0.115  Sum_probs=134.4

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCcc
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      .+..+..+++|++|++++         |.+...++ +..+++|++|++++|.++.+|.    +++|++|++++|. +..+
T Consensus        50 ~~~~~~~l~~L~~L~Ls~---------n~l~~~~~-~~~l~~L~~L~Ls~n~l~~l~~----~~~L~~L~l~~n~-l~~~  114 (317)
T 3o53_A           50 SAADLAPFTKLELLNLSS---------NVLYETLD-LESLSTLRTLDLNNNYVQELLV----GPSIETLHAANNN-ISRV  114 (317)
T ss_dssp             CHHHHTTCTTCCEEECTT---------SCCEEEEE-ETTCTTCCEEECCSSEEEEEEE----CTTCCEEECCSSC-CSEE
T ss_pred             CHHHhhCCCcCCEEECCC---------CcCCcchh-hhhcCCCCEEECcCCccccccC----CCCcCEEECCCCc-cCCc
Confidence            445678889999999998         66766665 8888899999999998877663    3788888888887 6666


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhh-hccCCCCceEEcCCCCCCCcch
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESL-KNLQLLRECRVEGLSNVSHVDE  482 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l-~~L~~L~~l~i~~~~~~~~~~~  482 (561)
                      |.  ..+++|++|++++|......|..++.+++|++|+  +.+|.+....   ...+ ..++.|+.|.+++..- ..   
T Consensus       115 ~~--~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~--Ls~N~l~~~~---~~~~~~~l~~L~~L~L~~N~l-~~---  183 (317)
T 3o53_A          115 SC--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLD--LKLNEIDTVN---FAELAASSDTLEHLNLQYNFI-YD---  183 (317)
T ss_dssp             EE--CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEE--CTTSCCCEEE---GGGGGGGTTTCCEEECTTSCC-CE---
T ss_pred             Cc--cccCCCCEEECCCCCCCCccchhhhccCCCCEEE--CCCCCCCccc---HHHHhhccCcCCEEECCCCcC-cc---
Confidence            54  3467788888888874444455677888888887  5566553222   2222 3456677777765431 11   


Q ss_pred             hhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          483 AERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       483 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      .  .....+++|+.|++++|.+.               .++..+..+++|+.|++++|.+..+|..+..+++|+.|+|+
T Consensus       184 ~--~~~~~l~~L~~L~Ls~N~l~---------------~l~~~~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L~~L~l~  245 (317)
T 3o53_A          184 V--KGQVVFAKLKTLDLSSNKLA---------------FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLR  245 (317)
T ss_dssp             E--ECCCCCTTCCEEECCSSCCC---------------EECGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECT
T ss_pred             c--ccccccccCCEEECCCCcCC---------------cchhhhcccCcccEEECcCCcccchhhHhhcCCCCCEEEcc
Confidence            1  12334778888888877642               23444667778888888888877788777778888888774

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.71  E-value=2.5e-18  Score=179.73  Aligned_cols=189  Identities=10%  Similarity=0.033  Sum_probs=104.8

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|++|++++         |.++.+|.    .++|++|++++|.+..+|..  .+++|++|++++|......|..+
T Consensus        76 l~~l~~L~~L~Ls~---------N~l~~l~~----~~~L~~L~L~~N~l~~~~~~--~l~~L~~L~L~~N~l~~~~~~~~  140 (487)
T 3oja_A           76 LESLSTLRTLDLNN---------NYVQELLV----GPSIETLHAANNNISRVSCS--RGQGKKNIYLANNKITMLRDLDE  140 (487)
T ss_dssp             CTTCTTCCEEECCS---------SEEEEEEE----CTTCCEEECCSSCCCCEEEC--CCSSCEEEECCSSCCCSGGGBCG
T ss_pred             cccCCCCCEEEecC---------CcCCCCCC----CCCcCEEECcCCcCCCCCcc--ccCCCCEEECCCCCCCCCCchhh
Confidence            45566666666666         55555443    25666666666666655442  35666667776666333334556


Q ss_pred             ccCCCCCeEEcCCCCCCccCccccc-CCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGIS-RLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERL  486 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~-~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~  486 (561)
                      +.+++|++|++++|...+..|..+. .+++|++|+  +.+|.+.+.     .....++.|+.|++++..    ... .+.
T Consensus       141 ~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~--Ls~N~l~~~-----~~~~~l~~L~~L~Ls~N~----l~~-~~~  208 (487)
T 3oja_A          141 GCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLN--LQYNFIYDV-----KGQVVFAKLKTLDLSSNK----LAF-MGP  208 (487)
T ss_dssp             GGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEE--CTTSCCCEE-----ECCCCCTTCCEEECCSSC----CCE-ECG
T ss_pred             cCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEe--cCCCccccc-----cccccCCCCCEEECCCCC----CCC-CCH
Confidence            6666677777766664444555554 566666666  445544221     112234555555554422    111 222


Q ss_pred             ccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC--CCChhhhcccCCcEE
Q 043450          487 QLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN--IFPKWLTLLTNLRDL  558 (561)
Q Consensus       487 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~--~lp~~~~~l~~L~~L  558 (561)
                      .+..+++|+.|++++|.+.               .+|..+..+++|+.|++++|++.  .+|.++..+++|+.|
T Consensus       209 ~~~~l~~L~~L~Ls~N~l~---------------~lp~~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~~L~~l  267 (487)
T 3oja_A          209 EFQSAAGVTWISLRNNKLV---------------LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTV  267 (487)
T ss_dssp             GGGGGTTCSEEECTTSCCC---------------EECTTCCCCTTCCEEECTTCCBCHHHHHHHHTTCHHHHHH
T ss_pred             hHcCCCCccEEEecCCcCc---------------ccchhhccCCCCCEEEcCCCCCcCcchHHHHHhCCCCcEE
Confidence            3556666666666665531               24555566666666666666655  455566555555544

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

Probab=99.71  E-value=2.7e-17  Score=183.94  Aligned_cols=158  Identities=19%  Similarity=0.204  Sum_probs=122.7

Q ss_pred             EEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHHH
Q 043450          247 IGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRE  326 (561)
Q Consensus       247 l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (561)
                      .....++.+.+|.   -.++++.|.++++..                                           ....+.
T Consensus         9 ~dcs~~~L~~vP~---lp~~l~~LdLs~N~i-------------------------------------------~~i~~~   42 (844)
T 3j0a_A            9 AFYRFCNLTQVPQ---VLNTTERLLLSFNYI-------------------------------------------RTVTAS   42 (844)
T ss_dssp             EEESCCCSSCCCS---SCTTCCEEEEESCCC-------------------------------------------CEECSS
T ss_pred             EEccCCCCCCCCC---CCCCcCEEECCCCcC-------------------------------------------CccChh
Confidence            3344555677774   458999999998822                                           122233


Q ss_pred             HHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCccC
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      .+.++.+|++|++++|        +.+..+ |..|+.+++|++|+|++|.+..+ |..++++++|++|++++|.....+|
T Consensus        43 ~~~~l~~L~~LdLs~n--------~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~  114 (844)
T 3j0a_A           43 SFPFLEQLQLLELGSQ--------YTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVL  114 (844)
T ss_dssp             SCSSCCSCSEEEECTT--------CCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCS
T ss_pred             HCcccccCeEEeCCCC--------CCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCcccc
Confidence            4778999999999994        356666 77899999999999999999865 7889999999999999998555566


Q ss_pred             cc--cccCCCCCeEEcCCCCCCccCc-ccccCCcCCcccCceeecCccCCCCccCchhh
Q 043450          405 TG--IGKLKNMRSLLNGDTSSLKYLP-IGISRLTSLRTLEKFVVGGGVDGNNTCRLESL  460 (561)
Q Consensus       405 ~~--~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l  460 (561)
                      ..  ++++++|++|++++|...+..| ..++++++|++|+  +.+|.+.+..+..+..+
T Consensus       115 ~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~--Ls~N~i~~~~~~~l~~l  171 (844)
T 3j0a_A          115 KDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSID--FSSNQIFLVCEHELEPL  171 (844)
T ss_dssp             TTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEE--EESSCCCCCCSGGGHHH
T ss_pred             cCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEE--CCCCcCCeeCHHHcccc
Confidence            65  8999999999999998544433 5789999999998  77777765555555554

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

Probab=99.71  E-value=2.3e-18  Score=169.60  Aligned_cols=198  Identities=18%  Similarity=0.173  Sum_probs=153.7

Q ss_pred             hccccccEEeccCCCCCCCCCccccc-ccCccc--cccCccCEEecCCCCCccccccccCC-----CCccEEecCCCCCc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIR-EIPENV--EKLIHLKYLNLSGLRIESLPETLCEL-----YNLQKLDIRRCQDL  400 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~--~~l~~L~~L~l~~~~l~~lp~~i~~L-----~~L~~L~l~~~~~~  400 (561)
                      ..+.+|++|++++         +.+. .+|..+  +.+++|++|++++|.++.+|..++.+     ++|++|++++|. +
T Consensus        92 ~~l~~L~~L~L~~---------n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~-l  161 (312)
T 1wwl_A           92 LGISGLQELTLEN---------LEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAH-S  161 (312)
T ss_dssp             HTTSCCCEEEEEE---------EBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCS-C
T ss_pred             cCcCCccEEEccC---------CcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCC-C
Confidence            3689999999999         6676 678876  89999999999999999888888887     999999999999 5


Q ss_pred             CccC-cccccCCCCCeEEcCCCCCCcc--Ccccc--cCCcCCcccCceeecCccCCCCccCc-hhhhccCCCCceEEcCC
Q 043450          401 RELP-TGIGKLKNMRSLLNGDTSSLKY--LPIGI--SRLTSLRTLEKFVVGGGVDGNNTCRL-ESLKNLQLLRECRVEGL  474 (561)
Q Consensus       401 ~~lp-~~~~~l~~L~~L~l~~~~~~~~--lp~~i--~~l~~L~~L~~~~~~~~~~~~~~~~~-~~l~~L~~L~~l~i~~~  474 (561)
                      ..+| ..++.+++|++|++++|...+.  +|..+  +.+++|++|+  +.+|.+... +... .-...+++|+.|++++.
T Consensus       162 ~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~--L~~N~l~~~-~~~~~~~~~~l~~L~~L~Ls~N  238 (312)
T 1wwl_A          162 LNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLA--LRNAGMETP-SGVCSALAAARVQLQGLDLSHN  238 (312)
T ss_dssp             CCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEE--CTTSCCCCH-HHHHHHHHHTTCCCSEEECTTS
T ss_pred             ccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEE--CCCCcCcch-HHHHHHHHhcCCCCCEEECCCC
Confidence            5554 7899999999999999986554  34455  8999999998  666665211 1111 12245678888888764


Q ss_pred             CCCCCcchhh-hcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhccc
Q 043450          475 SNVSHVDEAE-RLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLT  553 (561)
Q Consensus       475 ~~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~  553 (561)
                      .-    .... ...+..+++|+.|++++|.+.               .+|..+.  ++|+.|++++|.++.+|. +..++
T Consensus       239 ~l----~~~~~~~~~~~l~~L~~L~Ls~N~l~---------------~ip~~~~--~~L~~L~Ls~N~l~~~p~-~~~l~  296 (312)
T 1wwl_A          239 SL----RDAAGAPSCDWPSQLNSLNLSFTGLK---------------QVPKGLP--AKLSVLDLSYNRLDRNPS-PDELP  296 (312)
T ss_dssp             CC----CSSCCCSCCCCCTTCCEEECTTSCCS---------------SCCSSCC--SEEEEEECCSSCCCSCCC-TTTSC
T ss_pred             cC----CcccchhhhhhcCCCCEEECCCCccC---------------hhhhhcc--CCceEEECCCCCCCCChh-HhhCC
Confidence            32    1212 234566799999999988753               3455554  889999999999998987 88999


Q ss_pred             CCcEEEcC
Q 043450          554 NLRDLNLD  561 (561)
Q Consensus       554 ~L~~L~L~  561 (561)
                      +|+.|+|+
T Consensus       297 ~L~~L~L~  304 (312)
T 1wwl_A          297 QVGNLSLK  304 (312)
T ss_dssp             EEEEEECT
T ss_pred             CCCEEecc
Confidence            99999985

>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=99.71  E-value=2e-17  Score=160.66  Aligned_cols=182  Identities=22%  Similarity=0.220  Sum_probs=106.6

Q ss_pred             HhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCC-Cccc-cccccCCCCccEEecCCCCCcCccC
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLR-IESL-PETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~-l~~l-p~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      +..+.+|++|++++         +.++.+ |..++.+++|++|++++|. +..+ |..+..+++|++|++++|......|
T Consensus        52 ~~~~~~L~~L~l~~---------n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  122 (285)
T 1ozn_A           52 FRACRNLTILWLHS---------NVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGP  122 (285)
T ss_dssp             TTTCTTCCEEECCS---------SCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCT
T ss_pred             cccCCCCCEEECCC---------CccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECH
Confidence            45666777777776         555555 5556667777777777775 6655 4556677777777777766333334


Q ss_pred             cccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          405 TGIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       405 ~~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      ..+..+++|++|++++|. +..+|. .++.+++|++|+  +.++.+....+.   .+..++.|+.|.+.+.    .....
T Consensus       123 ~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~~~---~~~~l~~L~~L~l~~n----~l~~~  192 (285)
T 1ozn_A          123 GLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLF--LHGNRISSVPER---AFRGLHSLDRLLLHQN----RVAHV  192 (285)
T ss_dssp             TTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEE--CCSSCCCEECTT---TTTTCTTCCEEECCSS----CCCEE
T ss_pred             hHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEE--CCCCcccccCHH---HhcCccccCEEECCCC----ccccc
Confidence            556667777777777766 334443 366677777776  445544221111   2334455555555442    22233


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCC
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGG  542 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~  542 (561)
                      .+..+..+++|+.|++++|.+...              .++.+..+++|+.|++++|++
T Consensus       193 ~~~~~~~l~~L~~L~l~~n~l~~~--------------~~~~~~~l~~L~~L~l~~N~~  237 (285)
T 1ozn_A          193 HPHAFRDLGRLMTLYLFANNLSAL--------------PTEALAPLRALQYLRLNDNPW  237 (285)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCSCC--------------CHHHHTTCTTCCEEECCSSCE
T ss_pred             CHhHccCcccccEeeCCCCcCCcC--------------CHHHcccCcccCEEeccCCCc
Confidence            345566677777777776664322              123455667777777777764

>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=3.9e-17  Score=157.79  Aligned_cols=197  Identities=18%  Similarity=0.197  Sum_probs=117.1

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccC-cccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELP-TGIG  408 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp-~~~~  408 (561)
                      .+|++|++++         +.++.++. .+..+++|++|++++|.++.+|. .+.++++|++|++++|. +..++ ..+.
T Consensus        28 ~~l~~L~ls~---------n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~   97 (276)
T 2z62_A           28 FSTKNLDLSF---------NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFS   97 (276)
T ss_dssp             TTCCEEECTT---------CCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCC-CCEECTTTTT
T ss_pred             CCccEEECCC---------CcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCc-cCccChhhhc
Confidence            3577777777         56666654 56777777777777777776553 56777777777777776 44443 5677


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQL  488 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l  488 (561)
                      ++++|++|++++|......+..++++++|++|+  +.+|.+....  ....+..+++|+.|++.+..    .....+..+
T Consensus        98 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~--l~~~~~~l~~L~~L~Ls~N~----l~~~~~~~~  169 (276)
T 2z62_A           98 GLSSLQKLVAVETNLASLENFPIGHLKTLKELN--VAHNLIQSFK--LPEYFSNLTNLEHLDLSSNK----IQSIYCTDL  169 (276)
T ss_dssp             TCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEE--CCSSCCCCCC--CCGGGGGCTTCCEEECCSSC----CCEECGGGG
T ss_pred             CCccccEEECCCCCccccCchhcccCCCCCEEE--CcCCccceec--CchhhccCCCCCEEECCCCC----CCcCCHHHh
Confidence            777777777777763333333567777777776  5555542211  12344555566666665432    122223344


Q ss_pred             ccccccc----cEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh-hcccCCcEEEcC
Q 043450          489 YNKKNLL----RLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL-TLLTNLRDLNLD  561 (561)
Q Consensus       489 ~~l~~L~----~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~-~~l~~L~~L~L~  561 (561)
                      ..+.+|+    .|++++|.+.               .++.......+|+.|++++|.++.+|..+ .++++|+.|+|+
T Consensus       170 ~~l~~L~~l~l~L~ls~n~l~---------------~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  232 (276)
T 2z62_A          170 RVLHQMPLLNLSLDLSLNPMN---------------FIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLH  232 (276)
T ss_dssp             HHHHTCTTCCEEEECCSSCCC---------------EECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECC
T ss_pred             hhhhhccccceeeecCCCccc---------------ccCccccCCCcccEEECCCCceeecCHhHhcccccccEEEcc
Confidence            4555555    5666665532               22223333346777777777776666554 667777777764

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.70  E-value=1.3e-16  Score=153.55  Aligned_cols=87  Identities=32%  Similarity=0.520  Sum_probs=38.1

Q ss_pred             ccccccCccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCcc-cccCCCCCeEEcCCCCCCccCc
Q 043450          351 NLIREIPENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPTG-IGKLKNMRSLLNGDTSSLKYLP  428 (561)
Q Consensus       351 ~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~lp  428 (561)
                      +.++.+|..+.  .+|++|++++|.++.+|. .+.++++|++|++++|. +..+|.. +..+++|++|++++|. +..+|
T Consensus        26 ~~l~~ip~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~i~~~~~~~l~~L~~L~l~~n~-l~~~~  101 (270)
T 2o6q_A           26 KKLTAIPSNIP--ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPAGIFKELKNLETLWVTDNK-LQALP  101 (270)
T ss_dssp             SCCSSCCSCCC--TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSC-CSCCCTTTTSSCTTCCEEECCSSC-CCCCC
T ss_pred             CCCCccCCCCC--CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCc-cCeeChhhhcCCCCCCEEECCCCc-CCcCC
Confidence            44444444332  344445555544444432 34444555555554444 3344332 2444445555554444 22332


Q ss_pred             c-cccCCcCCcccC
Q 043450          429 I-GISRLTSLRTLE  441 (561)
Q Consensus       429 ~-~i~~l~~L~~L~  441 (561)
                      . .++.+++|++|+
T Consensus       102 ~~~~~~l~~L~~L~  115 (270)
T 2o6q_A          102 IGVFDQLVNLAELR  115 (270)
T ss_dssp             TTTTTTCSSCCEEE
T ss_pred             HhHcccccCCCEEE
Confidence            2 234444444444

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

Probab=99.69  E-value=8.8e-17  Score=166.45  Aligned_cols=182  Identities=18%  Similarity=0.136  Sum_probs=149.1

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|++|++++         +.++.+|  ++.+++|++|++++|.++.+|  ++++++|++|++++|. +..+|  +
T Consensus        60 l~~l~~L~~L~Ls~---------n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~L~~N~-l~~l~--~  123 (457)
T 3bz5_A           60 IEKLTGLTKLICTS---------NNITTLD--LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNCDTNK-LTKLD--V  123 (457)
T ss_dssp             GGGCTTCSEEECCS---------SCCSCCC--CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEECCSSC-CSCCC--C
T ss_pred             hcccCCCCEEEccC---------CcCCeEc--cccCCCCCEEECcCCCCceee--cCCCCcCCEEECCCCc-CCeec--C
Confidence            67899999999999         7788776  889999999999999999885  8999999999999998 77776  8


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      +.+++|++|++++|. +..+|  ++++++|++|+  +..+...+..     .+..++.|+.|++++..- ..    .  .
T Consensus       124 ~~l~~L~~L~l~~N~-l~~l~--l~~l~~L~~L~--l~~n~~~~~~-----~~~~l~~L~~L~ls~n~l-~~----l--~  186 (457)
T 3bz5_A          124 SQNPLLTYLNCARNT-LTEID--VSHNTQLTELD--CHLNKKITKL-----DVTPQTQLTTLDCSFNKI-TE----L--D  186 (457)
T ss_dssp             TTCTTCCEEECTTSC-CSCCC--CTTCTTCCEEE--CTTCSCCCCC-----CCTTCTTCCEEECCSSCC-CC----C--C
T ss_pred             CCCCcCCEEECCCCc-cceec--cccCCcCCEEE--CCCCCccccc-----ccccCCcCCEEECCCCcc-ce----e--c
Confidence            999999999999998 55564  88999999998  5555443222     355677777888766431 22    1  2


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      +..+++|+.|++++|.+...                 .+..+++|+.|++++|.+..+|  +..+++|+.|+|+
T Consensus       187 l~~l~~L~~L~l~~N~l~~~-----------------~l~~l~~L~~L~Ls~N~l~~ip--~~~l~~L~~L~l~  241 (457)
T 3bz5_A          187 VSQNKLLNRLNCDTNNITKL-----------------DLNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCS  241 (457)
T ss_dssp             CTTCTTCCEEECCSSCCSCC-----------------CCTTCTTCSEEECCSSCCSCCC--CTTCTTCSEEECC
T ss_pred             cccCCCCCEEECcCCcCCee-----------------ccccCCCCCEEECcCCcccccC--ccccCCCCEEEee
Confidence            77889999999998875431                 3778899999999999999988  7899999999985

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.69  E-value=4.4e-18  Score=177.81  Aligned_cols=194  Identities=14%  Similarity=0.122  Sum_probs=153.8

Q ss_pred             HHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccC
Q 043450          325 RELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       325 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      +..+..+++|++|+|++         |.+...++ ++.+++|++|++++|.++.+|..    ++|++|++++|. +..+|
T Consensus        51 ~~~~~~l~~L~~L~Ls~---------N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~~~----~~L~~L~L~~N~-l~~~~  115 (487)
T 3oja_A           51 AADLAPFTKLELLNLSS---------NVLYETLD-LESLSTLRTLDLNNNYVQELLVG----PSIETLHAANNN-ISRVS  115 (487)
T ss_dssp             GGGGTTCTTCCEEECTT---------SCCEEEEE-CTTCTTCCEEECCSSEEEEEEEC----TTCCEEECCSSC-CCCEE
T ss_pred             HHHHhCCCCCCEEEeeC---------CCCCCCcc-cccCCCCCEEEecCCcCCCCCCC----CCcCEEECcCCc-CCCCC
Confidence            34578899999999999         67776665 89999999999999999887743    899999999998 66665


Q ss_pred             cccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhh-ccCCCCceEEcCCCCCCCcchh
Q 043450          405 TGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLK-NLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       405 ~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~-~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                      .  ..+++|+.|++++|...+..|..++++++|++|+  +.+|.+.+..+   ..+. .++.|+.|++++..- .   ..
T Consensus       116 ~--~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~--Ls~N~l~~~~~---~~l~~~l~~L~~L~Ls~N~l-~---~~  184 (487)
T 3oja_A          116 C--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLD--LKLNEIDTVNF---AELAASSDTLEHLNLQYNFI-Y---DV  184 (487)
T ss_dssp             E--CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEE--CTTSCCCEEEG---GGGGGGTTTCCEEECTTSCC-C---EE
T ss_pred             c--cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEE--CCCCCCCCcCh---HHHhhhCCcccEEecCCCcc-c---cc
Confidence            4  3578999999999996666677899999999998  67777643333   3333 567788888876432 1   11


Q ss_pred             hhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          484 ERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       484 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                        ..+..+++|+.|+|++|.+.               .++..+..+++|+.|++++|.+..+|.++..+++|+.|+|+
T Consensus       185 --~~~~~l~~L~~L~Ls~N~l~---------------~~~~~~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l~  245 (487)
T 3oja_A          185 --KGQVVFAKLKTLDLSSNKLA---------------FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLR  245 (487)
T ss_dssp             --ECCCCCTTCCEEECCSSCCC---------------EECGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECT
T ss_pred             --cccccCCCCCEEECCCCCCC---------------CCCHhHcCCCCccEEEecCCcCcccchhhccCCCCCEEEcC
Confidence              23446899999999988743               34556778899999999999999999999999999999985

>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=99.69  E-value=1.5e-16  Score=169.84  Aligned_cols=234  Identities=23%  Similarity=0.179  Sum_probs=148.1

Q ss_pred             EEEeecCcceeeeeecCCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccC
Q 043450          225 LWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSS  304 (561)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  304 (561)
                      +.........++.. ...+++.+.+..+.++.+|.   .+++|++|.+.++..                           
T Consensus        45 L~ls~n~L~~lp~~-l~~~L~~L~L~~N~l~~lp~---~l~~L~~L~Ls~N~l---------------------------   93 (622)
T 3g06_A           45 LNVGESGLTTLPDC-LPAHITTLVIPDNNLTSLPA---LPPELRTLEVSGNQL---------------------------   93 (622)
T ss_dssp             EECCSSCCSCCCSC-CCTTCSEEEECSCCCSCCCC---CCTTCCEEEECSCCC---------------------------
T ss_pred             EEecCCCcCccChh-hCCCCcEEEecCCCCCCCCC---cCCCCCEEEcCCCcC---------------------------
Confidence            34444444333322 23677888888887777774   567888888877721                           


Q ss_pred             CCCCCCCCCCCCCCcchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccccccc
Q 043450          305 PGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLC  384 (561)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~  384 (561)
                                  ..     ++.   .+.+|++|++++         |.+..+|.   .+++|++|++++|.++.+|..  
T Consensus        94 ------------~~-----lp~---~l~~L~~L~Ls~---------N~l~~l~~---~l~~L~~L~L~~N~l~~lp~~--  139 (622)
T 3g06_A           94 ------------TS-----LPV---LPPGLLELSIFS---------NPLTHLPA---LPSGLCKLWIFGNQLTSLPVL--  139 (622)
T ss_dssp             ------------SC-----CCC---CCTTCCEEEECS---------CCCCCCCC---CCTTCCEEECCSSCCSCCCCC--
T ss_pred             ------------Cc-----CCC---CCCCCCEEECcC---------CcCCCCCC---CCCCcCEEECCCCCCCcCCCC--
Confidence                        00     111   567888889988         67777776   467888888888888888764  


Q ss_pred             CCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhcc-
Q 043450          385 ELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNL-  463 (561)
Q Consensus       385 ~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L-  463 (561)
                       +++|++|++++|. +..+|..   +.+|+.|++++|. +..+|   ..+++|+.|+  +.+|.+.+ .+..+.+|..| 
T Consensus       140 -l~~L~~L~Ls~N~-l~~l~~~---~~~L~~L~L~~N~-l~~l~---~~~~~L~~L~--Ls~N~l~~-l~~~~~~L~~L~  207 (622)
T 3g06_A          140 -PPGLQELSVSDNQ-LASLPAL---PSELCKLWAYNNQ-LTSLP---MLPSGLQELS--VSDNQLAS-LPTLPSELYKLW  207 (622)
T ss_dssp             -CTTCCEEECCSSC-CSCCCCC---CTTCCEEECCSSC-CSCCC---CCCTTCCEEE--CCSSCCSC-CCCCCTTCCEEE
T ss_pred             -CCCCCEEECcCCc-CCCcCCc---cCCCCEEECCCCC-CCCCc---ccCCCCcEEE--CCCCCCCC-CCCccchhhEEE
Confidence             4788888888887 6677653   3456666666665 44555   3345666665  44444322 11222222221 


Q ss_pred             -------------CCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCC
Q 043450          464 -------------QLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPV  530 (561)
Q Consensus       464 -------------~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~  530 (561)
                                   ++|+.|.+++.. +..    ++   ..+++|+.|++++|.+.               .+|.   .++
T Consensus       208 L~~N~l~~l~~~~~~L~~L~Ls~N~-L~~----lp---~~l~~L~~L~Ls~N~L~---------------~lp~---~~~  261 (622)
T 3g06_A          208 AYNNRLTSLPALPSGLKELIVSGNR-LTS----LP---VLPSELKELMVSGNRLT---------------SLPM---LPS  261 (622)
T ss_dssp             CCSSCCSSCCCCCTTCCEEECCSSC-CSC----CC---CCCTTCCEEECCSSCCS---------------CCCC---CCT
T ss_pred             CcCCcccccCCCCCCCCEEEccCCc-cCc----CC---CCCCcCcEEECCCCCCC---------------cCCc---ccc
Confidence                         344445544321 111    11   34466777777766643               2333   568


Q ss_pred             CCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          531 NVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       531 ~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      +|+.|++++|.++.+|.++.++++|+.|+|+
T Consensus       262 ~L~~L~Ls~N~L~~lp~~l~~l~~L~~L~L~  292 (622)
T 3g06_A          262 GLLSLSVYRNQLTRLPESLIHLSSETTVNLE  292 (622)
T ss_dssp             TCCEEECCSSCCCSCCGGGGGSCTTCEEECC
T ss_pred             cCcEEeCCCCCCCcCCHHHhhccccCEEEec
Confidence            8999999999999999999999999999985

>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=99.69  E-value=1e-17  Score=168.09  Aligned_cols=258  Identities=15%  Similarity=0.149  Sum_probs=175.7

Q ss_pred             CceEEEEeeecCCCCCcc-cccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcc
Q 043450          242 EKVRHIGLNFQRGASFPM-SFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLN  320 (561)
Q Consensus       242 ~~~~~l~l~~~~~~~~~~-~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (561)
                      ..++.+.+..+..+.++. .+.++++|++|.+.++.........       +....      ....+.     +.... .
T Consensus        52 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-------~~~l~------~L~~L~-----Ls~n~-l  112 (353)
T 2z80_A           52 EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDS-------FSSLG------SLEHLD-----LSYNY-L  112 (353)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTT-------TTTCT------TCCEEE-----CCSSC-C
T ss_pred             ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhh-------cCCCC------CCCEEE-----CCCCc-C
Confidence            466777777776666653 5667777777777666221100000       00000      000000     00011 1


Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCcccccccCc--cccccCccCEEecCCCC-Cccc-cccccCCCCccEEecCC
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPE--NVEKLIHLKYLNLSGLR-IESL-PETLCELYNLQKLDIRR  396 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~--~~~~l~~L~~L~l~~~~-l~~l-p~~i~~L~~L~~L~l~~  396 (561)
                      ....+..+.++++|++|++++         |.+..+|.  .+..+++|++|++++|. +..+ |..++++++|++|++++
T Consensus       113 ~~~~~~~~~~l~~L~~L~L~~---------n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~  183 (353)
T 2z80_A          113 SNLSSSWFKPLSSLTFLNLLG---------NPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDA  183 (353)
T ss_dssp             SSCCHHHHTTCTTCSEEECTT---------CCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEE
T ss_pred             CcCCHhHhCCCccCCEEECCC---------CCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCC
Confidence            234455688999999999999         77888887  68899999999999995 7766 46799999999999999


Q ss_pred             CCCcCccCcccccCCCCCeEEcCCCCCCccCcccc-cCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          397 CQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       397 ~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i-~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      |......|..++.+++|++|++++|. +..+|..+ +.+++|+.|+  +.++.+.+.....+........++.+.+..+.
T Consensus       184 n~l~~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~L~~L~--L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~  260 (353)
T 2z80_A          184 SDLQSYEPKSLKSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLE--LRDTDLDTFHFSELSTGETNSLIKKFTFRNVK  260 (353)
T ss_dssp             TTCCEECTTTTTTCSEEEEEEEECSC-STTHHHHHHHHTTTEEEEE--EESCBCTTCCCC------CCCCCCEEEEESCB
T ss_pred             CCcCccCHHHHhccccCCeecCCCCc-cccchhhhhhhcccccEEE--CCCCccccccccccccccccchhhcccccccc
Confidence            99444558899999999999999998 57777654 5689999998  77887765555555555556667777776654


Q ss_pred             CCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhc-CCCCCCCceEEEeecCCCCC
Q 043450          476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEA-LQPPVNVEELWIVYYGGNIF  545 (561)
Q Consensus       476 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~-l~~~~~L~~L~l~~~~~~~l  545 (561)
                      -........+..+..+++|+.|++++|.+.               .+|.. +..+++|++|++++|++..-
T Consensus       261 l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~---------------~i~~~~~~~l~~L~~L~L~~N~~~~~  316 (353)
T 2z80_A          261 ITDESLFQVMKLLNQISGLLELEFSRNQLK---------------SVPDGIFDRLTSLQKIWLHTNPWDCS  316 (353)
T ss_dssp             CCHHHHHHHHHHHHTCTTCCEEECCSSCCC---------------CCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             ccCcchhhhHHHHhcccCCCEEECCCCCCC---------------ccCHHHHhcCCCCCEEEeeCCCccCc
Confidence            222222345566788999999999998754               34444 47899999999999997643

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.68  E-value=3.5e-18  Score=168.69  Aligned_cols=232  Identities=11%  Similarity=0.075  Sum_probs=177.2

Q ss_pred             CCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCc
Q 043450          241 GEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSL  319 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (561)
                      ..+++.+.+..+....++ ..+..+++|+.|.+.++..                                          
T Consensus        33 ~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l------------------------------------------   70 (317)
T 3o53_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVL------------------------------------------   70 (317)
T ss_dssp             GGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCC------------------------------------------
T ss_pred             CCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcC------------------------------------------
Confidence            346888999988887776 5788999999999998822                                          


Q ss_pred             chhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCC
Q 043450          320 NSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQD  399 (561)
Q Consensus       320 ~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~  399 (561)
                      . ...+  +..+++|++|++++         |.++.+|.    .++|++|++++|.++.+|..  .+++|++|++++|. 
T Consensus        71 ~-~~~~--~~~l~~L~~L~Ls~---------n~l~~l~~----~~~L~~L~l~~n~l~~~~~~--~~~~L~~L~l~~N~-  131 (317)
T 3o53_A           71 Y-ETLD--LESLSTLRTLDLNN---------NYVQELLV----GPSIETLHAANNNISRVSCS--RGQGKKNIYLANNK-  131 (317)
T ss_dssp             E-EEEE--ETTCTTCCEEECCS---------SEEEEEEE----CTTCCEEECCSSCCSEEEEC--CCSSCEEEECCSSC-
T ss_pred             C-cchh--hhhcCCCCEEECcC---------CccccccC----CCCcCEEECCCCccCCcCcc--ccCCCCEEECCCCC-
Confidence            0 1111  67899999999999         77877653    48999999999999987654  47899999999998 


Q ss_pred             cCcc-CcccccCCCCCeEEcCCCCCCccCcccc-cCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCC
Q 043450          400 LREL-PTGIGKLKNMRSLLNGDTSSLKYLPIGI-SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNV  477 (561)
Q Consensus       400 ~~~l-p~~~~~l~~L~~L~l~~~~~~~~lp~~i-~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~  477 (561)
                      +..+ |..++.+++|++|++++|......|..+ +.+++|++|+  +.+|.+...     .....++.|+.|++++..  
T Consensus       132 l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~--L~~N~l~~~-----~~~~~l~~L~~L~Ls~N~--  202 (317)
T 3o53_A          132 ITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLN--LQYNFIYDV-----KGQVVFAKLKTLDLSSNK--  202 (317)
T ss_dssp             CCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEE--CTTSCCCEE-----ECCCCCTTCCEEECCSSC--
T ss_pred             CCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEE--CCCCcCccc-----ccccccccCCEEECCCCc--
Confidence            5555 5578899999999999998555455555 4789999998  666665322     223346777888877643  


Q ss_pred             CCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC--CCChhhhcccCC
Q 043450          478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN--IFPKWLTLLTNL  555 (561)
Q Consensus       478 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~--~lp~~~~~l~~L  555 (561)
                        .. ..+..+..+++|+.|++++|.+.               .+|..+..+++|+.|++++|++.  .+|.++..+++|
T Consensus       203 --l~-~l~~~~~~l~~L~~L~L~~N~l~---------------~l~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L  264 (317)
T 3o53_A          203 --LA-FMGPEFQSAAGVTWISLRNNKLV---------------LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRV  264 (317)
T ss_dssp             --CC-EECGGGGGGTTCSEEECTTSCCC---------------EECTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHH
T ss_pred             --CC-cchhhhcccCcccEEECcCCccc---------------chhhHhhcCCCCCEEEccCCCccCcCHHHHHhccccc
Confidence              12 23334788999999999988742               45777888999999999999987  678888888888


Q ss_pred             cEEEc
Q 043450          556 RDLNL  560 (561)
Q Consensus       556 ~~L~L  560 (561)
                      +.|++
T Consensus       265 ~~l~l  269 (317)
T 3o53_A          265 QTVAK  269 (317)
T ss_dssp             HHHHH
T ss_pred             eEEEC
Confidence            77654

>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=8.8e-17  Score=171.66  Aligned_cols=152  Identities=16%  Similarity=0.120  Sum_probs=100.0

Q ss_pred             cCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCcc---CcccccCCcCCcccCceeecCccCCCCccCchhh
Q 043450          384 CELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKY---LPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESL  460 (561)
Q Consensus       384 ~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~---lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l  460 (561)
                      +.+++|++|++++|.....+|..++.+++|+.|++++|. +..   +|..++++++|++|+  +.+|.+.+..+..  .+
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~l~~L~~L~--l~~N~l~~~~~~~--~~  424 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNG-LKNFFKVALMTKNMSSLETLD--VSLNSLNSHAYDR--TC  424 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSC-CCBTTHHHHTTTTCTTCCEEE--CTTSCCBSCCSSC--CC
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCC-cCCcccchhhhcCCCCCCEEE--CCCCcCCCccChh--hh
Confidence            566777777777777444467777777777777777776 443   334567777777776  5555553322211  23


Q ss_pred             hccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeec
Q 043450          461 KNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYY  540 (561)
Q Consensus       461 ~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~  540 (561)
                      ..++.|+.|.+++..    ..+..+..+.  ++|+.|++++|.+               ..+|..+..+++|+.|++++|
T Consensus       425 ~~l~~L~~L~l~~n~----l~~~~~~~l~--~~L~~L~L~~N~l---------------~~ip~~~~~l~~L~~L~L~~N  483 (562)
T 3a79_B          425 AWAESILVLNLSSNM----LTGSVFRCLP--PKVKVLDLHNNRI---------------MSIPKDVTHLQALQELNVASN  483 (562)
T ss_dssp             CCCTTCCEEECCSSC----CCGGGGSSCC--TTCSEEECCSSCC---------------CCCCTTTTSSCCCSEEECCSS
T ss_pred             cCcccCCEEECCCCC----CCcchhhhhc--CcCCEEECCCCcC---------------cccChhhcCCCCCCEEECCCC
Confidence            344555556655432    2222222222  5788888887763               245666778899999999999


Q ss_pred             CCCCCChh-hhcccCCcEEEcC
Q 043450          541 GGNIFPKW-LTLLTNLRDLNLD  561 (561)
Q Consensus       541 ~~~~lp~~-~~~l~~L~~L~L~  561 (561)
                      .++.+|.. +..+++|+.|+|+
T Consensus       484 ~l~~l~~~~~~~l~~L~~L~l~  505 (562)
T 3a79_B          484 QLKSVPDGVFDRLTSLQYIWLH  505 (562)
T ss_dssp             CCCCCCTTSTTTCTTCCCEECC
T ss_pred             CCCCCCHHHHhcCCCCCEEEec
Confidence            99999987 7899999999875

>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=99.68  E-value=9.1e-17  Score=157.65  Aligned_cols=178  Identities=20%  Similarity=0.290  Sum_probs=142.6

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|++|++++         +.+..++. +..+++|++|++++|.++.+| .+..+++|++|++++|. +..+|. +
T Consensus        59 ~~~l~~L~~L~L~~---------n~i~~~~~-~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~l~~n~-l~~~~~-l  125 (308)
T 1h6u_A           59 VQYLNNLIGLELKD---------NQITDLAP-LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLTSTQ-ITDVTP-L  125 (308)
T ss_dssp             GGGCTTCCEEECCS---------SCCCCCGG-GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEECTTSC-CCCCGG-G
T ss_pred             hhccCCCCEEEccC---------CcCCCChh-HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEECCCCC-CCCchh-h
Confidence            67799999999999         77888887 899999999999999998886 68999999999999998 777775 8


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++|++|++++|. +..+|. ++.+++|+.|+  +.++.+..     +..+..+++|+.|.+.+..- ...   .  .
T Consensus       126 ~~l~~L~~L~l~~n~-l~~~~~-l~~l~~L~~L~--l~~n~l~~-----~~~l~~l~~L~~L~l~~n~l-~~~---~--~  190 (308)
T 1h6u_A          126 AGLSNLQVLYLDLNQ-ITNISP-LAGLTNLQYLS--IGNAQVSD-----LTPLANLSKLTTLKADDNKI-SDI---S--P  190 (308)
T ss_dssp             TTCTTCCEEECCSSC-CCCCGG-GGGCTTCCEEE--CCSSCCCC-----CGGGTTCTTCCEEECCSSCC-CCC---G--G
T ss_pred             cCCCCCCEEECCCCc-cCcCcc-ccCCCCccEEE--ccCCcCCC-----ChhhcCCCCCCEEECCCCcc-CcC---h--h
Confidence            999999999999998 566665 88999999998  66666532     22367778888888876432 221   1  2


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL  549 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~  549 (561)
                      +..+++|+.|++++|.+...               + .+..+++|+.|++++|++...|..+
T Consensus       191 l~~l~~L~~L~L~~N~l~~~---------------~-~l~~l~~L~~L~l~~N~i~~~~~~~  236 (308)
T 1h6u_A          191 LASLPNLIEVHLKNNQISDV---------------S-PLANTSNLFIVTLTNQTITNQPVFY  236 (308)
T ss_dssp             GGGCTTCCEEECTTSCCCBC---------------G-GGTTCTTCCEEEEEEEEEECCCEEC
T ss_pred             hcCCCCCCEEEccCCccCcc---------------c-cccCCCCCCEEEccCCeeecCCeee
Confidence            78889999999998875432               2 3678899999999999987766543

>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=99.68  E-value=7.9e-17  Score=176.22  Aligned_cols=239  Identities=17%  Similarity=0.157  Sum_probs=170.0

Q ss_pred             EEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHHH
Q 043450          247 IGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRE  326 (561)
Q Consensus       247 l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (561)
                      +.........+|..+.  +++++|.+.++..                                           ....+.
T Consensus         9 ~~cs~~~L~~ip~~~~--~~l~~L~Ls~n~l-------------------------------------------~~~~~~   43 (680)
T 1ziw_A            9 ADCSHLKLTQVPDDLP--TNITVLNLTHNQL-------------------------------------------RRLPAA   43 (680)
T ss_dssp             EECCSSCCSSCCSCSC--TTCSEEECCSSCC-------------------------------------------CCCCGG
T ss_pred             eECCCCCccccccccC--CCCcEEECCCCCC-------------------------------------------CCcCHH
Confidence            4455555677775443  7899999998722                                           122334


Q ss_pred             HHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccC
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      .+.++++|++|++++         +.+..+ |..++.+++|++|++++|.++.+|+ .++++++|++|++++|. +..+|
T Consensus        44 ~~~~l~~L~~L~Ls~---------n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~-l~~~~  113 (680)
T 1ziw_A           44 NFTRYSQLTSLDVGF---------NTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNS-IQKIK  113 (680)
T ss_dssp             GGGGGTTCSEEECCS---------SCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC-CCCCC
T ss_pred             HHhCCCcCcEEECCC---------CccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEECCCCc-cCccC
Confidence            478899999999999         667666 6678999999999999999999987 59999999999999998 56665


Q ss_pred             -cccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchh
Q 043450          405 -TGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEA  483 (561)
Q Consensus       405 -~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~  483 (561)
                       ..++++++|++|++++|...+..|..++++++|++|+  +.++.+.+..+..+. ...++.|+.|++.+..    ....
T Consensus       114 ~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~--L~~n~l~~~~~~~~~-~~~~~~L~~L~L~~n~----l~~~  186 (680)
T 1ziw_A          114 NNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELL--LSNNKIQALKSEELD-IFANSSLKKLELSSNQ----IKEF  186 (680)
T ss_dssp             SCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEE--CCSSCCCCBCHHHHG-GGTTCEESEEECTTCC----CCCB
T ss_pred             hhHccccCCCCEEECCCCcccccCchhhcccccCCEEE--ccCCcccccCHHHhh-ccccccccEEECCCCc----cccc
Confidence             6799999999999999996666777889999999998  666665332222221 1234566777776532    1222


Q ss_pred             hhcccccccc---------------------------cccEEEEeecCCCCCcccccCCCcchHHHhhcCCCC--CCCce
Q 043450          484 ERLQLYNKKN---------------------------LLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPP--VNVEE  534 (561)
Q Consensus       484 ~~~~l~~l~~---------------------------L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~--~~L~~  534 (561)
                      .+..+..+.+                           |+.|++++|.+              ....+..+..+  ++|+.
T Consensus       187 ~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l--------------~~~~~~~~~~l~~~~L~~  252 (680)
T 1ziw_A          187 SPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQL--------------STTSNTTFLGLKWTNLTM  252 (680)
T ss_dssp             CTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCC--------------CEECTTTTGGGGGSCCCE
T ss_pred             ChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcc--------------cccChhHhhccCcCCCCE
Confidence            2333444444                           45555554432              22234455554  45999


Q ss_pred             EEEeecCCCCC-ChhhhcccCCcEEEcC
Q 043450          535 LWIVYYGGNIF-PKWLTLLTNLRDLNLD  561 (561)
Q Consensus       535 L~l~~~~~~~l-p~~~~~l~~L~~L~L~  561 (561)
                      |++++|.+..+ |.++..+++|+.|+|+
T Consensus       253 L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  280 (680)
T 1ziw_A          253 LDLSYNNLNVVGNDSFAWLPQLEYFFLE  280 (680)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECC
T ss_pred             EECCCCCcCccCcccccCcccccEeeCC
Confidence            99999997764 5678999999999985

>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=99.67  E-value=2.1e-16  Score=152.59  Aligned_cols=186  Identities=23%  Similarity=0.272  Sum_probs=140.1

Q ss_pred             HHhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccC
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      .+.++.+|++|++++         +.+..++. .+..+++|++|++++|.++.++ ..+.++++|++|++++|. +..++
T Consensus        47 ~~~~l~~L~~L~l~~---------n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~  116 (276)
T 2z62_A           47 SFFSFPELQVLDLSR---------CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN-LASLE  116 (276)
T ss_dssp             TTTTCTTCSEEECTT---------CCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSC-CCCST
T ss_pred             HhccccCCcEEECCC---------CcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCC-ccccC
Confidence            467789999999999         66777754 6788999999999999998765 568999999999999998 55555


Q ss_pred             c-ccccCCCCCeEEcCCCCCCc-cCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCC-ceEEcCCCCCCCcc
Q 043450          405 T-GIGKLKNMRSLLNGDTSSLK-YLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLR-ECRVEGLSNVSHVD  481 (561)
Q Consensus       405 ~-~~~~l~~L~~L~l~~~~~~~-~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~-~l~i~~~~~~~~~~  481 (561)
                      . .++.+++|++|++++|.... .+|..++++++|++|+  +.+|.+.+..+..+..+.+|+.|. .+++++..    ..
T Consensus       117 ~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~--Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~----l~  190 (276)
T 2z62_A          117 NFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLD--LSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNP----MN  190 (276)
T ss_dssp             TCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEE--CCSSCCCEECGGGGHHHHTCTTCCEEEECCSSC----CC
T ss_pred             chhcccCCCCCEEECcCCccceecCchhhccCCCCCEEE--CCCCCCCcCCHHHhhhhhhccccceeeecCCCc----cc
Confidence            4 78899999999999998433 3688899999999998  677776555555677777777665 45655422    22


Q ss_pred             hhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          482 EAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       482 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                      ...+ ......+|+.|++++|.+...              .+..+..+++|+.|++++|++.
T Consensus       191 ~~~~-~~~~~~~L~~L~L~~n~l~~~--------------~~~~~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          191 FIQP-GAFKEIRLKELALDTNQLKSV--------------PDGIFDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             EECT-TSSCSCCEEEEECCSSCCSCC--------------CTTTTTTCCSCCEEECCSSCBC
T ss_pred             ccCc-cccCCCcccEEECCCCceeec--------------CHhHhcccccccEEEccCCccc
Confidence            2222 233344899999998875432              1334678899999999999865

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

Probab=99.67  E-value=4.8e-17  Score=174.12  Aligned_cols=178  Identities=16%  Similarity=0.090  Sum_probs=87.8

Q ss_pred             cccCccCEEecCCCCCccc---cccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCc-ccccCCcC
Q 043450          361 EKLIHLKYLNLSGLRIESL---PETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLP-IGISRLTS  436 (561)
Q Consensus       361 ~~l~~L~~L~l~~~~l~~l---p~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~  436 (561)
                      ..+++|++|++++|.++..   |..+..+++|++|++++|. +..+|..+..+++|++|++++|......| ..++++++
T Consensus       344 ~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  422 (570)
T 2z63_A          344 VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRN  422 (570)
T ss_dssp             CBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCS-EEEEEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTT
T ss_pred             ccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCc-cccccccccccCCCCEEEccCCccccccchhhhhcCCC
Confidence            4455566666666655433   4455556666666666655 44444445556666666666555333222 23555556


Q ss_pred             CcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCC
Q 043450          437 LRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKN  516 (561)
Q Consensus       437 L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n  516 (561)
                      |++|+  +.++...+..+.   .+..++.|+.|.+.+..-   .....+..+..+++|+.|++++|.+.           
T Consensus       423 L~~L~--l~~n~l~~~~~~---~~~~l~~L~~L~l~~n~l---~~~~~p~~~~~l~~L~~L~l~~n~l~-----------  483 (570)
T 2z63_A          423 LIYLD--ISHTHTRVAFNG---IFNGLSSLEVLKMAGNSF---QENFLPDIFTELRNLTFLDLSQCQLE-----------  483 (570)
T ss_dssp             CCEEE--CTTSCCEECCTT---TTTTCTTCCEEECTTCEE---GGGEECSCCTTCTTCCEEECTTSCCC-----------
T ss_pred             CCEEe--CcCCcccccchh---hhhcCCcCcEEECcCCcC---ccccchhhhhcccCCCEEECCCCccc-----------
Confidence            66555  334433222222   223334444444433210   01223344555566666666655421           


Q ss_pred             cchHHHhhcCCCCCCCceEEEeecCCCCCCh-hhhcccCCcEEEcC
Q 043450          517 ENDEQLLEALQPPVNVEELWIVYYGGNIFPK-WLTLLTNLRDLNLD  561 (561)
Q Consensus       517 ~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~L~  561 (561)
                         ...|..+..+++|+.|++++|.+..+|. .+.++++|+.|+|+
T Consensus       484 ---~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  526 (570)
T 2z63_A          484 ---QLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH  526 (570)
T ss_dssp             ---EECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             ---cCChhhhhcccCCCEEeCCCCcCCCCCHHHhhcccCCcEEEec
Confidence               1224445555666666666666554443 34556666666553

>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=99.66  E-value=1.9e-16  Score=168.69  Aligned_cols=116  Identities=22%  Similarity=0.303  Sum_probs=78.1

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcC--cc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLR--EL  403 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~--~l  403 (561)
                      +.++++|++|++++         +.+..++ ..++.+++|++|++++|.++.+|+. ++++++|++|++++|. +.  ..
T Consensus        46 ~~~l~~L~~L~Ls~---------n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~  115 (549)
T 2z81_A           46 LRACANLQVLILKS---------SRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNP-YQTLGV  115 (549)
T ss_dssp             TSSCTTCCEEECTT---------SCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCC-CSSSCS
T ss_pred             hhcCCcccEEECCC---------CCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCc-ccccch
Confidence            56677777777777         5565554 5567777777777777777766544 7777777777777776 44  34


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCc-ccccCCcCCcccCceeecCccCCCCcc
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLP-IGISRLTSLRTLEKFVVGGGVDGNNTC  455 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~~~~~~~~~~~~~~~  455 (561)
                      |..++++++|++|++++|...+.+| ..++++++|++|+  +.++.+.+..+.
T Consensus       116 ~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~--L~~n~l~~~~~~  166 (549)
T 2z81_A          116 TSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELE--IKALSLRNYQSQ  166 (549)
T ss_dssp             SCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEE--EEETTCCEECTT
T ss_pred             hhhhhccCCccEEECCCCccccccCHhhhhcccccCeee--ccCCcccccChh
Confidence            5667777777777777776556665 3577777777776  555555433333

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.64  E-value=4.6e-16  Score=152.94  Aligned_cols=198  Identities=16%  Similarity=0.115  Sum_probs=146.0

Q ss_pred             ccccccEEeccCCCCCCCCCccccc-ccCccc--cccCccCEEecCCCCCcc-cc----ccccCCCCccEEecCCCCCcC
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIR-EIPENV--EKLIHLKYLNLSGLRIES-LP----ETLCELYNLQKLDIRRCQDLR  401 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~--~~l~~L~~L~l~~~~l~~-lp----~~i~~L~~L~~L~l~~~~~~~  401 (561)
                      .+.+|++|++++         +.+. ..|..+  +.+++|++|++++|.+.. .|    ..+..+++|++|++++|....
T Consensus        89 ~~~~L~~L~l~~---------n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~  159 (310)
T 4glp_A           89 AYSRLKELTLED---------LKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPA  159 (310)
T ss_dssp             HHSCCCEEEEES---------CCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCC
T ss_pred             ccCceeEEEeeC---------CEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcch
Confidence            456799999999         5554 556666  889999999999999874 23    345679999999999999544


Q ss_pred             ccCcccccCCCCCeEEcCCCCCCcc--Cc--ccccCCcCCcccCceeecCccCCCCccCchh-hhccCCCCceEEcCCCC
Q 043450          402 ELPTGIGKLKNMRSLLNGDTSSLKY--LP--IGISRLTSLRTLEKFVVGGGVDGNNTCRLES-LKNLQLLRECRVEGLSN  476 (561)
Q Consensus       402 ~lp~~~~~l~~L~~L~l~~~~~~~~--lp--~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~-l~~L~~L~~l~i~~~~~  476 (561)
                      ..|..++.+++|++|++++|...+.  +|  ..++.+++|++|+  +.+|.+.. .+..... +..++.|+.|++++.. 
T Consensus       160 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~--Ls~N~l~~-l~~~~~~l~~~l~~L~~L~Ls~N~-  235 (310)
T 4glp_A          160 FSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLA--LRNTGMET-PTGVCAALAAAGVQPHSLDLSHNS-  235 (310)
T ss_dssp             CCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCB--CCSSCCCC-HHHHHHHHHHHTCCCSSEECTTSC-
T ss_pred             hhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEE--CCCCCCCc-hHHHHHHHHhcCCCCCEEECCCCC-
Confidence            4557899999999999999985432  32  3347899999998  66666521 1111111 3667888888887643 


Q ss_pred             CCCcchhhhcccccc---cccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhccc
Q 043450          477 VSHVDEAERLQLYNK---KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLT  553 (561)
Q Consensus       477 ~~~~~~~~~~~l~~l---~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~  553 (561)
                         .....+..+..+   ++|+.|++++|.+.               .+|..+.  ++|+.|++++|.+..+|. +..++
T Consensus       236 ---l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~---------------~lp~~~~--~~L~~L~Ls~N~l~~~~~-~~~l~  294 (310)
T 4glp_A          236 ---LRATVNPSAPRCMWSSALNSLNLSFAGLE---------------QVPKGLP--AKLRVLDLSSNRLNRAPQ-PDELP  294 (310)
T ss_dssp             ---CCCCCCSCCSSCCCCTTCCCEECCSSCCC---------------SCCSCCC--SCCSCEECCSCCCCSCCC-TTSCC
T ss_pred             ---CCccchhhHHhccCcCcCCEEECCCCCCC---------------chhhhhc--CCCCEEECCCCcCCCCch-hhhCC
Confidence               223333344444   79999999998854               3455553  799999999999988876 68899


Q ss_pred             CCcEEEcC
Q 043450          554 NLRDLNLD  561 (561)
Q Consensus       554 ~L~~L~L~  561 (561)
                      +|+.|+|+
T Consensus       295 ~L~~L~L~  302 (310)
T 4glp_A          295 EVDNLTLD  302 (310)
T ss_dssp             CCSCEECS
T ss_pred             CccEEECc
Confidence            99999985

>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=99.63  E-value=2.5e-17  Score=167.33  Aligned_cols=218  Identities=18%  Similarity=0.174  Sum_probs=130.6

Q ss_pred             HHHhccccccEEeccCCCCCCCCCcccc-cccCcc-------ccccCccCEEecCCCCCcc-----ccccccCCCCccEE
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLI-REIPEN-------VEKLIHLKYLNLSGLRIES-----LPETLCELYNLQKL  392 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~-~~lp~~-------~~~l~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L  392 (561)
                      ..+..+++|++|+|++|..      +.+ ..+|..       +..+++|++|+|++|.+..     +|..+..+++|++|
T Consensus        54 ~~l~~~~~L~~L~Ls~~~~------~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L  127 (386)
T 2ca6_A           54 ENIASKKDLEIAEFSDIFT------GRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHL  127 (386)
T ss_dssp             HTTTTCTTCCEEECCSCCT------TSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEE
T ss_pred             HHHHhCCCccEEeCccccc------CccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEE
Confidence            3355677888888877421      111 122333       3567788888888887764     67777778888888


Q ss_pred             ecCCCCCcC----ccCcccccC---------CCCCeEEcCCCCCC-ccCc---ccccCCcCCcccCceeecCccCCCC-c
Q 043450          393 DIRRCQDLR----ELPTGIGKL---------KNMRSLLNGDTSSL-KYLP---IGISRLTSLRTLEKFVVGGGVDGNN-T  454 (561)
Q Consensus       393 ~l~~~~~~~----~lp~~~~~l---------~~L~~L~l~~~~~~-~~lp---~~i~~l~~L~~L~~~~~~~~~~~~~-~  454 (561)
                      ++++|....    .++..+..+         ++|++|++++|... ..+|   ..+..+++|++|+  +.+|.+.... .
T Consensus       128 ~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~--L~~n~l~~~g~~  205 (386)
T 2ca6_A          128 YLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVK--MVQNGIRPEGIE  205 (386)
T ss_dssp             ECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEE--CCSSCCCHHHHH
T ss_pred             ECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEE--CcCCCCCHhHHH
Confidence            888877321    223333344         78888888887743 3444   3566777788776  4455441000 0


Q ss_pred             cCch-hhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcC--CCCCC
Q 043450          455 CRLE-SLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEAL--QPPVN  531 (561)
Q Consensus       455 ~~~~-~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l--~~~~~  531 (561)
                      ..+. .+..++.|+.|.+++..-.......++..+..+++|+.|+|++|.+...          ....++..+  .++++
T Consensus       206 ~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~----------~~~~l~~~l~~~~~~~  275 (386)
T 2ca6_A          206 HLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSAR----------GAAAVVDAFSKLENIG  275 (386)
T ss_dssp             HHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHH----------HHHHHHHHHHTCSSCC
T ss_pred             HHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchh----------hHHHHHHHHhhccCCC
Confidence            0122 4556666777777653210000134455667778888888887764321          123355665  34778


Q ss_pred             CceEEEeecCCCC-----CChhh-hcccCCcEEEcC
Q 043450          532 VEELWIVYYGGNI-----FPKWL-TLLTNLRDLNLD  561 (561)
Q Consensus       532 L~~L~l~~~~~~~-----lp~~~-~~l~~L~~L~L~  561 (561)
                      |+.|++++|.+..     +|..+ .++++|+.|+|+
T Consensus       276 L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~  311 (386)
T 2ca6_A          276 LQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELN  311 (386)
T ss_dssp             CCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECT
T ss_pred             eEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEcc
Confidence            8888888888765     77777 567888888764

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.63  E-value=1.8e-16  Score=152.78  Aligned_cols=184  Identities=21%  Similarity=0.227  Sum_probs=128.6

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc-
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT-  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~-  405 (561)
                      +..+++|++|++++         +.+..++ .++.+++|++|++++|.++.+|+. ++++++|++|++++|. +..+|. 
T Consensus        59 l~~l~~L~~L~l~~---------n~l~~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~  127 (272)
T 3rfs_A           59 IQYLPNVRYLALGG---------NKLHDIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQSLPDG  127 (272)
T ss_dssp             GGGCTTCCEEECTT---------SCCCCCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTT
T ss_pred             cccCCCCcEEECCC---------CCCCCch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCc-CCccCHH
Confidence            56788899999998         6666654 578889999999999998877654 6889999999999988 556654 


Q ss_pred             ccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhh
Q 043450          406 GIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAE  484 (561)
Q Consensus       406 ~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~  484 (561)
                      .++.+++|++|++++|. +..+|. .++.+++|++|+  +.+|.+.+..+..   +..++.|+.|.+.+..    .....
T Consensus       128 ~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~--l~~n~l~~~~~~~---~~~l~~L~~L~L~~N~----l~~~~  197 (272)
T 3rfs_A          128 VFDKLTNLTYLNLAHNQ-LQSLPKGVFDKLTNLTELD--LSYNQLQSLPEGV---FDKLTQLKDLRLYQNQ----LKSVP  197 (272)
T ss_dssp             TTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEE--CCSSCCCCCCTTT---TTTCTTCCEEECCSSC----CSCCC
T ss_pred             HhccCCCCCEEECCCCc-cCccCHHHhccCccCCEEE--CCCCCcCccCHHH---hcCCccCCEEECCCCc----CCccC
Confidence            47888999999999987 455554 468889999987  6666664333322   3455566666665532    22333


Q ss_pred             hcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhccc
Q 043450          485 RLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLT  553 (561)
Q Consensus       485 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~  553 (561)
                      +..+..+++|+.|+++.|.+                     .+.+++|+.|++.+|.+. .+|.+++.++
T Consensus       198 ~~~~~~l~~L~~L~l~~N~~---------------------~~~~~~l~~l~~~~n~~~g~ip~~~~~~~  246 (272)
T 3rfs_A          198 DGVFDRLTSLQYIWLHDNPW---------------------DCTCPGIRYLSEWINKHSGVVRNSAGSVA  246 (272)
T ss_dssp             TTTTTTCTTCCEEECCSSCB---------------------CCCTTTTHHHHHHHHHTGGGBBCTTSCBC
T ss_pred             HHHHhCCcCCCEEEccCCCc---------------------cccCcHHHHHHHHHHhCCCcccCcccccC
Confidence            44567788888888887753                     134556777776666643 4666665443

>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=99.63  E-value=4.1e-16  Score=151.48  Aligned_cols=176  Identities=20%  Similarity=0.109  Sum_probs=134.6

Q ss_pred             ccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccC
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL  410 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l  410 (561)
                      ..+++|++++         |.+..+ |..+..+++|++|++++|.++.+|.. +.+++|++|++++|. +..+|..+..+
T Consensus        31 ~~l~~L~L~~---------N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~Ls~N~-l~~l~~~~~~l   99 (290)
T 1p9a_G           31 KDTTILHLSE---------NLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTLDLSHNQ-LQSLPLLGQTL   99 (290)
T ss_dssp             TTCCEEECTT---------SCCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEEECCSSC-CSSCCCCTTTC
T ss_pred             CCCCEEEcCC---------CcCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEEECCCCc-CCcCchhhccC
Confidence            5789999998         667766 46688899999999999999888765 788999999999988 78899888899


Q ss_pred             CCCCeEEcCCCCCCccCc-ccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccc
Q 043450          411 KNMRSLLNGDTSSLKYLP-IGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLY  489 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~  489 (561)
                      ++|++|++++|. +..+| ..++.+++|++|+  +.+|.+....+..   +..+++|+.|.+.+.    .........+.
T Consensus       100 ~~L~~L~l~~N~-l~~l~~~~~~~l~~L~~L~--L~~N~l~~~~~~~---~~~l~~L~~L~L~~N----~l~~l~~~~~~  169 (290)
T 1p9a_G          100 PALTVLDVSFNR-LTSLPLGALRGLGELQELY--LKGNELKTLPPGL---LTPTPKLEKLSLANN----NLTELPAGLLN  169 (290)
T ss_dssp             TTCCEEECCSSC-CCCCCSSTTTTCTTCCEEE--CTTSCCCCCCTTT---TTTCTTCCEEECTTS----CCSCCCTTTTT
T ss_pred             CCCCEEECCCCc-CcccCHHHHcCCCCCCEEE--CCCCCCCccChhh---cccccCCCEEECCCC----cCCccCHHHhc
Confidence            999999999998 55555 5688999999997  6677664433333   345566666776553    22233334567


Q ss_pred             cccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          490 NKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       490 ~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                      ++++|+.|+++.|.+.               .+|..+...++|+.|++++|++.
T Consensus       170 ~l~~L~~L~L~~N~l~---------------~ip~~~~~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          170 GLENLDTLLLQENSLY---------------TIPKGFFGSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             TCTTCCEEECCSSCCC---------------CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             CcCCCCEEECCCCcCC---------------ccChhhcccccCCeEEeCCCCcc
Confidence            8899999999988743               35666777788999999999864

>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=99.62  E-value=2.8e-16  Score=148.25  Aligned_cols=192  Identities=15%  Similarity=0.149  Sum_probs=145.8

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCC-Cccccc-cccCCCCccEEecCC-CCCcCccCc-c
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLR-IESLPE-TLCELYNLQKLDIRR-CQDLRELPT-G  406 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~-l~~lp~-~i~~L~~L~~L~l~~-~~~~~~lp~-~  406 (561)
                      .+|++|++++         +.++.+|. .++.+++|++|++++|. ++.+|+ .+.++++|++|++++ |. ++.+|. .
T Consensus        31 ~~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           31 PSTQTLKLIE---------THLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRN-LTYIDPDA  100 (239)
T ss_dssp             TTCCEEEEES---------CCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETT-CCEECTTS
T ss_pred             CcccEEEEeC---------CcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCC-eeEcCHHH
Confidence            3799999999         77888876 68899999999999997 988875 689999999999998 66 777764 6


Q ss_pred             cccCCCCCeEEcCCCCCCccCcccccCCcCCc---ccCceeecC-ccCCCCccCchhhhccCCCC-ceEEcCCCCCCCcc
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLR---TLEKFVVGG-GVDGNNTCRLESLKNLQLLR-ECRVEGLSNVSHVD  481 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~---~L~~~~~~~-~~~~~~~~~~~~l~~L~~L~-~l~i~~~~~~~~~~  481 (561)
                      +..+++|++|++++|. +..+|. ++.+++|+   +|+  +.+| .+....+..   +..++.|+ .+.+.+..    ..
T Consensus       101 f~~l~~L~~L~l~~n~-l~~lp~-~~~l~~L~~L~~L~--l~~N~~l~~i~~~~---~~~l~~L~~~L~l~~n~----l~  169 (239)
T 2xwt_C          101 LKELPLLKFLGIFNTG-LKMFPD-LTKVYSTDIFFILE--ITDNPYMTSIPVNA---FQGLCNETLTLKLYNNG----FT  169 (239)
T ss_dssp             EECCTTCCEEEEEEEC-CCSCCC-CTTCCBCCSEEEEE--EESCTTCCEECTTT---TTTTBSSEEEEECCSCC----CC
T ss_pred             hCCCCCCCEEeCCCCC-Cccccc-cccccccccccEEE--CCCCcchhhcCccc---ccchhcceeEEEcCCCC----Cc
Confidence            8899999999999998 666887 88888888   887  6666 543322222   44556666 66665422    22


Q ss_pred             hhhhcccccccccccEEEEeec-CCCCCcccccCCCcchHHHhhcCCCC-CCCceEEEeecCCCCCChhhhcccCCcEEE
Q 043450          482 EAERLQLYNKKNLLRLGLQFGR-VADGEGEEGRRKNENDEQLLEALQPP-VNVEELWIVYYGGNIFPKWLTLLTNLRDLN  559 (561)
Q Consensus       482 ~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~~~~~n~~~~~~~~~l~~~-~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~  559 (561)
                      ......+.. .+|+.|++++|. +..              ..+..+..+ ++|+.|++++|.+..+|..  .+++|+.|+
T Consensus       170 ~i~~~~~~~-~~L~~L~L~~n~~l~~--------------i~~~~~~~l~~~L~~L~l~~N~l~~l~~~--~~~~L~~L~  232 (239)
T 2xwt_C          170 SVQGYAFNG-TKLDAVYLNKNKYLTV--------------IDKDAFGGVYSGPSLLDVSQTSVTALPSK--GLEHLKELI  232 (239)
T ss_dssp             EECTTTTTT-CEEEEEECTTCTTCCE--------------ECTTTTTTCSBCCSEEECTTCCCCCCCCT--TCTTCSEEE
T ss_pred             ccCHhhcCC-CCCCEEEcCCCCCccc--------------CCHHHhhccccCCcEEECCCCccccCChh--HhccCceee
Confidence            222223344 789999999873 422              123457778 9999999999999999976  788999998


Q ss_pred             cC
Q 043450          560 LD  561 (561)
Q Consensus       560 L~  561 (561)
                      ++
T Consensus       233 l~  234 (239)
T 2xwt_C          233 AR  234 (239)
T ss_dssp             CT
T ss_pred             cc
Confidence            74

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

Probab=99.61  E-value=1e-16  Score=157.66  Aligned_cols=199  Identities=18%  Similarity=0.243  Sum_probs=150.6

Q ss_pred             ccEEeccCCCCCCCCCcccccc--cCcccc-------ccCccCEEecCCCCCc-cccccc--cCCCCccEEecCCCCCcC
Q 043450          334 LRALVISQPSPIFRPDLNLIRE--IPENVE-------KLIHLKYLNLSGLRIE-SLPETL--CELYNLQKLDIRRCQDLR  401 (561)
Q Consensus       334 L~~L~l~~~~~~~~~~~~~~~~--lp~~~~-------~l~~L~~L~l~~~~l~-~lp~~i--~~L~~L~~L~l~~~~~~~  401 (561)
                      |++|++++         +.+..  +|..+.       .+++|++|++++|.++ .+|..+  +.+++|++|++++|. +.
T Consensus        65 L~~L~L~~---------n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~-l~  134 (312)
T 1wwl_A           65 IKSLSLKR---------LTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVS-WA  134 (312)
T ss_dssp             HHHCCCCE---------EEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCB-CS
T ss_pred             Hhhccccc---------ccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCC-Cc
Confidence            88888888         66643  566555       6899999999999998 788876  899999999999998 66


Q ss_pred             ccCcccccC-----CCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhh--hccCCCCceEEcCC
Q 043450          402 ELPTGIGKL-----KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESL--KNLQLLRECRVEGL  474 (561)
Q Consensus       402 ~lp~~~~~l-----~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l--~~L~~L~~l~i~~~  474 (561)
                      .+|..++.+     ++|++|++++|...+..|..++++++|++|+  +.+|...+..+ .+..+  ..+++|+.|.+.+.
T Consensus       135 ~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~--Ls~N~l~~~~~-~~~~~~~~~l~~L~~L~L~~N  211 (312)
T 1wwl_A          135 TRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLD--LSDNPELGERG-LISALCPLKFPTLQVLALRNA  211 (312)
T ss_dssp             SSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEE--CCSCTTCHHHH-HHHHSCTTSCTTCCEEECTTS
T ss_pred             chhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEE--CCCCCcCcchH-HHHHHHhccCCCCCEEECCCC
Confidence            668888887     9999999999995555557899999999998  66665422100 12223  66778888888765


Q ss_pred             CCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccC
Q 043450          475 SNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTN  554 (561)
Q Consensus       475 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~  554 (561)
                      . +..........+.++++|+.|++++|.+....             ....+..+++|+.|++++|.++.+|.++.  ++
T Consensus       212 ~-l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-------------~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~--~~  275 (312)
T 1wwl_A          212 G-METPSGVCSALAAARVQLQGLDLSHNSLRDAA-------------GAPSCDWPSQLNSLNLSFTGLKQVPKGLP--AK  275 (312)
T ss_dssp             C-CCCHHHHHHHHHHTTCCCSEEECTTSCCCSSC-------------CCSCCCCCTTCCEEECTTSCCSSCCSSCC--SE
T ss_pred             c-CcchHHHHHHHHhcCCCCCEEECCCCcCCccc-------------chhhhhhcCCCCEEECCCCccChhhhhcc--CC
Confidence            3 22222333344567899999999998864421             01344567899999999999999999877  89


Q ss_pred             CcEEEcC
Q 043450          555 LRDLNLD  561 (561)
Q Consensus       555 L~~L~L~  561 (561)
                      |+.|+|+
T Consensus       276 L~~L~Ls  282 (312)
T 1wwl_A          276 LSVLDLS  282 (312)
T ss_dssp             EEEEECC
T ss_pred             ceEEECC
Confidence            9999985

>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=99.61  E-value=2.9e-15  Score=145.58  Aligned_cols=175  Identities=21%  Similarity=0.258  Sum_probs=141.3

Q ss_pred             hccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIG  408 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~  408 (561)
                      ..+.+|++|++++         +.+..+|. ++.+++|++|++++|.++.+|+ +.++++|++|++++|. +..+|. ++
T Consensus        43 ~~l~~L~~L~l~~---------~~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n~-l~~~~~-l~  109 (291)
T 1h6t_A           43 NELNSIDQIIANN---------SDIKSVQG-IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENK-VKDLSS-LK  109 (291)
T ss_dssp             HHHHTCCEEECTT---------SCCCCCTT-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCGGG-GT
T ss_pred             hhcCcccEEEccC---------CCcccChh-HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCCc-CCCChh-hc
Confidence            4688899999999         67777765 8889999999999999998887 9999999999999998 777765 89


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQL  488 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l  488 (561)
                      .+++|++|++++|. +..++ .++.+++|+.|+  +.+|.+..     +..+..+++|+.|++.+..- ..   ..+  +
T Consensus       110 ~l~~L~~L~L~~n~-i~~~~-~l~~l~~L~~L~--l~~n~l~~-----~~~l~~l~~L~~L~L~~N~l-~~---~~~--l  174 (291)
T 1h6t_A          110 DLKKLKSLSLEHNG-ISDIN-GLVHLPQLESLY--LGNNKITD-----ITVLSRLTKLDTLSLEDNQI-SD---IVP--L  174 (291)
T ss_dssp             TCTTCCEEECTTSC-CCCCG-GGGGCTTCCEEE--CCSSCCCC-----CGGGGGCTTCSEEECCSSCC-CC---CGG--G
T ss_pred             cCCCCCEEECCCCc-CCCCh-hhcCCCCCCEEE--ccCCcCCc-----chhhccCCCCCEEEccCCcc-cc---chh--h
Confidence            99999999999998 56664 688999999998  66666532     35677888888888876432 22   222  7


Q ss_pred             ccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCCh
Q 043450          489 YNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPK  547 (561)
Q Consensus       489 ~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~  547 (561)
                      ..+++|+.|++++|.+..               ++ .+..+++|+.|++++|++...|.
T Consensus       175 ~~l~~L~~L~L~~N~i~~---------------l~-~l~~l~~L~~L~l~~n~i~~~~~  217 (291)
T 1h6t_A          175 AGLTKLQNLYLSKNHISD---------------LR-ALAGLKNLDVLELFSQECLNKPI  217 (291)
T ss_dssp             TTCTTCCEEECCSSCCCB---------------CG-GGTTCTTCSEEEEEEEEEECCCE
T ss_pred             cCCCccCEEECCCCcCCC---------------Ch-hhccCCCCCEEECcCCcccCCcc
Confidence            889999999999887532               22 47788999999999998766554

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.60  E-value=4.6e-15  Score=142.68  Aligned_cols=179  Identities=20%  Similarity=0.199  Sum_probs=136.3

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc-ccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT-GIG  408 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~-~~~  408 (561)
                      .+|+.|++++         +.+..+|. .+..+++|++|++++|.++.+|.. +.++++|++|++++|. +..+|. .+.
T Consensus        37 ~~l~~L~l~~---------n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~  106 (270)
T 2o6q_A           37 ADTKKLDLQS---------NKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK-LQALPIGVFD  106 (270)
T ss_dssp             TTCSEEECCS---------SCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSC-CCCCCTTTTT
T ss_pred             CCCCEEECcC---------CCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCc-CCcCCHhHcc
Confidence            5699999999         77888765 688999999999999999988876 4789999999999998 667765 568


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQL  488 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l  488 (561)
                      .+++|++|++++|......|..++.+++|++|+  +.++.+....+..   +..++.|+.|.+.+..    .....+..+
T Consensus       107 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~--Ls~n~l~~~~~~~---~~~l~~L~~L~L~~n~----l~~~~~~~~  177 (270)
T 2o6q_A          107 QLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLS--LGYNELQSLPKGV---FDKLTSLKELRLYNNQ----LKRVPEGAF  177 (270)
T ss_dssp             TCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEE--CCSSCCCCCCTTT---TTTCTTCCEEECCSSC----CSCCCTTTT
T ss_pred             cccCCCEEECCCCccCeeCHHHhCcCcCCCEEE--CCCCcCCccCHhH---ccCCcccceeEecCCc----CcEeChhHh
Confidence            899999999999985444445579999999998  6677664333322   4556667777776532    223333457


Q ss_pred             ccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          489 YNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       489 ~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                      .++++|+.|++++|.+...              .+..+..+++|+.|++++|++.
T Consensus       178 ~~l~~L~~L~L~~N~l~~~--------------~~~~~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          178 DKLTELKTLKLDNNQLKRV--------------PEGAFDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             TTCTTCCEEECCSSCCSCC--------------CTTTTTTCTTCCEEECCSSCBC
T ss_pred             ccCCCcCEEECCCCcCCcC--------------CHHHhccccCCCEEEecCCCee
Confidence            7889999999998875432              1234677889999999999853

>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=3e-15  Score=144.12  Aligned_cols=181  Identities=18%  Similarity=0.216  Sum_probs=137.9

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc-c
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT-G  406 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~-~  406 (561)
                      ...+.+|+.|++++         +.+..++. ++.+++|++|++++|.++.++ .++.+++|++|++++|. +..+|. .
T Consensus        37 ~~~l~~L~~L~l~~---------~~i~~~~~-l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~n~-l~~~~~~~  104 (272)
T 3rfs_A           37 QNELNSIDQIIANN---------SDIKSVQG-IQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTGNQ-LQSLPNGV  104 (272)
T ss_dssp             HHHHTTCCEEECTT---------SCCCCCTT-GGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTTSC-CCCCCTTT
T ss_pred             cccccceeeeeeCC---------CCcccccc-cccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCCCc-cCccChhH
Confidence            35688999999999         66777654 888999999999999998875 78999999999999998 666655 5


Q ss_pred             cccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhc
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERL  486 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~  486 (561)
                      ++.+++|++|++++|......|..++.+++|++|+  +.+|.+.+..+..   +..++.|+.|.+.+..    .....+.
T Consensus       105 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~--L~~n~l~~~~~~~---~~~l~~L~~L~l~~n~----l~~~~~~  175 (272)
T 3rfs_A          105 FDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLN--LAHNQLQSLPKGV---FDKLTNLTELDLSYNQ----LQSLPEG  175 (272)
T ss_dssp             TTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE--CCSSCCCCCCTTT---TTTCTTCCEEECCSSC----CCCCCTT
T ss_pred             hcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEE--CCCCccCccCHHH---hccCccCCEEECCCCC----cCccCHH
Confidence            78999999999999994443344479999999998  6677664333322   4556667777776542    2233344


Q ss_pred             ccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          487 QLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       487 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                      .+..+++|+.|+++.|.+...              .+..+..+++|+.|++++|++.
T Consensus       176 ~~~~l~~L~~L~L~~N~l~~~--------------~~~~~~~l~~L~~L~l~~N~~~  218 (272)
T 3rfs_A          176 VFDKLTQLKDLRLYQNQLKSV--------------PDGVFDRLTSLQYIWLHDNPWD  218 (272)
T ss_dssp             TTTTCTTCCEEECCSSCCSCC--------------CTTTTTTCTTCCEEECCSSCBC
T ss_pred             HhcCCccCCEEECCCCcCCcc--------------CHHHHhCCcCCCEEEccCCCcc
Confidence            567889999999998875432              2345678899999999999854

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.59  E-value=4.7e-15  Score=156.37  Aligned_cols=175  Identities=15%  Similarity=0.084  Sum_probs=136.8

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCC
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLK  411 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~  411 (561)
                      .+|++|++++         +.++.+|..+.  ++|++|++++|.++.+|   ..+++|++|++++|. +..+|. +..  
T Consensus        59 ~~L~~L~Ls~---------n~L~~lp~~l~--~~L~~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N~-l~~ip~-l~~--  120 (571)
T 3cvr_A           59 NQFSELQLNR---------LNLSSLPDNLP--PQITVLEITQNALISLP---ELPASLEYLDACDNR-LSTLPE-LPA--  120 (571)
T ss_dssp             TTCSEEECCS---------SCCSCCCSCCC--TTCSEEECCSSCCSCCC---CCCTTCCEEECCSSC-CSCCCC-CCT--
T ss_pred             CCccEEEeCC---------CCCCccCHhHc--CCCCEEECcCCCCcccc---cccCCCCEEEccCCC-CCCcch-hhc--
Confidence            3899999999         77888988774  79999999999999999   568999999999998 777998 665  


Q ss_pred             CCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccc
Q 043450          412 NMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNK  491 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l  491 (561)
                      +|++|++++|. +..+|.   .+++|++|+  +.+|.+.+ .+.      .+++|+.|.+++..- ..    ++. +.  
T Consensus       121 ~L~~L~Ls~N~-l~~lp~---~l~~L~~L~--Ls~N~l~~-lp~------~l~~L~~L~Ls~N~L-~~----lp~-l~--  179 (571)
T 3cvr_A          121 SLKHLDVDNNQ-LTMLPE---LPALLEYIN--ADNNQLTM-LPE------LPTSLEVLSVRNNQL-TF----LPE-LP--  179 (571)
T ss_dssp             TCCEEECCSSC-CSCCCC---CCTTCCEEE--CCSSCCSC-CCC------CCTTCCEEECCSSCC-SC----CCC-CC--
T ss_pred             CCCEEECCCCc-CCCCCC---cCccccEEe--CCCCccCc-CCC------cCCCcCEEECCCCCC-CC----cch-hh--
Confidence            99999999998 666887   689999998  66776643 222      356777777765431 21    233 43  


Q ss_pred             cccccEEEEeecCCCCCcccccCCCcchHHHhhcCC-----CCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          492 KNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ-----PPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       492 ~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~-----~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      ++|+.|+|++|.+...               |. +.     .++.|+.|++++|.++.+|.++.++++|+.|+|+
T Consensus       180 ~~L~~L~Ls~N~L~~l---------------p~-~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~  238 (571)
T 3cvr_A          180 ESLEALDVSTNLLESL---------------PA-VPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILE  238 (571)
T ss_dssp             TTCCEEECCSSCCSSC---------------CC-CC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEECC
T ss_pred             CCCCEEECcCCCCCch---------------hh-HHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEee
Confidence            8999999999986532               32 22     2233499999999999999999889999999985

>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=99.59  E-value=5.8e-16  Score=154.05  Aligned_cols=206  Identities=16%  Similarity=0.141  Sum_probs=137.7

Q ss_pred             HHhcc--ccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCc-c-ccccccCCCCccEEecCCCCCcCc
Q 043450          327 LFSKL--ACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE-S-LPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       327 ~~~~l--~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~-~-lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      .+..+  .++++|++++         +.+...+..+..+++|++|++++|.+. . +|..+..+++|++|++++|.....
T Consensus        63 ~~~~~~~~~l~~L~l~~---------n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~  133 (336)
T 2ast_B           63 VTGRLLSQGVIAFRCPR---------SFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDP  133 (336)
T ss_dssp             HHHHHHHTTCSEEECTT---------CEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHH
T ss_pred             HHHhhhhccceEEEcCC---------ccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHH
Confidence            34455  7788888888         667666666777888888888888876 2 777788888888888888874446


Q ss_pred             cCcccccCCCCCeEEcCCCCCCc--cCcccccCCcCCcccCceeecC-ccCCCCccCchhhhccC-CCCceEEcCCC-CC
Q 043450          403 LPTGIGKLKNMRSLLNGDTSSLK--YLPIGISRLTSLRTLEKFVVGG-GVDGNNTCRLESLKNLQ-LLRECRVEGLS-NV  477 (561)
Q Consensus       403 lp~~~~~l~~L~~L~l~~~~~~~--~lp~~i~~l~~L~~L~~~~~~~-~~~~~~~~~~~~l~~L~-~L~~l~i~~~~-~~  477 (561)
                      .|..++.+++|++|++++|..+.  .+|..++++++|++|+  +.++ .+..  ......+..++ +|+.|.+.++. .+
T Consensus       134 ~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~--l~~~~~l~~--~~~~~~~~~l~~~L~~L~l~~~~~~~  209 (336)
T 2ast_B          134 IVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELN--LSWCFDFTE--KHVQVAVAHVSETITQLNLSGYRKNL  209 (336)
T ss_dssp             HHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEE--CCCCTTCCH--HHHHHHHHHSCTTCCEEECCSCGGGS
T ss_pred             HHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEc--CCCCCCcCh--HHHHHHHHhcccCCCEEEeCCCcccC
Confidence            67778888888888888884344  3666677788888887  4444 3311  00123355666 77777776643 11


Q ss_pred             CCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCCh---hhhcccC
Q 043450          478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPK---WLTLLTN  554 (561)
Q Consensus       478 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~---~~~~l~~  554 (561)
                      .  ....+..+..+++|+.|++++|..             .....+..+..+++|+.|++++|.. ..|.   .+.++++
T Consensus       210 ~--~~~l~~~~~~~~~L~~L~l~~~~~-------------l~~~~~~~l~~l~~L~~L~l~~~~~-~~~~~~~~l~~~~~  273 (336)
T 2ast_B          210 Q--KSDLSTLVRRCPNLVHLDLSDSVM-------------LKNDCFQEFFQLNYLQHLSLSRCYD-IIPETLLELGEIPT  273 (336)
T ss_dssp             C--HHHHHHHHHHCTTCSEEECTTCTT-------------CCGGGGGGGGGCTTCCEEECTTCTT-CCGGGGGGGGGCTT
T ss_pred             C--HHHHHHHHhhCCCCCEEeCCCCCc-------------CCHHHHHHHhCCCCCCEeeCCCCCC-CCHHHHHHHhcCCC
Confidence            1  144455567788888888887651             1233455666778888888888861 2233   4567888


Q ss_pred             CcEEEcC
Q 043450          555 LRDLNLD  561 (561)
Q Consensus       555 L~~L~L~  561 (561)
                      |+.|+|+
T Consensus       274 L~~L~l~  280 (336)
T 2ast_B          274 LKTLQVF  280 (336)
T ss_dssp             CCEEECT
T ss_pred             CCEEecc
Confidence            8888774

>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=99.58  E-value=1.8e-15  Score=147.12  Aligned_cols=175  Identities=19%  Similarity=0.238  Sum_probs=141.1

Q ss_pred             ccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCccc
Q 043450          351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIG  430 (561)
Q Consensus       351 ~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~  430 (561)
                      +.+..+. .+..+++|++|++++|.++.+|. +..+++|++|++++|. +..++. +..+++|++|++++|. +..+| .
T Consensus        34 ~~~~~~~-~~~~l~~L~~L~l~~~~i~~~~~-~~~l~~L~~L~L~~n~-l~~~~~-l~~l~~L~~L~l~~n~-l~~~~-~  107 (291)
T 1h6t_A           34 KSVTDAV-TQNELNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGNK-LTDIKP-LANLKNLGWLFLDENK-VKDLS-S  107 (291)
T ss_dssp             SCTTSEE-CHHHHHTCCEEECTTSCCCCCTT-GGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSSC-CCCGG-G
T ss_pred             CCccccc-chhhcCcccEEEccCCCcccChh-HhcCCCCCEEEccCCc-cCCCcc-cccCCCCCEEECCCCc-CCCCh-h
Confidence            4444432 25678999999999999998864 8999999999999998 777876 9999999999999998 66665 4


Q ss_pred             ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcc
Q 043450          431 ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGE  510 (561)
Q Consensus       431 i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  510 (561)
                      ++.+++|++|+  +.+|.+..     +..+..+++|+.|.+++..- ...     ..+..+++|+.|++++|.+...   
T Consensus       108 l~~l~~L~~L~--L~~n~i~~-----~~~l~~l~~L~~L~l~~n~l-~~~-----~~l~~l~~L~~L~L~~N~l~~~---  171 (291)
T 1h6t_A          108 LKDLKKLKSLS--LEHNGISD-----INGLVHLPQLESLYLGNNKI-TDI-----TVLSRLTKLDTLSLEDNQISDI---  171 (291)
T ss_dssp             GTTCTTCCEEE--CTTSCCCC-----CGGGGGCTTCCEEECCSSCC-CCC-----GGGGGCTTCSEEECCSSCCCCC---
T ss_pred             hccCCCCCEEE--CCCCcCCC-----ChhhcCCCCCCEEEccCCcC-Ccc-----hhhccCCCCCEEEccCCccccc---
Confidence            99999999998  66666532     35677888888888876432 221     4578999999999999885432   


Q ss_pred             cccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          511 EGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       511 ~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                                  +. +..+++|+.|++++|.++.+|. +..+++|+.|+|+
T Consensus       172 ------------~~-l~~l~~L~~L~L~~N~i~~l~~-l~~l~~L~~L~l~  208 (291)
T 1h6t_A          172 ------------VP-LAGLTKLQNLYLSKNHISDLRA-LAGLKNLDVLELF  208 (291)
T ss_dssp             ------------GG-GTTCTTCCEEECCSSCCCBCGG-GTTCTTCSEEEEE
T ss_pred             ------------hh-hcCCCccCEEECCCCcCCCChh-hccCCCCCEEECc
Confidence                        22 7789999999999999998874 8999999999974

>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=99.58  E-value=7.4e-16  Score=159.36  Aligned_cols=253  Identities=19%  Similarity=0.110  Sum_probs=106.8

Q ss_pred             CCceEEEEeeecCCCCCcccccccCceeEEEEccCCCC--CcchhhhhhhhhhhhhhHHHhhhc-cCCCCCCCCCCCCCC
Q 043450          241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHY--NPSLFQSMAISSAYSLVNAVLYLV-SSPGLGIDDESPSNP  317 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  317 (561)
                      ...++.+.+..+..+.+|.++.++++|++|.+.++...  .+..+....   .+.......+.. ....+.+....+.  
T Consensus        10 ~~~L~~L~l~~n~l~~iP~~i~~L~~L~~L~l~~n~~~~~~p~~~~~l~---~L~~l~l~~c~~~~l~~L~l~~~~l~--   84 (454)
T 1jl5_A           10 NTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQR---EMAVSRLRDCLDRQAHELELNNLGLS--   84 (454)
T ss_dssp             ------------------------CCHHHHHHHHHHHHHTSCTTSCCCH---HHHHHHHHHHHHHTCSEEECTTSCCS--
T ss_pred             cccchhhhcccCchhhCChhHhcccchhhhhccCCcccccCCcccccch---hcchhhhhhhhccCCCEEEecCCccc--
Confidence            35678888888888899988999999999988876210  000000000   000000000000 0000000000000  


Q ss_pred             CcchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCC
Q 043450          318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRC  397 (561)
Q Consensus       318 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~  397 (561)
                      .     +|.   -.++|++|++++         +.++.+|..   +.+|++|++++|.++.+|..   .++|++|++++|
T Consensus        85 ~-----lp~---~~~~L~~L~l~~---------n~l~~lp~~---~~~L~~L~l~~n~l~~l~~~---~~~L~~L~L~~n  141 (454)
T 1jl5_A           85 S-----LPE---LPPHLESLVASC---------NSLTELPEL---PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSNN  141 (454)
T ss_dssp             C-----CCS---CCTTCSEEECCS---------SCCSSCCCC---CTTCCEEECCSSCCSCCCSC---CTTCCEEECCSS
T ss_pred             c-----CCC---CcCCCCEEEccC---------CcCCccccc---cCCCcEEECCCCccCcccCC---CCCCCEEECcCC
Confidence            0     000   123455555555         444445432   24566666666655554431   145666666666


Q ss_pred             CCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCC
Q 043450          398 QDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNV  477 (561)
Q Consensus       398 ~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~  477 (561)
                      . +..+| .++.+++|++|++++|. +..+|..+   .+|++|+  +.++.+.+     +..+..++.|+.|.+.+..- 
T Consensus       142 ~-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          142 Q-LEKLP-ELQNSSFLKIIDVDNNS-LKKLPDLP---PSLEFIA--AGNNQLEE-----LPELQNLPFLTAIYADNNSL-  207 (454)
T ss_dssp             C-CSSCC-CCTTCTTCCEEECCSSC-CSCCCCCC---TTCCEEE--CCSSCCSS-----CCCCTTCTTCCEEECCSSCC-
T ss_pred             C-CCCCc-ccCCCCCCCEEECCCCc-CcccCCCc---ccccEEE--CcCCcCCc-----CccccCCCCCCEEECCCCcC-
Confidence            5 44565 36666666666666665 44455433   3555555  44444322     11244455555555544221 


Q ss_pred             CCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcE
Q 043450          478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRD  557 (561)
Q Consensus       478 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~  557 (561)
                      ..    .+.   ...+|+.|++++|.+.               .+| .+..+++|+.|++++|.+..+|..   +++|+.
T Consensus       208 ~~----l~~---~~~~L~~L~l~~n~l~---------------~lp-~~~~l~~L~~L~l~~N~l~~l~~~---~~~L~~  261 (454)
T 1jl5_A          208 KK----LPD---LPLSLESIVAGNNILE---------------ELP-ELQNLPFLTTIYADNNLLKTLPDL---PPSLEA  261 (454)
T ss_dssp             SS----CCC---CCTTCCEEECCSSCCS---------------SCC-CCTTCTTCCEEECCSSCCSSCCSC---CTTCCE
T ss_pred             Cc----CCC---CcCcccEEECcCCcCC---------------ccc-ccCCCCCCCEEECCCCcCCccccc---ccccCE
Confidence            11    111   1135666666655532               344 377888889999988888777753   356666


Q ss_pred             EEcC
Q 043450          558 LNLD  561 (561)
Q Consensus       558 L~L~  561 (561)
                      |+++
T Consensus       262 L~l~  265 (454)
T 1jl5_A          262 LNVR  265 (454)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            6653

>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=99.56  E-value=1.1e-14  Score=138.36  Aligned_cols=177  Identities=16%  Similarity=0.158  Sum_probs=129.0

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCcc-Cccccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLREL-PTGIGK  409 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~l-p~~~~~  409 (561)
                      ...+++++++         +.++.+|..+.  .++++|++++|.+..++ ..++++++|++|++++|. +..+ |..+..
T Consensus        14 ~~~~~l~~~~---------~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~   81 (251)
T 3m19_A           14 EGKKEVDCQG---------KSLDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQ-LQTLSAGVFDD   81 (251)
T ss_dssp             GGGTEEECTT---------CCCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTTTTTT
T ss_pred             CCCeEEecCC---------CCccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCc-CCccCHhHhcc
Confidence            4577888888         77888888765  58999999999988665 468899999999999988 5554 446788


Q ss_pred             CCCCCeEEcCCCCCCccCc-ccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccc
Q 043450          410 LKNMRSLLNGDTSSLKYLP-IGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQL  488 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l  488 (561)
                      +++|++|++++|.. ..+| ..++.+++|++|+  +.+|.+....+..   +..++.|+.|.+.+.    ......+..+
T Consensus        82 l~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~--L~~N~l~~~~~~~---~~~l~~L~~L~Ls~N----~l~~~~~~~~  151 (251)
T 3m19_A           82 LTELGTLGLANNQL-ASLPLGVFDHLTQLDKLY--LGGNQLKSLPSGV---FDRLTKLKELRLNTN----QLQSIPAGAF  151 (251)
T ss_dssp             CTTCCEEECTTSCC-CCCCTTTTTTCTTCCEEE--CCSSCCCCCCTTT---TTTCTTCCEEECCSS----CCCCCCTTTT
T ss_pred             CCcCCEEECCCCcc-cccChhHhcccCCCCEEE--cCCCcCCCcChhH---hccCCcccEEECcCC----cCCccCHHHc
Confidence            99999999999884 4454 5578899999998  6677664333322   345566666666553    2223333457


Q ss_pred             ccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC
Q 043450          489 YNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI  544 (561)
Q Consensus       489 ~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~  544 (561)
                      ..+++|+.|+|++|.+...              .+..+..+++|+.|++++|++..
T Consensus       152 ~~l~~L~~L~L~~N~l~~~--------------~~~~~~~l~~L~~L~l~~N~~~c  193 (251)
T 3m19_A          152 DKLTNLQTLSLSTNQLQSV--------------PHGAFDRLGKLQTITLFGNQFDC  193 (251)
T ss_dssp             TTCTTCCEEECCSSCCSCC--------------CTTTTTTCTTCCEEECCSCCBCT
T ss_pred             CcCcCCCEEECCCCcCCcc--------------CHHHHhCCCCCCEEEeeCCceeC
Confidence            7888999999998875432              23457778899999999998653

>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=99.56  E-value=4.2e-16  Score=162.20  Aligned_cols=34  Identities=3%  Similarity=0.025  Sum_probs=22.2

Q ss_pred             CceEEEEeeecCCCCCc--ccccccCceeEEEEccC
Q 043450          242 EKVRHIGLNFQRGASFP--MSFFEFDRLRSLLIYDT  275 (561)
Q Consensus       242 ~~~~~l~l~~~~~~~~~--~~~~~~~~Lr~L~~~~~  275 (561)
                      ..++.+.+..+.....+  ..+..+++|++|.+.++
T Consensus         3 ~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~   38 (461)
T 1z7x_W            3 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDC   38 (461)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESS
T ss_pred             ccceehhhhhcccCchhHHHHHhhcCCccEEEccCC
Confidence            35667777766654433  22566788888888877

>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=99.56  E-value=1.1e-15  Score=152.11  Aligned_cols=232  Identities=18%  Similarity=0.146  Sum_probs=165.0

Q ss_pred             ceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchh
Q 043450          243 KVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSS  322 (561)
Q Consensus       243 ~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (561)
                      .++.+.+..+.....+..+..+++|+.|.+.++                                          .+...
T Consensus        71 ~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~------------------------------------------~l~~~  108 (336)
T 2ast_B           71 GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNS------------------------------------------VIEVS  108 (336)
T ss_dssp             TCSEEECTTCEECSCCCSCCCCBCCCEEECTTC------------------------------------------EECHH
T ss_pred             cceEEEcCCccccccchhhccCCCCCEEEccCC------------------------------------------CcCHH
Confidence            455566655555444445667899999999887                                          12233


Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCccccc-ccCccccccCccCEEecCCC-CCc--cccccccCCCCccEEecCCCC
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIR-EIPENVEKLIHLKYLNLSGL-RIE--SLPETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~lp~~~~~l~~L~~L~l~~~-~l~--~lp~~i~~L~~L~~L~l~~~~  398 (561)
                      .++..+..+++|++|++++         +.+. ..|..++.+++|++|++++| .++  .+|..+.++++|++|++++|.
T Consensus       109 ~~~~~~~~~~~L~~L~L~~---------~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~  179 (336)
T 2ast_B          109 TLHGILSQCSKLQNLSLEG---------LRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCF  179 (336)
T ss_dssp             HHHHHHTTBCCCSEEECTT---------CBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCT
T ss_pred             HHHHHHhhCCCCCEEeCcC---------cccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCC
Confidence            3667788999999999999         4454 56777888999999999999 577  478778999999999999993


Q ss_pred             CcCc--cCcccccCC-CCCeEEcCCCC-CC--ccCcccccCCcCCcccCceeecCc-cCCCCccCchhhhccCCCCceEE
Q 043450          399 DLRE--LPTGIGKLK-NMRSLLNGDTS-SL--KYLPIGISRLTSLRTLEKFVVGGG-VDGNNTCRLESLKNLQLLRECRV  471 (561)
Q Consensus       399 ~~~~--lp~~~~~l~-~L~~L~l~~~~-~~--~~lp~~i~~l~~L~~L~~~~~~~~-~~~~~~~~~~~l~~L~~L~~l~i  471 (561)
                      .+..  +|..+..++ +|++|++++|. .+  ..+|..++++++|+.|+  +.++. ..   ...+..+..+++|+.|++
T Consensus       180 ~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~--l~~~~~l~---~~~~~~l~~l~~L~~L~l  254 (336)
T 2ast_B          180 DFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLD--LSDSVMLK---NDCFQEFFQLNYLQHLSL  254 (336)
T ss_dssp             TCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEE--CTTCTTCC---GGGGGGGGGCTTCCEEEC
T ss_pred             CcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEe--CCCCCcCC---HHHHHHHhCCCCCCEeeC
Confidence            3654  677788999 99999999995 12  55677788899999998  55554 21   233556677788888888


Q ss_pred             cCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC-CChhhh
Q 043450          472 EGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI-FPKWLT  550 (561)
Q Consensus       472 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~-lp~~~~  550 (561)
                      .++...   .......+.++++|+.|++++| +.+.          ....+.      .+|..|++++|.++. .|.+++
T Consensus       255 ~~~~~~---~~~~~~~l~~~~~L~~L~l~~~-i~~~----------~~~~l~------~~l~~L~l~~n~l~~~~~~~~~  314 (336)
T 2ast_B          255 SRCYDI---IPETLLELGEIPTLKTLQVFGI-VPDG----------TLQLLK------EALPHLQINCSHFTTIARPTIG  314 (336)
T ss_dssp             TTCTTC---CGGGGGGGGGCTTCCEEECTTS-SCTT----------CHHHHH------HHSTTSEESCCCSCCTTCSSCS
T ss_pred             CCCCCC---CHHHHHHHhcCCCCCEEeccCc-cCHH----------HHHHHH------hhCcceEEecccCccccCCccc
Confidence            876522   2222245778999999999977 3221          122222      236667788888664 565553

>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=99.56  E-value=2.4e-15  Score=141.92  Aligned_cols=184  Identities=13%  Similarity=0.138  Sum_probs=138.7

Q ss_pred             cccccCccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCC-CCCCccCc
Q 043450          352 LIREIPENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGD-TSSLKYLP  428 (561)
Q Consensus       352 ~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~-~~~~~~lp  428 (561)
                      .++.+|. +.  .+|++|++++|.++.+|+ .+.++++|++|++++|..++.+|. .+.++++|++|++++ |. +..+|
T Consensus        22 ~l~~ip~-~~--~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~-l~~i~   97 (239)
T 2xwt_C           22 DIQRIPS-LP--PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRN-LTYID   97 (239)
T ss_dssp             SCSSCCC-CC--TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETT-CCEEC
T ss_pred             CccccCC-CC--CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCC-eeEcC
Confidence            3777787 54  489999999999998876 688999999999999975777775 789999999999998 66 66666


Q ss_pred             -ccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccc-cEEEEeecCCC
Q 043450          429 -IGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLL-RLGLQFGRVAD  506 (561)
Q Consensus       429 -~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~-~L~l~~~~~~~  506 (561)
                       ..++.+++|++|+  +.++.+.+ .+. +..+.+|+.|+.+++.+..   ......+..+.++++|+ .|++++|.+. 
T Consensus        98 ~~~f~~l~~L~~L~--l~~n~l~~-lp~-~~~l~~L~~L~~L~l~~N~---~l~~i~~~~~~~l~~L~~~L~l~~n~l~-  169 (239)
T 2xwt_C           98 PDALKELPLLKFLG--IFNTGLKM-FPD-LTKVYSTDIFFILEITDNP---YMTSIPVNAFQGLCNETLTLKLYNNGFT-  169 (239)
T ss_dssp             TTSEECCTTCCEEE--EEEECCCS-CCC-CTTCCBCCSEEEEEEESCT---TCCEECTTTTTTTBSSEEEEECCSCCCC-
T ss_pred             HHHhCCCCCCCEEe--CCCCCCcc-ccc-cccccccccccEEECCCCc---chhhcCcccccchhcceeEEEcCCCCCc-
Confidence             4688999999998  66666543 232 4444444444478887642   22333444588899999 9999988743 


Q ss_pred             CCcccccCCCcchHHHhhcCCCCCCCceEEEeecC-CCCCCh-hhhcc-cCCcEEEcC
Q 043450          507 GEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYG-GNIFPK-WLTLL-TNLRDLNLD  561 (561)
Q Consensus       507 ~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~-~~~lp~-~~~~l-~~L~~L~L~  561 (561)
                                    .++......++|+.|++++|+ +..+|. .+..+ ++|+.|+|+
T Consensus       170 --------------~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~  213 (239)
T 2xwt_C          170 --------------SVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVS  213 (239)
T ss_dssp             --------------EECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECT
T ss_pred             --------------ccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECC
Confidence                          233333334789999999995 887764 56888 999999985

>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=99.55  E-value=1.5e-14  Score=149.57  Aligned_cols=251  Identities=19%  Similarity=0.186  Sum_probs=114.4

Q ss_pred             CceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcch
Q 043450          242 EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNS  321 (561)
Q Consensus       242 ~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (561)
                      ..++.+.+..+....+| .+..+++|++|.+.++....        ++....         ....+.+..     ..+..
T Consensus       131 ~~L~~L~L~~n~l~~lp-~~~~l~~L~~L~l~~N~l~~--------lp~~~~---------~L~~L~L~~-----n~l~~  187 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEKLP-ELQNSSFLKIIDVDNNSLKK--------LPDLPP---------SLEFIAAGN-----NQLEE  187 (454)
T ss_dssp             TTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSC--------CCCCCT---------TCCEEECCS-----SCCSS
T ss_pred             CCCCEEECcCCCCCCCc-ccCCCCCCCEEECCCCcCcc--------cCCCcc---------cccEEECcC-----CcCCc
Confidence            57788888888877777 68888888888888773210        000000         000000000     00000


Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcC
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLR  401 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~  401 (561)
                        ++ .+.++++|++|++++         |.+..+|...   .+|++|++++|.++.+|. ++.+++|++|++++|. +.
T Consensus       188 --l~-~~~~l~~L~~L~l~~---------N~l~~l~~~~---~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~l~~N~-l~  250 (454)
T 1jl5_A          188 --LP-ELQNLPFLTAIYADN---------NSLKKLPDLP---LSLESIVAGNNILEELPE-LQNLPFLTTIYADNNL-LK  250 (454)
T ss_dssp             --CC-CCTTCTTCCEEECCS---------SCCSSCCCCC---TTCCEEECCSSCCSSCCC-CTTCTTCCEEECCSSC-CS
T ss_pred             --Cc-cccCCCCCCEEECCC---------CcCCcCCCCc---CcccEEECcCCcCCcccc-cCCCCCCCEEECCCCc-CC
Confidence              11 144555566666655         4444444322   355666666666555553 5566666666666655 44


Q ss_pred             ccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcc
Q 043450          402 ELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVD  481 (561)
Q Consensus       402 ~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~  481 (561)
                      .+|..   +++|+.|++++|. +..+|..   +++|+.|+  +.+|.+.+. +...      ..|+.|.+.+..- .   
T Consensus       251 ~l~~~---~~~L~~L~l~~N~-l~~l~~~---~~~L~~L~--ls~N~l~~l-~~~~------~~L~~L~l~~N~l-~---  310 (454)
T 1jl5_A          251 TLPDL---PPSLEALNVRDNY-LTDLPEL---PQSLTFLD--VSENIFSGL-SELP------PNLYYLNASSNEI-R---  310 (454)
T ss_dssp             SCCSC---CTTCCEEECCSSC-CSCCCCC---CTTCCEEE--CCSSCCSEE-SCCC------TTCCEEECCSSCC-S---
T ss_pred             ccccc---ccccCEEECCCCc-ccccCcc---cCcCCEEE--CcCCccCcc-cCcC------CcCCEEECcCCcC-C---
Confidence            45542   2556666666655 3445442   24555555  334433210 0000      2233333322110 0   


Q ss_pred             hhhhcccccc-cccccEEEEeecCCCCCcc-----c-ccCCCcchHHHhhcCCCCCCCceEEEeecCCCC---CChhhhc
Q 043450          482 EAERLQLYNK-KNLLRLGLQFGRVADGEGE-----E-GRRKNENDEQLLEALQPPVNVEELWIVYYGGNI---FPKWLTL  551 (561)
Q Consensus       482 ~~~~~~l~~l-~~L~~L~l~~~~~~~~~~~-----~-~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~---lp~~~~~  551 (561)
                           .+..+ ++|+.|++++|.+...+..     . ....|. ...+|.   .+++|+.|++++|.+..   +|.++..
T Consensus       311 -----~i~~~~~~L~~L~Ls~N~l~~lp~~~~~L~~L~L~~N~-l~~lp~---~l~~L~~L~L~~N~l~~l~~ip~~l~~  381 (454)
T 1jl5_A          311 -----SLCDLPPSLEELNVSNNKLIELPALPPRLERLIASFNH-LAEVPE---LPQNLKQLHVEYNPLREFPDIPESVED  381 (454)
T ss_dssp             -----EECCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSC-CSCCCC---CCTTCCEEECCSSCCSSCCCCCTTCCE
T ss_pred             -----cccCCcCcCCEEECCCCccccccccCCcCCEEECCCCc-cccccc---hhhhccEEECCCCCCCcCCCChHHHHh
Confidence                 01111 3455555555543321100     0 000111 122343   35788888888888654   6677777


Q ss_pred             c-------------cCCcEEEcC
Q 043450          552 L-------------TNLRDLNLD  561 (561)
Q Consensus       552 l-------------~~L~~L~L~  561 (561)
                      +             ++|+.|+|+
T Consensus       382 L~~n~~~~~i~~~~~~L~~L~ls  404 (454)
T 1jl5_A          382 LRMNSHLAEVPELPQNLKQLHVE  404 (454)
T ss_dssp             EECCC------------------
T ss_pred             hhhcccccccccccCcCCEEECC
Confidence            7             778888774

>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=99.55  E-value=1e-15  Score=159.25  Aligned_cols=283  Identities=17%  Similarity=0.151  Sum_probs=171.5

Q ss_pred             ceEEEEeeecCCC-----CCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCC
Q 043450          243 KVRHIGLNFQRGA-----SFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNP  317 (561)
Q Consensus       243 ~~~~l~l~~~~~~-----~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (561)
                      +++.+.+..+...     .++..+..+++|+.|.+.++..   .......+...+..     .......+.+.....  .
T Consensus        86 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i---~~~~~~~l~~~l~~-----~~~~L~~L~L~~n~l--~  155 (461)
T 1z7x_W           86 KIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLL---GDAGLQLLCEGLLD-----PQCRLEKLQLEYCSL--S  155 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBC---HHHHHHHHHHHHTS-----TTCCCCEEECTTSCC--B
T ss_pred             ceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcC---chHHHHHHHHHHhc-----CCCcceEEECCCCCC--C
Confidence            5778888887765     3456678889999999988732   11111111110000     000001111111100  1


Q ss_pred             CcchhHHHHHHhccccccEEeccCCCCCCCCCccccccc-Ccccc-----ccCccCEEecCCCCCcc-----ccccccCC
Q 043450          318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVE-----KLIHLKYLNLSGLRIES-----LPETLCEL  386 (561)
Q Consensus       318 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~-----~l~~L~~L~l~~~~l~~-----lp~~i~~L  386 (561)
                      ......++..+..+++|++|++++         +.+... +..+.     .+++|++|++++|.++.     +|..+..+
T Consensus       156 ~~~~~~l~~~l~~~~~L~~L~L~~---------n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~  226 (461)
T 1z7x_W          156 AASCEPLASVLRAKPDFKELTVSN---------NDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASK  226 (461)
T ss_dssp             GGGHHHHHHHHHHCTTCCEEECCS---------SBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhCCCCCEEECcC---------CCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhC
Confidence            111234566677889999999998         555432 22222     25689999999998874     57778888


Q ss_pred             CCccEEecCCCCCcCcc------CcccccCCCCCeEEcCCCCCCcc-----CcccccCCcCCcccCceeecCccCCCCcc
Q 043450          387 YNLQKLDIRRCQDLREL------PTGIGKLKNMRSLLNGDTSSLKY-----LPIGISRLTSLRTLEKFVVGGGVDGNNTC  455 (561)
Q Consensus       387 ~~L~~L~l~~~~~~~~l------p~~~~~l~~L~~L~l~~~~~~~~-----lp~~i~~l~~L~~L~~~~~~~~~~~~~~~  455 (561)
                      ++|++|++++|. +...      +..+..+++|++|++++|. ++.     +|..+.++++|++|+  +.+|.+...   
T Consensus       227 ~~L~~L~Ls~n~-l~~~~~~~l~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~--Ls~n~i~~~---  299 (461)
T 1z7x_W          227 ASLRELALGSNK-LGDVGMAELCPGLLHPSSRLRTLWIWECG-ITAKGCGDLCRVLRAKESLKELS--LAGNELGDE---  299 (461)
T ss_dssp             TTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHHHHHHHHHHHHHCTTCCEEE--CTTCCCHHH---
T ss_pred             CCccEEeccCCc-CChHHHHHHHHHHhcCCCCceEEECcCCC-CCHHHHHHHHHHHhhCCCcceEE--CCCCCCchH---
Confidence            999999999987 4332      2223357889999999987 444     677777888899887  555544211   


Q ss_pred             Cchhhhc-----cCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC-CC
Q 043450          456 RLESLKN-----LQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ-PP  529 (561)
Q Consensus       456 ~~~~l~~-----L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~-~~  529 (561)
                      ....+..     .+.|+.|.+.++.-.......++..+..+++|+.|++++|.+.+.          ....+.+.+. +.
T Consensus       300 ~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~----------~~~~l~~~l~~~~  369 (461)
T 1z7x_W          300 GARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDA----------GVRELCQGLGQPG  369 (461)
T ss_dssp             HHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHH----------HHHHHHHHHTSTT
T ss_pred             HHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccc----------cHHHHHHHHcCCC
Confidence            1122222     246777887765422222233555667788999999988764211          1222333343 26


Q ss_pred             CCCceEEEeecCCC-----CCChhhhcccCCcEEEcC
Q 043450          530 VNVEELWIVYYGGN-----IFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       530 ~~L~~L~l~~~~~~-----~lp~~~~~l~~L~~L~L~  561 (561)
                      ++|+.|++++|.+.     .+|..+..+++|+.|+|+
T Consensus       370 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~  406 (461)
T 1z7x_W          370 SVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLS  406 (461)
T ss_dssp             CCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECC
T ss_pred             CceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECC
Confidence            78888888888876     577788888888888875

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.55  E-value=1.8e-15  Score=152.18  Aligned_cols=58  Identities=19%  Similarity=0.213  Sum_probs=25.6

Q ss_pred             CccCEEecCCCCCccccc-c----ccC-CCCccEEecCCCCCcC-----ccCcccccCC-CCCeEEcCCCC
Q 043450          364 IHLKYLNLSGLRIESLPE-T----LCE-LYNLQKLDIRRCQDLR-----ELPTGIGKLK-NMRSLLNGDTS  422 (561)
Q Consensus       364 ~~L~~L~l~~~~l~~lp~-~----i~~-L~~L~~L~l~~~~~~~-----~lp~~~~~l~-~L~~L~l~~~~  422 (561)
                      ++|++|++++|.++..+. .    +.. .++|++|++++|. ++     .++..+..++ +|++|++++|.
T Consensus       109 ~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~  178 (362)
T 3goz_A          109 FTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGND-LGIKSSDELIQILAAIPANVNSLNLRGNN  178 (362)
T ss_dssp             TTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTSCTTCCEEECTTSC
T ss_pred             CCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCc-CCHHHHHHHHHHHhcCCccccEeeecCCC
Confidence            455555555555443321 1    222 1355555555554 22     2233333333 55555555554

>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=99.55  E-value=4.6e-15  Score=158.17  Aligned_cols=175  Identities=20%  Similarity=0.264  Sum_probs=137.3

Q ss_pred             hccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIG  408 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~  408 (561)
                      ..+.+|+.|++++         +.+..+| .++.+++|++|+|++|.+..+|+ +..+++|+.|+|++|. +..+| .+.
T Consensus        40 ~~L~~L~~L~l~~---------n~i~~l~-~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~-l~~l~-~l~  106 (605)
T 1m9s_A           40 NELNSIDQIIANN---------SDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDENK-IKDLS-SLK  106 (605)
T ss_dssp             HHHTTCCCCBCTT---------CCCCCCT-TGGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCSSC-CCCCT-TST
T ss_pred             hcCCCCCEEECcC---------CCCCCCh-HHccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcCCC-CCCCh-hhc
Confidence            5688899999998         6777776 48889999999999999998877 8999999999999998 77776 688


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQL  488 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l  488 (561)
                      .+++|+.|++++|. +..+| .++.+++|+.|+  +.+|.+..     +..+..|+.|+.|++++..-    ....+  +
T Consensus       107 ~l~~L~~L~Ls~N~-l~~l~-~l~~l~~L~~L~--Ls~N~l~~-----l~~l~~l~~L~~L~Ls~N~l----~~~~~--l  171 (605)
T 1m9s_A          107 DLKKLKSLSLEHNG-ISDIN-GLVHLPQLESLY--LGNNKITD-----ITVLSRLTKLDTLSLEDNQI----SDIVP--L  171 (605)
T ss_dssp             TCTTCCEEECTTSC-CCCCG-GGGGCTTCSEEE--CCSSCCCC-----CGGGGSCTTCSEEECCSSCC----CCCGG--G
T ss_pred             cCCCCCEEEecCCC-CCCCc-cccCCCccCEEE--CCCCccCC-----chhhcccCCCCEEECcCCcC----CCchh--h
Confidence            99999999999998 55554 588999999998  66666532     35677788888888876432    22222  7


Q ss_pred             ccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCCh
Q 043450          489 YNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPK  547 (561)
Q Consensus       489 ~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~  547 (561)
                      ..+++|+.|+|+.|.+..               + +.+..+++|+.|++++|.+...|.
T Consensus       172 ~~l~~L~~L~Ls~N~i~~---------------l-~~l~~l~~L~~L~L~~N~l~~~p~  214 (605)
T 1m9s_A          172 AGLTKLQNLYLSKNHISD---------------L-RALAGLKNLDVLELFSQECLNKPI  214 (605)
T ss_dssp             TTCTTCCEEECCSSCCCB---------------C-GGGTTCTTCSEEECCSEEEECCCC
T ss_pred             ccCCCCCEEECcCCCCCC---------------C-hHHccCCCCCEEEccCCcCcCCcc
Confidence            888999999999887532               1 347788999999999998766553

>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=99.55  E-value=7.5e-16  Score=156.40  Aligned_cols=216  Identities=16%  Similarity=0.126  Sum_probs=156.2

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccc-----cCccccccCccCEEecCCCCCc----cccccc-------cCCC
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIRE-----IPENVEKLIHLKYLNLSGLRIE----SLPETL-------CELY  387 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-----lp~~~~~l~~L~~L~l~~~~l~----~lp~~i-------~~L~  387 (561)
                      +...+..+++|++|++++         +.+..     ++..+..+++|++|++++|.+.    .+|..+       ..++
T Consensus        24 l~~~l~~~~~L~~L~L~~---------n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~   94 (386)
T 2ca6_A           24 VFAVLLEDDSVKEIVLSG---------NTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCP   94 (386)
T ss_dssp             TSHHHHHCSCCCEEECTT---------SEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCT
T ss_pred             HHHHHhcCCCccEEECCC---------CCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCC
Confidence            345577889999999999         55543     4455778999999999997543    445554       7899


Q ss_pred             CccEEecCCCCCcC----ccCcccccCCCCCeEEcCCCCCCcc----CcccccCC---------cCCcccCceeecCccC
Q 043450          388 NLQKLDIRRCQDLR----ELPTGIGKLKNMRSLLNGDTSSLKY----LPIGISRL---------TSLRTLEKFVVGGGVD  450 (561)
Q Consensus       388 ~L~~L~l~~~~~~~----~lp~~~~~l~~L~~L~l~~~~~~~~----lp~~i~~l---------~~L~~L~~~~~~~~~~  450 (561)
                      +|++|++++|....    .+|..+..+++|++|++++|.....    ++..+..+         ++|++|+  +.+|.+.
T Consensus        95 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~--L~~n~l~  172 (386)
T 2ca6_A           95 KLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSII--CGRNRLE  172 (386)
T ss_dssp             TCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEE--CCSSCCT
T ss_pred             cccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEE--CCCCCCC
Confidence            99999999998443    3788899999999999999985322    33334444         8999998  6666553


Q ss_pred             -CCCccCchhhhccCCCCceEEcCCCCCCC--cchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC
Q 043450          451 -GNNTCRLESLKNLQLLRECRVEGLSNVSH--VDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ  527 (561)
Q Consensus       451 -~~~~~~~~~l~~L~~L~~l~i~~~~~~~~--~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~  527 (561)
                       ...+.....+..++.|+.|.+.++.- ..  .....+..+..+++|+.|+|++|.+..          .....++..+.
T Consensus       173 ~~~~~~l~~~l~~~~~L~~L~L~~n~l-~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~----------~g~~~l~~~l~  241 (386)
T 2ca6_A          173 NGSMKEWAKTFQSHRLLHTVKMVQNGI-RPEGIEHLLLEGLAYCQELKVLDLQDNTFTH----------LGSSALAIALK  241 (386)
T ss_dssp             GGGHHHHHHHHHHCTTCCEEECCSSCC-CHHHHHHHHHTTGGGCTTCCEEECCSSCCHH----------HHHHHHHHHGG
T ss_pred             cHHHHHHHHHHHhCCCcCEEECcCCCC-CHhHHHHHHHHHhhcCCCccEEECcCCCCCc----------HHHHHHHHHHc
Confidence             11121123566788888888877532 21  111334478899999999999887421          01366788899


Q ss_pred             CCCCCceEEEeecCCCC-----CChhhhc--ccCCcEEEcC
Q 043450          528 PPVNVEELWIVYYGGNI-----FPKWLTL--LTNLRDLNLD  561 (561)
Q Consensus       528 ~~~~L~~L~l~~~~~~~-----lp~~~~~--l~~L~~L~L~  561 (561)
                      .+++|+.|++++|.+..     +|.++..  +++|+.|+|+
T Consensus       242 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~  282 (386)
T 2ca6_A          242 SWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQ  282 (386)
T ss_dssp             GCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECC
T ss_pred             cCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECc
Confidence            99999999999999764     4667744  9999999985

>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=99.54  E-value=7.2e-15  Score=156.65  Aligned_cols=149  Identities=24%  Similarity=0.295  Sum_probs=85.6

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|+.|+|++         |.+..+|+ ++.+++|++|+|++|.+..+| .+..+++|+.|+|++|. +..+| .+
T Consensus        61 l~~l~~L~~L~Ls~---------N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N~-l~~l~-~l  127 (605)
T 1m9s_A           61 IQYLPNVTKLFLNG---------NKLTDIKP-LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSLEHNG-ISDIN-GL  127 (605)
T ss_dssp             GGGCTTCCEEECTT---------SCCCCCGG-GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEEECTTSC-CCCCG-GG
T ss_pred             HccCCCCCEEEeeC---------CCCCCChh-hccCCCCCEEECcCCCCCCCh-hhccCCCCCEEEecCCC-CCCCc-cc
Confidence            55666666666666         55555554 666666666666666666554 46666666666666666 44443 36


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++|+.|++++|. +..+ ..++.+++|+.|+  +.+|.+.+..+     +..++.|+.|.+++..- ..    . ..
T Consensus       128 ~~l~~L~~L~Ls~N~-l~~l-~~l~~l~~L~~L~--Ls~N~l~~~~~-----l~~l~~L~~L~Ls~N~i-~~----l-~~  192 (605)
T 1m9s_A          128 VHLPQLESLYLGNNK-ITDI-TVLSRLTKLDTLS--LEDNQISDIVP-----LAGLTKLQNLYLSKNHI-SD----L-RA  192 (605)
T ss_dssp             GGCTTCSEEECCSSC-CCCC-GGGGSCTTCSEEE--CCSSCCCCCGG-----GTTCTTCCEEECCSSCC-CB----C-GG
T ss_pred             cCCCccCEEECCCCc-cCCc-hhhcccCCCCEEE--CcCCcCCCchh-----hccCCCCCEEECcCCCC-CC----C-hH
Confidence            666666666666666 3444 3566666666665  44554422211     44555555555554321 11    1 23


Q ss_pred             cccccccccEEEEeecC
Q 043450          488 LYNKKNLLRLGLQFGRV  504 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~  504 (561)
                      +..+++|+.|+|+.|.+
T Consensus       193 l~~l~~L~~L~L~~N~l  209 (605)
T 1m9s_A          193 LAGLKNLDVLELFSQEC  209 (605)
T ss_dssp             GTTCTTCSEEECCSEEE
T ss_pred             HccCCCCCEEEccCCcC
Confidence            55666666666666654

>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=99.54  E-value=1.8e-14  Score=136.82  Aligned_cols=173  Identities=16%  Similarity=0.090  Sum_probs=134.3

Q ss_pred             CccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCce
Q 043450          364 IHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKF  443 (561)
Q Consensus       364 ~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~  443 (561)
                      ...++++++++.++.+|..+.  ++|+.|++++|......|..+.++++|++|++++|......|..+..+++|++|+  
T Consensus        14 ~~~~~l~~~~~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~--   89 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLG--   89 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE--
T ss_pred             CCCeEEecCCCCccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEE--
Confidence            568899999999999998876  7999999999994444455799999999999999995555555689999999998  


Q ss_pred             eecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHh
Q 043450          444 VVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLL  523 (561)
Q Consensus       444 ~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~  523 (561)
                      +.+|.+....+..   +..+++|+.|.+.+.    ......+..+.++++|+.|+|++|.+...              .+
T Consensus        90 L~~n~l~~~~~~~---~~~l~~L~~L~L~~N----~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~--------------~~  148 (251)
T 3m19_A           90 LANNQLASLPLGV---FDHLTQLDKLYLGGN----QLKSLPSGVFDRLTKLKELRLNTNQLQSI--------------PA  148 (251)
T ss_dssp             CTTSCCCCCCTTT---TTTCTTCCEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCC--------------CT
T ss_pred             CCCCcccccChhH---hcccCCCCEEEcCCC----cCCCcChhHhccCCcccEEECcCCcCCcc--------------CH
Confidence            6777765444333   345566777777653    22233344578899999999999885432              23


Q ss_pred             hcCCCCCCCceEEEeecCCCCCCh-hhhcccCCcEEEcC
Q 043450          524 EALQPPVNVEELWIVYYGGNIFPK-WLTLLTNLRDLNLD  561 (561)
Q Consensus       524 ~~l~~~~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~L~  561 (561)
                      ..+..+++|+.|++++|.+..+|. .+..+++|+.|+|+
T Consensus       149 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  187 (251)
T 3m19_A          149 GAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLF  187 (251)
T ss_dssp             TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             HHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEee
Confidence            357889999999999999988776 56899999999985

>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=99.53  E-value=2.3e-14  Score=153.02  Aligned_cols=224  Identities=22%  Similarity=0.179  Sum_probs=143.9

Q ss_pred             ceEEEeecCcceeeeeecCCceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhc
Q 043450          223 ECLWVEINGTKELVINFFGEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLV  302 (561)
Q Consensus       223 e~~~~~~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  302 (561)
                      ..+....+....++.  ...+++.+.+..+.++.+|.   .+++|++|.+.++...                        
T Consensus        64 ~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~l~------------------------  114 (622)
T 3g06_A           64 TTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPV---LPPGLLELSIFSNPLT------------------------  114 (622)
T ss_dssp             SEEEECSCCCSCCCC--CCTTCCEEEECSCCCSCCCC---CCTTCCEEEECSCCCC------------------------
T ss_pred             cEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECcCCcCC------------------------
Confidence            345555555444433  56789999999999988885   7899999999988220                        


Q ss_pred             cCCCCCCCCCCCCCCCcchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccccc
Q 043450          303 SSPGLGIDDESPSNPSLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPET  382 (561)
Q Consensus       303 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~  382 (561)
                                     .     ++   ..+.+|+.|++++         |.+..+|..   +++|++|++++|.++.+|..
T Consensus       115 ---------------~-----l~---~~l~~L~~L~L~~---------N~l~~lp~~---l~~L~~L~Ls~N~l~~l~~~  159 (622)
T 3g06_A          115 ---------------H-----LP---ALPSGLCKLWIFG---------NQLTSLPVL---PPGLQELSVSDNQLASLPAL  159 (622)
T ss_dssp             ---------------C-----CC---CCCTTCCEEECCS---------SCCSCCCCC---CTTCCEEECCSSCCSCCCCC
T ss_pred             ---------------C-----CC---CCCCCcCEEECCC---------CCCCcCCCC---CCCCCEEECcCCcCCCcCCc
Confidence                           0     00   1457788888888         667777764   37788888888887776653


Q ss_pred             ccCC-----------------CCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceee
Q 043450          383 LCEL-----------------YNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVV  445 (561)
Q Consensus       383 i~~L-----------------~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~  445 (561)
                      +.+|                 ++|+.|++++|. +..+|..   +++|+.|++++|. +..+|..   +++|+.|+  +.
T Consensus       160 ~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~-l~~l~~~---~~~L~~L~L~~N~-l~~l~~~---~~~L~~L~--Ls  229 (622)
T 3g06_A          160 PSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQ-LASLPTL---PSELYKLWAYNNR-LTSLPAL---PSGLKELI--VS  229 (622)
T ss_dssp             CTTCCEEECCSSCCSCCCCCCTTCCEEECCSSC-CSCCCCC---CTTCCEEECCSSC-CSSCCCC---CTTCCEEE--CC
T ss_pred             cCCCCEEECCCCCCCCCcccCCCCcEEECCCCC-CCCCCCc---cchhhEEECcCCc-ccccCCC---CCCCCEEE--cc
Confidence            3221                 555556666555 4455532   3456666666555 4455532   36677776  55


Q ss_pred             cCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhc
Q 043450          446 GGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEA  525 (561)
Q Consensus       446 ~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~  525 (561)
                      +|.+.+ .+      ..+++|+.|++++.. +..    ++.   .+++|+.|+|++|.+.               .+|..
T Consensus       230 ~N~L~~-lp------~~l~~L~~L~Ls~N~-L~~----lp~---~~~~L~~L~Ls~N~L~---------------~lp~~  279 (622)
T 3g06_A          230 GNRLTS-LP------VLPSELKELMVSGNR-LTS----LPM---LPSGLLSLSVYRNQLT---------------RLPES  279 (622)
T ss_dssp             SSCCSC-CC------CCCTTCCEEECCSSC-CSC----CCC---CCTTCCEEECCSSCCC---------------SCCGG
T ss_pred             CCccCc-CC------CCCCcCcEEECCCCC-CCc----CCc---ccccCcEEeCCCCCCC---------------cCCHH
Confidence            555432 11      334567777776532 121    222   5678999999988743               45777


Q ss_pred             CCCCCCCceEEEeecCCCC-CChhhh
Q 043450          526 LQPPVNVEELWIVYYGGNI-FPKWLT  550 (561)
Q Consensus       526 l~~~~~L~~L~l~~~~~~~-lp~~~~  550 (561)
                      +..+++|+.|++++|.++. .|..+.
T Consensus       280 l~~l~~L~~L~L~~N~l~~~~~~~l~  305 (622)
T 3g06_A          280 LIHLSSETTVNLEGNPLSERTLQALR  305 (622)
T ss_dssp             GGGSCTTCEEECCSCCCCHHHHHHHH
T ss_pred             HhhccccCEEEecCCCCCCcCHHHHH
Confidence            8899999999999999763 344444

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.51  E-value=5.1e-15  Score=145.46  Aligned_cols=181  Identities=13%  Similarity=-0.007  Sum_probs=133.8

Q ss_pred             hccccccEEeccCCCCCCCCCccccccc-C----ccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIREI-P----ENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p----~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      ..+.+|++|++++         |.+... |    ..+..+++|++|++++|.+..+| ..++.+++|++|++++|+....
T Consensus       114 ~~~~~L~~L~Ls~---------n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~  184 (310)
T 4glp_A          114 ATGLALSSLRLRN---------VSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGE  184 (310)
T ss_dssp             CCCBCCSSCEEES---------CCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHH
T ss_pred             ccCCCCCEEEeec---------ccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccc
Confidence            6788999999999         555542 2    23456899999999999998665 6788999999999999984331


Q ss_pred             --cC--cccccCCCCCeEEcCCCCCCccCccc----ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCC
Q 043450          403 --LP--TGIGKLKNMRSLLNGDTSSLKYLPIG----ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGL  474 (561)
Q Consensus       403 --lp--~~~~~l~~L~~L~l~~~~~~~~lp~~----i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~  474 (561)
                        +|  ..++.+++|++|++++|. +..+|..    ++.+++|++|+  +.+|.+.+..|..+..+..++.|+.|++++.
T Consensus       185 ~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~~l~~L~~L~--Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N  261 (310)
T 4glp_A          185 RGLMAALCPHKFPAIQNLALRNTG-METPTGVCAALAAAGVQPHSLD--LSHNSLRATVNPSAPRCMWSSALNSLNLSFA  261 (310)
T ss_dssp             HHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHHHHHHHHHTCCCSSEE--CTTSCCCCCCCSCCSSCCCCTTCCCEECCSS
T ss_pred             hhhhHHHhhhcCCCCCEEECCCCC-CCchHHHHHHHHhcCCCCCEEE--CCCCCCCccchhhHHhccCcCcCCEEECCCC
Confidence              33  234789999999999998 5655543    47889999998  7788776665666666666678888888664


Q ss_pred             CCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC
Q 043450          475 SNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI  544 (561)
Q Consensus       475 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~  544 (561)
                      .- .    ..+..+.  ++|+.|+|++|.+...               + .+..+++|+.|++++|+++.
T Consensus       262 ~l-~----~lp~~~~--~~L~~L~Ls~N~l~~~---------------~-~~~~l~~L~~L~L~~N~l~~  308 (310)
T 4glp_A          262 GL-E----QVPKGLP--AKLRVLDLSSNRLNRA---------------P-QPDELPEVDNLTLDGNPFLV  308 (310)
T ss_dssp             CC-C----SCCSCCC--SCCSCEECCSCCCCSC---------------C-CTTSCCCCSCEECSSTTTSC
T ss_pred             CC-C----chhhhhc--CCCCEEECCCCcCCCC---------------c-hhhhCCCccEEECcCCCCCC
Confidence            32 1    2233333  7999999999986432               2 24677999999999998753

>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=99.51  E-value=4.6e-14  Score=128.72  Aligned_cols=107  Identities=13%  Similarity=0.223  Sum_probs=83.3

Q ss_pred             hccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIG  408 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~  408 (561)
                      ..+.+|+.|++++         +.+..+| .+..+++|++|++++|.++.++ .+..+++|++|++++|......|..++
T Consensus        41 ~~l~~L~~L~l~~---------n~i~~l~-~l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~  109 (197)
T 4ezg_A           41 AQMNSLTYITLAN---------INVTDLT-GIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLS  109 (197)
T ss_dssp             HHHHTCCEEEEES---------SCCSCCT-TGGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCT
T ss_pred             hhcCCccEEeccC---------CCccChH-HHhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhc
Confidence            4577788888888         6777777 5788888888888888776654 678888888888888884444677788


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGG  448 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~  448 (561)
                      .+++|++|++++|......|..++++++|++|+  +.+|.
T Consensus       110 ~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~--L~~n~  147 (197)
T 4ezg_A          110 GLTSLTLLDISHSAHDDSILTKINTLPKVNSID--LSYNG  147 (197)
T ss_dssp             TCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEE--CCSCT
T ss_pred             CCCCCCEEEecCCccCcHhHHHHhhCCCCCEEE--ccCCC
Confidence            888888888888886556677788888888887  44443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.49  E-value=2.2e-14  Score=137.10  Aligned_cols=148  Identities=19%  Similarity=0.218  Sum_probs=82.1

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+.+|++|++++         +.+..+| .++.+++|++|++++|.++.+|+ +.++++|++|++++|. +..+|...
T Consensus        37 ~~~l~~L~~L~l~~---------n~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~N~-l~~l~~~~  104 (263)
T 1xeu_A           37 QKELSGVQNFNGDN---------SNIQSLA-GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVNRNR-LKNLNGIP  104 (263)
T ss_dssp             HHHHTTCSEEECTT---------SCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCSSC-CSCCTTCC
T ss_pred             hhhcCcCcEEECcC---------CCcccch-HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECCCCc-cCCcCccc
Confidence            34566666666666         4555555 45666666666666666666655 6666666666666665 55555422


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      .  ++|++|++++|. +..+| .++++++|+.|+  +.+|.+.+     +..+..++.|+.|++.+..- .   ..  ..
T Consensus       105 ~--~~L~~L~L~~N~-l~~~~-~l~~l~~L~~L~--Ls~N~i~~-----~~~l~~l~~L~~L~L~~N~i-~---~~--~~  167 (263)
T 1xeu_A          105 S--ACLSRLFLDNNE-LRDTD-SLIHLKNLEILS--IRNNKLKS-----IVMLGFLSKLEVLDLHGNEI-T---NT--GG  167 (263)
T ss_dssp             C--SSCCEEECCSSC-CSBSG-GGTTCTTCCEEE--CTTSCCCB-----CGGGGGCTTCCEEECTTSCC-C---BC--TT
T ss_pred             c--CcccEEEccCCc-cCCCh-hhcCcccccEEE--CCCCcCCC-----ChHHccCCCCCEEECCCCcC-c---ch--HH
Confidence            2  666666666665 44443 466666666665  44444321     12344555555555544221 1   11  33


Q ss_pred             cccccccccEEEEeecC
Q 043450          488 LYNKKNLLRLGLQFGRV  504 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~  504 (561)
                      +..+++|+.|++++|.+
T Consensus       168 l~~l~~L~~L~l~~N~~  184 (263)
T 1xeu_A          168 LTRLKKVNWIDLTGQKC  184 (263)
T ss_dssp             STTCCCCCEEEEEEEEE
T ss_pred             hccCCCCCEEeCCCCcc
Confidence            55556666666665553

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.49  E-value=1.6e-14  Score=157.75  Aligned_cols=123  Identities=25%  Similarity=0.285  Sum_probs=102.0

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCc
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      .++..+..+..|++|+|++         |.+..+|..+..+++|++|+|++|.|+.+|..|++|++|++|+|++|. +..
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~---------n~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-l~~  284 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSN---------LQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTS  284 (727)
T ss_dssp             -------CCCCCCEEECTT---------SCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSC-CSS
T ss_pred             cChhhhccCCCCcEEECCC---------CCCCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCc-CCc
Confidence            4566788899999999999         778889988889999999999999999999999999999999999998 778


Q ss_pred             cCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCch
Q 043450          403 LPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLE  458 (561)
Q Consensus       403 lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~  458 (561)
                      +|..++++++|++|+|++|. ++.+|.+|+++++|++|+  +.+|.+.+..+..+.
T Consensus       285 lp~~~~~l~~L~~L~L~~N~-l~~lp~~~~~l~~L~~L~--L~~N~l~~~~p~~~~  337 (727)
T 4b8c_D          285 LPAELGSCFQLKYFYFFDNM-VTTLPWEFGNLCNLQFLG--VEGNPLEKQFLKILT  337 (727)
T ss_dssp             CCSSGGGGTTCSEEECCSSC-CCCCCSSTTSCTTCCCEE--CTTSCCCSHHHHHHH
T ss_pred             cChhhcCCCCCCEEECCCCC-CCccChhhhcCCCccEEe--CCCCccCCCChHHHh
Confidence            99999999999999999997 678999999999999998  777777555444443

>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=99.47  E-value=1.1e-13  Score=149.86  Aligned_cols=147  Identities=19%  Similarity=0.269  Sum_probs=105.5

Q ss_pred             cCCceEEEEeeecCCCCCc-ccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++.+.+..+.++.++ .+|.++++|++|.+.++..                                         
T Consensus        50 lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i-----------------------------------------   88 (635)
T 4g8a_A           50 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEI-----------------------------------------   88 (635)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCC-----------------------------------------
T ss_pred             CCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcC-----------------------------------------
Confidence            3567888888888877776 4678888888888887621                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCccccc-cccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~  396 (561)
                        ..+.+..|.++++|++|+|++         |.++.+|. .|..+++|++|++++|.++.+|+ .|++|++|++|++++
T Consensus        89 --~~i~~~~f~~L~~L~~L~Ls~---------N~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~  157 (635)
T 4g8a_A           89 --QTIEDGAYQSLSHLSTLILTG---------NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH  157 (635)
T ss_dssp             --CEECTTTTTTCTTCCEEECTT---------CCCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCS
T ss_pred             --CCcChhHhcCCCCCCEEEccC---------CcCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeecccc
Confidence              122334467788888888888         67777764 46778888888888888887765 478888888888888


Q ss_pred             CCCcC--ccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcc
Q 043450          397 CQDLR--ELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRT  439 (561)
Q Consensus       397 ~~~~~--~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~  439 (561)
                      |. +.  .+|..++.+++|++|++++|...+..|..++.+.+++.
T Consensus       158 N~-l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~l~~  201 (635)
T 4g8a_A          158 NL-IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPL  201 (635)
T ss_dssp             SC-CCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTT
T ss_pred             Cc-cccCCCchhhccchhhhhhcccCccccccccccccchhhhhh
Confidence            87 43  35677788888888888888744444555655555544

>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=99.46  E-value=1.8e-13  Score=124.82  Aligned_cols=148  Identities=16%  Similarity=0.170  Sum_probs=96.8

Q ss_pred             CceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcch
Q 043450          242 EKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNS  321 (561)
Q Consensus       242 ~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (561)
                      ..++.+.+..+.+..++ .+..+++|++|.+.++..                                            
T Consensus        44 ~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n~~--------------------------------------------   78 (197)
T 4ezg_A           44 NSLTYITLANINVTDLT-GIEYAHNIKDLTINNIHA--------------------------------------------   78 (197)
T ss_dssp             HTCCEEEEESSCCSCCT-TGGGCTTCSEEEEESCCC--------------------------------------------
T ss_pred             CCccEEeccCCCccChH-HHhcCCCCCEEEccCCCC--------------------------------------------
Confidence            45667777777766666 567777777777776611                                            


Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCcccccc-cCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCC
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLIRE-IPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQD  399 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~  399 (561)
                      ..+ ..+..+++|++|++++         +.+.. .|..++.+++|++|++++|.++ ..|..++.+++|++|++++|..
T Consensus        79 ~~~-~~l~~l~~L~~L~l~~---------n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~  148 (197)
T 4ezg_A           79 TNY-NPISGLSNLERLRIMG---------KDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGA  148 (197)
T ss_dssp             SCC-GGGTTCTTCCEEEEEC---------TTCBGGGSCCCTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTB
T ss_pred             Ccc-hhhhcCCCCCEEEeEC---------CccCcccChhhcCCCCCCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCC
Confidence            000 1255677777777777         45554 4666777777777777777776 3566677777777777777765


Q ss_pred             cCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCcc
Q 043450          400 LRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       400 ~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      ++.+| .+..+++|++|++++|. +..+| .+..+++|++|+  +.+|.+
T Consensus       149 i~~~~-~l~~l~~L~~L~l~~n~-i~~~~-~l~~l~~L~~L~--l~~N~i  193 (197)
T 4ezg_A          149 ITDIM-PLKTLPELKSLNIQFDG-VHDYR-GIEDFPKLNQLY--AFSQTI  193 (197)
T ss_dssp             CCCCG-GGGGCSSCCEEECTTBC-CCCCT-TGGGCSSCCEEE--ECBC--
T ss_pred             ccccH-hhcCCCCCCEEECCCCC-CcChH-HhccCCCCCEEE--eeCccc
Confidence            66666 47777777777777776 45555 566777777776  444443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.45  E-value=1.2e-13  Score=127.05  Aligned_cols=169  Identities=18%  Similarity=0.181  Sum_probs=86.2

Q ss_pred             ccccccCccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCCCccCc
Q 043450          351 NLIREIPENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLP  428 (561)
Q Consensus       351 ~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp  428 (561)
                      +.+..+|..+  .++|++|++++|.++.+|.. ++.+++|++|++++|. +..+|. .+..+++|++|++++|. +..+|
T Consensus        17 ~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~   92 (208)
T 2o6s_A           17 QGRTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNK-LQSLPNGVFNKLTSLTYLNLSTNQ-LQSLP   92 (208)
T ss_dssp             SCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC-CCCCC
T ss_pred             CCccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCc-cCccChhhcCCCCCcCEEECCCCc-CCccC
Confidence            4455555433  23566666666666555433 4556666666666655 444443 24556666666666665 33333


Q ss_pred             cc-ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCC
Q 043450          429 IG-ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADG  507 (561)
Q Consensus       429 ~~-i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  507 (561)
                      .. ++.+++|++|+  +.+|.+.+..+..   +..+++|+.|++.+..    ........+..+++|+.|+++.|.+   
T Consensus        93 ~~~~~~l~~L~~L~--L~~N~l~~~~~~~---~~~l~~L~~L~l~~N~----l~~~~~~~~~~l~~L~~L~l~~N~~---  160 (208)
T 2o6s_A           93 NGVFDKLTQLKELA--LNTNQLQSLPDGV---FDKLTQLKDLRLYQNQ----LKSVPDGVFDRLTSLQYIWLHDNPW---  160 (208)
T ss_dssp             TTTTTTCTTCCEEE--CCSSCCCCCCTTT---TTTCTTCCEEECCSSC----CSCCCTTTTTTCTTCCEEECCSCCB---
T ss_pred             HhHhcCccCCCEEE--cCCCcCcccCHhH---hccCCcCCEEECCCCc----cceeCHHHhccCCCccEEEecCCCe---
Confidence            32 45566666665  4444442222211   2333444444444321    1122223355667777777776642   


Q ss_pred             CcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhccc
Q 043450          508 EGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLT  553 (561)
Q Consensus       508 ~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~  553 (561)
                                        .+.+++|+.|+++.|.+. .+|.+++.++
T Consensus       161 ------------------~~~~~~l~~L~~~~n~~~g~ip~~~~~l~  189 (208)
T 2o6s_A          161 ------------------DCTCPGIRYLSEWINKHSGVVRNSAGSVA  189 (208)
T ss_dssp             ------------------CCCTTTTHHHHHHHHHCTTTBBCTTSSBC
T ss_pred             ------------------ecCCCCHHHHHHHHHhCCceeeccCcccc
Confidence                              234556666666666644 5666665443

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.44  E-value=2.7e-14  Score=143.47  Aligned_cols=214  Identities=12%  Similarity=0.124  Sum_probs=102.8

Q ss_pred             HHHhccc-cccEEeccCCCCCCCCCccccccc-Ccccccc-----CccCEEecCCCCCcccc-cc----ccCC-CCccEE
Q 043450          326 ELFSKLA-CLRALVISQPSPIFRPDLNLIREI-PENVEKL-----IHLKYLNLSGLRIESLP-ET----LCEL-YNLQKL  392 (561)
Q Consensus       326 ~~~~~l~-~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l-----~~L~~L~l~~~~l~~lp-~~----i~~L-~~L~~L  392 (561)
                      ..+..++ +|++|++++         |.++.. +..+..+     ++|++|++++|.++..+ ..    +..+ ++|++|
T Consensus        44 ~~l~~~~~~L~~L~Ls~---------N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L  114 (362)
T 3goz_A           44 QAFANTPASVTSLNLSG---------NSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVL  114 (362)
T ss_dssp             HHHHTCCTTCCEEECCS---------SCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEE
T ss_pred             HHHHhCCCceeEEECcC---------CCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEE
Confidence            3344555 566666665         444433 3333433     56666666666655332 22    3333 566666


Q ss_pred             ecCCCCCcCccCc-cc----cc-CCCCCeEEcCCCCCCc----cCcccccCCc-CCcccCceeecCccCCCCccCch-hh
Q 043450          393 DIRRCQDLRELPT-GI----GK-LKNMRSLLNGDTSSLK----YLPIGISRLT-SLRTLEKFVVGGGVDGNNTCRLE-SL  460 (561)
Q Consensus       393 ~l~~~~~~~~lp~-~~----~~-l~~L~~L~l~~~~~~~----~lp~~i~~l~-~L~~L~~~~~~~~~~~~~~~~~~-~l  460 (561)
                      ++++|. +...+. .+    .. .++|++|++++|....    .++..+..++ +|++|+  +.+|.+....+..+. .+
T Consensus       115 ~Ls~N~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~--Ls~n~l~~~~~~~l~~~l  191 (362)
T 3goz_A          115 DLGWND-FSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLN--LRGNNLASKNCAELAKFL  191 (362)
T ss_dssp             ECCSSC-GGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEE--CTTSCGGGSCHHHHHHHH
T ss_pred             ECcCCc-CCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEee--ecCCCCchhhHHHHHHHH
Confidence            666665 333322 22    22 2466666666665321    2333334443 666665  444444322222222 22


Q ss_pred             hcc-CCCCceEEcCCCCCCCcchhhhccccc-ccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEe
Q 043450          461 KNL-QLLRECRVEGLSNVSHVDEAERLQLYN-KKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIV  538 (561)
Q Consensus       461 ~~L-~~L~~l~i~~~~~~~~~~~~~~~~l~~-l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~  538 (561)
                      ... +.|+.|++++..-.......++..+.. .++|+.|+|++|.+.+.          ....+...+..+++|+.|+++
T Consensus       192 ~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~----------~~~~l~~~~~~l~~L~~L~L~  261 (362)
T 3goz_A          192 ASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGP----------SLENLKLLKDSLKHLQTVYLD  261 (362)
T ss_dssp             HTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCC----------CHHHHHHTTTTTTTCSEEEEE
T ss_pred             HhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcH----------HHHHHHHHHhcCCCccEEEec
Confidence            333 356666665433111111123333443 24677777776665432          133444555666777777777


Q ss_pred             ecCCCCCC--------hhhhcccCCcEEEcC
Q 043450          539 YYGGNIFP--------KWLTLLTNLRDLNLD  561 (561)
Q Consensus       539 ~~~~~~lp--------~~~~~l~~L~~L~L~  561 (561)
                      +|.+..++        ..+.++++|+.|+|+
T Consensus       262 ~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~  292 (362)
T 3goz_A          262 YDIVKNMSKEQCKALGAAFPNIQKIILVDKN  292 (362)
T ss_dssp             HHHHTTCCHHHHHHHHTTSTTCCEEEEECTT
T ss_pred             cCCccccCHHHHHHHHHHhccCCceEEEecC
Confidence            77633332        223455666666653

>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=99.44  E-value=2.3e-15  Score=159.49  Aligned_cols=187  Identities=14%  Similarity=0.128  Sum_probs=111.4

Q ss_pred             HHHHHHhccccccEEeccCCCCCC-----CCCcccccccCccccccCccCEEe-cCCCCCccccc------cccC--CCC
Q 043450          323 ILRELFSKLACLRALVISQPSPIF-----RPDLNLIREIPENVEKLIHLKYLN-LSGLRIESLPE------TLCE--LYN  388 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~-----~~~~~~~~~lp~~~~~l~~L~~L~-l~~~~l~~lp~------~i~~--L~~  388 (561)
                      .+|..++.+++|+.|+++++..+.     ....+..+..|..++.+++|+.|+ ++.+.+..++.      .+..  ...
T Consensus       363 ~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~~L~~l~l~~n~i~~l~~~~  442 (567)
T 1dce_A          363 VLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYAD  442 (567)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccchhhhhhhhcccccccCccC
Confidence            455556666667766665421000     000012333455566666666666 44443332221      1111  124


Q ss_pred             ccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCc
Q 043450          389 LQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRE  468 (561)
Q Consensus       389 L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~  468 (561)
                      |+.|++++|. +..+|. ++.+++|+.|++++|. +..+|..++++++|++|+  +.+|.+.+                 
T Consensus       443 L~~L~Ls~n~-l~~lp~-~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~--Ls~N~l~~-----------------  500 (567)
T 1dce_A          443 VRVLHLAHKD-LTVLCH-LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQ--ASDNALEN-----------------  500 (567)
T ss_dssp             CSEEECTTSC-CSSCCC-GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEE--CCSSCCCC-----------------
T ss_pred             ceEEEecCCC-CCCCcC-ccccccCcEeecCccc-ccccchhhhcCCCCCEEE--CCCCCCCC-----------------
Confidence            6777777776 666765 7777777777777776 456777777777777776  44443311                 


Q ss_pred             eEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChh
Q 043450          469 CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKW  548 (561)
Q Consensus       469 l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~  548 (561)
                                     ++ .+.++++|+.|+|++|.+....             .|..+..+++|+.|++++|.++.+|+.
T Consensus       501 ---------------lp-~l~~l~~L~~L~Ls~N~l~~~~-------------~p~~l~~l~~L~~L~L~~N~l~~~~~~  551 (567)
T 1dce_A          501 ---------------VD-GVANLPRLQELLLCNNRLQQSA-------------AIQPLVSCPRLVLLNLQGNSLCQEEGI  551 (567)
T ss_dssp             ---------------CG-GGTTCSSCCEEECCSSCCCSSS-------------TTGGGGGCTTCCEEECTTSGGGGSSSC
T ss_pred             ---------------Cc-ccCCCCCCcEEECCCCCCCCCC-------------CcHHHhcCCCCCEEEecCCcCCCCccH
Confidence                           11 3556677888888877643210             166788889999999999998777654


Q ss_pred             h----hcccCCcEEEc
Q 043450          549 L----TLLTNLRDLNL  560 (561)
Q Consensus       549 ~----~~l~~L~~L~L  560 (561)
                      +    ..+++|+.|++
T Consensus       552 ~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          552 QERLAEMLPSVSSILT  567 (567)
T ss_dssp             TTHHHHHCTTCSEEEC
T ss_pred             HHHHHHHCcccCccCC
Confidence            4    45899999985

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.43  E-value=1e-13  Score=146.22  Aligned_cols=134  Identities=24%  Similarity=0.290  Sum_probs=100.5

Q ss_pred             ceEEEEeeecCCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchh
Q 043450          243 KVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSS  322 (561)
Q Consensus       243 ~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (561)
                      +++.+.+..+..+.+|..+  +++|++|.+.++..                                           . 
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l--~~~L~~L~Ls~N~l-------------------------------------------~-   93 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL--PPQITVLEITQNAL-------------------------------------------I-   93 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC--CTTCSEEECCSSCC-------------------------------------------S-
T ss_pred             CccEEEeCCCCCCccCHhH--cCCCCEEECcCCCC-------------------------------------------c-
Confidence            5677788877777777544  37888888888722                                           0 


Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCc
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      .+|   ..+.+|++|++++         |.++.+|. ++.  +|++|++++|.++.+|.   .+++|++|++++|. ++.
T Consensus        94 ~ip---~~l~~L~~L~Ls~---------N~l~~ip~-l~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~-l~~  154 (571)
T 3cvr_A           94 SLP---ELPASLEYLDACD---------NRLSTLPE-LPA--SLKHLDVDNNQLTMLPE---LPALLEYINADNNQ-LTM  154 (571)
T ss_dssp             CCC---CCCTTCCEEECCS---------SCCSCCCC-CCT--TCCEEECCSSCCSCCCC---CCTTCCEEECCSSC-CSC
T ss_pred             ccc---cccCCCCEEEccC---------CCCCCcch-hhc--CCCEEECCCCcCCCCCC---cCccccEEeCCCCc-cCc
Confidence            111   2367888999988         67777877 655  88999999998888887   67889999999888 677


Q ss_pred             cCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccC
Q 043450          403 LPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVD  450 (561)
Q Consensus       403 lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~  450 (561)
                      +|.   .+++|+.|++++|. +..+|. ++  ++|+.|+  +.+|.+.
T Consensus       155 lp~---~l~~L~~L~Ls~N~-L~~lp~-l~--~~L~~L~--Ls~N~L~  193 (571)
T 3cvr_A          155 LPE---LPTSLEVLSVRNNQ-LTFLPE-LP--ESLEALD--VSTNLLE  193 (571)
T ss_dssp             CCC---CCTTCCEEECCSSC-CSCCCC-CC--TTCCEEE--CCSSCCS
T ss_pred             CCC---cCCCcCEEECCCCC-CCCcch-hh--CCCCEEE--CcCCCCC
Confidence            886   57788999998888 566887 65  7888887  5566553

>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=99.42  E-value=1.8e-13  Score=148.12  Aligned_cols=126  Identities=21%  Similarity=0.276  Sum_probs=73.6

Q ss_pred             cccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc-cccc
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT-GIGK  409 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~-~~~~  409 (561)
                      ++++|+|++         |.++.+|+ .|..+++|++|+|++|.|+.+|+ .|.+|++|++|+|++|+ ++.+|. .+.+
T Consensus        53 ~~~~LdLs~---------N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~-l~~l~~~~f~~  122 (635)
T 4g8a_A           53 STKNLDLSF---------NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSG  122 (635)
T ss_dssp             TCCEEECTT---------SCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCC-CCEECGGGGTT
T ss_pred             CCCEEEeeC---------CCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCc-CCCCCHHHhcC
Confidence            466777776         66666653 46667777777777777666654 46667777777777766 555554 4566


Q ss_pred             CCCCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcC
Q 043450          410 LKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEG  473 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~  473 (561)
                      +++|++|++++|. +..+|. .|+++++|++|+  +.+|.+....  ....+..++.|+.|.+.+
T Consensus       123 L~~L~~L~Ls~N~-l~~l~~~~~~~L~~L~~L~--Ls~N~l~~~~--~~~~~~~l~~L~~L~L~~  182 (635)
T 4g8a_A          123 LSSLQKLVAVETN-LASLENFPIGHLKTLKELN--VAHNLIQSFK--LPEYFSNLTNLEHLDLSS  182 (635)
T ss_dssp             CTTCCEEECTTSC-CCCSTTCCCTTCTTCCEEE--CCSSCCCCCC--CCGGGGGCTTCCEEECCS
T ss_pred             CCCCCEEECCCCc-CCCCChhhhhcCcccCeec--cccCccccCC--CchhhccchhhhhhcccC
Confidence            6777777777666 444443 366667777766  4444432111  112233444455555543

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.42  E-value=1.1e-12  Score=125.16  Aligned_cols=173  Identities=18%  Similarity=0.122  Sum_probs=138.2

Q ss_pred             ccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccccc
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGK  409 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~  409 (561)
                      .+..+..++++.         +.++.++ .+..+++|++|++++|.++.+| .+..+++|++|++++|. +..+|. +..
T Consensus        17 ~l~~l~~l~l~~---------~~i~~~~-~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~-i~~~~~-l~~   83 (263)
T 1xeu_A           17 GLANAVKQNLGK---------QSVTDLV-SQKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQ-ISDLSP-LKD   83 (263)
T ss_dssp             HHHHHHHHHHTC---------SCTTSEE-CHHHHTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTT
T ss_pred             HHHHHHHHHhcC---------CCccccc-chhhcCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCc-cCCChh-hcc
Confidence            466677778888         7788877 5889999999999999999988 78999999999999998 888887 999


Q ss_pred             CCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccc
Q 043450          410 LKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLY  489 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~  489 (561)
                      +++|++|++++|. +..+|....  ++|++|+  +.+|.+.+     +..+..++.|+.|++++..- ..   .  ..+.
T Consensus        84 l~~L~~L~L~~N~-l~~l~~~~~--~~L~~L~--L~~N~l~~-----~~~l~~l~~L~~L~Ls~N~i-~~---~--~~l~  147 (263)
T 1xeu_A           84 LTKLEELSVNRNR-LKNLNGIPS--ACLSRLF--LDNNELRD-----TDSLIHLKNLEILSIRNNKL-KS---I--VMLG  147 (263)
T ss_dssp             CSSCCEEECCSSC-CSCCTTCCC--SSCCEEE--CCSSCCSB-----SGGGTTCTTCCEEECTTSCC-CB---C--GGGG
T ss_pred             CCCCCEEECCCCc-cCCcCcccc--CcccEEE--ccCCccCC-----ChhhcCcccccEEECCCCcC-CC---C--hHHc
Confidence            9999999999998 666775433  8999998  66666532     34577788888888876431 22   1  2578


Q ss_pred             cccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCCh
Q 043450          490 NKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPK  547 (561)
Q Consensus       490 ~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~  547 (561)
                      .+++|+.|++++|.+...                ..+..+++|+.|++++|.+...|.
T Consensus       148 ~l~~L~~L~L~~N~i~~~----------------~~l~~l~~L~~L~l~~N~~~~~~~  189 (263)
T 1xeu_A          148 FLSKLEVLDLHGNEITNT----------------GGLTRLKKVNWIDLTGQKCVNEPV  189 (263)
T ss_dssp             GCTTCCEEECTTSCCCBC----------------TTSTTCCCCCEEEEEEEEEECCCE
T ss_pred             cCCCCCEEECCCCcCcch----------------HHhccCCCCCEEeCCCCcccCCcc
Confidence            899999999999985431                567889999999999999766553

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.39  E-value=7.3e-13  Score=132.86  Aligned_cols=152  Identities=17%  Similarity=0.154  Sum_probs=98.0

Q ss_pred             cEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccccc-cc-CCCCccEEecCCCCCcCccC-cccccCC
Q 043450          335 RALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPET-LC-ELYNLQKLDIRRCQDLRELP-TGIGKLK  411 (561)
Q Consensus       335 ~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~-i~-~L~~L~~L~l~~~~~~~~lp-~~~~~l~  411 (561)
                      +++++++         +.++.+|..+.  ..+++|+|++|.++.+|.. +. ++++|++|+|++|. +..+| ..+..++
T Consensus        21 ~~l~c~~---------~~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~-i~~i~~~~~~~l~   88 (361)
T 2xot_A           21 NILSCSK---------QQLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNH-LNFISSEAFVPVP   88 (361)
T ss_dssp             TEEECCS---------SCCSSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSC-CCEECTTTTTTCT
T ss_pred             CEEEeCC---------CCcCccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCc-CCccChhhccCCC
Confidence            5778887         77888887665  4688999999999887755 44 88999999999988 66665 4688899


Q ss_pred             CCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccccc
Q 043450          412 NMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYN  490 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~  490 (561)
                      +|++|++++|. +..+|. .+..+++|++|+  +.+|.+....+..   +..++.|+.|.+.+.. +..........+..
T Consensus        89 ~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~--L~~N~i~~~~~~~---~~~l~~L~~L~L~~N~-l~~l~~~~~~~~~~  161 (361)
T 2xot_A           89 NLRYLDLSSNH-LHTLDEFLFSDLQALEVLL--LYNNHIVVVDRNA---FEDMAQLQKLYLSQNQ-ISRFPVELIKDGNK  161 (361)
T ss_dssp             TCCEEECCSSC-CCEECTTTTTTCTTCCEEE--CCSSCCCEECTTT---TTTCTTCCEEECCSSC-CCSCCGGGTC----
T ss_pred             CCCEEECCCCc-CCcCCHHHhCCCcCCCEEE--CCCCcccEECHHH---hCCcccCCEEECCCCc-CCeeCHHHhcCccc
Confidence            99999999988 455544 578888899887  5666553322222   3334444444444321 11111111111145


Q ss_pred             ccccccEEEEeecCC
Q 043450          491 KKNLLRLGLQFGRVA  505 (561)
Q Consensus       491 l~~L~~L~l~~~~~~  505 (561)
                      +++|+.|+|++|.+.
T Consensus       162 l~~L~~L~L~~N~l~  176 (361)
T 2xot_A          162 LPKLMLLDLSSNKLK  176 (361)
T ss_dssp             CTTCCEEECCSSCCC
T ss_pred             CCcCCEEECCCCCCC
Confidence            666777777666643

>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=99.38  E-value=2.6e-13  Score=135.60  Aligned_cols=38  Identities=24%  Similarity=0.224  Sum_probs=27.1

Q ss_pred             HHHh-hcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEE
Q 043450          520 EQLL-EALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLN  559 (561)
Q Consensus       520 ~~~~-~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~  559 (561)
                      ..++ +.+..+++|+.|++++|.++.+|.+.  +.+|++|.
T Consensus       191 ~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~--~~~L~~L~  229 (350)
T 4ay9_X          191 EELPNDVFHGASGPVILDISRTRIHSLPSYG--LENLKKLR  229 (350)
T ss_dssp             CCCCTTTTTTEECCSEEECTTSCCCCCCSSS--CTTCCEEE
T ss_pred             cCCCHHHhccCcccchhhcCCCCcCccChhh--hccchHhh
Confidence            3344 35688899999999999999998753  44555444

>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=99.38  E-value=3e-13  Score=145.30  Aligned_cols=206  Identities=13%  Similarity=0.008  Sum_probs=136.2

Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCcccccc-----cCccccccCccCEEecCCCCCc-----cccccccCCCCccE
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLIRE-----IPENVEKLIHLKYLNLSGLRIE-----SLPETLCELYNLQK  391 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-----lp~~~~~l~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~  391 (561)
                      ..++....++++|++|+|++|         .+..     ++.....+++|++|++++|.++     .++..+.++++|++
T Consensus       154 ~~l~~~~~~~~~L~~L~L~~~---------~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~  224 (592)
T 3ogk_B          154 DGLLSIVTHCRKIKTLLMEES---------SFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVS  224 (592)
T ss_dssp             HHHHHHHHHCTTCSEEECTTC---------EEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCE
T ss_pred             HHHHHHHhhCCCCCEEECccc---------cccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcE
Confidence            345555668889999999884         3322     2333456788999999988875     45566778899999


Q ss_pred             EecCCCCCcCccCcccccCCCCCeEEcCCCCCC---ccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCc
Q 043450          392 LDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSL---KYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRE  468 (561)
Q Consensus       392 L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~---~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~  468 (561)
                      |++++|. +..+|..+..+++|++|+++.+...   ...+..++.+++|+.|+  +... .....+   ..+..+++|+.
T Consensus       225 L~L~~~~-~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~--l~~~-~~~~l~---~~~~~~~~L~~  297 (592)
T 3ogk_B          225 VKVGDFE-ILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLG--LSYM-GPNEMP---ILFPFAAQIRK  297 (592)
T ss_dssp             EECSSCB-GGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEE--ETTC-CTTTGG---GGGGGGGGCCE
T ss_pred             EeccCcc-HHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccC--cccc-chhHHH---HHHhhcCCCcE
Confidence            9999987 6678888888999999998754422   23445667777888775  3222 111112   23445667778


Q ss_pred             eEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEee---------
Q 043450          469 CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVY---------  539 (561)
Q Consensus       469 l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~---------  539 (561)
                      |+++++. +  ........+..+++|+.|+++ +.             .....++.....+++|++|++++         
T Consensus       298 L~Ls~~~-l--~~~~~~~~~~~~~~L~~L~L~-~~-------------~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~  360 (592)
T 3ogk_B          298 LDLLYAL-L--ETEDHCTLIQKCPNLEVLETR-NV-------------IGDRGLEVLAQYCKQLKRLRIERGADEQGMED  360 (592)
T ss_dssp             EEETTCC-C--CHHHHHHHHTTCTTCCEEEEE-GG-------------GHHHHHHHHHHHCTTCCEEEEECCCCSSTTSS
T ss_pred             EecCCCc-C--CHHHHHHHHHhCcCCCEEecc-Cc-------------cCHHHHHHHHHhCCCCCEEEeecCcccccccc
Confidence            8887654 2  123333446788999999998 32             12334444445678899999994         


Q ss_pred             -c-CCCC--CChhhhcccCCcEEEc
Q 043450          540 -Y-GGNI--FPKWLTLLTNLRDLNL  560 (561)
Q Consensus       540 -~-~~~~--lp~~~~~l~~L~~L~L  560 (561)
                       + .++.  ++.....+++|+.|+|
T Consensus       361 ~~~~~~~~~~~~l~~~~~~L~~L~l  385 (592)
T 3ogk_B          361 EEGLVSQRGLIALAQGCQELEYMAV  385 (592)
T ss_dssp             TTCCCCHHHHHHHHHHCTTCSEEEE
T ss_pred             ccCccCHHHHHHHHhhCccCeEEEe
Confidence             3 3321  3333467999999987

>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=99.38  E-value=1.2e-12  Score=122.29  Aligned_cols=111  Identities=28%  Similarity=0.447  Sum_probs=85.4

Q ss_pred             HHHhccccccEEeccCCCCCCCCCcccccccCcc-ccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCcc
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIREIPEN-VEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      ..+..+.+|++|+|++         |.++.+|.. +..+++|++|+|++|.++.+|.. +..+++|++|++++|. +..+
T Consensus        58 ~~~~~l~~L~~L~L~~---------N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~-l~~l  127 (229)
T 3e6j_A           58 GVFDSLINLKELYLGS---------NQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNK-LTEL  127 (229)
T ss_dssp             TTTTTCTTCCEEECCS---------SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCSC
T ss_pred             HHhhCccCCcEEECCC---------CCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEeccCCc-cccc
Confidence            3466788888888888         677777654 57788888888888888877654 5788888888888887 7788


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCcc
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~  449 (561)
                      |..+..+++|++|++++|. +..+|. .+..+++|+.|+  +.+|.+
T Consensus       128 p~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~--l~~N~~  171 (229)
T 3e6j_A          128 PRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSLTHAY--LFGNPW  171 (229)
T ss_dssp             CTTGGGCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEE--CTTSCB
T ss_pred             CcccccCCCCCEEECCCCc-CCccCHHHHhCCCCCCEEE--eeCCCc
Confidence            8888888888888888887 555553 477788888886  556655

>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=99.38  E-value=4.7e-13  Score=133.73  Aligned_cols=196  Identities=18%  Similarity=0.103  Sum_probs=93.2

Q ss_pred             HhccccccEEeccCCCCCCCCCcccc-cccCc-cccccCccCE-EecCCCCCcccc-ccccCCCCccEEecCCCCCcCcc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLI-REIPE-NVEKLIHLKY-LNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~-~~lp~-~~~~l~~L~~-L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      |.++++|++|+|++         |.+ +.+|. .|..++++.+ +.+.+|+++.+| ..+..+++|++|++++|. +..+
T Consensus        50 f~~l~~L~~L~Ls~---------N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~-l~~~  119 (350)
T 4ay9_X           50 FSGFGDLEKIEISQ---------NDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTG-IKHL  119 (350)
T ss_dssp             STTCTTCCEEEEEC---------CTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEEEEC-CSSC
T ss_pred             HcCCCCCCEEECcC---------CCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhccccccccccccc-cccC
Confidence            45556666666665         333 33332 3445555443 344445555553 335556666666666655 4444


Q ss_pred             Cc-ccccCCCCCeEEcCCCCCCccCccc-ccCCc-CCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCc
Q 043450          404 PT-GIGKLKNMRSLLNGDTSSLKYLPIG-ISRLT-SLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHV  480 (561)
Q Consensus       404 p~-~~~~l~~L~~L~l~~~~~~~~lp~~-i~~l~-~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~  480 (561)
                      |. .+....++..|++.++..+..+|.. +..+. .++.|+  +.+|.+....+..+ .   ..+|..+.+...   +..
T Consensus       120 ~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~--L~~N~i~~i~~~~f-~---~~~L~~l~l~~~---n~l  190 (350)
T 4ay9_X          120 PDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILW--LNKNGIQEIHNSAF-N---GTQLDELNLSDN---NNL  190 (350)
T ss_dssp             CCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEE--CCSSCCCEECTTSS-T---TEEEEEEECTTC---TTC
T ss_pred             Cchhhcccchhhhhhhccccccccccccchhhcchhhhhhc--cccccccCCChhhc-c---ccchhHHhhccC---Ccc
Confidence            33 3334445555555554444544432 33332 344444  33443321111111 1   112222333221   111


Q ss_pred             chhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecC-CCCCChhhhcccCCcEEE
Q 043450          481 DEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYG-GNIFPKWLTLLTNLRDLN  559 (561)
Q Consensus       481 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~-~~~lp~~~~~l~~L~~L~  559 (561)
                      .......|.++++|+.|++++|++...               |.  ..+.+|+.|.+.++. ...+| .+.+|++|+.++
T Consensus       191 ~~i~~~~f~~l~~L~~LdLs~N~l~~l---------------p~--~~~~~L~~L~~l~~~~l~~lP-~l~~l~~L~~l~  252 (350)
T 4ay9_X          191 EELPNDVFHGASGPVILDISRTRIHSL---------------PS--YGLENLKKLRARSTYNLKKLP-TLEKLVALMEAS  252 (350)
T ss_dssp             CCCCTTTTTTEECCSEEECTTSCCCCC---------------CS--SSCTTCCEEECTTCTTCCCCC-CTTTCCSCCEEE
T ss_pred             cCCCHHHhccCcccchhhcCCCCcCcc---------------Ch--hhhccchHhhhccCCCcCcCC-CchhCcChhhCc
Confidence            222223466777778888877764332               22  124556666655444 55666 366777777776


Q ss_pred             c
Q 043450          560 L  560 (561)
Q Consensus       560 L  560 (561)
                      +
T Consensus       253 l  253 (350)
T 4ay9_X          253 L  253 (350)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.38  E-value=1.2e-12  Score=121.51  Aligned_cols=111  Identities=25%  Similarity=0.239  Sum_probs=85.5

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      +..+.+|++|++++         |.++.++. .+..+++|++|++++|.++.+|+ .+..+++|++|++++|......|.
T Consensus        53 ~~~l~~L~~L~L~~---------N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~  123 (220)
T 2v70_A           53 FKKLPQLRKINFSN---------NKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGND  123 (220)
T ss_dssp             GGGCTTCCEEECCS---------SCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTT
T ss_pred             hccCCCCCEEECCC---------CcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHh
Confidence            56788888888888         67777754 67888888888888888887765 478888888888888883333466


Q ss_pred             ccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCcc
Q 043450          406 GIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       406 ~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      .+..+++|++|++++|...+..|..++.+++|++|+  +.+|.+
T Consensus       124 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~--L~~N~l  165 (220)
T 2v70_A          124 SFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLN--LLANPF  165 (220)
T ss_dssp             SSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEE--CCSCCE
T ss_pred             HcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEE--ecCcCC
Confidence            788888888888888885454477788888888887  556655

>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=99.37  E-value=1.1e-12  Score=121.59  Aligned_cols=110  Identities=27%  Similarity=0.365  Sum_probs=79.2

Q ss_pred             HHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCcc-
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLREL-  403 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~l-  403 (561)
                      .|..+.+|++|+|++         |.+..+ |..|..+++|++|+|++|.++.+|.. +..+++|++|+|++|. +..+ 
T Consensus        51 ~~~~l~~L~~L~Ls~---------N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~-l~~~~  120 (220)
T 2v9t_B           51 AFSPYKKLRRIDLSN---------NQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANK-INCLR  120 (220)
T ss_dssp             SSTTCTTCCEEECCS---------SCCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCC
T ss_pred             HhhCCCCCCEEECCC---------CcCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCCCC-CCEeC
Confidence            356677888888887         666666 66677888888888888888877765 4678888888888887 4444 


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCc-ccccCCcCCcccCceeecCcc
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLP-IGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      |..+..+++|++|++++|. +..+| ..+..+++|++|+  +.+|.+
T Consensus       121 ~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~--L~~N~~  164 (220)
T 2v9t_B          121 VDAFQDLHNLNLLSLYDNK-LQTIAKGTFSPLRAIQTMH--LAQNPF  164 (220)
T ss_dssp             TTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEE--CCSSCE
T ss_pred             HHHcCCCCCCCEEECCCCc-CCEECHHHHhCCCCCCEEE--eCCCCc
Confidence            5567788888888888887 44444 3477777888776  555544

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.35  E-value=1.2e-12  Score=120.36  Aligned_cols=109  Identities=33%  Similarity=0.496  Sum_probs=64.4

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCcc-ccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPEN-VEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      +..+.+|++|++++         +.++.+|.. +..+++|++|++++|.++.+|.. +.++++|++|++++|. +..+|.
T Consensus        48 ~~~l~~L~~L~l~~---------n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~  117 (208)
T 2o6s_A           48 FDELTSLTQLYLGG---------NKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQ-LQSLPD  117 (208)
T ss_dssp             TTTCTTCSEEECCS---------SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT
T ss_pred             hcccccCcEEECCC---------CccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcCCCc-CcccCH
Confidence            44566666666666         555555543 35666666666666666655543 4566666666666665 444444


Q ss_pred             -ccccCCCCCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCcc
Q 043450          406 -GIGKLKNMRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       406 -~~~~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~  449 (561)
                       .+..+++|++|++++|. +..+|.. ++.+++|+.|+  +.+|.+
T Consensus       118 ~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~--l~~N~~  160 (208)
T 2o6s_A          118 GVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIW--LHDNPW  160 (208)
T ss_dssp             TTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEE--CCSCCB
T ss_pred             hHhccCCcCCEEECCCCc-cceeCHHHhccCCCccEEE--ecCCCe
Confidence             35666666666666665 3344433 56666666665  444443

>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=99.34  E-value=2.8e-12  Score=118.99  Aligned_cols=149  Identities=14%  Similarity=0.128  Sum_probs=101.4

Q ss_pred             cEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccc--cccCCCCccEEecCCCCCcCccCc-ccccCC
Q 043450          335 RALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPE--TLCELYNLQKLDIRRCQDLRELPT-GIGKLK  411 (561)
Q Consensus       335 ~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~  411 (561)
                      +.+++++         +.++.+|..+.  ..+++|++++|.++.+++  .+..+++|++|++++|. +..+|. .+..++
T Consensus        14 ~~l~~s~---------n~l~~iP~~~~--~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~-i~~i~~~~~~~l~   81 (220)
T 2v70_A           14 TTVDCSN---------QKLNKIPEHIP--QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNK-ITDIEEGAFEGAS   81 (220)
T ss_dssp             TEEECCS---------SCCSSCCSCCC--TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSC-CCEECTTTTTTCT
T ss_pred             CEeEeCC---------CCcccCccCCC--CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCc-CCEECHHHhCCCC
Confidence            4778887         77888887664  356788888888887743  37888888888888887 666654 688888


Q ss_pred             CCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccc
Q 043450          412 NMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNK  491 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l  491 (561)
                      +|++|++++|......|..++.+++|++|+  +.+|.+.+..+..+.   .+++|+.|++.+.    ......+..+..+
T Consensus        82 ~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~--Ls~N~l~~~~~~~~~---~l~~L~~L~L~~N----~l~~~~~~~~~~l  152 (220)
T 2v70_A           82 GVNEILLTSNRLENVQHKMFKGLESLKTLM--LRSNRITCVGNDSFI---GLSSVRLLSLYDN----QITTVAPGAFDTL  152 (220)
T ss_dssp             TCCEEECCSSCCCCCCGGGGTTCSSCCEEE--CTTSCCCCBCTTSST---TCTTCSEEECTTS----CCCCBCTTTTTTC
T ss_pred             CCCEEECCCCccCccCHhHhcCCcCCCEEE--CCCCcCCeECHhHcC---CCccCCEEECCCC----cCCEECHHHhcCC
Confidence            888888888884444444578888888887  666666444343333   4444555555442    2223334556677


Q ss_pred             cccccEEEEeecC
Q 043450          492 KNLLRLGLQFGRV  504 (561)
Q Consensus       492 ~~L~~L~l~~~~~  504 (561)
                      ++|+.|++++|.+
T Consensus       153 ~~L~~L~L~~N~l  165 (220)
T 2v70_A          153 HSLSTLNLLANPF  165 (220)
T ss_dssp             TTCCEEECCSCCE
T ss_pred             CCCCEEEecCcCC
Confidence            7788888877764

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.33  E-value=3.3e-12  Score=118.51  Aligned_cols=148  Identities=17%  Similarity=0.233  Sum_probs=93.7

Q ss_pred             cEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCcc-CcccccCCC
Q 043450          335 RALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLREL-PTGIGKLKN  412 (561)
Q Consensus       335 ~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~l-p~~~~~l~~  412 (561)
                      +.+++++         +.++.+|..+.  ++|++|++++|.++.+|+ .+..+++|++|++++|. +..+ |..+..+++
T Consensus        14 ~~v~c~~---------~~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~-i~~~~~~~~~~l~~   81 (220)
T 2v9t_B           14 NIVDCRG---------KGLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ-ISELAPDAFQGLRS   81 (220)
T ss_dssp             TEEECTT---------SCCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSC-CCEECTTTTTTCSS
T ss_pred             CEEEcCC---------CCcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCc-CCCcCHHHhhCCcC
Confidence            4566666         66777777654  578888888888877664 57778888888888877 4444 667788888


Q ss_pred             CCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccc
Q 043450          413 MRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNK  491 (561)
Q Consensus       413 L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l  491 (561)
                      |++|++++|. +..+|.. ++.+++|++|+  +.+|.+.+..+..+   ..++.|+.|++.+.    ......+..+..+
T Consensus        82 L~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~--L~~N~l~~~~~~~~---~~l~~L~~L~L~~N----~l~~~~~~~~~~l  151 (220)
T 2v9t_B           82 LNSLVLYGNK-ITELPKSLFEGLFSLQLLL--LNANKINCLRVDAF---QDLHNLNLLSLYDN----KLQTIAKGTFSPL  151 (220)
T ss_dssp             CCEEECCSSC-CCCCCTTTTTTCTTCCEEE--CCSSCCCCCCTTTT---TTCTTCCEEECCSS----CCSCCCTTTTTTC
T ss_pred             CCEEECCCCc-CCccCHhHccCCCCCCEEE--CCCCCCCEeCHHHc---CCCCCCCEEECCCC----cCCEECHHHHhCC
Confidence            8888888877 5566654 47778888877  55665543333323   33344444444432    1122222345566


Q ss_pred             cccccEEEEeecC
Q 043450          492 KNLLRLGLQFGRV  504 (561)
Q Consensus       492 ~~L~~L~l~~~~~  504 (561)
                      ++|+.|++++|.+
T Consensus       152 ~~L~~L~L~~N~~  164 (220)
T 2v9t_B          152 RAIQTMHLAQNPF  164 (220)
T ss_dssp             TTCCEEECCSSCE
T ss_pred             CCCCEEEeCCCCc
Confidence            6677777766653

>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=99.33  E-value=5.5e-12  Score=117.78  Aligned_cols=93  Identities=26%  Similarity=0.360  Sum_probs=52.8

Q ss_pred             ccccccCccccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCCCccCc
Q 043450          351 NLIREIPENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLP  428 (561)
Q Consensus       351 ~~~~~lp~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp  428 (561)
                      +.++.+|..+.  ++|++|++++|.++.+ |..+..+++|++|++++|. +..+|. .+..+++|++|++++|. +..+|
T Consensus        29 ~~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~-l~~i~~~~~~~l~~L~~L~Ls~N~-l~~l~  104 (229)
T 3e6j_A           29 KRHASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQ-LGALPVGVFDSLTQLTVLDLGTNQ-LTVLP  104 (229)
T ss_dssp             SCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC-CCCCC
T ss_pred             CCcCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCC-CCCcChhhcccCCCcCEEECCCCc-CCccC
Confidence            55566665443  5666666666666644 4445666666666666665 455543 34566666666666665 33443


Q ss_pred             cc-ccCCcCCcccCceeecCcc
Q 043450          429 IG-ISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       429 ~~-i~~l~~L~~L~~~~~~~~~  449 (561)
                      .. ++.+++|++|+  +.+|.+
T Consensus       105 ~~~~~~l~~L~~L~--Ls~N~l  124 (229)
T 3e6j_A          105 SAVFDRLVHLKELF--MCCNKL  124 (229)
T ss_dssp             TTTTTTCTTCCEEE--CCSSCC
T ss_pred             hhHhCcchhhCeEe--ccCCcc
Confidence            33 45666666665  444443

>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=99.33  E-value=2.4e-12  Score=138.17  Aligned_cols=205  Identities=16%  Similarity=0.077  Sum_probs=150.3

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCccccc-----ccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCC
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIR-----EIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~  398 (561)
                      ++.....+++|++|++++         +.+.     .++..+..+++|++|++++|.+..+|..+..+++|+.|+++++.
T Consensus       184 l~~~~~~~~~L~~L~L~~---------n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~  254 (592)
T 3ogk_B          184 LHELAQHNTSLEVLNFYM---------TEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLN  254 (592)
T ss_dssp             HHHHHHHCCCCCEEECTT---------CCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCC
T ss_pred             HHHHHhcCCCccEEEeec---------cCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccc
Confidence            566678899999999998         4443     45555678899999999999999999999999999999998644


Q ss_pred             Cc---CccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCc-hhhhccCCCCceEEcCC
Q 043450          399 DL---RELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRL-ESLKNLQLLRECRVEGL  474 (561)
Q Consensus       399 ~~---~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~-~~l~~L~~L~~l~i~~~  474 (561)
                      ..   ...+..+..+++|+.|+++++. ...+|..+..+++|+.|+  +.++...   ...+ .-+..+++|+.|.+.. 
T Consensus       255 ~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~l~~~~~~~~~L~~L~--Ls~~~l~---~~~~~~~~~~~~~L~~L~L~~-  327 (592)
T 3ogk_B          255 EDIGMPEKYMNLVFPRKLCRLGLSYMG-PNEMPILFPFAAQIRKLD--LLYALLE---TEDHCTLIQKCPNLEVLETRN-  327 (592)
T ss_dssp             CCTTCTTSSSCCCCCTTCCEEEETTCC-TTTGGGGGGGGGGCCEEE--ETTCCCC---HHHHHHHHTTCTTCCEEEEEG-
T ss_pred             cccchHHHHHHhhccccccccCccccc-hhHHHHHHhhcCCCcEEe--cCCCcCC---HHHHHHHHHhCcCCCEEeccC-
Confidence            23   3445578889999999999865 677888889999999998  5555431   1122 2256778888888862 


Q ss_pred             CCCCCcchhhhcccccccccccEEEEe-----------ecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          475 SNVSHVDEAERLQLYNKKNLLRLGLQF-----------GRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       475 ~~~~~~~~~~~~~l~~l~~L~~L~l~~-----------~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                         ..........+..+++|+.|+++.           +.+             ....+......+++|++|++.++.++
T Consensus       328 ---~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~-------------~~~~~~~l~~~~~~L~~L~l~~~~l~  391 (592)
T 3ogk_B          328 ---VIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLV-------------SQRGLIALAQGCQELEYMAVYVSDIT  391 (592)
T ss_dssp             ---GGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCC-------------CHHHHHHHHHHCTTCSEEEEEESCCC
T ss_pred             ---ccCHHHHHHHHHhCCCCCEEEeecCccccccccccCcc-------------CHHHHHHHHhhCccCeEEEeecCCcc
Confidence               122344445557789999999993           221             13334433455799999999888765


Q ss_pred             C-CChhhh-cccCCcEEEc
Q 043450          544 I-FPKWLT-LLTNLRDLNL  560 (561)
Q Consensus       544 ~-lp~~~~-~l~~L~~L~L  560 (561)
                      . .+..+. .+++|+.|+|
T Consensus       392 ~~~~~~l~~~~~~L~~L~l  410 (592)
T 3ogk_B          392 NESLESIGTYLKNLCDFRL  410 (592)
T ss_dssp             HHHHHHHHHHCCSCCEEEE
T ss_pred             HHHHHHHHhhCCCCcEEEE
Confidence            2 344554 4999999987

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.33  E-value=1.3e-12  Score=113.30  Aligned_cols=109  Identities=18%  Similarity=0.261  Sum_probs=92.2

Q ss_pred             hccccccEEeccCCCCCCCCCccccc--ccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcc
Q 043450          329 SKLACLRALVISQPSPIFRPDLNLIR--EIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       329 ~~l~~L~~L~l~~~~~~~~~~~~~~~--~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      ....+|+.|++++         +.+.  .+|..++.+++|++|++++|.++.+ ..++.+++|++|++++|.....+|..
T Consensus        14 ~~~~~l~~L~l~~---------n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~   83 (149)
T 2je0_A           14 RTPSDVKELVLDN---------SRSNEGKLEGLTDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVL   83 (149)
T ss_dssp             CCGGGCSEEECTT---------CBCBTTBCCSCCTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHH
T ss_pred             CCCccCeEEEccC---------CcCChhHHHHHHhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHH
Confidence            3467899999999         6676  7888889999999999999999887 77999999999999999944448888


Q ss_pred             cccCCCCCeEEcCCCCCCccCc--ccccCCcCCcccCceeecCccC
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLP--IGISRLTSLRTLEKFVVGGGVD  450 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp--~~i~~l~~L~~L~~~~~~~~~~  450 (561)
                      ++.+++|++|++++|. +..+|  ..++.+++|++|+  +.+|.+.
T Consensus        84 ~~~l~~L~~L~ls~N~-i~~~~~~~~~~~l~~L~~L~--l~~N~l~  126 (149)
T 2je0_A           84 AEKCPNLTHLNLSGNK-IKDLSTIEPLKKLENLKSLD--LFNCEVT  126 (149)
T ss_dssp             HHHCTTCCEEECTTSC-CCSHHHHGGGGGCTTCCEEE--CTTCGGG
T ss_pred             hhhCCCCCEEECCCCc-CCChHHHHHHhhCCCCCEEe--CcCCccc
Confidence            8889999999999998 55554  7789999999998  6666653

>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=1.9e-12  Score=114.69  Aligned_cols=107  Identities=23%  Similarity=0.321  Sum_probs=90.4

Q ss_pred             ccccccEEeccCCCCCCCCCccccc--ccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIR--EIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~--~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      ...+|++|++++         +.+.  .+|..+..+++|++|++++|.++.+ ..++.+++|++|++++|.....+|..+
T Consensus        22 ~~~~L~~L~l~~---------n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~   91 (168)
T 2ell_A           22 TPAAVRELVLDN---------CKSNDGKIEGLTAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLA   91 (168)
T ss_dssp             CTTSCSEEECCS---------CBCBTTBCSSCCGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHH
T ss_pred             CcccCCEEECCC---------CCCChhhHHHHHHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHH
Confidence            457899999999         6676  8888889999999999999999887 789999999999999998444478878


Q ss_pred             ccCCCCCeEEcCCCCCCccCc--ccccCCcCCcccCceeecCcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLP--IGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp--~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +.+++|++|++++|. +..+|  ..++.+++|++|+  +.+|.+
T Consensus        92 ~~l~~L~~L~Ls~N~-l~~~~~~~~l~~l~~L~~L~--l~~N~l  132 (168)
T 2ell_A           92 EKLPNLTHLNLSGNK-LKDISTLEPLKKLECLKSLD--LFNCEV  132 (168)
T ss_dssp             HHCTTCCEEECBSSS-CCSSGGGGGGSSCSCCCEEE--CCSSGG
T ss_pred             hhCCCCCEEeccCCc-cCcchhHHHHhcCCCCCEEE--eeCCcC
Confidence            889999999999998 66665  6788889999887  555554

>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=2.6e-12  Score=113.83  Aligned_cols=102  Identities=25%  Similarity=0.247  Sum_probs=62.3

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcc-ccccccCCCCccEEecCCCCCcCccC--
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIES-LPETLCELYNLQKLDIRRCQDLRELP--  404 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~-lp~~i~~L~~L~~L~l~~~~~~~~lp--  404 (561)
                      +..+++|++|++++         |.+..+ ..++.+++|++|++++|.++. +|..+..+++|++|++++|. +..+|  
T Consensus        45 ~~~l~~L~~L~l~~---------n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~  113 (168)
T 2ell_A           45 TAEFVNLEFLSLIN---------VGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNK-LKDISTL  113 (168)
T ss_dssp             CGGGGGCCEEEEES---------SCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSS-CCSSGGG
T ss_pred             HHhCCCCCEEeCcC---------CCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCc-cCcchhH
Confidence            34556666666666         445544 455666666666666666664 55555556666666666665 55554  


Q ss_pred             cccccCCCCCeEEcCCCCCCccCcc----cccCCcCCcccC
Q 043450          405 TGIGKLKNMRSLLNGDTSSLKYLPI----GISRLTSLRTLE  441 (561)
Q Consensus       405 ~~~~~l~~L~~L~l~~~~~~~~lp~----~i~~l~~L~~L~  441 (561)
                      ..+..+++|++|++++|. +..+|.    .+..+++|++|+
T Consensus       114 ~~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~  153 (168)
T 2ell_A          114 EPLKKLECLKSLDLFNCE-VTNLNDYRESVFKLLPQLTYLD  153 (168)
T ss_dssp             GGGSSCSCCCEEECCSSG-GGTSTTHHHHHHTTCSSCCEET
T ss_pred             HHHhcCCCCCEEEeeCCc-CcchHHHHHHHHHhCccCcEec
Confidence            456666666666666666 444444    556666666666

>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=99.30  E-value=5e-12  Score=133.90  Aligned_cols=72  Identities=26%  Similarity=0.449  Sum_probs=35.3

Q ss_pred             cCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccC
Q 043450          366 LKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE  441 (561)
Q Consensus       366 L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~  441 (561)
                      |++|++++|.++.+|. ++.+++|+.|++++|. +..+|..++.+++|+.|++++|. +..+| .++++++|++|+
T Consensus       443 L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp-~l~~l~~L~~L~  514 (567)
T 1dce_A          443 VRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDNA-LENVD-GVANLPRLQELL  514 (567)
T ss_dssp             CSEEECTTSCCSSCCC-GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSC-CCCCG-GGTTCSSCCEEE
T ss_pred             ceEEEecCCCCCCCcC-ccccccCcEeecCccc-ccccchhhhcCCCCCEEECCCCC-CCCCc-ccCCCCCCcEEE
Confidence            4455555555544443 4455555555555544 44445455555555555555544 33344 444555555554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.29  E-value=1.7e-12  Score=112.41  Aligned_cols=103  Identities=26%  Similarity=0.264  Sum_probs=90.1

Q ss_pred             HHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcc-ccccccCCCCccEEecCCCCCcCccC-
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIES-LPETLCELYNLQKLDIRRCQDLRELP-  404 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~-lp~~i~~L~~L~~L~l~~~~~~~~lp-  404 (561)
                      .+..+++|++|++++         |.+..+ ..++.+++|++|++++|.++. +|..++.+++|++|++++|. +..+| 
T Consensus        37 ~~~~l~~L~~L~l~~---------n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~-i~~~~~  105 (149)
T 2je0_A           37 LTDEFEELEFLSTIN---------VGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNK-IKDLST  105 (149)
T ss_dssp             CCTTCTTCCEEECTT---------SCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSC-CCSHHH
T ss_pred             HHhhcCCCcEEECcC---------CCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCc-CCChHH
Confidence            357789999999999         667777 678999999999999999987 88888889999999999998 77765 


Q ss_pred             -cccccCCCCCeEEcCCCCCCccCcc----cccCCcCCcccC
Q 043450          405 -TGIGKLKNMRSLLNGDTSSLKYLPI----GISRLTSLRTLE  441 (561)
Q Consensus       405 -~~~~~l~~L~~L~l~~~~~~~~lp~----~i~~l~~L~~L~  441 (561)
                       ..++.+++|++|++++|. +..+|.    .++.+++|+.|+
T Consensus       106 ~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~  146 (149)
T 2je0_A          106 IEPLKKLENLKSLDLFNCE-VTNLNDYRENVFKLLPQLTYLD  146 (149)
T ss_dssp             HGGGGGCTTCCEEECTTCG-GGGSTTHHHHHHHHCTTCCEET
T ss_pred             HHHHhhCCCCCEEeCcCCc-ccchHHHHHHHHHHCCCccccc
Confidence             789999999999999998 566665    688999999987

>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=99.26  E-value=3.7e-12  Score=113.70  Aligned_cols=97  Identities=26%  Similarity=0.261  Sum_probs=59.7

Q ss_pred             cccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccc-cCCCCccEEecCCCCCcCccCc--cccc
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL-CELYNLQKLDIRRCQDLRELPT--GIGK  409 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i-~~L~~L~~L~l~~~~~~~~lp~--~~~~  409 (561)
                      +|++|++++         |.++.+ +.++.+++|++|++++|.++.+|+.+ +.+++|++|++++|. +..+|.  .++.
T Consensus        43 ~L~~L~Ls~---------N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~l~~  111 (176)
T 1a9n_A           43 QFDAIDFSD---------NEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNS-LVELGDLDPLAS  111 (176)
T ss_dssp             CCSEEECCS---------SCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCC-CCCGGGGGGGGG
T ss_pred             CCCEEECCC---------CCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCc-CCcchhhHhhhc
Confidence            666666666         455555 44566666666666666666665443 666666666666665 555655  5666


Q ss_pred             CCCCCeEEcCCCCCCccCccc----ccCCcCCcccC
Q 043450          410 LKNMRSLLNGDTSSLKYLPIG----ISRLTSLRTLE  441 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~~----i~~l~~L~~L~  441 (561)
                      +++|++|++++|. +..+|..    ++.+++|+.|+
T Consensus       112 l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld  146 (176)
T 1a9n_A          112 LKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLD  146 (176)
T ss_dssp             CTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEET
T ss_pred             CCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeC
Confidence            6666666666666 4455543    56666666665

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.26  E-value=7.3e-12  Score=125.56  Aligned_cols=157  Identities=16%  Similarity=0.125  Sum_probs=115.8

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCcc-cc-ccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccCc-cc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPEN-VE-KLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELPT-GI  407 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~-~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp~-~~  407 (561)
                      ..+++|+|++         |.++.++.. +. .+++|++|+|++|.|+.+| ..+.++++|++|+|++|. +..+|. .+
T Consensus        39 ~~l~~L~Ls~---------N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~  108 (361)
T 2xot_A           39 SYTALLDLSH---------NNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNH-LHTLDEFLF  108 (361)
T ss_dssp             TTCSEEECCS---------SCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCEECTTTT
T ss_pred             CCCCEEECCC---------CCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCc-CCcCCHHHh
Confidence            4588999999         778888655 44 8999999999999999876 468999999999999998 677655 68


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++|+.|++++|......|..++.+++|+.|+  +.+|.+.......+..+..++.|+.|++.+..    ........
T Consensus       109 ~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~--L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~----l~~l~~~~  182 (361)
T 2xot_A          109 SDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLY--LSQNQISRFPVELIKDGNKLPKLMLLDLSSNK----LKKLPLTD  182 (361)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE--CCSSCCCSCCGGGTC----CTTCCEEECCSSC----CCCCCHHH
T ss_pred             CCCcCCCEEECCCCcccEECHHHhCCcccCCEEE--CCCCcCCeeCHHHhcCcccCCcCCEEECCCCC----CCccCHHH
Confidence            8999999999999995555577889999999998  77777654444444444667778888876532    22222334


Q ss_pred             cccccc--cccEEEEeecC
Q 043450          488 LYNKKN--LLRLGLQFGRV  504 (561)
Q Consensus       488 l~~l~~--L~~L~l~~~~~  504 (561)
                      +..++.  |+.|+|++|.+
T Consensus       183 ~~~l~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          183 LQKLPAWVKNGLYLHNNPL  201 (361)
T ss_dssp             HHHSCHHHHTTEECCSSCE
T ss_pred             hhhccHhhcceEEecCCCc
Confidence            555555  48899988764

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.26  E-value=1e-12  Score=143.58  Aligned_cols=116  Identities=21%  Similarity=0.218  Sum_probs=95.9

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+.+|++|+|++         |.+..+|..|+.|++|++|+|++|.|+.+|..|++|++|++|+|++|. ++.+|..|
T Consensus       243 ~~~l~~L~~L~Ls~---------N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~lp~~~  312 (727)
T 4b8c_D          243 IFKYDFLTRLYLNG---------NSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNM-VTTLPWEF  312 (727)
T ss_dssp             GGGCCSCSCCBCTT---------SCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSC-CCCCCSST
T ss_pred             hcCCCCCCEEEeeC---------CcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCC-CCccChhh
Confidence            44789999999999         788899999999999999999999999999999999999999999998 78999999


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCC-cccCceeecCccCCCCcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSL-RTLEKFVVGGGVDGNNTC  455 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L-~~L~~~~~~~~~~~~~~~  455 (561)
                      +.+++|++|++++|...+.+|..++.+... ..|+  +.+|.+.+..+.
T Consensus       313 ~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~--l~~N~l~~~~p~  359 (727)
T 4b8c_D          313 GNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFY--LRDNRPEIPLPH  359 (727)
T ss_dssp             TSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHH--HHHCCCCCCCCC
T ss_pred             hcCCCccEEeCCCCccCCCChHHHhhcchhhhHHh--hccCcccCcCcc
Confidence            999999999999999766777666544221 1222  455555444444

>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=99.25  E-value=6.3e-12  Score=112.23  Aligned_cols=107  Identities=20%  Similarity=0.249  Sum_probs=89.1

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccC-ccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLI-HLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~-~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      +..+.+|+.|++++         +.+..+|. +..+. +|++|++++|.++.+ +.++.+++|++|++++|. +..+|+.
T Consensus        15 ~~~~~~L~~L~l~~---------n~l~~i~~-~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~-l~~~~~~   82 (176)
T 1a9n_A           15 YTNAVRDRELDLRG---------YKIPVIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNR-ICRIGEG   82 (176)
T ss_dssp             EECTTSCEEEECTT---------SCCCSCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSC-CCEECSC
T ss_pred             cCCcCCceEEEeeC---------CCCchhHH-hhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCCc-ccccCcc
Confidence            45678899999999         67777765 55555 999999999999887 678999999999999998 7788765


Q ss_pred             c-ccCCCCCeEEcCCCCCCccCcc--cccCCcCCcccCceeecCcc
Q 043450          407 I-GKLKNMRSLLNGDTSSLKYLPI--GISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       407 ~-~~l~~L~~L~l~~~~~~~~lp~--~i~~l~~L~~L~~~~~~~~~  449 (561)
                      + +.+++|++|++++|. ++.+|.  .++.+++|+.|+  +.+|.+
T Consensus        83 ~~~~l~~L~~L~L~~N~-i~~~~~~~~l~~l~~L~~L~--l~~N~i  125 (176)
T 1a9n_A           83 LDQALPDLTELILTNNS-LVELGDLDPLASLKSLTYLC--ILRNPV  125 (176)
T ss_dssp             HHHHCTTCCEEECCSCC-CCCGGGGGGGGGCTTCCEEE--CCSSGG
T ss_pred             hhhcCCCCCEEECCCCc-CCcchhhHhhhcCCCCCEEE--ecCCCC
Confidence            5 899999999999998 677886  788888899887  556554

>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=99.20  E-value=1.5e-11  Score=131.92  Aligned_cols=92  Identities=16%  Similarity=0.196  Sum_probs=47.9

Q ss_pred             hHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCC-------CccccccccCCCCccEE-e
Q 043450          322 SILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLR-------IESLPETLCELYNLQKL-D  393 (561)
Q Consensus       322 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~-------l~~lp~~i~~L~~L~~L-~  393 (561)
                      ..+......+++|++|++++|        ..++.+|..+..+++|++|++..+.       +..++..+.++++|+.| .
T Consensus       201 ~~l~~l~~~~~~L~~L~L~~~--------~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~  272 (594)
T 2p1m_B          201 SALERLVTRCPNLKSLKLNRA--------VPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSG  272 (594)
T ss_dssp             HHHHHHHHHCTTCCEEECCTT--------SCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEEC
T ss_pred             HHHHHHHHhCCCCcEEecCCC--------CcHHHHHHHHhcCCcceEcccccccCccchhhHHHHHHHHhcCCCcccccC
Confidence            344555556677777777764        2344455556666666666644432       23344445555555555 3


Q ss_pred             cCCCCCcCccCcccccCCCCCeEEcCCCC
Q 043450          394 IRRCQDLRELPTGIGKLKNMRSLLNGDTS  422 (561)
Q Consensus       394 l~~~~~~~~lp~~~~~l~~L~~L~l~~~~  422 (561)
                      +.+.. ...+|..+..+++|++|++++|.
T Consensus       273 ~~~~~-~~~l~~~~~~~~~L~~L~L~~~~  300 (594)
T 2p1m_B          273 FWDAV-PAYLPAVYSVCSRLTTLNLSYAT  300 (594)
T ss_dssp             CBTCC-GGGGGGGHHHHTTCCEEECTTCC
T ss_pred             Ccccc-hhhHHHHHHhhCCCCEEEccCCC
Confidence            33322 23344444445555555555555

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.20  E-value=3.3e-11  Score=109.14  Aligned_cols=102  Identities=19%  Similarity=0.236  Sum_probs=68.6

Q ss_pred             cEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccccc--ccCCCCccEEecCCCCCcCccCcccccCCC
Q 043450          335 RALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPET--LCELYNLQKLDIRRCQDLRELPTGIGKLKN  412 (561)
Q Consensus       335 ~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~--i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~  412 (561)
                      +++++++         +.++.+|..+..  +|++|++++|.++.+|+.  ++.+++|++|++++|......|..++.+++
T Consensus        11 ~~l~~s~---------~~l~~ip~~~~~--~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~   79 (192)
T 1w8a_A           11 TTVDCTG---------RGLKEIPRDIPL--HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASH   79 (192)
T ss_dssp             TEEECTT---------SCCSSCCSCCCT--TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTT
T ss_pred             CEEEcCC---------CCcCcCccCCCC--CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCccc
Confidence            5677777         667777766543  777777777777766653  677777777777777733333667777777


Q ss_pred             CCeEEcCCCCCCccCcccccCCcCCcccCceeecCcc
Q 043450          413 MRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       413 L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      |++|++++|...+..|..++.+++|++|+  +.+|.+
T Consensus        80 L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~--L~~N~l  114 (192)
T 1w8a_A           80 IQELQLGENKIKEISNKMFLGLHQLKTLN--LYDNQI  114 (192)
T ss_dssp             CCEEECCSCCCCEECSSSSTTCTTCCEEE--CCSSCC
T ss_pred             CCEEECCCCcCCccCHHHhcCCCCCCEEE--CCCCcC
Confidence            77777777774444444467777777776  555554

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.19  E-value=6.2e-11  Score=107.34  Aligned_cols=101  Identities=18%  Similarity=0.299  Sum_probs=73.9

Q ss_pred             cEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccC-cccccCCCC
Q 043450          335 RALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELP-TGIGKLKNM  413 (561)
Q Consensus       335 ~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp-~~~~~l~~L  413 (561)
                      +++++++         +.++.+|..+.  .+|++|++++|.++.+|..+..+++|++|++++|. +..++ ..+..+++|
T Consensus        13 ~~l~~~~---------~~l~~ip~~~~--~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~-i~~i~~~~f~~l~~L   80 (193)
T 2wfh_A           13 TVVRCSN---------KGLKVLPKGIP--RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNR-ISTLSNQSFSNMTQL   80 (193)
T ss_dssp             TEEECTT---------SCCSSCCSCCC--TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSC-CCCCCTTTTTTCTTC
T ss_pred             CEEEcCC---------CCCCcCCCCCC--CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCc-CCEeCHhHccCCCCC
Confidence            4677777         67777776654  57888888888888888788888888888888887 55554 467888888


Q ss_pred             CeEEcCCCCCCccCcccccCCcCCcccCceeecCcc
Q 043450          414 RSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       414 ~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      ++|++++|......|..++.+++|++|+  +.+|.+
T Consensus        81 ~~L~Ls~N~l~~i~~~~f~~l~~L~~L~--L~~N~l  114 (193)
T 2wfh_A           81 LTLILSYNRLRCIPPRTFDGLKSLRLLS--LHGNDI  114 (193)
T ss_dssp             CEEECCSSCCCBCCTTTTTTCTTCCEEE--CCSSCC
T ss_pred             CEEECCCCccCEeCHHHhCCCCCCCEEE--CCCCCC
Confidence            8888888874443344577888888887  555554

>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=99.19  E-value=3.2e-12  Score=137.32  Aligned_cols=61  Identities=16%  Similarity=-0.035  Sum_probs=32.9

Q ss_pred             ccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEee
Q 043450          462 NLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVY  539 (561)
Q Consensus       462 ~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~  539 (561)
                      .+++|+.|++.++. +.  .......+..+++|+.|+++.|.              ....+......+++|+.|++.+
T Consensus       287 ~~~~L~~L~L~~~~-l~--~~~l~~~~~~~~~L~~L~l~~~~--------------~~~~l~~l~~~~~~L~~L~L~~  347 (594)
T 2p1m_B          287 VCSRLTTLNLSYAT-VQ--SYDLVKLLCQCPKLQRLWVLDYI--------------EDAGLEVLASTCKDLRELRVFP  347 (594)
T ss_dssp             HHTTCCEEECTTCC-CC--HHHHHHHHTTCTTCCEEEEEGGG--------------HHHHHHHHHHHCTTCCEEEEEC
T ss_pred             hhCCCCEEEccCCC-CC--HHHHHHHHhcCCCcCEEeCcCcc--------------CHHHHHHHHHhCCCCCEEEEec
Confidence            45666666666544 22  22233335567777777777542              1222222223467788888854

>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=99.15  E-value=8e-11  Score=106.56  Aligned_cols=106  Identities=19%  Similarity=0.301  Sum_probs=92.8

Q ss_pred             cccEEeccCCCCCCCCCcccccccCcc--ccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCccC-cccc
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIPEN--VEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELP-TGIG  408 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp~~--~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~lp-~~~~  408 (561)
                      +|++|++++         |.++.+|..  ++.+++|++|++++|.++.+ |..++++++|++|++++|. +..+| ..+.
T Consensus        30 ~l~~L~l~~---------n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~   99 (192)
T 1w8a_A           30 HTTELLLND---------NELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK-IKEISNKMFL   99 (192)
T ss_dssp             TCSEEECCS---------CCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC-CCEECSSSST
T ss_pred             CCCEEECCC---------CcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCc-CCccCHHHhc
Confidence            799999999         788888764  89999999999999999976 6789999999999999999 66655 4589


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccC
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVD  450 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~  450 (561)
                      .+++|++|++++|...+..|..++.+++|++|+  +.+|.+.
T Consensus       100 ~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~--L~~N~l~  139 (192)
T 1w8a_A          100 GLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLN--LASNPFN  139 (192)
T ss_dssp             TCTTCCEEECCSSCCCEECTTSSTTCTTCCEEE--CTTCCBC
T ss_pred             CCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEE--eCCCCcc
Confidence            999999999999996667788899999999998  6677664

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.13  E-value=1.5e-10  Score=104.83  Aligned_cols=105  Identities=22%  Similarity=0.362  Sum_probs=91.6

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccC-ccccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELP-TGIGK  409 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp-~~~~~  409 (561)
                      .+|++|++++         |.++.+|..+..+++|++|++++|.++.++ ..|.++++|++|+|++|. +..+| ..+..
T Consensus        31 ~~l~~L~L~~---------n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~-l~~i~~~~f~~  100 (193)
T 2wfh_A           31 RDVTELYLDG---------NQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNR-LRCIPPRTFDG  100 (193)
T ss_dssp             TTCCEEECCS---------SCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTTT
T ss_pred             CCCCEEECCC---------CcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCc-cCEeCHHHhCC
Confidence            4799999999         889999999999999999999999999886 468999999999999999 66665 47999


Q ss_pred             CCCCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCcc
Q 043450          410 LKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       410 l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +++|++|++++|. +..+|. .+..+++|+.|+  +.+|.+
T Consensus       101 l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~--L~~N~~  138 (193)
T 2wfh_A          101 LKSLRLLSLHGND-ISVVPEGAFNDLSALSHLA--IGANPL  138 (193)
T ss_dssp             CTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEE--CCSSCE
T ss_pred             CCCCCEEECCCCC-CCeeChhhhhcCccccEEE--eCCCCe
Confidence            9999999999998 666766 478899999997  666655

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.10  E-value=2.9e-10  Score=101.00  Aligned_cols=100  Identities=26%  Similarity=0.362  Sum_probs=85.8

Q ss_pred             cEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCccCcc-cccCCC
Q 043450          335 RALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTG-IGKLKN  412 (561)
Q Consensus       335 ~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~lp~~-~~~l~~  412 (561)
                      +.+++++         +.++.+|..+.  ++|++|++++|.++.+ |..++++++|++|+|++|. +..+|.. +..+++
T Consensus        15 ~~l~~~~---------n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~i~~~~~~~l~~   82 (174)
T 2r9u_A           15 TLVNCQN---------IRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNK-LTAIPTGVFDKLTQ   82 (174)
T ss_dssp             SEEECCS---------SCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTT
T ss_pred             cEEEeCC---------CCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCC-CCccChhHhCCcch
Confidence            6788888         78899998775  8999999999999977 5678999999999999998 7888775 589999


Q ss_pred             CCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCcc
Q 043450          413 MRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       413 L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~  449 (561)
                      |++|++++|. +..+|.. ++.+++|++|+  +.+|.+
T Consensus        83 L~~L~L~~N~-l~~l~~~~~~~l~~L~~L~--L~~N~~  117 (174)
T 2r9u_A           83 LTQLDLNDNH-LKSIPRGAFDNLKSLTHIY--LYNNPW  117 (174)
T ss_dssp             CCEEECCSSC-CCCCCTTTTTTCTTCSEEE--CCSSCB
T ss_pred             hhEEECCCCc-cceeCHHHhccccCCCEEE--eCCCCc
Confidence            9999999998 6677765 88999999998  667765

>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=99.09  E-value=1e-12  Score=119.91  Aligned_cols=102  Identities=25%  Similarity=0.303  Sum_probs=50.0

Q ss_pred             HHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcc
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG  406 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~  406 (561)
                      .+..+++|++|++++         |.+..+| .++.+++|++|++++|.++.+|..+..+++|++|++++|. +..+| .
T Consensus        43 ~~~~l~~L~~L~ls~---------n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~-l~~l~-~  110 (198)
T 1ds9_A           43 TLSTLKACKHLALST---------NNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQ-IASLS-G  110 (198)
T ss_dssp             HHHHTTTCSEEECSE---------EEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEE-CCCHH-H
T ss_pred             HHhcCCCCCEEECCC---------CCCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCc-CCcCC-c
Confidence            344455555555555         4444444 4455555555555555555555444444555555555554 44444 3


Q ss_pred             cccCCCCCeEEcCCCCCCccCcc--cccCCcCCcccC
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPI--GISRLTSLRTLE  441 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~--~i~~l~~L~~L~  441 (561)
                      ++.+++|++|++++|. +..+|.  .++.+++|++|+
T Consensus       111 ~~~l~~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~  146 (198)
T 1ds9_A          111 IEKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLL  146 (198)
T ss_dssp             HHHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEE
T ss_pred             cccCCCCCEEECCCCc-CCchhHHHHHhcCCCCCEEE
Confidence            4455555555555554 333322  344444555444

>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=99.07  E-value=1.5e-12  Score=118.65  Aligned_cols=133  Identities=20%  Similarity=0.231  Sum_probs=108.8

Q ss_pred             CCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHHHHHhccc
Q 043450          253 RGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLA  332 (561)
Q Consensus       253 ~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  332 (561)
                      ..+.++..+..+++|+.|.+.++..                                            ..++ .+..++
T Consensus        36 ~l~~l~~~~~~l~~L~~L~ls~n~l--------------------------------------------~~l~-~~~~l~   70 (198)
T 1ds9_A           36 PIEKMDATLSTLKACKHLALSTNNI--------------------------------------------EKIS-SLSGME   70 (198)
T ss_dssp             TCCCCHHHHHHTTTCSEEECSEEEE--------------------------------------------SCCC-CHHHHT
T ss_pred             cHhhhhHHHhcCCCCCEEECCCCCC--------------------------------------------cccc-ccccCC
Confidence            4566666888999999999988721                                            0012 367889


Q ss_pred             cccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc--ccccC
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT--GIGKL  410 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~--~~~~l  410 (561)
                      +|++|++++         |.+..+|..+..+++|++|++++|.++.+| .++.+++|++|++++|. +..+|.  .+..+
T Consensus        71 ~L~~L~l~~---------n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~l~~N~-i~~~~~~~~l~~l  139 (198)
T 1ds9_A           71 NLRILSLGR---------NLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYMSNNK-ITNWGEIDKLAAL  139 (198)
T ss_dssp             TCCEEEEEE---------EEECSCSSHHHHHHHCSEEEEEEEECCCHH-HHHHHHHSSEEEESEEE-CCCHHHHHHHTTT
T ss_pred             CCCEEECCC---------CCcccccchhhcCCcCCEEECcCCcCCcCC-ccccCCCCCEEECCCCc-CCchhHHHHHhcC
Confidence            999999999         888899988888999999999999999887 68999999999999998 777664  78999


Q ss_pred             CCCCeEEcCCCCCCccCccc----------ccCCcCCcccC
Q 043450          411 KNMRSLLNGDTSSLKYLPIG----------ISRLTSLRTLE  441 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp~~----------i~~l~~L~~L~  441 (561)
                      ++|++|++++|......|..          +..+++|+.|+
T Consensus       140 ~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          140 DKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             TTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             CCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC
Confidence            99999999999854444432          67788888776

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.05  E-value=6.4e-10  Score=98.37  Aligned_cols=101  Identities=26%  Similarity=0.359  Sum_probs=86.4

Q ss_pred             ccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCccCcc-cccCC
Q 043450          334 LRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLRELPTG-IGKLK  411 (561)
Q Consensus       334 L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~lp~~-~~~l~  411 (561)
                      .+++++++         +.++.+|..+.  ++|++|++++|.++.+ |..+.++++|++|+|++|. +..+|.. +..++
T Consensus        11 ~~~l~~s~---------n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~f~~l~   78 (170)
T 3g39_A           11 GTTVDCSG---------KSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQ-LTVLPAGVFDKLT   78 (170)
T ss_dssp             TTEEECTT---------SCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCT
T ss_pred             CCEEEeCC---------CCcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCC-cCccChhhccCCC
Confidence            57899998         88999998774  8999999999999987 5668999999999999998 7777764 68999


Q ss_pred             CCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCcc
Q 043450          412 NMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +|++|++++|. +..+|. .++++++|++|+  +.+|.+
T Consensus        79 ~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~--L~~N~~  114 (170)
T 3g39_A           79 QLTQLSLNDNQ-LKSIPRGAFDNLKSLTHIW--LLNNPW  114 (170)
T ss_dssp             TCCEEECCSSC-CCCCCTTTTTTCTTCCEEE--CCSSCB
T ss_pred             CCCEEECCCCc-cCEeCHHHhcCCCCCCEEE--eCCCCC
Confidence            99999999998 566665 489999999998  667766

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.97  E-value=2.3e-09  Score=95.49  Aligned_cols=105  Identities=30%  Similarity=0.430  Sum_probs=75.4

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCcc-ccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc-ccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPEN-VEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT-GIG  408 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~-~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~-~~~  408 (561)
                      .+|++|++++         +.++.+|.. ++.+++|++|++++|.++.+|+. +..+++|++|++++|. ++.+|. .+.
T Consensus        28 ~~l~~L~l~~---------n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~   97 (177)
T 2o6r_A           28 SSATRLELES---------NKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK-LQSLPNGVFD   97 (177)
T ss_dssp             TTCSEEECCS---------SCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTT
T ss_pred             CCCcEEEeCC---------CcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCC-ccccCHHHhh
Confidence            5678888887         666666654 47778888888888888777654 5778888888888877 556654 357


Q ss_pred             cCCCCCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCcc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~  449 (561)
                      .+++|++|++++|. +..+|.. +..+++|++|+  +.+|.+
T Consensus        98 ~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~--l~~N~~  136 (177)
T 2o6r_A           98 KLTQLKELALDTNQ-LKSVPDGIFDRLTSLQKIW--LHTNPW  136 (177)
T ss_dssp             TCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEE--CCSSCB
T ss_pred             CCcccCEEECcCCc-ceEeCHHHhcCCcccCEEE--ecCCCe
Confidence            78888888888877 4556654 46777888776  556655

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.96  E-value=2.5e-09  Score=95.25  Aligned_cols=101  Identities=23%  Similarity=0.350  Sum_probs=81.0

Q ss_pred             ccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc-ccccCC
Q 043450          334 LRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT-GIGKLK  411 (561)
Q Consensus       334 L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~  411 (561)
                      .+.+++++         +.++.+|..+.  ++|++|++++|.++.+|.. ++.+++|++|++++|. +..+|. .++.++
T Consensus         9 ~~~l~~~~---------~~l~~~p~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~   76 (177)
T 2o6r_A            9 GTEIRCNS---------KGLTSVPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQ-IQSLPDGVFDKLT   76 (177)
T ss_dssp             TTEEECCS---------SCCSSCCTTCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCT
T ss_pred             CCEEEecC---------CCCccCCCCCC--CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCc-ceEeChhHccCCC
Confidence            46778887         77888886554  6899999999999988764 6889999999999998 677765 468999


Q ss_pred             CCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCcc
Q 043450          412 NMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +|+.|++++|. +..+|. .++.+++|++|+  +.+|.+
T Consensus        77 ~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~--l~~N~l  112 (177)
T 2o6r_A           77 KLTILYLHENK-LQSLPNGVFDKLTQLKELA--LDTNQL  112 (177)
T ss_dssp             TCCEEECCSSC-CCCCCTTTTTTCTTCCEEE--CCSSCC
T ss_pred             ccCEEECCCCC-ccccCHHHhhCCcccCEEE--CcCCcc
Confidence            99999999998 555555 468889999987  556655

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.91  E-value=1.9e-09  Score=95.62  Aligned_cols=92  Identities=21%  Similarity=0.366  Sum_probs=78.9

Q ss_pred             ccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCcc-cc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPTG-IG  408 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~~-~~  408 (561)
                      .+|++|++++         |.+..+ |..++.+++|++|+|++|+++.+|.. +.++++|++|+|++|. +..+|.. +.
T Consensus        33 ~~L~~L~Ls~---------N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~  102 (174)
T 2r9u_A           33 TDKQRLWLNN---------NQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNH-LKSIPRGAFD  102 (174)
T ss_dssp             TTCSEEECCS---------SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTT
T ss_pred             CCCcEEEeCC---------CCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCc-cceeCHHHhc
Confidence            6799999999         788888 56789999999999999999999876 5899999999999998 7788775 89


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCC
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRL  434 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l  434 (561)
                      .+++|++|++++|. +...|..+..+
T Consensus       103 ~l~~L~~L~L~~N~-~~c~~~~~~~l  127 (174)
T 2r9u_A          103 NLKSLTHIYLYNNP-WDCECRDIMYL  127 (174)
T ss_dssp             TCTTCSEEECCSSC-BCTTBGGGHHH
T ss_pred             cccCCCEEEeCCCC-cccccccHHHH
Confidence            99999999999998 55555544433

>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=98.81  E-value=8.4e-09  Score=91.13  Aligned_cols=81  Identities=22%  Similarity=0.405  Sum_probs=73.0

Q ss_pred             ccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCcccccc-ccCCCCccEEecCCCCCcCccCc-ccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQDLRELPT-GIG  408 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~lp~-~~~  408 (561)
                      .+|++|++++         |.+..+ |..+..+++|++|+|++|+++.+|+. +.++++|++|+|++|. +..+|. .+.
T Consensus        30 ~~l~~L~L~~---------N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~   99 (170)
T 3g39_A           30 TTTQVLYLYD---------NQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ-LKSIPRGAFD   99 (170)
T ss_dssp             TTCSEEECCS---------SCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTT
T ss_pred             CCCcEEEcCC---------CcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCc-cCEeCHHHhc
Confidence            6799999999         888888 56689999999999999999988876 5899999999999998 777776 589


Q ss_pred             cCCCCCeEEcCCCC
Q 043450          409 KLKNMRSLLNGDTS  422 (561)
Q Consensus       409 ~l~~L~~L~l~~~~  422 (561)
                      .+++|++|++++|.
T Consensus       100 ~l~~L~~L~L~~N~  113 (170)
T 3g39_A          100 NLKSLTHIWLLNNP  113 (170)
T ss_dssp             TCTTCCEEECCSSC
T ss_pred             CCCCCCEEEeCCCC
Confidence            99999999999998

>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=98.75  E-value=1.7e-08  Score=100.37  Aligned_cols=93  Identities=18%  Similarity=0.175  Sum_probs=57.8

Q ss_pred             cccccCccccccCccCEEecCC-CCCcccc-ccccCCCCccEEecCCCCCcCccC-cccccCCCCCeEEcCCCCCCccCc
Q 043450          352 LIREIPENVEKLIHLKYLNLSG-LRIESLP-ETLCELYNLQKLDIRRCQDLRELP-TGIGKLKNMRSLLNGDTSSLKYLP  428 (561)
Q Consensus       352 ~~~~lp~~~~~l~~L~~L~l~~-~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp-~~~~~l~~L~~L~l~~~~~~~~lp  428 (561)
                      .+..+|. ++.+++|++|+|++ |.++.+| ..|++|++|+.|+|++|. +..+| ..|+++++|+.|+|++|. +..+|
T Consensus        20 ~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~   96 (347)
T 2ifg_A           20 ALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG-LRFVAPDAFHFTPRLSRLNLSFNA-LESLS   96 (347)
T ss_dssp             CCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSC-CCEECTTGGGSCSCCCEEECCSSC-CSCCC
T ss_pred             CCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCc-cceeCHHHhcCCcCCCEEeCCCCc-cceeC
Confidence            5666776 77777777777775 6676665 456677777777777776 44443 356677777777777766 45555


Q ss_pred             ccccCCcCCcccCceeecCcc
Q 043450          429 IGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       429 ~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      ..+.....|+.|+  +.+|.+
T Consensus        97 ~~~~~~~~L~~l~--l~~N~~  115 (347)
T 2ifg_A           97 WKTVQGLSLQELV--LSGNPL  115 (347)
T ss_dssp             STTTCSCCCCEEE--CCSSCC
T ss_pred             HHHcccCCceEEE--eeCCCc
Confidence            5433322366665  444444

>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=98.73  E-value=1.1e-08  Score=100.83  Aligned_cols=170  Identities=14%  Similarity=0.073  Sum_probs=96.9

Q ss_pred             cCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCC-----------------
Q 043450          363 LIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSS-----------------  423 (561)
Q Consensus       363 l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~-----------------  423 (561)
                      +.+|+.|++.. .++.+++ .|.+|++|+.|++.+|. +..++. .+..+.++..+.......                 
T Consensus       100 ~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~-i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~  177 (329)
T 3sb4_A          100 KQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKT-APNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEP  177 (329)
T ss_dssp             CTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSS-CCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCC
T ss_pred             cCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCC-ccccchhhhcCCCceEEecCcchhhhhccccccccccccccc
Confidence            77888888877 7776664 47778888888888776 444433 455555555554433110                 


Q ss_pred             Cc---------cCcccc----------------------------cCCcCCcccCceeecCccCCCCccCchhhhccCCC
Q 043450          424 LK---------YLPIGI----------------------------SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLL  466 (561)
Q Consensus       424 ~~---------~lp~~i----------------------------~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L  466 (561)
                      +.         .+|..+                            ..+++|+.++  +..+.........|.   .+..|
T Consensus       178 L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~--L~~n~i~~I~~~aF~---~~~~L  252 (329)
T 3sb4_A          178 LETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLD--ISKTNATTIPDFTFA---QKKYL  252 (329)
T ss_dssp             CEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEE--CTTBCCCEECTTTTT---TCTTC
T ss_pred             cceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEE--CCCCCcceecHhhhh---CCCCC
Confidence            00         000000                            0145666665  333333222233333   33344


Q ss_pred             CceEEcCCCCCCCcchhhhcccccccccc-cEEEEeecCCCCCcccccCCCcchHHH-hhcCCCCCCCceEEEeecCCCC
Q 043450          467 RECRVEGLSNVSHVDEAERLQLYNKKNLL-RLGLQFGRVADGEGEEGRRKNENDEQL-LEALQPPVNVEELWIVYYGGNI  544 (561)
Q Consensus       467 ~~l~i~~~~~~~~~~~~~~~~l~~l~~L~-~L~l~~~~~~~~~~~~~~~~n~~~~~~-~~~l~~~~~L~~L~l~~~~~~~  544 (561)
                      +.+.+..  +   ........|.++.+|+ .+++.. .               ...+ ...|..+++|+.|++.++.+..
T Consensus       253 ~~l~l~~--n---i~~I~~~aF~~~~~L~~~l~l~~-~---------------l~~I~~~aF~~c~~L~~l~l~~n~i~~  311 (329)
T 3sb4_A          253 LKIKLPH--N---LKTIGQRVFSNCGRLAGTLELPA-S---------------VTAIEFGAFMGCDNLRYVLATGDKITT  311 (329)
T ss_dssp             CEEECCT--T---CCEECTTTTTTCTTCCEEEEECT-T---------------CCEECTTTTTTCTTEEEEEECSSCCCE
T ss_pred             CEEECCc--c---cceehHHHhhCChhccEEEEEcc-c---------------ceEEchhhhhCCccCCEEEeCCCccCc
Confidence            4444432  1   2233445577788888 888864 2               1122 3567889999999999988887


Q ss_pred             CCh-hhhcccCCcEEEc
Q 043450          545 FPK-WLTLLTNLRDLNL  560 (561)
Q Consensus       545 lp~-~~~~l~~L~~L~L  560 (561)
                      ++. .+.++++|+.|..
T Consensus       312 I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          312 LGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             ECTTTTCTTCCCCEEEC
T ss_pred             cchhhhcCCcchhhhcc
Confidence            776 4588999998864

>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=98.51  E-value=3.8e-08  Score=96.99  Aligned_cols=153  Identities=10%  Similarity=0.042  Sum_probs=91.0

Q ss_pred             CCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecC--ccCCCCccCch----
Q 043450          386 LYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGG--GVDGNNTCRLE----  458 (561)
Q Consensus       386 L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~--~~~~~~~~~~~----  458 (561)
                      +++|+.|++.+ . +..+++ .|.++++|+.+++.+|.....-+..|..+.++..+..-....  .........+.    
T Consensus       100 ~~~L~~l~L~~-~-i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~  177 (329)
T 3sb4_A          100 KQTLEKVILSE-K-IKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEP  177 (329)
T ss_dssp             CTTCCC-CBCT-T-CCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCC
T ss_pred             cCCCcEEECCc-c-ccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccc
Confidence            99999999998 4 788865 688999999999999884333334455555555543111000  00000000010    


Q ss_pred             ------------------------------------------hhh-ccCCCCceEEcCCCCCCCcchhhhcccccccccc
Q 043450          459 ------------------------------------------SLK-NLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLL  495 (561)
Q Consensus       459 ------------------------------------------~l~-~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~  495 (561)
                                                                .+. .+..|+.+.+...    .........|.++.+|+
T Consensus       178 L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n----~i~~I~~~aF~~~~~L~  253 (329)
T 3sb4_A          178 LETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKT----NATTIPDFTFAQKKYLL  253 (329)
T ss_dssp             CEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTB----CCCEECTTTTTTCTTCC
T ss_pred             cceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCC----CcceecHhhhhCCCCCC
Confidence                                                      000 1455665655431    12333445677888888


Q ss_pred             cEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCc-eEEEeecCCCCCC-hhhhcccCCcEEEc
Q 043450          496 RLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVE-ELWIVYYGGNIFP-KWLTLLTNLRDLNL  560 (561)
Q Consensus       496 ~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~-~L~l~~~~~~~lp-~~~~~l~~L~~L~L  560 (561)
                      .|++..| +.              .--...|..+++|+ .+++.+ .+..++ ..+.+|++|+.|+|
T Consensus       254 ~l~l~~n-i~--------------~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l  304 (329)
T 3sb4_A          254 KIKLPHN-LK--------------TIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLA  304 (329)
T ss_dssp             EEECCTT-CC--------------EECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEE
T ss_pred             EEECCcc-cc--------------eehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEe
Confidence            8888754 11              11134577888898 999988 555554 55688899998887

>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=98.48  E-value=1.6e-07  Score=93.17  Aligned_cols=90  Identities=13%  Similarity=0.151  Sum_probs=75.4

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcC
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLR  401 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~  401 (561)
                      +|. +..+.+|++|+|+++        |.++.+| ..|+.|++|++|+|++|.|+.+|+ .|.+|++|+.|+|++|. +.
T Consensus        24 ip~-l~~~~~L~~L~l~~~--------n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~   93 (347)
T 2ifg_A           24 LHH-LPGAENLTELYIENQ--------QHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA-LE   93 (347)
T ss_dssp             TTT-SCSCSCCSEEECCSC--------SSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC-CS
T ss_pred             cCC-CCCCCCeeEEEccCC--------CCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCc-cc
Confidence            444 788899999999942        6788887 568999999999999999997764 68999999999999998 78


Q ss_pred             ccCcccccCCCCCeEEcCCCCC
Q 043450          402 ELPTGIGKLKNMRSLLNGDTSS  423 (561)
Q Consensus       402 ~lp~~~~~l~~L~~L~l~~~~~  423 (561)
                      .+|..+....+|+.|++.+|..
T Consensus        94 ~~~~~~~~~~~L~~l~l~~N~~  115 (347)
T 2ifg_A           94 SLSWKTVQGLSLQELVLSGNPL  115 (347)
T ss_dssp             CCCSTTTCSCCCCEEECCSSCC
T ss_pred             eeCHHHcccCCceEEEeeCCCc
Confidence            8887655444599999999873

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.45  E-value=3.3e-08  Score=98.19  Aligned_cols=44  Identities=14%  Similarity=0.127  Sum_probs=25.1

Q ss_pred             cccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          490 NKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       490 ~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                      .+++|+.|+|+.|.+.+.          -...++..+.++++|+.|++++|.++
T Consensus       277 ~~~~L~~LdLs~n~L~d~----------G~~~L~~~L~~l~~L~~L~L~~n~i~  320 (362)
T 2ra8_A          277 ILPQLETMDISAGVLTDE----------GARLLLDHVDKIKHLKFINMKYNYLS  320 (362)
T ss_dssp             SGGGCSEEECCSSCCBHH----------HHHHHHTTHHHHTTCSEEECCSBBCC
T ss_pred             cCCCCCEEECCCCCCChH----------HHHHHHhhcccCCcceEEECCCCcCC
Confidence            456777777776653211          12234444455677777777777643

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.43  E-value=1.3e-08  Score=101.91  Aligned_cols=162  Identities=17%  Similarity=0.137  Sum_probs=94.9

Q ss_pred             cccccEEeccCCCCCCCCCccccccc-----Ccccc-ccCccCEEecCCCCCcc--ccccccCCCCccEEecCCCCCcCc
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREI-----PENVE-KLIHLKYLNLSGLRIES--LPETLCELYNLQKLDIRRCQDLRE  402 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~l-----p~~~~-~l~~L~~L~l~~~~l~~--lp~~i~~L~~L~~L~l~~~~~~~~  402 (561)
                      +..|+.|++++         +.+...     ...+. ..++|++|+|++|.+..  +..-...+++|+.|+|++|. ++.
T Consensus        71 ~~~L~~L~Ls~---------n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~-l~~  140 (372)
T 3un9_A           71 LSSLRQLNLAG---------VRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNS-LGP  140 (372)
T ss_dssp             HTTCCEEECTT---------SCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSC-CCH
T ss_pred             HhhCCEEEecC---------CCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCC-CCH
Confidence            57799999999         445432     22222 22689999999999863  22333456789999999998 543


Q ss_pred             c-Cccc-----ccCCCCCeEEcCCCCCCc----cCcccccCCcCCcccCceeecCccCCCCcc-CchhhhccCCCCceEE
Q 043450          403 L-PTGI-----GKLKNMRSLLNGDTSSLK----YLPIGISRLTSLRTLEKFVVGGGVDGNNTC-RLESLKNLQLLRECRV  471 (561)
Q Consensus       403 l-p~~~-----~~l~~L~~L~l~~~~~~~----~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~-~~~~l~~L~~L~~l~i  471 (561)
                      . ...+     ...++|+.|++++|....    .++..+..+++|++|+  +.+|.+...... ....+...+.|+.|++
T Consensus       141 ~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~--Ls~N~l~~~g~~~L~~~L~~~~~L~~L~L  218 (372)
T 3un9_A          141 EACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLS--LLHTGLGDEGLELLAAQLDRNRQLQELNV  218 (372)
T ss_dssp             HHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEE--CTTSSCHHHHHHHHHHHGGGCSCCCEEEC
T ss_pred             HHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEe--CCCCCCCcHHHHHHHHHHhcCCCcCeEEC
Confidence            2 2222     245789999999998322    2445556778888887  555554211100 0223344555666666


Q ss_pred             cCCCCCCCcchhhhcccccccccccEEEEeecC
Q 043450          472 EGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRV  504 (561)
Q Consensus       472 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  504 (561)
                      +++.-.......+...+...++|+.|+|++|.+
T Consensus       219 s~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i  251 (372)
T 3un9_A          219 AYNGAGDTAALALARAAREHPSLELLHLYFNEL  251 (372)
T ss_dssp             CSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSC
T ss_pred             CCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCC
Confidence            553211111112333344556677777766654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.42  E-value=1.3e-08  Score=101.76  Aligned_cols=131  Identities=13%  Similarity=0.089  Sum_probs=71.4

Q ss_pred             ccccEEeccCCCCCCCCCccccccc--CccccccCccCEEecCCCCCccc-ccc----c-cCCCCccEEecCCCCCcCc-
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREI--PENVEKLIHLKYLNLSGLRIESL-PET----L-CELYNLQKLDIRRCQDLRE-  402 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~l--p~~~~~l~~L~~L~l~~~~l~~l-p~~----i-~~L~~L~~L~l~~~~~~~~-  402 (561)
                      .+|++|+|++         |.++..  ..-...+++|++|+|++|.++.. ...    + ...++|++|+|++|. ++. 
T Consensus       101 ~~L~~L~Ls~---------n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~-l~~~  170 (372)
T 3un9_A          101 HALDEVNLAS---------CQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNP-LTAA  170 (372)
T ss_dssp             SCEEEEECTT---------CCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSC-CHHH
T ss_pred             CCceEEEecC---------CCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCC-CChH
Confidence            5777777777         334321  11123355677777777776522 122    2 235677777777776 432 


Q ss_pred             ----cCcccccCCCCCeEEcCCCCCCc----cCcccccCCcCCcccCceeecCccCCCCccC-chhhhccCCCCceEEcC
Q 043450          403 ----LPTGIGKLKNMRSLLNGDTSSLK----YLPIGISRLTSLRTLEKFVVGGGVDGNNTCR-LESLKNLQLLRECRVEG  473 (561)
Q Consensus       403 ----lp~~~~~l~~L~~L~l~~~~~~~----~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~-~~~l~~L~~L~~l~i~~  473 (561)
                          ++..+...++|++|++++|....    .++..+...++|++|+  +.+|.+....... ...+...+.|+.|++++
T Consensus       171 ~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~--Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~  248 (372)
T 3un9_A          171 GVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELN--VAYNGAGDTAALALARAAREHPSLELLHLYF  248 (372)
T ss_dssp             HHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEE--CCSSCCCHHHHHHHHHHHHHCSSCCEEECTT
T ss_pred             HHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEE--CCCCCCCHHHHHHHHHHHHhCCCCCEEeccC
Confidence                44445667777777777776321    2344455666777776  5555442111111 12244456667676665


Q ss_pred             C
Q 043450          474 L  474 (561)
Q Consensus       474 ~  474 (561)
                      .
T Consensus       249 N  249 (372)
T 3un9_A          249 N  249 (372)
T ss_dssp             S
T ss_pred             C
Confidence            3

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.36  E-value=9.5e-07  Score=89.17  Aligned_cols=194  Identities=9%  Similarity=0.106  Sum_probs=117.6

Q ss_pred             HHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccC
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      ..|.++.+|+.+++..         +.++.+|.......+|+.+.+..+ ++.++ ..|.++++|+.+++..+  +..++
T Consensus       174 ~aF~~c~~L~~l~l~~---------n~l~~I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~--l~~I~  241 (401)
T 4fdw_A          174 DIFYYCYNLKKADLSK---------TKITKLPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN--VSTIG  241 (401)
T ss_dssp             STTTTCTTCCEEECTT---------SCCSEECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT--CCEEC
T ss_pred             HHhhCcccCCeeecCC---------CcceEechhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC--ccCcc
Confidence            3467778888888877         667777655444577888888744 66665 34677788888888763  56665


Q ss_pred             c-ccccCCCCCeEEcCCCCCCccCc-ccccCCcCCcccCceeecCccC-----CCCccCchhhhccCCCCceEEcCCCCC
Q 043450          405 T-GIGKLKNMRSLLNGDTSSLKYLP-IGISRLTSLRTLEKFVVGGGVD-----GNNTCRLESLKNLQLLRECRVEGLSNV  477 (561)
Q Consensus       405 ~-~~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~~~~~~~~~~-----~~~~~~~~~l~~L~~L~~l~i~~~~~~  477 (561)
                      . .+.+ .+|+.+.+..+  +..++ ..|.++++|+.+.  +.++...     ......+..+.+   |+.+.+..    
T Consensus       242 ~~aF~~-~~L~~i~lp~~--i~~I~~~aF~~c~~L~~l~--l~~~~~~~~~~~~I~~~aF~~c~~---L~~l~l~~----  309 (401)
T 4fdw_A          242 QEAFRE-SGITTVKLPNG--VTNIASRAFYYCPELAEVT--TYGSTFNDDPEAMIHPYCLEGCPK---LARFEIPE----  309 (401)
T ss_dssp             TTTTTT-CCCSEEEEETT--CCEECTTTTTTCTTCCEEE--EESSCCCCCTTCEECTTTTTTCTT---CCEECCCT----
T ss_pred             cccccc-CCccEEEeCCC--ccEEChhHhhCCCCCCEEE--eCCccccCCcccEECHHHhhCCcc---CCeEEeCC----
Confidence            4 3444 67888877432  44553 4577888888886  4443321     112233444444   44433321    


Q ss_pred             CCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChh-hhccc-CC
Q 043450          478 SHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKW-LTLLT-NL  555 (561)
Q Consensus       478 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~-~~~l~-~L  555 (561)
                       .........|.++.+|+.+++..+ +.              .--...|..+ +|+.+.+.++....++.. +..++ ++
T Consensus       310 -~i~~I~~~aF~~c~~L~~l~lp~~-l~--------------~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l  372 (401)
T 4fdw_A          310 -SIRILGQGLLGGNRKVTQLTIPAN-VT--------------QINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDI  372 (401)
T ss_dssp             -TCCEECTTTTTTCCSCCEEEECTT-CC--------------EECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTC
T ss_pred             -ceEEEhhhhhcCCCCccEEEECcc-cc--------------EEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCc
Confidence             122333456788889999988533 11              1113457777 899999999886665533 34553 56


Q ss_pred             cEEEc
Q 043450          556 RDLNL  560 (561)
Q Consensus       556 ~~L~L  560 (561)
                      +.|.+
T Consensus       373 ~~l~v  377 (401)
T 4fdw_A          373 TVIRV  377 (401)
T ss_dssp             CEEEE
T ss_pred             cEEEe
Confidence            66654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.32  E-value=4.5e-07  Score=89.98  Aligned_cols=193  Identities=19%  Similarity=0.140  Sum_probs=104.8

Q ss_pred             ccccccEEeccCCCCCCCCCc-ccccccCccccccCccCEEecCCCCCc----------cccccccCCCCccEEecCCCC
Q 043450          330 KLACLRALVISQPSPIFRPDL-NLIREIPENVEKLIHLKYLNLSGLRIE----------SLPETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~-~~~~~lp~~~~~l~~L~~L~l~~~~l~----------~lp~~i~~L~~L~~L~l~~~~  398 (561)
                      ....++.|.+..+. +..... ..+..+..++..+++|+.|.+......          .++..+..+++|+.|++++|.
T Consensus       105 ~~~~v~~L~lg~~~-~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~  183 (362)
T 2ra8_A          105 KLPSLKQITIGXWG-YEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTN  183 (362)
T ss_dssp             TGGGCSEEEECCCC-SSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCB
T ss_pred             CchhcceEEEcccc-cCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCC
Confidence            34567788887642 100000 012234555677889999988654321          244445667788888887764


Q ss_pred             CcCccCcccccCCCCCeEEcCCCCCCccCcccc--cCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCC
Q 043450          399 DLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGI--SRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSN  476 (561)
Q Consensus       399 ~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i--~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~  476 (561)
                      .+ .+|. + .+++|++|++..|.........+  ..+++|+.|++....+...+  ...+..+..+             
T Consensus       184 ~l-~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~--~~~~~~l~~~-------------  245 (362)
T 2ra8_A          184 NL-SIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGF--DGDMNVFRPL-------------  245 (362)
T ss_dssp             TC-BCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTC--CSCGGGTGGG-------------
T ss_pred             Cc-eecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEecccccccc--chhHHHHHHH-------------
Confidence            22 3443 3 36777777776665222111222  25667777663322221100  0001111100             


Q ss_pred             CCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCC-----CChhhhc
Q 043450          477 VSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNI-----FPKWLTL  551 (561)
Q Consensus       477 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~-----lp~~~~~  551 (561)
                               .....+++|+.|.|++|.+.+.           ..........+++|+.|+|+.|.+..     ++..+..
T Consensus       246 ---------l~~~~~p~Lr~L~L~~~~i~~~-----------~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~  305 (362)
T 2ra8_A          246 ---------FSKDRFPNLKWLGIVDAEEQNV-----------VVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDK  305 (362)
T ss_dssp             ---------SCTTTCTTCCEEEEESCTTHHH-----------HHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHH
T ss_pred             ---------HhcCCCCCcCEEeCCCCCCchH-----------HHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhccc
Confidence                     0113468999999987763210           11112222457899999999988653     4555578


Q ss_pred             ccCCcEEEcC
Q 043450          552 LTNLRDLNLD  561 (561)
Q Consensus       552 l~~L~~L~L~  561 (561)
                      +++|+.|+|+
T Consensus       306 l~~L~~L~L~  315 (362)
T 2ra8_A          306 IKHLKFINMK  315 (362)
T ss_dssp             HTTCSEEECC
T ss_pred             CCcceEEECC
Confidence            8999999985

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.21  E-value=5.3e-06  Score=83.71  Aligned_cols=191  Identities=13%  Similarity=0.119  Sum_probs=119.1

Q ss_pred             cccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc-ccccC
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT-GIGKL  410 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l  410 (561)
                      +|+.+.+..          .++.++ ..|..+.+|+.+++..|.++.+|.......+|+.+.+..+  +..++. .+.++
T Consensus       158 ~L~~i~lp~----------~l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~--l~~I~~~aF~~~  225 (401)
T 4fdw_A          158 TVQEIVFPS----------TLEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT--LKEIGSQAFLKT  225 (401)
T ss_dssp             CCCEEECCT----------TCCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT--CCEECTTTTTTC
T ss_pred             CceEEEeCC----------CccEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEEEeCCc--hheehhhHhhCC
Confidence            577777764          345553 4567788899999988888888876555788888888753  666654 67788


Q ss_pred             CCCCeEEcCCCCCCccCccc-ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCC-CCcchhhhccc
Q 043450          411 KNMRSLLNGDTSSLKYLPIG-ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNV-SHVDEAERLQL  488 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp~~-i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~-~~~~~~~~~~l  488 (561)
                      ++|+.+.+..+  +..++.. |.+ ++|+.+.  + .+.........+   ..++.|+.+.+.+.... ..........|
T Consensus       226 ~~L~~l~l~~~--l~~I~~~aF~~-~~L~~i~--l-p~~i~~I~~~aF---~~c~~L~~l~l~~~~~~~~~~~~I~~~aF  296 (401)
T 4fdw_A          226 SQLKTIEIPEN--VSTIGQEAFRE-SGITTVK--L-PNGVTNIASRAF---YYCPELAEVTTYGSTFNDDPEAMIHPYCL  296 (401)
T ss_dssp             TTCCCEECCTT--CCEECTTTTTT-CCCSEEE--E-ETTCCEECTTTT---TTCTTCCEEEEESSCCCCCTTCEECTTTT
T ss_pred             CCCCEEecCCC--ccCcccccccc-CCccEEE--e-CCCccEEChhHh---hCCCCCCEEEeCCccccCCcccEECHHHh
Confidence            88998888764  4555544 444 6777775  3 222222222233   34455555555432110 11112344567


Q ss_pred             ccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCC-hhhhcccCCcEEEcC
Q 043450          489 YNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFP-KWLTLLTNLRDLNLD  561 (561)
Q Consensus       489 ~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp-~~~~~l~~L~~L~L~  561 (561)
                      .++.+|+.+++.. .+..              --...|..+++|+.+.+..+ +..++ ..+.++ +|+.|+++
T Consensus       297 ~~c~~L~~l~l~~-~i~~--------------I~~~aF~~c~~L~~l~lp~~-l~~I~~~aF~~~-~L~~l~l~  353 (401)
T 4fdw_A          297 EGCPKLARFEIPE-SIRI--------------LGQGLLGGNRKVTQLTIPAN-VTQINFSAFNNT-GIKEVKVE  353 (401)
T ss_dssp             TTCTTCCEECCCT-TCCE--------------ECTTTTTTCCSCCEEEECTT-CCEECTTSSSSS-CCCEEEEC
T ss_pred             hCCccCCeEEeCC-ceEE--------------EhhhhhcCCCCccEEEECcc-ccEEcHHhCCCC-CCCEEEEc
Confidence            8888888888872 2111              11335677889999999655 44444 345677 88888764

>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=97.86  E-value=4.8e-06  Score=78.32  Aligned_cols=79  Identities=24%  Similarity=0.250  Sum_probs=51.1

Q ss_pred             cccCccCEEecCCCCCccc---cccccCCCCccEEecCCCCCcCccCcccccCC--CCCeEEcCCCCCCccCcc------
Q 043450          361 EKLIHLKYLNLSGLRIESL---PETLCELYNLQKLDIRRCQDLRELPTGIGKLK--NMRSLLNGDTSSLKYLPI------  429 (561)
Q Consensus       361 ~~l~~L~~L~l~~~~l~~l---p~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~--~L~~L~l~~~~~~~~lp~------  429 (561)
                      ..+++|++|+|++|.|+.+   |..+..+++|+.|+|++|. +..+. .+..+.  +|+.|++++|...+.+|.      
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 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSER-ELDKIKGLKLEELWLDGNSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSC-CCSGG-GGGGGTTSCCSEEECTTSTTGGGCSSHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCc-cCCch-hhhhcccCCcceEEccCCcCccccCcchhHHH
Confidence            3466777777777776643   3455677777777777776 55542 244444  777778877775554542      


Q ss_pred             -cccCCcCCcccC
Q 043450          430 -GISRLTSLRTLE  441 (561)
Q Consensus       430 -~i~~l~~L~~L~  441 (561)
                       .+..+++|+.|+
T Consensus       245 ~il~~~P~L~~LD  257 (267)
T 3rw6_A          245 AIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHCTTCCEES
T ss_pred             HHHHHCcccCeEC
Confidence             256677777776

>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=97.76  E-value=3.1e-05  Score=72.75  Aligned_cols=82  Identities=22%  Similarity=0.193  Sum_probs=64.7

Q ss_pred             HHHhccccccEEeccCCCCCCCCCccccccc---CccccccCccCEEecCCCCCccccccccCCC--CccEEecCCCCCc
Q 043450          326 ELFSKLACLRALVISQPSPIFRPDLNLIREI---PENVEKLIHLKYLNLSGLRIESLPETLCELY--NLQKLDIRRCQDL  400 (561)
Q Consensus       326 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l---p~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~--~L~~L~l~~~~~~  400 (561)
                      -....+++|+.|+|++         |.+..+   |..+..+++|++|+|++|.|..+ ..+..+.  +|++|+|++|...
T Consensus       164 i~~~~l~~L~~L~Ls~---------N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~  233 (267)
T 3rw6_A          164 IIEENIPELLSLNLSN---------NRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLC  233 (267)
T ss_dssp             HHHHHCTTCCEEECTT---------SCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTG
T ss_pred             HHHhhCCCCCEEECCC---------CCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCc
Confidence            3346789999999999         666654   46677899999999999999876 3355555  9999999999955


Q ss_pred             CccCc-------ccccCCCCCeEE
Q 043450          401 RELPT-------GIGKLKNMRSLL  417 (561)
Q Consensus       401 ~~lp~-------~~~~l~~L~~L~  417 (561)
                      ..+|.       .+..+++|+.||
T Consensus       234 ~~~~~~~~y~~~il~~~P~L~~LD  257 (267)
T 3rw6_A          234 DTFRDQSTYISAIRERFPKLLRLD  257 (267)
T ss_dssp             GGCSSHHHHHHHHHHHCTTCCEES
T ss_pred             cccCcchhHHHHHHHHCcccCeEC
Confidence            55652       367899999996

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.71  E-value=2.3e-05  Score=69.82  Aligned_cols=112  Identities=14%  Similarity=0.123  Sum_probs=76.8

Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCccccc-----ccCccccccCccCEEecCCCCCc-----cccccccCCCCcc
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIR-----EIPENVEKLIHLKYLNLSGLRIE-----SLPETLCELYNLQ  390 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----~lp~~~~~l~~L~~L~l~~~~l~-----~lp~~i~~L~~L~  390 (561)
                      ...+...+.....|+.|+|++|.        .++     .+...+...++|++|+|++|.+.     .+...+...++|+
T Consensus        25 ~~~l~~~l~~~~~L~~L~L~~n~--------~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~   96 (185)
T 1io0_A           25 EETLKRIQNNDPDLEEVNLNNIM--------NIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLK   96 (185)
T ss_dssp             HHHHHHHHTTCTTCCEEECTTCT--------TCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHhcCCCCCEEEecCCC--------CCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcC
Confidence            44566677888999999999830        443     34455666788999999999876     2455566778899


Q ss_pred             EEecCCCCCcCc-----cCcccccCCCCCeEEc--CCCCCCcc----CcccccCCcCCcccC
Q 043450          391 KLDIRRCQDLRE-----LPTGIGKLKNMRSLLN--GDTSSLKY----LPIGISRLTSLRTLE  441 (561)
Q Consensus       391 ~L~l~~~~~~~~-----lp~~~~~l~~L~~L~l--~~~~~~~~----lp~~i~~l~~L~~L~  441 (561)
                      +|+|++|. ++.     +...+...++|++|++  ++|.....    +...+...++|+.|+
T Consensus        97 ~L~L~~N~-i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~  157 (185)
T 1io0_A           97 SLNVESNF-ISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFG  157 (185)
T ss_dssp             EEECCSSC-CCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEE
T ss_pred             EEECcCCc-CCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEe
Confidence            99999987 543     4556677788999998  66763221    223344456666666

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.63  E-value=5.9e-05  Score=67.10  Aligned_cols=89  Identities=19%  Similarity=0.130  Sum_probs=68.8

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccc-----cCccccccCccCEEecCCCCCcc-----ccccccCCCCccEEe
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIRE-----IPENVEKLIHLKYLNLSGLRIES-----LPETLCELYNLQKLD  393 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-----lp~~~~~l~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L~  393 (561)
                      +...+....+|++|+|++         |.++.     +...+...++|++|+|++|.|..     +...+...+.|++|+
T Consensus        57 l~~~L~~~~~L~~L~Ls~---------n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~  127 (185)
T 1io0_A           57 CAEALKTNTYVKKFSIVG---------TRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELR  127 (185)
T ss_dssp             HHHHHTTCCSCCEEECTT---------SCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEE
T ss_pred             HHHHHHhCCCcCEEECcC---------CCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEE
Confidence            444566788999999999         55543     44555666899999999999873     567788889999999


Q ss_pred             c--CCCCCcCc-----cCcccccCCCCCeEEcCCCC
Q 043450          394 I--RRCQDLRE-----LPTGIGKLKNMRSLLNGDTS  422 (561)
Q Consensus       394 l--~~~~~~~~-----lp~~~~~l~~L~~L~l~~~~  422 (561)
                      |  ++|. ++.     +...+...++|++|++++|.
T Consensus       128 L~~~~N~-i~~~g~~~l~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          128 IDNQSQP-LGNNVEMEIANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             CCCCSSC-CCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             ecCCCCC-CCHHHHHHHHHHHHhCCCcCEEeccCCC
Confidence            9  7787 443     34456667899999999987

>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=4.2e-05  Score=66.62  Aligned_cols=85  Identities=20%  Similarity=0.332  Sum_probs=55.2

Q ss_pred             cccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCC-Cc-cccccccCC----CCccEEecCCCCCcCcc-C
Q 043450          333 CLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLR-IE-SLPETLCEL----YNLQKLDIRRCQDLREL-P  404 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~-l~-~lp~~i~~L----~~L~~L~l~~~~~~~~l-p  404 (561)
                      .|+.||+++|.         ++.. -..+..+++|++|+|++|. |+ .--..++.+    ++|++|++++|..++.- -
T Consensus        62 ~L~~LDLs~~~---------Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl  132 (176)
T 3e4g_A           62 KIQAIDATDSC---------IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGI  132 (176)
T ss_dssp             CEEEEEEESCC---------CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHH
T ss_pred             eEeEEeCcCCC---------ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHH
Confidence            58888888853         3221 1335667888888888886 66 223445554    36888888888766532 1


Q ss_pred             cccccCCCCCeEEcCCCCCCcc
Q 043450          405 TGIGKLKNMRSLLNGDTSSLKY  426 (561)
Q Consensus       405 ~~~~~l~~L~~L~l~~~~~~~~  426 (561)
                      ..+..+++|++|++++|..++.
T Consensus       133 ~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          133 IALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHGGGCTTCCEEEEESCTTCCC
T ss_pred             HHHhcCCCCCEEECCCCCCCCc
Confidence            2456778888888888875543

>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=97.35  E-value=6.9e-05  Score=65.28  Aligned_cols=60  Identities=12%  Similarity=0.152  Sum_probs=37.4

Q ss_pred             CccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCcc-CcccccC----CCCCeEEcCCCCC
Q 043450          364 IHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLREL-PTGIGKL----KNMRSLLNGDTSS  423 (561)
Q Consensus       364 ~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~l-p~~~~~l----~~L~~L~l~~~~~  423 (561)
                      .+|+.||+++|.|+ .--..+.++++|++|+|++|..++.- -..+..+    ++|++|++++|..
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~  126 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGN  126 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCc
Confidence            46888888888766 22345677788888888887655432 1123333    2567777766653

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=96.50  E-value=0.0022  Score=64.38  Aligned_cols=143  Identities=13%  Similarity=0.148  Sum_probs=68.2

Q ss_pred             ccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCc-ccccCCcCCcccCceeecCccCCCCccCchhhh
Q 043450          383 LCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLP-IGISRLTSLRTLEKFVVGGGVDGNNTCRLESLK  461 (561)
Q Consensus       383 i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~  461 (561)
                      +..+..|+.+.+..+. ...-...+..+..++.+......    +| ..+..+.+|+.+.  +.. +........+....
T Consensus       249 f~~~~~l~~~~~~~~~-~~i~~~~F~~~~~l~~~~~~~~~----i~~~~F~~~~~L~~i~--l~~-~i~~I~~~aF~~c~  320 (394)
T 4fs7_A          249 FYGCTDLESISIQNNK-LRIGGSLFYNCSGLKKVIYGSVI----VPEKTFYGCSSLTEVK--LLD-SVKFIGEEAFESCT  320 (394)
T ss_dssp             TTTCSSCCEEEECCTT-CEECSCTTTTCTTCCEEEECSSE----ECTTTTTTCTTCCEEE--ECT-TCCEECTTTTTTCT
T ss_pred             ccccccceeEEcCCCc-ceeeccccccccccceeccCcee----eccccccccccccccc--ccc-ccceechhhhcCCC
Confidence            4455566666655432 21122244555556555544322    22 2345556666654  221 11111122333333


Q ss_pred             ccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHH-hhcCCCCCCCceEEEeec
Q 043450          462 NLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQL-LEALQPPVNVEELWIVYY  540 (561)
Q Consensus       462 ~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~-~~~l~~~~~L~~L~l~~~  540 (561)
                      +   |+.+.+.     ..........|.++.+|+.+++..+ +               ..+ ...|..+++|+++++..+
T Consensus       321 ~---L~~i~lp-----~~v~~I~~~aF~~c~~L~~i~lp~~-l---------------~~I~~~aF~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          321 S---LVSIDLP-----YLVEEIGKRSFRGCTSLSNINFPLS-L---------------RKIGANAFQGCINLKKVELPKR  376 (394)
T ss_dssp             T---CCEECCC-----TTCCEECTTTTTTCTTCCEECCCTT-C---------------CEECTTTBTTCTTCCEEEEEGG
T ss_pred             C---CCEEEeC-----CcccEEhHHhccCCCCCCEEEECcc-c---------------cEehHHHhhCCCCCCEEEECCC
Confidence            3   3333331     1122233345777788888777532 1               111 235677788888888655


Q ss_pred             CCCCCChhhhcccCCcEE
Q 043450          541 GGNIFPKWLTLLTNLRDL  558 (561)
Q Consensus       541 ~~~~lp~~~~~l~~L~~L  558 (561)
                      - ..+...+.++++|+.+
T Consensus       377 ~-~~~~~~F~~c~~L~~I  393 (394)
T 4fs7_A          377 L-EQYRYDFEDTTKFKWI  393 (394)
T ss_dssp             G-GGGGGGBCTTCEEEEE
T ss_pred             C-EEhhheecCCCCCcEE
Confidence            3 2334445667777654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=96.16  E-value=0.0041  Score=62.36  Aligned_cols=74  Identities=12%  Similarity=0.142  Sum_probs=31.2

Q ss_pred             ccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcc
Q 043450          362 KLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRT  439 (561)
Q Consensus       362 ~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~  439 (561)
                      ....|+.+.+..+...--...+..+..++.+......    +|. .+..+.+|+.+.+..+  +..++. .|.++++|+.
T Consensus       251 ~~~~l~~~~~~~~~~~i~~~~F~~~~~l~~~~~~~~~----i~~~~F~~~~~L~~i~l~~~--i~~I~~~aF~~c~~L~~  324 (394)
T 4fs7_A          251 GCTDLESISIQNNKLRIGGSLFYNCSGLKKVIYGSVI----VPEKTFYGCSSLTEVKLLDS--VKFIGEEAFESCTSLVS  324 (394)
T ss_dssp             TCSSCCEEEECCTTCEECSCTTTTCTTCCEEEECSSE----ECTTTTTTCTTCCEEEECTT--CCEECTTTTTTCTTCCE
T ss_pred             ccccceeEEcCCCcceeeccccccccccceeccCcee----eccccccccccccccccccc--cceechhhhcCCCCCCE
Confidence            3444555555443322222334445555555444321    111 3444555555555432  233322 2445555555


Q ss_pred             cC
Q 043450          440 LE  441 (561)
Q Consensus       440 L~  441 (561)
                      ++
T Consensus       325 i~  326 (394)
T 4fs7_A          325 ID  326 (394)
T ss_dssp             EC
T ss_pred             EE
Confidence            54

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=95.92  E-value=0.04  Score=55.06  Aligned_cols=31  Identities=13%  Similarity=0.249  Sum_probs=17.8

Q ss_pred             eEEEEeeecCCCCCc-ccccccCceeEEEEccC
Q 043450          244 VRHIGLNFQRGASFP-MSFFEFDRLRSLLIYDT  275 (561)
Q Consensus       244 ~~~l~l~~~~~~~~~-~~~~~~~~Lr~L~~~~~  275 (561)
                      ++.+.+.. .++.+. .+|.++.+|+.+.+..+
T Consensus        66 L~sI~iP~-svt~Ig~~AF~~C~~L~~i~~~~n   97 (394)
T 4gt6_A           66 LTSVQIPD-TVTEIGSNAFYNCTSLKRVTIQDN   97 (394)
T ss_dssp             CCEEEECT-TCCEECTTTTTTCTTCCEEEEGGG
T ss_pred             CEEEEECC-CeeEEhHHHhhCCccCceEeecCC
Confidence            44444432 233333 56778888888877654

>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=95.66  E-value=0.068  Score=52.24  Aligned_cols=169  Identities=10%  Similarity=0.047  Sum_probs=93.9

Q ss_pred             CCcEEEEEcCchHHHhhc----------C--CcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCC
Q 043450            4 PGSKIVVTTRNVSVARMM----------R--STNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGL   71 (561)
Q Consensus         4 ~GsrIivTTR~~~v~~~~----------~--~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~Gl   71 (561)
                      ++.++|+|+|.......+          .  ....+++.||+.+|+.+++...+-...  ...+.    ..+|++.|+|.
T Consensus       169 ~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~--~~~~~----~~~i~~~t~G~  242 (357)
T 2fna_A          169 KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEAD--IDFKD----YEVVYEKIGGI  242 (357)
T ss_dssp             TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHT--CCCCC----HHHHHHHHCSC
T ss_pred             CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcC--CCCCc----HHHHHHHhCCC
Confidence            467899999987643221          1  125899999999999999987531101  11123    27899999999


Q ss_pred             hhhHHHHhhhccccccccccCCcchhHHHH-HHHhhhhhhhhhhcccccchhh-hcc--cCCCCChhhhhhhhhhcccCC
Q 043450           72 PLAAKVTGNLLCDKRTGNLLSSKSIVNEWQ-RILDSEVWKVEEIKQGLLAPLL-LSY--NDLPSNSMVKRCFSYCAVFPK  147 (561)
Q Consensus        72 PLal~~~g~~L~~~~~~~~l~~~~~~~~w~-~~~~~~~~~~~~~~~~~~~~l~-~Sy--~~L~~~~~~k~cfl~~a~fp~  147 (561)
                      |+++..++..+....         ....|- ...+...       ..+...+. ..+  ..+++  ..+..+..+|+   
T Consensus       243 P~~l~~~~~~~~~~~---------~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~l~~--~~~~~l~~la~---  301 (357)
T 2fna_A          243 PGWLTYFGFIYLDNK---------NLDFAINQTLEYAK-------KLILKEFENFLHGREIARK--RYLNIMRTLSK---  301 (357)
T ss_dssp             HHHHHHHHHHHHHHC---------CHHHHHHHHHHHHH-------HHHHHHHHHHHTTCGGGHH--HHHHHHHHHTT---
T ss_pred             HHHHHHHHHHHcccc---------chHHHHHHHHHHHH-------HHHHHHHHHHhhccccccH--HHHHHHHHHHc---
Confidence            999999987643211         011121 1111100       00001111 111  14666  67888888887   


Q ss_pred             CcccCHHHHHHHHH-HcCCCCCCcchhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEe-cHHHHHH
Q 043450          148 DYNMNKRELINLWM-AQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKM-HDIVHDF  215 (561)
Q Consensus       148 ~~~i~~~~Li~~w~-a~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~m-hdlv~~~  215 (561)
                      +.  +...+..... ..|.  ...    ......+++.|.+.+++.... +       .|++ |+++++.
T Consensus       302 g~--~~~~l~~~~~~~~g~--~~~----~~~~~~~L~~L~~~gli~~~~-~-------~y~f~~~~~~~~  355 (357)
T 2fna_A          302 CG--KWSDVKRALELEEGI--EIS----DSEIYNYLTQLTKHSWIIKEG-E-------KYCPSEPLISLA  355 (357)
T ss_dssp             CB--CHHHHHHHHHHHHCS--CCC----HHHHHHHHHHHHHTTSEEESS-S-------CEEESSHHHHHH
T ss_pred             CC--CHHHHHHHHHHhcCC--CCC----HHHHHHHHHHHHhCCCEEecC-C-------EEEecCHHHHHh
Confidence            22  3344432221 1121  000    123466899999999997642 1       1665 6777654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.51  E-value=0.02  Score=47.10  Aligned_cols=34  Identities=24%  Similarity=0.265  Sum_probs=16.8

Q ss_pred             ccCEEecCCCCCcccccc-ccCCCCccEEecCCCC
Q 043450          365 HLKYLNLSGLRIESLPET-LCELYNLQKLDIRRCQ  398 (561)
Q Consensus       365 ~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  398 (561)
                      +|++|+|++|.|+.+|.. +..+++|++|+|++|.
T Consensus        32 ~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           32 DTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             TCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             CCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            455555555555555432 3444555555555544

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.40  E-value=0.021  Score=46.97  Aligned_cols=53  Identities=19%  Similarity=0.279  Sum_probs=44.8

Q ss_pred             CEEecCCCCCc--cccccccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCC
Q 043450          367 KYLNLSGLRIE--SLPETLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTS  422 (561)
Q Consensus       367 ~~L~l~~~~l~--~lp~~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~  422 (561)
                      ..++.+++.++  .+|..+.  .+|++|+|++|. ++.+|. .+..+++|+.|+|++|.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGNN-LTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTSC-CSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCCc-CCccChhhhhhccccCEEEecCCC
Confidence            47888898888  8987654  579999999998 888876 46789999999999986

>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=94.93  E-value=0.1  Score=52.16  Aligned_cols=169  Identities=9%  Similarity=-0.009  Sum_probs=90.0

Q ss_pred             CcEEEEEcCchHHHhhcC---------CcceEeCCCCChhhhHHHHHHH---hcCCCCCCCCCCHHHHHHHHHHHcC---
Q 043450            5 GSKIVVTTRNVSVARMMR---------STNIISIKPLPEDEFWSLFERF---AFFGHSSVDREKLEPIARQIARKCK---   69 (561)
Q Consensus         5 GsrIivTTR~~~v~~~~~---------~~~~~~v~~L~~~~a~~Lf~~~---a~~~~~~~~~~~~~~~~~~iv~~c~---   69 (561)
                      .-.||+|||+..+...+.         ....+++++++.++++++|...   ++...     .--.+....|++.|+   
T Consensus       179 ~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~-----~~~~~~~~~i~~~~~~~~  253 (412)
T 1w5s_A          179 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDT-----VWEPRHLELISDVYGEDK  253 (412)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTT-----SCCHHHHHHHHHHHCGGG
T ss_pred             eEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCC-----CCChHHHHHHHHHHHHhc
Confidence            344888888765432221         1223999999999999999754   33211     112456788999999   


Q ss_pred             ---CChhhHHHHhhh-c--cccccccccCCcchhHHHHHHHhhhhhhhhhhcccccchhhhcccCCCCChhhhhhhhhhc
Q 043450           70 ---GLPLAAKVTGNL-L--CDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCA  143 (561)
Q Consensus        70 ---GlPLal~~~g~~-L--~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a  143 (561)
                         |.|..+..+... .  +....    ...-+.+.+..+.....       .  ...+.-++..|++  ..+.++..+|
T Consensus       254 ~~~G~p~~~~~l~~~a~~~a~~~~----~~~i~~~~v~~~~~~~~-------~--~~~~~~~l~~l~~--~~~~~l~aia  318 (412)
T 1w5s_A          254 GGDGSARRAIVALKMACEMAEAMG----RDSLSEDLVRKAVSENE-------A--ASIQTHELEALSI--HELIILRLIA  318 (412)
T ss_dssp             TSCCCHHHHHHHHHHHHHHHHHTT----CSSCCHHHHHHHHHHC---------------CCSSSSSCH--HHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHHHHHHcC----CCCCCHHHHHHHHHHHh-------c--cchHHHHHHcCCH--HHHHHHHHHH
Confidence               999655544432 1  10000    00111223332222110       0  2334557788988  7788888888


Q ss_pred             ccC--CCcccCHHHHHHHHHHc--CCCCCCcchhHHHHHHHHHHHHHhcCCccccc
Q 043450          144 VFP--KDYNMNKRELINLWMAQ--GYLNADEDEEMEMIGEEYFNILATRSFFQEFE  195 (561)
Q Consensus       144 ~fp--~~~~i~~~~Li~~w~a~--g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~  195 (561)
                      .+.  .+..+...++...+...  ....... . .......+++.|.+.+++....
T Consensus       319 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~l~~L~~~gli~~~~  372 (412)
T 1w5s_A          319 EATLGGMEWINAGLLRQRYEDASLTMYNVKP-R-GYTQYHIYLKHLTSLGLVDAKP  372 (412)
T ss_dssp             HHHHTTCSSBCHHHHHHHHHHHHHHHSCCCC-C-CHHHHHHHHHHHHHTTSEEEEC
T ss_pred             HHHhcCCCCccHHHHHHHHHHHHHhhcCCCC-C-CHHHHHHHHHHHHhCCCEEeec
Confidence            753  22335555554444211  0111000 0 0123456799999999997654

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=94.66  E-value=0.046  Score=54.58  Aligned_cols=17  Identities=6%  Similarity=-0.119  Sum_probs=9.8

Q ss_pred             cCCCCCCCceEEEeecC
Q 043450          525 ALQPPVNVEELWIVYYG  541 (561)
Q Consensus       525 ~l~~~~~L~~L~l~~~~  541 (561)
                      .|..+.+|+.+++.++.
T Consensus       352 aF~~C~~L~~i~~~~~~  368 (394)
T 4gt6_A          352 AFSNCTALNNIEYSGSR  368 (394)
T ss_dssp             GGTTCTTCCEEEESSCH
T ss_pred             HhhCCCCCCEEEECCce
Confidence            45556666666665543

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=94.05  E-value=0.095  Score=51.04  Aligned_cols=171  Identities=16%  Similarity=0.089  Sum_probs=93.7

Q ss_pred             CCcEEEEEcCchHHHhhc------------CCcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCC
Q 043450            4 PGSKIVVTTRNVSVARMM------------RSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGL   71 (561)
Q Consensus         4 ~GsrIivTTR~~~v~~~~------------~~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~Gl   71 (561)
                      ++.++|+|++...+...+            .....+++.||+.+|+.+++....-.....    --.+.+.+|++.|+|.
T Consensus       163 ~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~----~~~~~~~~i~~~tgG~  238 (350)
T 2qen_A          163 PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD----VPENEIEEAVELLDGI  238 (350)
T ss_dssp             TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC----CCHHHHHHHHHHHTTC
T ss_pred             CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHhCCC
Confidence            467899999886542221            112479999999999999997753211111    1134678999999999


Q ss_pred             hhhHHHHhhhccccccccccCCcchhHHH-HHHHhhhhhhhhhhcccccchhhhcccCCCCChhhhhhhhhhcccCCCcc
Q 043450           72 PLAAKVTGNLLCDKRTGNLLSSKSIVNEW-QRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAVFPKDYN  150 (561)
Q Consensus        72 PLal~~~g~~L~~~~~~~~l~~~~~~~~w-~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a~fp~~~~  150 (561)
                      |+++..++..+....         ....+ ....+.....+   ...+.   .+.+ . ++  ..+..+..+|+   +. 
T Consensus       239 P~~l~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~---~~~l~---~l~~-~-~~--~~~~~l~~la~---g~-  295 (350)
T 2qen_A          239 PGWLVVFGVEYLRNG---------DFGRAMKRTLEVAKGLI---MGELE---ELRR-R-SP--RYVDILRAIAL---GY-  295 (350)
T ss_dssp             HHHHHHHHHHHHHHC---------CHHHHHHHHHHHHHHHH---HHHHH---HHHH-H-CH--HHHHHHHHHHT---TC-
T ss_pred             HHHHHHHHHHHhccc---------cHhHHHHHHHHHHHHHH---HHHHH---HHHh-C-Ch--hHHHHHHHHHh---CC-
Confidence            999999987532210         00111 11111100000   00010   1111 1 44  67888888887   21 


Q ss_pred             cCHHHHHHHHHHcCCCCCCcchhHHHHHHHHHHHHHhcCCcccccCCCCCCceeeEEe-cHHHHHH
Q 043450          151 MNKRELINLWMAQGYLNADEDEEMEMIGEEYFNILATRSFFQEFEKDDDDDDILRCKM-HDIVHDF  215 (561)
Q Consensus       151 i~~~~Li~~w~a~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~~~~~~~~~~~~m-hdlv~~~  215 (561)
                      .....+........ . ...    ......+++.|.+.+++.... +       .|++ |.++++.
T Consensus       296 ~~~~~l~~~~~~~~-~-~~~----~~~~~~~l~~L~~~gli~~~~-~-------~y~~~~p~~~~~  347 (350)
T 2qen_A          296 NRWSLIRDYLAVKG-T-KIP----EPRLYALLENLKKMNWIVEED-N-------TYKIADPVVATV  347 (350)
T ss_dssp             CSHHHHHHHHHHTT-C-CCC----HHHHHHHHHHHHHTTSEEEET-T-------EEEESSHHHHHH
T ss_pred             CCHHHHHHHHHHHh-C-CCC----HHHHHHHHHHHHhCCCEEecC-C-------EEEEecHHHHHH
Confidence            34445544432211 0 111    223467899999999997641 1       2665 5666554

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=90.80  E-value=0.34  Score=47.78  Aligned_cols=100  Identities=19%  Similarity=0.251  Sum_probs=67.8

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCCCcCccCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      +..+..|+.+.+..         + ++.+. ..+....+|+.+.+..+ ++.++. .+.++.+|+.+.+.++. ++.++.
T Consensus       236 f~~~~~L~~i~lp~---------~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~-i~~I~~  303 (379)
T 4h09_A          236 FYGMKALDEIAIPK---------N-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSA-IETLEP  303 (379)
T ss_dssp             TTTCSSCCEEEECT---------T-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTT-CCEECT
T ss_pred             ccCCccceEEEcCC---------C-ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccc-cceehh
Confidence            55677788887765         2 44443 34566777888887543 555553 46778888888887765 666654


Q ss_pred             -ccccCCCCCeEEcCCCCCCccCcc-cccCCcCCcccC
Q 043450          406 -GIGKLKNMRSLLNGDTSSLKYLPI-GISRLTSLRTLE  441 (561)
Q Consensus       406 -~~~~l~~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~  441 (561)
                       .+.++.+|+.+.+..+  +..++. .|.++++|+.+.
T Consensus       304 ~aF~~c~~L~~i~lp~~--l~~I~~~aF~~C~~L~~i~  339 (379)
T 4h09_A          304 RVFMDCVKLSSVTLPTA--LKTIQVYAFKNCKALSTIS  339 (379)
T ss_dssp             TTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCCCC
T ss_pred             hhhcCCCCCCEEEcCcc--ccEEHHHHhhCCCCCCEEE
Confidence             6778888888888643  455543 467788888776

>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=90.48  E-value=0.29  Score=43.12  Aligned_cols=92  Identities=15%  Similarity=0.137  Sum_probs=54.5

Q ss_pred             hhHHHHHHhccccccEEeccCCCCCCCCCccccc-----ccCccccccCccCEEecCCCCCc-----cccccccCCCCcc
Q 043450          321 SSILRELFSKLACLRALVISQPSPIFRPDLNLIR-----EIPENVEKLIHLKYLNLSGLRIE-----SLPETLCELYNLQ  390 (561)
Q Consensus       321 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----~lp~~~~~l~~L~~L~l~~~~l~-----~lp~~i~~L~~L~  390 (561)
                      ...+......-..|+.|+|+++        +.++     .+-+.+..-++|+.|+|++|.|.     .+-..+..-+.|+
T Consensus        30 ~~~l~~ll~~n~~L~~L~L~~n--------n~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~  101 (197)
T 1pgv_A           30 ESCINRLREDDTDLKEVNINNM--------KRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLR  101 (197)
T ss_dssp             HHHHHHHHTTCSSCCEEECTTC--------CSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCC
T ss_pred             HHHHHHHHhcCCCccEEECCCC--------CCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccC
Confidence            3445555666778888888862        1333     23344455577888888888875     2334455567788


Q ss_pred             EEecCCCCCcCc-----cCcccccCCCCCeEEcCCC
Q 043450          391 KLDIRRCQDLRE-----LPTGIGKLKNMRSLLNGDT  421 (561)
Q Consensus       391 ~L~l~~~~~~~~-----lp~~~~~l~~L~~L~l~~~  421 (561)
                      +|+|++|. ++.     +-+.+..-+.|+.|++++|
T Consensus       102 ~L~L~~N~-Ig~~Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A          102 VLNVESNF-LTPELLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             EEECCSSB-CCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             eEecCCCc-CCHHHHHHHHHHHhhCCceeEEECCCC
Confidence            88888776 331     1122333345777777654

>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=90.18  E-value=0.38  Score=43.57  Aligned_cols=75  Identities=13%  Similarity=0.053  Sum_probs=52.3

Q ss_pred             CCCcEEEEEcCchHHH-hhc-CCcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhh
Q 043450            3 LPGSKIVVTTRNVSVA-RMM-RSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGN   80 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~-~~~-~~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~   80 (561)
                      ..+.++|+||+..... ..+ .....+++++++.++..+++...+.......    -.+..+.++++|+|.|..+..+..
T Consensus       154 ~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~G~~~~~~~~~~  229 (250)
T 1njg_A          154 PEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH----EPRALQLLARAAEGSLRDALSLTD  229 (250)
T ss_dssp             CTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCB----CHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCC----CHHHHHHHHHHcCCCHHHHHHHHH
Confidence            3577888888765321 111 1135899999999999999988774322111    134578899999999998887765


Q ss_pred             h
Q 043450           81 L   81 (561)
Q Consensus        81 ~   81 (561)
                      .
T Consensus       230 ~  230 (250)
T 1njg_A          230 Q  230 (250)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=89.97  E-value=0.86  Score=44.83  Aligned_cols=100  Identities=13%  Similarity=0.145  Sum_probs=64.0

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      +.....|+.+.+..          .+..++ ..+.....|+.+.+..+ ++.++ ..+.++.+|+.+.+..+  +..++.
T Consensus       213 f~~~~~l~~i~~~~----------~~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~--i~~i~~  279 (379)
T 4h09_A          213 FSYGKNLKKITITS----------GVTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK--VKTVPY  279 (379)
T ss_dssp             TTTCSSCSEEECCT----------TCCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC--CSEECT
T ss_pred             cccccccceeeecc----------ceeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc--ceeccc
Confidence            44566677776654          233332 33556677888887665 55554 34667788888888642  556654


Q ss_pred             -ccccCCCCCeEEcCCCCCCccCc-ccccCCcCCcccC
Q 043450          406 -GIGKLKNMRSLLNGDTSSLKYLP-IGISRLTSLRTLE  441 (561)
Q Consensus       406 -~~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~L~~L~  441 (561)
                       .+..+.+|+.+.+.++. +..++ ..|.++.+|+.+.
T Consensus       280 ~aF~~c~~L~~i~l~~~~-i~~I~~~aF~~c~~L~~i~  316 (379)
T 4h09_A          280 LLCSGCSNLTKVVMDNSA-IETLEPRVFMDCVKLSSVT  316 (379)
T ss_dssp             TTTTTCTTCCEEEECCTT-CCEECTTTTTTCTTCCEEE
T ss_pred             cccccccccccccccccc-cceehhhhhcCCCCCCEEE
Confidence             56777888888887665 45554 3467778888775

>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=84.58  E-value=1.4  Score=38.67  Aligned_cols=90  Identities=13%  Similarity=0.121  Sum_probs=62.1

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccc-----cCccccccCccCEEecCCCCCc-----cccccccCCCCccEEe
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIRE-----IPENVEKLIHLKYLNLSGLRIE-----SLPETLCELYNLQKLD  393 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-----lp~~~~~l~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~  393 (561)
                      +-..+..-..|+.|+|++         +.++.     +-+.+..-+.|++|+|++|.|.     .+-+.+..-+.|+.|+
T Consensus        62 la~aL~~N~~L~~L~L~~---------n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~  132 (197)
T 1pgv_A           62 LIEAACNSKHIEKFSLAN---------TAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFK  132 (197)
T ss_dssp             HHHHHTTCSCCCEEECTT---------SCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEE
T ss_pred             HHHHHhhCCCcCEEEccC---------CCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEE
Confidence            444566778899999999         55542     3344555688999999999986     2445566667899999


Q ss_pred             cCCCCC--cC-----ccCcccccCCCCCeEEcCCCC
Q 043450          394 IRRCQD--LR-----ELPTGIGKLKNMRSLLNGDTS  422 (561)
Q Consensus       394 l~~~~~--~~-----~lp~~~~~l~~L~~L~l~~~~  422 (561)
                      |++|..  +.     .+-+.+..-+.|+.|+++.+.
T Consensus       133 L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          133 ADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFAS  168 (197)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCC
T ss_pred             CCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCCC
Confidence            997642  22     122334455778888887655

>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=83.41  E-value=8.5  Score=37.48  Aligned_cols=196  Identities=12%  Similarity=0.052  Sum_probs=98.7

Q ss_pred             CCcEEEEEcCchHHHhhcCC-------cceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHc--------
Q 043450            4 PGSKIVVTTRNVSVARMMRS-------TNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKC--------   68 (561)
Q Consensus         4 ~GsrIivTTR~~~v~~~~~~-------~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c--------   68 (561)
                      .+..||+||++..+...+..       ...++++|++.++..+++...+-.....  ..--.+....+++++        
T Consensus       158 ~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  235 (389)
T 1fnn_A          158 FRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAE--GSYSEDILQMIADITGAQTPLDT  235 (389)
T ss_dssp             CCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCT--TSSCHHHHHHHHHHHSBSSTTCT
T ss_pred             CCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCC--CCCCHHHHHHHHHHHhhcccCCC
Confidence            46678888887654433321       2379999999999999998765210000  011234577888999        


Q ss_pred             -CCChhhH-HHHhhhcc--ccccccccCCcchhHHHHHHHhhhhhhhhhhcccccchhhhcccCCCCChhhhhhhhhhcc
Q 043450           69 -KGLPLAA-KVTGNLLC--DKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYCAV  144 (561)
Q Consensus        69 -~GlPLal-~~~g~~L~--~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~a~  144 (561)
                       +|.|-.+ .++-.+..  ....    ...-+.+....+....          ....+.-.+..|+.  ..+.++..++.
T Consensus       236 ~~G~~r~~~~~l~~a~~~a~~~~----~~~i~~~~v~~~~~~~----------~~~~~~~~l~~l~~--~~~~~L~~l~~  299 (389)
T 1fnn_A          236 NRGDARLAIDILYRSAYAAQQNG----RKHIAPEDVRKSSKEV----------LFGISEEVLIGLPL--HEKLFLLAIVR  299 (389)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHHTT----CSSCCHHHHHHHHHHH----------SCCCCHHHHHHSCH--HHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHHHHHhC----CCCcCHHHHHHHHHHH----------hhhhHHHHHHcCCH--HHHHHHHHHHH
Confidence             7876443 33332211  0000    0011122222222211          11223334566776  56666666665


Q ss_pred             cC---CCcccCHHHHHHHHHH----cCCCCCCcchhHHHHHHHHHHHHHhcCCcccccC----CCCCCcee---eEEecH
Q 043450          145 FP---KDYNMNKRELINLWMA----QGYLNADEDEEMEMIGEEYFNILATRSFFQEFEK----DDDDDDIL---RCKMHD  210 (561)
Q Consensus       145 fp---~~~~i~~~~Li~~w~a----~g~~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~~----~~~~~~~~---~~~mhd  210 (561)
                      +.   .+..+....+...+..    .|. ....    ......+++.|.+.+++.....    +..+....   .+..++
T Consensus       300 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~-~~~~----~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~  374 (389)
T 1fnn_A          300 SLKISHTPYITFGDAEESYKIVCEEYGE-RPRV----HSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLD  374 (389)
T ss_dssp             HHHHHCSSCEEHHHHHHHHHHHHHHTTC-CCCC----HHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHH
T ss_pred             HHhhccCCCccHHHHHHHHHHHHHHcCC-CCCC----HHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHH
Confidence            43   2213455555544433    221 1111    1234567899999999987554    11122111   123457


Q ss_pred             HHHHHHHHhhcc
Q 043450          211 IVHDFAQFVSRK  222 (561)
Q Consensus       211 lv~~~~~~i~~~  222 (561)
                      +...+...+..+
T Consensus       375 v~~~~~~~~~~~  386 (389)
T 1fnn_A          375 TLEAVITKLIKE  386 (389)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777666665543

>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=82.20  E-value=1.1  Score=42.87  Aligned_cols=73  Identities=16%  Similarity=0.036  Sum_probs=47.6

Q ss_pred             CcEEEEEcCchH-HHhhc--CCcceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhh
Q 043450            5 GSKIVVTTRNVS-VARMM--RSTNIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNL   81 (561)
Q Consensus         5 GsrIivTTR~~~-v~~~~--~~~~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~   81 (561)
                      +.++|.||.... +...+  ....++++++++.+|..+++...+......    --.+....++++|+|.|-.+..+...
T Consensus       138 ~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~----~~~~~~~~l~~~~~G~~r~l~~~l~~  213 (324)
T 1hqc_A          138 RFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR----ITEEAALEIGRRSRGTMRVAKRLFRR  213 (324)
T ss_dssp             CCEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC----CCHHHHHHHHHHSCSCHHHHHHHHHH
T ss_pred             CEEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC----CCHHHHHHHHHHccCCHHHHHHHHHH
Confidence            346676665432 11111  113589999999999999998877432211    12355788999999999877666544

---

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	561
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-18
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	4e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	4e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	2e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.002
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.002
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	5e-04
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	0.002
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.002
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	0.003

>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 = 82.9 bits (204), Expect = 3e-18
 Identities = 24/139 (17%), Positives = 42/139 (30%), Gaps = 19/139 (13%)

Query: 4   PGSKIVVTTRNVSVARMMRST-NIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIAR 62
              + +VTTR+V ++     T   I +  L  DE +   E +          EK E +  
Sbjct: 156 LRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG---EKEEDVLN 212

Query: 63  QIARKCKGLPLAAKVTGNLLCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPL 122
           +      G P    +       K    +     + N+ +      V  +           
Sbjct: 213 KTIELSSGNPATLMMFFKSCEPKTFEKM---AQLNNKLESRGLVGVECI----------T 259

Query: 123 LLSYNDLPSNSMVKRCFSY 141
             SY  L     ++RC   
Sbjct: 260 PYSYKSLAMA--LQRCVEV 276

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 43.7 bits (101), Expect = 4e-05
 Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 8/76 (10%)

Query: 363 LIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTS 422
              L+ LN+S  ++  LP        L++L       L E+P     LK     L+ + +
Sbjct: 283 PPSLEELNVSNNKLIELPALPP---RLERLIASFNH-LAEVPELPQNLKQ----LHVEYN 334

Query: 423 SLKYLPIGISRLTSLR 438
            L+  P     +  LR
Sbjct: 335 PLREFPDIPESVEDLR 350

>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 = 40.2 bits (92), Expect = 4e-04
 Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 6/66 (9%)

Query: 353 IREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKN 412
           +  + + +++      L L+ L + SLPE      +L+ L       L ELP     LK+
Sbjct: 29  VSRLRDCLDR--QAHELELNNLGLSSLPE---LPPHLESLVASCNS-LTELPELPQSLKS 82

Query: 413 MRSLLN 418
           +    N
Sbjct: 83  LLVDNN 88

>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 = 41.6 bits (96), Expect = 2e-04
 Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 2/81 (2%)

Query: 338 VISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRI--ESLPETLCELYNLQKLDIR 395
           ++SQ    FR   + + +          +++++LS   I   +L   L +   LQ L + 
Sbjct: 20  LLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLE 79

Query: 396 RCQDLRELPTGIGKLKNMRSL 416
             +    +   + K  N+  L
Sbjct: 80  GLRLSDPIVNTLAKNSNLVRL 100

>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 = 38.2 bits (87), Expect = 0.002
 Identities = 14/119 (11%), Positives = 38/119 (31%), Gaps = 3/119 (2%)

Query: 349 DLNLIREIPENVEKLI--HLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQ-DLRELPT 405
           DL      P+   +L+   +         ++         + +Q +D+     ++  L  
Sbjct: 6   DLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHG 65

Query: 406 GIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQ 464
            + +   +++L          +   +++ ++L  L      G  +      L S   L 
Sbjct: 66  ILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLD 124

>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 = 19/96 (19%), Positives = 39/96 (40%), Gaps = 16/96 (16%)

Query: 334 LRALVISQPSPIFR--PDLNLIREIPENVEK-----------LIHLKYLNLSGLRIESLP 380
           L +  I+Q +PI +   D  L  ++   + K           L  +  L    L I+S+ 
Sbjct: 1   LGSATITQDTPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSI- 59

Query: 381 ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSL 416
           + +  L NL +++    Q L ++   +  L  +  +
Sbjct: 60  DGVEYLNNLTQINFSNNQ-LTDIT-PLKNLTKLVDI 93

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.4 bits (88), Expect = 0.002
 Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 4/66 (6%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL 410
           N I +I   V  L  L+ L  +  ++  +   L  L N+  L     Q + +L   +  L
Sbjct: 317 NNISDISP-VSSLTKLQRLFFANNKVSDVSS-LANLTNINWLSAGHNQ-ISDLT-PLANL 372

Query: 411 KNMRSL 416
             +  L
Sbjct: 373 TRITQL 378

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.2 bits (88), Expect = 5e-04
 Identities = 20/106 (18%), Positives = 36/106 (33%), Gaps = 8/106 (7%)

Query: 355 EIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMR 414
            +  ++E+L+ + +L+LS  R+ +LP  L  L  L+ L                      
Sbjct: 11  TVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQEL 70

Query: 415 SLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESL 460
            L N            +     L  L        + GN+ C+ E +
Sbjct: 71  LLCNNRLQQSA-AIQPLVSCPRLVLLN-------LQGNSLCQEEGI 108

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.8 bits (84), Expect = 0.002
 Identities = 8/48 (16%), Positives = 17/48 (35%), Gaps = 1/48 (2%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQ 398
            LI +  +     +  + L+L G +I  +      L     +D    +
Sbjct: 6   ELIEQAAQYTN-AVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE 52

>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 = 37.6 bits (85), Expect = 0.002
 Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 361 EKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT 405
                   L++S  RI SLP     L NL+KL  R   +L++LPT
Sbjct: 198 HGASGPVILDISRTRIHSLPSYG--LENLKKLRARSTYNLKKLPT 240

>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 = 37.4 bits (85), Expect = 0.003
 Identities = 9/54 (16%), Positives = 17/54 (31%)

Query: 351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELP 404
            +   +P+ + +L  L  LN+S   +         L           + L   P
Sbjct: 255 RIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGSP 308

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	561
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.8
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.73
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.71
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.71
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.61
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.57
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.56
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.56
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.54
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.54
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.53
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.51
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.51
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.43
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.41
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.37
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.31
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.3
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.29
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.28
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.28
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.24
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.24
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.19
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.01
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.0
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.0
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.97
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.93
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.9
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.86
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.75
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.69
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.64
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.6
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.6
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.87
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.84
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.71
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.92
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.83
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	93.64
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	92.92
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	80.41

>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=99.80  E-value=3.8e-20  Score=175.71  Aligned_cols=122  Identities=19%  Similarity=0.199  Sum_probs=100.3

Q ss_pred             CCCcEEEEEcCchHHHhhcCCc-ceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhh
Q 043450            3 LPGSKIVVTTRNVSVARMMRST-NIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNL   81 (561)
Q Consensus         3 ~~GsrIivTTR~~~v~~~~~~~-~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~   81 (561)
                      ..|||||||||++.|+..+..+ ++|+|++|+.+||++||+++||....   .+..++++++||++|+|+||||+++|+.
T Consensus       155 ~~~srilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~---~~~~~~~~~~iv~~c~GlPLAl~~ig~~  231 (277)
T d2a5yb3         155 ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV---GEKEEDVLNKTIELSSGNPATLMMFFKS  231 (277)
T ss_dssp             HTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             ccCceEEEEeehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccC---chhhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            3689999999999999887665 68999999999999999999985432   2456889999999999999999999999


Q ss_pred             ccccccccccCCcchhHHHHHHHhhhhhhhhhhcccccchhhhcccCCCCChhhhhhhhhh
Q 043450           82 LCDKRTGNLLSSKSIVNEWQRILDSEVWKVEEIKQGLLAPLLLSYNDLPSNSMVKRCFSYC  142 (561)
Q Consensus        82 L~~~~~~~~l~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~Sy~~L~~~~~~k~cfl~~  142 (561)
                      |+.+.          .+.|....+....   ....++..++..||++||+  ++|.||.++
T Consensus       232 l~~k~----------~~~~~~~~~~L~~---~~~~~v~~il~~sY~~L~~--~lk~c~~~l  277 (277)
T d2a5yb3         232 CEPKT----------FEKMAQLNNKLES---RGLVGVECITPYSYKSLAM--ALQRCVEVL  277 (277)
T ss_dssp             CCSSS----------HHHHHHHHHHHHH---HCSSTTCCCSSSSSSSHHH--HHHHHHHTS
T ss_pred             hccCC----------HHHHHHHHHHHhc---CcHHHHHHHHHHHHhcccH--HHHHHHHhC
Confidence            76553          5677665554432   2357788999999999999  899999763

>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=99.73  E-value=2.2e-18  Score=167.49  Aligned_cols=205  Identities=21%  Similarity=0.256  Sum_probs=141.6

Q ss_pred             HHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccc-cccccCCCCccEEecCCCCCcCcc
Q 043450          325 RELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESL-PETLCELYNLQKLDIRRCQDLREL  403 (561)
Q Consensus       325 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~l  403 (561)
                      |..+.++++|++|+|+++.       +..+.+|..|++|++|++|++++|++..+ |..+..+.+|+++++++|.....+
T Consensus        69 p~~l~~L~~L~~L~Ls~~N-------~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~  141 (313)
T d1ogqa_          69 PSSLANLPYLNFLYIGGIN-------NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTL  141 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEET-------TEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCC
T ss_pred             ChHHhcCcccccccccccc-------ccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccC
Confidence            3457899999999998631       34458999999999999999999998854 566889999999999999988889


Q ss_pred             CcccccCCCCCeEEcCCCCCCccCcccccCCcCC-cccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcch
Q 043450          404 PTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSL-RTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDE  482 (561)
Q Consensus       404 p~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L-~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~  482 (561)
                      |..++++++|+.+++++|...+.+|..++.+..+ +.+.  ...+...+..+..+   ..+..+ .+.+..    .....
T Consensus       142 p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~--~~~n~l~~~~~~~~---~~l~~~-~l~l~~----~~~~~  211 (313)
T d1ogqa_         142 PPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMT--ISRNRLTGKIPPTF---ANLNLA-FVDLSR----NMLEG  211 (313)
T ss_dssp             CGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEE--CCSSEEEEECCGGG---GGCCCS-EEECCS----SEEEE
T ss_pred             chhhccCcccceeeccccccccccccccccccccccccc--cccccccccccccc---cccccc-cccccc----ccccc
Confidence            9999999999999999999778899999888876 5554  44555543333333   333222 122221    12223


Q ss_pred             hhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhcccCCcEEEcC
Q 043450          483 AERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       483 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~L~  561 (561)
                      ..+..+..+.+|+.++++.+.+..               .+..+..+++|+.|++++|.++ .+|.+++++++|+.|+|+
T Consensus       212 ~~~~~~~~~~~l~~l~~~~~~l~~---------------~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls  276 (313)
T d1ogqa_         212 DASVLFGSDKNTQKIHLAKNSLAF---------------DLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVS  276 (313)
T ss_dssp             CCGGGCCTTSCCSEEECCSSEECC---------------BGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECC
T ss_pred             cccccccccccccccccccccccc---------------cccccccccccccccCccCeecccCChHHhCCCCCCEEECc
Confidence            334445566667777666554211               1234555566666666666655 566666666666666654

>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=99.71  E-value=1.7e-18  Score=168.29  Aligned_cols=243  Identities=16%  Similarity=0.166  Sum_probs=182.2

Q ss_pred             CceEEEEeeecCCC---CCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          242 EKVRHIGLNFQRGA---SFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       242 ~~~~~l~l~~~~~~---~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      ..|..+.+..+...   .+|..+.++++|++|.+.++                                         ..
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~-----------------------------------------N~   88 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGI-----------------------------------------NN   88 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEE-----------------------------------------TT
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCccccccccccc-----------------------------------------cc
Confidence            36888888887654   57789999999999999863                                         01


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCc-cccccccCCCCccEEecCC
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRR  396 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~  396 (561)
                      +.. .+|..+.++.+|++|+|++         |.+..+ |..+..+.+|+++++++|.+. .+|..+++++.|+++++++
T Consensus        89 l~g-~iP~~i~~L~~L~~L~Ls~---------N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~  158 (313)
T d1ogqa_          89 LVG-PIPPAIAKLTQLHYLYITH---------TNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDG  158 (313)
T ss_dssp             EES-CCCGGGGGCTTCSEEEEEE---------ECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCS
T ss_pred             ccc-ccccccccccccchhhhcc---------ccccccccccccchhhhcccccccccccccCchhhccCcccceeeccc
Confidence            111 2344588999999999999         666665 555788999999999999865 7899999999999999999


Q ss_pred             CCCcCccCcccccCCCC-CeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCC
Q 043450          397 CQDLRELPTGIGKLKNM-RSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLS  475 (561)
Q Consensus       397 ~~~~~~lp~~~~~l~~L-~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~  475 (561)
                      |.....+|..++.+.++ +.+++++|...+..|..++++..+ .++  ...+...+..+..+.   .++.++.+.+....
T Consensus       159 n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~-~l~--l~~~~~~~~~~~~~~---~~~~l~~l~~~~~~  232 (313)
T d1ogqa_         159 NRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA-FVD--LSRNMLEGDASVLFG---SDKNTQKIHLAKNS  232 (313)
T ss_dssp             SCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCS-EEE--CCSSEEEECCGGGCC---TTSCCSEEECCSSE
T ss_pred             cccccccccccccccccccccccccccccccccccccccccc-ccc--ccccccccccccccc---cccccccccccccc
Confidence            99777899999999886 889999998777778777776544 344  455555444444333   44455555554322


Q ss_pred             CCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC-CCChhhhcccC
Q 043450          476 NVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN-IFPKWLTLLTN  554 (561)
Q Consensus       476 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~~~~l~~  554 (561)
                          . ...+..+..+++|+.|+|+.|.+              .+.+|+.+..+++|++|++++|.++ .+|. ++++++
T Consensus       233 ----l-~~~~~~~~~~~~L~~L~Ls~N~l--------------~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~-~~~L~~  292 (313)
T d1ogqa_         233 ----L-AFDLGKVGLSKNLNGLDLRNNRI--------------YGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQR  292 (313)
T ss_dssp             ----E-CCBGGGCCCCTTCCEEECCSSCC--------------EECCCGGGGGCTTCCEEECCSSEEEEECCC-STTGGG
T ss_pred             ----c-cccccccccccccccccCccCee--------------cccCChHHhCCCCCCEEECcCCcccccCCC-cccCCC
Confidence                1 11233577889999999998764              4457889999999999999999976 6885 477888


Q ss_pred             CcEEEcC
Q 043450          555 LRDLNLD  561 (561)
Q Consensus       555 L~~L~L~  561 (561)
                      |+.++++
T Consensus       293 L~~l~l~  299 (313)
T d1ogqa_         293 FDVSAYA  299 (313)
T ss_dssp             SCGGGTC
T ss_pred             CCHHHhC
Confidence            8877653

>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=99.71  E-value=2.5e-17  Score=155.82  Aligned_cols=183  Identities=20%  Similarity=0.170  Sum_probs=111.3

Q ss_pred             ccccccCccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcc
Q 043450          351 NLIREIPENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPI  429 (561)
Q Consensus       351 ~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~  429 (561)
                      +.++.+|+.+.  +++++|+|++|.|+.+| ..|.++++|++|+|++|. ++.+|. ++.+++|++|++++|. +...|.
T Consensus        20 ~~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~-l~~l~~-~~~l~~L~~L~Ls~N~-l~~~~~   94 (266)
T d1p9ag_          20 RNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE-LTKLQV-DGTLPVLGTLDLSHNQ-LQSLPL   94 (266)
T ss_dssp             SCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC-CCEEEC-CSCCTTCCEEECCSSC-CSSCCC
T ss_pred             CCCCeeCcCcC--cCCCEEECcCCcCCCcCHHHhhcccccccccccccc-cccccc-cccccccccccccccc-cccccc
Confidence            55666776554  46777777777777665 346677777777777776 666654 4667777777777776 555666


Q ss_pred             cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCc
Q 043450          430 GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEG  509 (561)
Q Consensus       430 ~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  509 (561)
                      .+..+++|+.|+  +..+.........+   ..+..+..+.+.+.    ......+..+..+++|+.|+++.|.+...  
T Consensus        95 ~~~~l~~L~~L~--l~~~~~~~~~~~~~---~~l~~l~~L~l~~n----~l~~l~~~~~~~l~~l~~l~l~~N~l~~~--  163 (266)
T d1p9ag_          95 LGQTLPALTVLD--VSFNRLTSLPLGAL---RGLGELQELYLKGN----ELKTLPPGLLTPTPKLEKLSLANNNLTEL--  163 (266)
T ss_dssp             CTTTCTTCCEEE--CCSSCCCCCCSSTT---TTCTTCCEEECTTS----CCCCCCTTTTTTCTTCCEEECTTSCCSCC--
T ss_pred             cccccccccccc--ccccccceeecccc---cccccccccccccc----ccceeccccccccccchhccccccccccc--
Confidence            667777777776  44444322222222   33344444444432    11222233455667777777776664332  


Q ss_pred             ccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          510 EEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       510 ~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                                  .++.+..+++|++|++++|.++.+|..+..+++|+.|+|+
T Consensus       164 ------------~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~  203 (266)
T d1p9ag_         164 ------------PAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (266)
T ss_dssp             ------------CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             ------------CccccccccccceeecccCCCcccChhHCCCCCCCEEEec
Confidence                        2334566777777777777777777777777777777764

>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=99.61  E-value=7.1e-16  Score=145.65  Aligned_cols=177  Identities=18%  Similarity=0.065  Sum_probs=139.9

Q ss_pred             ccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccC
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL  410 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l  410 (561)
                      +++++|+|++         |.++.+| ..|..+++|++|+|++|.|+.+|. ++.+++|++|++++|+ +...|..+..+
T Consensus        31 ~~l~~L~Ls~---------N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls~N~-l~~~~~~~~~l   99 (266)
T d1p9ag_          31 KDTTILHLSE---------NLLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLSHNQ-LQSLPLLGQTL   99 (266)
T ss_dssp             TTCCEEECTT---------SCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECCSSC-CSSCCCCTTTC
T ss_pred             cCCCEEECcC---------CcCCCcCHHHhhcccccccccccccccccccc-cccccccccccccccc-ccccccccccc
Confidence            4799999999         8898887 468899999999999999998875 6789999999999998 88888899999


Q ss_pred             CCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccccc
Q 043450          411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYN  490 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~  490 (561)
                      ++|+.|++++|......+..+..+.++++|.  +.++......+..+   ..++.|+.+.+.+.    ......+..+..
T Consensus       100 ~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~--l~~n~l~~l~~~~~---~~l~~l~~l~l~~N----~l~~~~~~~~~~  170 (266)
T d1p9ag_         100 PALTVLDVSFNRLTSLPLGALRGLGELQELY--LKGNELKTLPPGLL---TPTPKLEKLSLANN----NLTELPAGLLNG  170 (266)
T ss_dssp             TTCCEEECCSSCCCCCCSSTTTTCTTCCEEE--CTTSCCCCCCTTTT---TTCTTCCEEECTTS----CCSCCCTTTTTT
T ss_pred             cccccccccccccceeecccccccccccccc--ccccccceeccccc---cccccchhcccccc----cccccCcccccc
Confidence            9999999999985555556678889999997  55666543333333   34555666666543    233344456788


Q ss_pred             ccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCC
Q 043450          491 KKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGN  543 (561)
Q Consensus       491 l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~  543 (561)
                      +++|+.|+|++|++.               .+|+.+..+++|+.|++++|+..
T Consensus       171 l~~L~~L~Ls~N~L~---------------~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         171 LENLDTLLLQENSLY---------------TIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             CTTCCEEECCSSCCC---------------CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             ccccceeecccCCCc---------------ccChhHCCCCCCCEEEecCCCCC
Confidence            999999999988853               45777778999999999999853

>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=99.57  E-value=1.7e-14  Score=143.66  Aligned_cols=189  Identities=24%  Similarity=0.319  Sum_probs=141.9

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+.+++.++++.         +.+..+++ ++..++|++|++++|.++.+| .+..+++|+.|++++|. +..++. +
T Consensus       193 ~~~l~~~~~l~l~~---------n~i~~~~~-~~~~~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n~-l~~~~~-~  259 (384)
T d2omza2         193 LAKLTNLESLIATN---------NQISDITP-LGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANNQ-ISNLAP-L  259 (384)
T ss_dssp             GGGCTTCSEEECCS---------SCCCCCGG-GGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSC-CCCCGG-G
T ss_pred             cccccccceeeccC---------CccCCCCc-ccccCCCCEEECCCCCCCCcc-hhhcccccchhccccCc-cCCCCc-c
Confidence            56677888888888         66666654 466788999999999888775 57888999999999987 666664 7


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      +.+++|+.|+++++. +..++. +..++.++.+.  ...+...     .+..+..++.++.+.++... +..   .  ..
T Consensus       260 ~~~~~L~~L~l~~~~-l~~~~~-~~~~~~l~~l~--~~~n~l~-----~~~~~~~~~~l~~L~ls~n~-l~~---l--~~  324 (384)
T d2omza2         260 SGLTKLTELKLGANQ-ISNISP-LAGLTALTNLE--LNENQLE-----DISPISNLKNLTYLTLYFNN-ISD---I--SP  324 (384)
T ss_dssp             TTCTTCSEEECCSSC-CCCCGG-GTTCTTCSEEE--CCSSCCS-----CCGGGGGCTTCSEEECCSSC-CSC---C--GG
T ss_pred             cccccCCEeeccCcc-cCCCCc-ccccccccccc--ccccccc-----cccccchhcccCeEECCCCC-CCC---C--cc
Confidence            788899999998887 555553 66677777775  4444432     24556777777777776542 222   1  13


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      +..+++|+.|++++|.+..               + +.+..+++|++|++++|.++.+|+ +.++++|+.|+|+
T Consensus       325 l~~l~~L~~L~L~~n~l~~---------------l-~~l~~l~~L~~L~l~~N~l~~l~~-l~~l~~L~~L~L~  381 (384)
T d2omza2         325 VSSLTKLQRLFFANNKVSD---------------V-SSLANLTNINWLSAGHNQISDLTP-LANLTRITQLGLN  381 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCC---------------C-GGGGGCTTCCEEECCSSCCCBCGG-GTTCTTCSEEECC
T ss_pred             cccCCCCCEEECCCCCCCC---------------C-hhHcCCCCCCEEECCCCcCCCChh-hccCCCCCEeeCC
Confidence            7789999999999887532               2 247788999999999999988875 7899999999986

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.56  E-value=1.4e-14  Score=133.11  Aligned_cols=189  Identities=20%  Similarity=0.190  Sum_probs=144.6

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      ...+.+|+.|++.+         +.++.++ .++.+++|++|++++|.++.+++ +.++++|+++++++|. ++.++ .+
T Consensus        37 ~~~l~~L~~L~l~~---------~~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n~-~~~i~-~l  103 (227)
T d1h6ua2          37 QADLDGITTLSAFG---------TGVTTIE-GVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNP-LKNVS-AI  103 (227)
T ss_dssp             HHHHHTCCEEECTT---------SCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCC-CSCCG-GG
T ss_pred             HHHcCCcCEEECCC---------CCCCcch-hHhcCCCCcEeecCCceeecccc-cccccccccccccccc-ccccc-cc
Confidence            35678999999999         6788885 58999999999999999988764 8999999999999987 67776 58


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      .++++|+.+.+++|... .+ ..+...+.++.+.  ...+..     .....+...+.|+.+.+.+..- ..     ...
T Consensus       104 ~~l~~L~~l~l~~~~~~-~~-~~~~~~~~~~~l~--~~~~~~-----~~~~~~~~~~~L~~L~l~~n~~-~~-----~~~  168 (227)
T d1h6ua2         104 AGLQSIKTLDLTSTQIT-DV-TPLAGLSNLQVLY--LDLNQI-----TNISPLAGLTNLQYLSIGNAQV-SD-----LTP  168 (227)
T ss_dssp             TTCTTCCEEECTTSCCC-CC-GGGTTCTTCCEEE--CCSSCC-----CCCGGGGGCTTCCEEECCSSCC-CC-----CGG
T ss_pred             ccccccccccccccccc-cc-chhccccchhhhh--chhhhh-----chhhhhcccccccccccccccc-cc-----chh
Confidence            89999999999998743 33 2355667777775  333332     1233455666777777765432 11     123


Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      +.++++|++|++++|.+.+               + ..+..+++|++|++++|+++.+|. +.++++|+.|+|+
T Consensus       169 l~~l~~L~~L~Ls~n~l~~---------------l-~~l~~l~~L~~L~Ls~N~lt~i~~-l~~l~~L~~L~ls  225 (227)
T d1h6ua2         169 LANLSKLTTLKADDNKISD---------------I-SPLASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLT  225 (227)
T ss_dssp             GTTCTTCCEEECCSSCCCC---------------C-GGGGGCTTCCEEECTTSCCCBCGG-GTTCTTCCEEEEE
T ss_pred             hcccccceecccCCCccCC---------------C-hhhcCCCCCCEEECcCCcCCCCcc-cccCCCCCEEEee
Confidence            7789999999999887533               2 236778999999999999998884 7899999999985

>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=99.56  E-value=6.3e-15  Score=133.62  Aligned_cols=164  Identities=20%  Similarity=0.284  Sum_probs=96.5

Q ss_pred             cccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccC
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL  410 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l  410 (561)
                      +..|+.|++++         +.++.++. +..+++|++|++++|.++.+++ ++.+++|++|++++|+ ++.+| .+..+
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  111 (210)
T d1h6ta2          45 LNSIDQIIANN---------SDIKSVQG-IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENK-VKDLS-SLKDL  111 (210)
T ss_dssp             HHTCCEEECTT---------SCCCCCTT-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCGG-GGTTC
T ss_pred             hcCccEEECcC---------CCCCCchh-HhhCCCCCEEeCCCccccCccc-cccCcccccccccccc-ccccc-ccccc
Confidence            44566666666         44554442 5556666666666666665553 4566666666666655 55555 35556


Q ss_pred             CCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccccc
Q 043450          411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYN  490 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~  490 (561)
                      ++|+.|++++|. ...++ .+.++++|+.++  ...+..                            ..     ...+..
T Consensus       112 ~~L~~L~l~~~~-~~~~~-~l~~l~~l~~l~--~~~n~l----------------------------~~-----~~~~~~  154 (210)
T d1h6ta2         112 KKLKSLSLEHNG-ISDIN-GLVHLPQLESLY--LGNNKI----------------------------TD-----ITVLSR  154 (210)
T ss_dssp             TTCCEEECTTSC-CCCCG-GGGGCTTCCEEE--CCSSCC----------------------------CC-----CGGGGG
T ss_pred             cccccccccccc-ccccc-cccccccccccc--cccccc----------------------------cc-----cccccc
Confidence            666666666655 23332 344444444443  112211                            00     112345


Q ss_pred             ccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          491 KKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       491 l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                      +++|+.+++++|.+.+               ++ .+..+++|+.|++++|.++.+| .+.++++|+.|+|+
T Consensus       155 l~~L~~l~l~~n~l~~---------------i~-~l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         155 LTKLDTLSLEDNQISD---------------IV-PLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             CTTCSEEECCSSCCCC---------------CG-GGTTCTTCCEEECCSSCCCBCG-GGTTCTTCSEEEEE
T ss_pred             cccccccccccccccc---------------cc-cccCCCCCCEEECCCCCCCCCh-hhcCCCCCCEEEcc
Confidence            6677777777766432               12 3667888999999988888876 57888899998874

>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=99.54  E-value=1.7e-14  Score=138.96  Aligned_cols=145  Identities=19%  Similarity=0.285  Sum_probs=87.0

Q ss_pred             cCCceEEEEeeecCCCCCcc-cccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCC
Q 043450          240 FGEKVRHIGLNFQRGASFPM-SFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPS  318 (561)
Q Consensus       240 ~~~~~~~l~l~~~~~~~~~~-~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (561)
                      .+..++++.++.+.++.++. ++..+++|++|.+.++..                                         
T Consensus        29 l~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~-----------------------------------------   67 (305)
T d1xkua_          29 LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI-----------------------------------------   67 (305)
T ss_dssp             CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC-----------------------------------------
T ss_pred             CCCCCCEEECcCCcCCCcChhHhhccccccccccccccc-----------------------------------------
Confidence            35689999999999988884 688999999999988722                                         


Q ss_pred             cchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccc-----------------
Q 043450          319 LNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPE-----------------  381 (561)
Q Consensus       319 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~-----------------  381 (561)
                        ....+..|..+++|++|++++         +.++.+|..+.  ..++.|++..|.+..++.                 
T Consensus        68 --~~i~~~~f~~l~~L~~L~l~~---------n~l~~l~~~~~--~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n  134 (305)
T d1xkua_          68 --SKISPGAFAPLVKLERLYLSK---------NQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTN  134 (305)
T ss_dssp             --CCBCTTTTTTCTTCCEEECCS---------SCCSBCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSS
T ss_pred             --cccchhhhhCCCccCEecccC---------CccCcCccchh--hhhhhhhccccchhhhhhhhhhccccccccccccc
Confidence              112233467788899999988         55666665432  355666666655554432                 


Q ss_pred             ----------cccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccC
Q 043450          382 ----------TLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLE  441 (561)
Q Consensus       382 ----------~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~  441 (561)
                                .+..+++|+.+++++|. +..+|..+  +++|++|++++|......|..+.+++.+++|+
T Consensus       135 ~~~~~~~~~~~~~~l~~L~~l~l~~n~-l~~l~~~~--~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~  201 (305)
T d1xkua_         135 PLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLG  201 (305)
T ss_dssp             CCCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCSSC--CTTCSEEECTTSCCCEECTGGGTTCTTCCEEE
T ss_pred             cccccCCCccccccccccCccccccCC-ccccCccc--CCccCEEECCCCcCCCCChhHhhccccccccc
Confidence                      33344445555555444 34444321  34455555555444444444444445555444

>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=99.54  E-value=1e-14  Score=140.57  Aligned_cols=82  Identities=27%  Similarity=0.398  Sum_probs=55.8

Q ss_pred             HHhccccccEEeccCCCCCCCCCccccccc-CccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREI-PENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l-p~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      .|.++.+|++|++++         +.+..+ |..|..+++|++|++++|+++.+|..+.  ..|..|++.+|. +..++.
T Consensus        50 ~f~~l~~L~~L~l~~---------n~~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~~~--~~l~~L~~~~n~-l~~l~~  117 (305)
T d1xkua_          50 DFKNLKNLHTLILIN---------NKISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQELRVHENE-ITKVRK  117 (305)
T ss_dssp             TTTTCTTCCEEECCS---------SCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCC--TTCCEEECCSSC-CCBBCH
T ss_pred             Hhhcccccccccccc---------ccccccchhhhhCCCccCEecccCCccCcCccchh--hhhhhhhccccc-hhhhhh
Confidence            467788899999998         666666 5568888999999999999888886543  577777777766 444433


Q ss_pred             -ccccCCCCCeEEcCC
Q 043450          406 -GIGKLKNMRSLLNGD  420 (561)
Q Consensus       406 -~~~~l~~L~~L~l~~  420 (561)
                       .+.....+..+....
T Consensus       118 ~~~~~~~~~~~l~~~~  133 (305)
T d1xkua_         118 SVFNGLNQMIVVELGT  133 (305)
T ss_dssp             HHHTTCTTCCEEECCS
T ss_pred             hhhhcccccccccccc
Confidence             223333444444433

>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=99.53  E-value=2.1e-14  Score=136.77  Aligned_cols=198  Identities=19%  Similarity=0.212  Sum_probs=152.8

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCc-cccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCcc-Ccccc
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPE-NVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLREL-PTGIG  408 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~-~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~l-p~~~~  408 (561)
                      ..+++|+|++         |.++.+|. .|..+++|++|+++++.+..++ ..+..+..+..++...+..+..+ |..+.
T Consensus        32 ~~~~~L~Ls~---------N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~  102 (284)
T d1ozna_          32 AASQRIFLHG---------NRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFH  102 (284)
T ss_dssp             TTCSEEECTT---------SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTT
T ss_pred             CCCCEEECcC---------CcCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccccccchhhc
Confidence            4689999999         88988875 5889999999999999998665 44677899999988777667777 45788


Q ss_pred             cCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccc
Q 043450          409 KLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQL  488 (561)
Q Consensus       409 ~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l  488 (561)
                      ++++|+.|++++|......+..++..++|+.++  +.++.+....+..+   ..++.|+.|.+.+.    ......+..+
T Consensus       103 ~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~--l~~N~l~~i~~~~f---~~~~~L~~L~l~~N----~l~~l~~~~f  173 (284)
T d1ozna_         103 GLGRLHTLHLDRCGLQELGPGLFRGLAALQYLY--LQDNALQALPDDTF---RDLGNLTHLFLHGN----RISSVPERAF  173 (284)
T ss_dssp             TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE--CCSSCCCCCCTTTT---TTCTTCCEEECCSS----CCCEECTTTT
T ss_pred             ccccCCEEecCCcccccccccccchhcccchhh--hccccccccChhHh---ccccchhhcccccC----cccccchhhh
Confidence            999999999999985444455677888999987  66776654444444   44455666666553    2334445678


Q ss_pred             ccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCC-hhhhcccCCcEEEcC
Q 043450          489 YNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFP-KWLTLLTNLRDLNLD  561 (561)
Q Consensus       489 ~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp-~~~~~l~~L~~L~L~  561 (561)
                      .++++|+.++++.|.+.              ...+..+..+++|+.|++++|.+..+| .++..+++|+.|+|+
T Consensus       174 ~~l~~L~~l~l~~N~l~--------------~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~  233 (284)
T d1ozna_         174 RGLHSLDRLLLHQNRVA--------------HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN  233 (284)
T ss_dssp             TTCTTCCEEECCSSCCC--------------EECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECC
T ss_pred             ccccccchhhhhhcccc--------------ccChhHhhhhhhcccccccccccccccccccccccccCEEEec
Confidence            89999999999988743              234677888999999999999988776 466899999999985

>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=99.51  E-value=6.8e-14  Score=125.53  Aligned_cols=161  Identities=23%  Similarity=0.241  Sum_probs=89.1

Q ss_pred             cccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccC
Q 043450          331 LACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKL  410 (561)
Q Consensus       331 l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l  410 (561)
                      +.++++|++++         +.+..++ .++.+++|++|++++|+++.+++ ++++++|++|++++|. ...+|. +.++
T Consensus        39 l~~l~~L~l~~---------~~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~-~~~~~~-l~~l  105 (199)
T d2omxa2          39 LDQVTTLQADR---------LGIKSID-GVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQ-IADITP-LANL  105 (199)
T ss_dssp             HTTCCEEECTT---------SCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG-GTTC
T ss_pred             hcCCCEEECCC---------CCCCCcc-ccccCCCcCcCccccccccCccc-ccCCcccccccccccc-cccccc-cccc
Confidence            44455555555         3344432 24445555555555555554443 4555555555555544 334432 4455


Q ss_pred             CCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhccccc
Q 043450          411 KNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYN  490 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~  490 (561)
                      ++|+.|++++|.. ..+ ..+..+++|+.|                             .+++.. +..     ...+..
T Consensus       106 ~~L~~L~l~~~~~-~~~-~~~~~l~~L~~L-----------------------------~l~~n~-l~~-----~~~l~~  148 (199)
T d2omxa2         106 TNLTGLTLFNNQI-TDI-DPLKNLTNLNRL-----------------------------ELSSNT-ISD-----ISALSG  148 (199)
T ss_dssp             TTCSEEECCSSCC-CCC-GGGTTCTTCSEE-----------------------------ECCSSC-CCC-----CGGGTT
T ss_pred             ccccccccccccc-ccc-cccchhhhhHHh-----------------------------hhhhhh-hcc-----cccccc
Confidence            5555555554442 222 123344444444                             443321 111     112556


Q ss_pred             ccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEE
Q 043450          491 KKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDL  558 (561)
Q Consensus       491 l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L  558 (561)
                      +.+|+.|++++|.+.+.                +.+..+++|++|++++|+++.+| .++++++|+.|
T Consensus       149 ~~~L~~L~l~~n~l~~l----------------~~l~~l~~L~~L~ls~N~i~~i~-~l~~L~~L~~L  199 (199)
T d2omxa2         149 LTSLQQLNFSSNQVTDL----------------KPLANLTTLERLDISSNKVSDIS-VLAKLTNLESL  199 (199)
T ss_dssp             CTTCSEEECCSSCCCCC----------------GGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEE
T ss_pred             cccccccccccccccCC----------------ccccCCCCCCEEECCCCCCCCCc-cccCCCCCCcC
Confidence            67888888887764321                24678899999999999998876 57899999886

>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=99.51  E-value=1.4e-13  Score=136.86  Aligned_cols=168  Identities=23%  Similarity=0.266  Sum_probs=123.7

Q ss_pred             cccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCc
Q 043450          359 NVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLR  438 (561)
Q Consensus       359 ~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~  438 (561)
                      .+..+++++++++++|.++.+++ .+..++|++|++++|. +..+| .+..+++|+.|++++|. +..++ .++.+++|+
T Consensus       192 ~~~~l~~~~~l~l~~n~i~~~~~-~~~~~~L~~L~l~~n~-l~~~~-~l~~l~~L~~L~l~~n~-l~~~~-~~~~~~~L~  266 (384)
T d2omza2         192 VLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQ-LKDIG-TLASLTNLTDLDLANNQ-ISNLA-PLSGLTKLT  266 (384)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGG-GGGCTTCCEEECCSSC-CCCCG-GGGGCTTCSEEECCSSC-CCCCG-GGTTCTTCS
T ss_pred             ccccccccceeeccCCccCCCCc-ccccCCCCEEECCCCC-CCCcc-hhhcccccchhccccCc-cCCCC-cccccccCC
Confidence            35567888899999998887754 5677899999999987 67665 57888999999999988 55555 377888899


Q ss_pred             ccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcc
Q 043450          439 TLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNEN  518 (561)
Q Consensus       439 ~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~  518 (561)
                      +|+  +.++...     .+..+..+..++.+.+....- ..     ...+..+.+++.|+++.|.+.+.           
T Consensus       267 ~L~--l~~~~l~-----~~~~~~~~~~l~~l~~~~n~l-~~-----~~~~~~~~~l~~L~ls~n~l~~l-----------  322 (384)
T d2omza2         267 ELK--LGANQIS-----NISPLAGLTALTNLELNENQL-ED-----ISPISNLKNLTYLTLYFNNISDI-----------  322 (384)
T ss_dssp             EEE--CCSSCCC-----CCGGGTTCTTCSEEECCSSCC-SC-----CGGGGGCTTCSEEECCSSCCSCC-----------
T ss_pred             Eee--ccCcccC-----CCCcccccccccccccccccc-cc-----ccccchhcccCeEECCCCCCCCC-----------
Confidence            887  4444432     233455566666555543321 11     22467889999999998875331           


Q ss_pred             hHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          519 DEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       519 ~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                          + .+..+++|++|++++|.++.+| .+.++++|+.|+|+
T Consensus       323 ----~-~l~~l~~L~~L~L~~n~l~~l~-~l~~l~~L~~L~l~  359 (384)
T d2omza2         323 ----S-PVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAG  359 (384)
T ss_dssp             ----G-GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECC
T ss_pred             ----c-ccccCCCCCEEECCCCCCCCCh-hHcCCCCCCEEECC
Confidence                2 3667899999999999998877 68999999999985

>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=99.43  E-value=1.3e-13  Score=131.18  Aligned_cols=82  Identities=23%  Similarity=0.248  Sum_probs=39.7

Q ss_pred             ccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccC-cccccCCCCCeEEcCCCCCCccC-cccccCC
Q 043450          358 ENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELP-TGIGKLKNMRSLLNGDTSSLKYL-PIGISRL  434 (561)
Q Consensus       358 ~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp-~~~~~l~~L~~L~l~~~~~~~~l-p~~i~~l  434 (561)
                      ..+..+++|++|++++|.+..++ ..+..+.+|+.+++++|. ++.+| ..+..+++|++|++++|. +..+ |..+..+
T Consensus        99 ~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~-l~~i~~~~f~~~~~L~~L~l~~N~-l~~l~~~~f~~l  176 (284)
T d1ozna_          99 ATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNR-ISSVPERAFRGL  176 (284)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC-CCEECTTTTTTC
T ss_pred             hhhcccccCCEEecCCcccccccccccchhcccchhhhcccc-ccccChhHhccccchhhcccccCc-ccccchhhhccc
Confidence            33455555555555555554332 234445555555555554 44443 234445555555555554 2333 2334455


Q ss_pred             cCCcccC
Q 043450          435 TSLRTLE  441 (561)
Q Consensus       435 ~~L~~L~  441 (561)
                      ++|+.+.
T Consensus       177 ~~L~~l~  183 (284)
T d1ozna_         177 HSLDRLL  183 (284)
T ss_dssp             TTCCEEE
T ss_pred             cccchhh
Confidence            5555554

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.41  E-value=5.3e-13  Score=109.27  Aligned_cols=100  Identities=23%  Similarity=0.351  Sum_probs=85.6

Q ss_pred             cEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCC
Q 043450          335 RALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMR  414 (561)
Q Consensus       335 ~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~  414 (561)
                      |+|++++         |.++.+|. ++.+++|++|++++|.++.+|+.++.+++|++|++++|. ++.+| .++.+++|+
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~   68 (124)
T d1dcea3           1 RVLHLAH---------KDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNA-LENVD-GVANLPRLQ   68 (124)
T ss_dssp             SEEECTT---------SCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSC-CCCCG-GGTTCSSCC
T ss_pred             CEEEcCC---------CCCCCCcc-cccCCCCCEEECCCCccCcchhhhhhhhccccccccccc-ccccC-ccccccccC
Confidence            6889999         78888875 899999999999999999999889999999999999988 88887 489999999


Q ss_pred             eEEcCCCCCCccCc--ccccCCcCCcccCceeecCcc
Q 043450          415 SLLNGDTSSLKYLP--IGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       415 ~L~l~~~~~~~~lp--~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +|++++|. +..+|  ..++.+++|++|+  +.+|.+
T Consensus        69 ~L~l~~N~-i~~~~~~~~l~~~~~L~~L~--l~~N~i  102 (124)
T d1dcea3          69 ELLLCNNR-LQQSAAIQPLVSCPRLVLLN--LQGNSL  102 (124)
T ss_dssp             EEECCSSC-CCSSSTTGGGGGCTTCCEEE--CTTSGG
T ss_pred             eEECCCCc-cCCCCCchhhcCCCCCCEEE--CCCCcC
Confidence            99999998 56555  3578888899887  566654

>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=99.37  E-value=1.3e-12  Score=119.60  Aligned_cols=175  Identities=19%  Similarity=0.198  Sum_probs=130.9

Q ss_pred             ccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCccc
Q 043450          351 NLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIG  430 (561)
Q Consensus       351 ~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~  430 (561)
                      +.+..+. .+..+.+|++|++.+|.|++++ .+..+++|++|++++|. +..+++ +..+++|+.+++++|. ...++ +
T Consensus        29 ~~~~d~~-~~~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n~-i~~~~~-l~~l~~l~~l~~~~n~-~~~i~-~  102 (227)
T d1h6ua2          29 SNVTDTV-TQADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQ-ITDLAP-LKNLTKITELELSGNP-LKNVS-A  102 (227)
T ss_dssp             SSTTSEE-CHHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCCSCCEEECCSCC-CSCCG-G
T ss_pred             CCcCCcC-CHHHcCCcCEEECCCCCCCcch-hHhcCCCCcEeecCCce-eecccc-cccccccccccccccc-ccccc-c
Confidence            4444432 3577899999999999999984 69999999999999998 666654 8999999999999987 56665 5


Q ss_pred             ccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcc
Q 043450          431 ISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGE  510 (561)
Q Consensus       431 i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  510 (561)
                      +..+++|+.++  ...+..     ..+..+.....+..+.+..... ..     ...+.+..+|+.|++++|.+.+.   
T Consensus       103 l~~l~~L~~l~--l~~~~~-----~~~~~~~~~~~~~~l~~~~~~~-~~-----~~~~~~~~~L~~L~l~~n~~~~~---  166 (227)
T d1h6ua2         103 IAGLQSIKTLD--LTSTQI-----TDVTPLAGLSNLQVLYLDLNQI-TN-----ISPLAGLTNLQYLSIGNAQVSDL---  166 (227)
T ss_dssp             GTTCTTCCEEE--CTTSCC-----CCCGGGTTCTTCCEEECCSSCC-CC-----CGGGGGCTTCCEEECCSSCCCCC---
T ss_pred             ccccccccccc--cccccc-----cccchhccccchhhhhchhhhh-ch-----hhhhccccccccccccccccccc---
Confidence            78889999886  333332     2233455555566666544322 11     12367788999999998875332   


Q ss_pred             cccCCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhhhcccCCcEEEcC
Q 043450          511 EGRRKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       511 ~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~L~  561 (561)
                                   ..+..+++|+.|++++|.+..+| .+.++++|+.|+|+
T Consensus       167 -------------~~l~~l~~L~~L~Ls~n~l~~l~-~l~~l~~L~~L~Ls  203 (227)
T d1h6ua2         167 -------------TPLANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLK  203 (227)
T ss_dssp             -------------GGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECT
T ss_pred             -------------hhhcccccceecccCCCccCCCh-hhcCCCCCCEEECc
Confidence                         23678899999999999998876 48899999999985

>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=99.31  E-value=1e-12  Score=121.75  Aligned_cols=36  Identities=19%  Similarity=0.117  Sum_probs=28.1

Q ss_pred             cCCCCCCCceEEEeecCCCCCChh-hhcccCCcEEEc
Q 043450          525 ALQPPVNVEELWIVYYGGNIFPKW-LTLLTNLRDLNL  560 (561)
Q Consensus       525 ~l~~~~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~L  560 (561)
                      .+..+++|+.|++++|+++.+|.+ +.++++|+.|++
T Consensus       196 ~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~  232 (242)
T d1xwdc1         196 VFHGASGPVILDISRTRIHSLPSYGLENLKKLRARST  232 (242)
T ss_dssp             TTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSE
T ss_pred             HhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcC
Confidence            468899999999999999999875 366666665543

>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=99.30  E-value=1e-11  Score=111.04  Aligned_cols=142  Identities=25%  Similarity=0.326  Sum_probs=81.6

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|++|++++         |.++.+++ ++.+++|++|++++|.+..+|. +.++++|+.|++++|. ...++ .+
T Consensus        58 l~~l~nL~~L~Ls~---------N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l~~~~-~~~~~-~~  124 (199)
T d2omxa2          58 VEYLNNLTQINFSN---------NQLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLFNNQ-ITDID-PL  124 (199)
T ss_dssp             GGGCTTCCEEECCS---------SCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEECCSSC-CCCCG-GG
T ss_pred             cccCCCcCcCcccc---------ccccCccc-ccCCcccccccccccccccccc-cccccccccccccccc-ccccc-cc
Confidence            34566677777776         55655554 6666777777777776666653 6667777777776665 33332 35


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++|+.|++++|. +..+| .+..+++|+.|+  +.++...     .+..+..+++|+.|++++.. +...     ..
T Consensus       125 ~~l~~L~~L~l~~n~-l~~~~-~l~~~~~L~~L~--l~~n~l~-----~l~~l~~l~~L~~L~ls~N~-i~~i-----~~  189 (199)
T d2omxa2         125 KNLTNLNRLELSSNT-ISDIS-ALSGLTSLQQLN--FSSNQVT-----DLKPLANLTTLERLDISSNK-VSDI-----SV  189 (199)
T ss_dssp             TTCTTCSEEECCSSC-CCCCG-GGTTCTTCSEEE--CCSSCCC-----CCGGGTTCTTCCEEECCSSC-CCCC-----GG
T ss_pred             chhhhhHHhhhhhhh-hcccc-cccccccccccc--ccccccc-----CCccccCCCCCCEEECCCCC-CCCC-----cc
Confidence            666777777777665 44443 466666666665  4444332     12335555666666665532 2221     12


Q ss_pred             cccccccccE
Q 043450          488 LYNKKNLLRL  497 (561)
Q Consensus       488 l~~l~~L~~L  497 (561)
                      +..+++|+.|
T Consensus       190 l~~L~~L~~L  199 (199)
T d2omxa2         190 LAKLTNLESL  199 (199)
T ss_dssp             GGGCTTCSEE
T ss_pred             ccCCCCCCcC
Confidence            4555666554

>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=99.29  E-value=6.7e-13  Score=125.96  Aligned_cols=199  Identities=15%  Similarity=0.160  Sum_probs=132.5

Q ss_pred             ccccccEEeccCCCCCCCCCccccc--ccCccccccCccCEEecCCCCCc-cccccccCCCCccEEecCCCCCcCc--cC
Q 043450          330 KLACLRALVISQPSPIFRPDLNLIR--EIPENVEKLIHLKYLNLSGLRIE-SLPETLCELYNLQKLDIRRCQDLRE--LP  404 (561)
Q Consensus       330 ~l~~L~~L~l~~~~~~~~~~~~~~~--~lp~~~~~l~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~--lp  404 (561)
                      ...+|++|++++         +.+.  .++..+..+++|++|++++|.+. ..+..++++++|++|++++|..++.  +.
T Consensus        44 ~~~~L~~LdLs~---------~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~  114 (284)
T d2astb2          44 SPFRVQHMDLSN---------SVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQ  114 (284)
T ss_dssp             CCBCCCEEECTT---------CEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHH
T ss_pred             cCCCCCEEECCC---------CccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccc
Confidence            456799999998         4343  24444677899999999999876 6677888999999999999876653  33


Q ss_pred             cccccCCCCCeEEcCCCCCCcc--CcccccC-CcCCcccCceeecCccCCCCccCchhh-hccCCCCceEEcCCCCCCCc
Q 043450          405 TGIGKLKNMRSLLNGDTSSLKY--LPIGISR-LTSLRTLEKFVVGGGVDGNNTCRLESL-KNLQLLRECRVEGLSNVSHV  480 (561)
Q Consensus       405 ~~~~~l~~L~~L~l~~~~~~~~--lp~~i~~-l~~L~~L~~~~~~~~~~~~~~~~~~~l-~~L~~L~~l~i~~~~~~~~~  480 (561)
                      .-...+++|++|++++|..+..  ++..+.+ .++|+.|++..+....   ....+..+ ..+++|+.|++.++..+.  
T Consensus       115 ~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i---~~~~l~~l~~~~~~L~~L~L~~~~~it--  189 (284)
T d2astb2         115 TLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNL---QKSDLSTLVRRCPNLVHLDLSDSVMLK--  189 (284)
T ss_dssp             HHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGS---CHHHHHHHHHHCTTCSEEECTTCTTCC--
T ss_pred             hhhHHHHhccccccccccccccccchhhhcccccccchhhhccccccc---ccccccccccccccccccccccccCCC--
Confidence            3346789999999999875532  2233333 3678888732222222   11223333 457788889888765543  


Q ss_pred             chhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCCCCCCCceEEEeecCC-CCCChhhhcccCCc
Q 043450          481 DEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQPPVNVEELWIVYYGG-NIFPKWLTLLTNLR  556 (561)
Q Consensus       481 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~~~~L~~L~l~~~~~-~~lp~~~~~l~~L~  556 (561)
                       +.....+.++++|+.|++++|.             ...+..+..+..+++|+.|+++++.. ..++.....+++|+
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 -NDCFQEFFQLNYLQHLSLSRCY-------------DIIPETLLELGEIPTLKTLQVFGIVPDGTLQLLKEALPHLQ  252 (284)
T ss_dssp             -GGGGGGGGGCTTCCEEECTTCT-------------TCCGGGGGGGGGCTTCCEEECTTSSCTTCHHHHHHHSTTSE
T ss_pred             -chhhhhhcccCcCCEEECCCCC-------------CCChHHHHHHhcCCCCCEEeeeCCCCHHHHHHHHHhCcccc
Confidence             3445567788999999998754             11223345567789999999998832 12333335666665

>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=99.28  E-value=2.3e-12  Score=110.83  Aligned_cols=108  Identities=20%  Similarity=0.191  Sum_probs=83.4

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcc-
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTG-  406 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~-  406 (561)
                      +..+..+|.|+|++         |.++.+|..+..+++|++|++++|.|++++ .+..+++|++|++++|. +..+|.. 
T Consensus        14 ~~n~~~lr~L~L~~---------n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~-i~~l~~~~   82 (162)
T d1a9na_          14 YTNAVRDRELDLRG---------YKIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNR-ICRIGEGL   82 (162)
T ss_dssp             EECTTSCEEEECTT---------SCCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSC-CCEECSCH
T ss_pred             ccCcCcCcEEECCC---------CCCCccCccccccccCCEEECCCCCCCccC-CcccCcchhhhhccccc-ccCCCccc
Confidence            34566788999998         778888776677889999999999988885 58888999999999988 7777665 


Q ss_pred             cccCCCCCeEEcCCCCCCccCcc--cccCCcCCcccCceeecCcc
Q 043450          407 IGKLKNMRSLLNGDTSSLKYLPI--GISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       407 ~~~l~~L~~L~l~~~~~~~~lp~--~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +..+++|++|++++|. +..++.  .+..+++|++|+  +.+|..
T Consensus        83 ~~~l~~L~~L~L~~N~-i~~~~~l~~l~~l~~L~~L~--l~~N~i  124 (162)
T d1a9na_          83 DQALPDLTELILTNNS-LVELGDLDPLASLKSLTYLC--ILRNPV  124 (162)
T ss_dssp             HHHCTTCCEEECCSCC-CCCGGGGGGGGGCTTCCEEE--CCSSGG
T ss_pred             cccccccccceecccc-ccccccccccccccccchhh--cCCCcc
Confidence            4578899999999887 555553  466777787776  455543

>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=99.28  E-value=1e-11  Score=111.96  Aligned_cols=146  Identities=24%  Similarity=0.328  Sum_probs=96.5

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCccc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGI  407 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~  407 (561)
                      +..+++|++|++++         +.++.+++ ++.+++|++|++++|+++.+| .+..+++|+.|++++|. ...++ .+
T Consensus        64 l~~l~~L~~L~L~~---------n~i~~l~~-~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~~~-~~~~~-~l  130 (210)
T d1h6ta2          64 IQYLPNVTKLFLNG---------NKLTDIKP-LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLEHNG-ISDIN-GL  130 (210)
T ss_dssp             GGGCTTCCEEECCS---------SCCCCCGG-GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECTTSC-CCCCG-GG
T ss_pred             HhhCCCCCEEeCCC---------ccccCccc-cccCccccccccccccccccc-ccccccccccccccccc-ccccc-cc
Confidence            45677788888877         66666654 577778888888888777776 47777888888888776 45554 46


Q ss_pred             ccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcc
Q 043450          408 GKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQ  487 (561)
Q Consensus       408 ~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~  487 (561)
                      ..+++++.+++++|. +...+ .++++++|++++  +.++...     .+..+..+++|+.|++++.. +..    . ..
T Consensus       131 ~~l~~l~~l~~~~n~-l~~~~-~~~~l~~L~~l~--l~~n~l~-----~i~~l~~l~~L~~L~Ls~N~-i~~----l-~~  195 (210)
T d1h6ta2         131 VHLPQLESLYLGNNK-ITDIT-VLSRLTKLDTLS--LEDNQIS-----DIVPLAGLTKLQNLYLSKNH-ISD----L-RA  195 (210)
T ss_dssp             GGCTTCCEEECCSSC-CCCCG-GGGGCTTCSEEE--CCSSCCC-----CCGGGTTCTTCCEEECCSSC-CCB----C-GG
T ss_pred             ccccccccccccccc-ccccc-cccccccccccc--ccccccc-----ccccccCCCCCCEEECCCCC-CCC----C-hh
Confidence            777778888887776 33333 466677777776  4455442     23345666677777766532 221    2 24


Q ss_pred             cccccccccEEEEe
Q 043450          488 LYNKKNLLRLGLQF  501 (561)
Q Consensus       488 l~~l~~L~~L~l~~  501 (561)
                      +.++++|+.|+|+.
T Consensus       196 l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         196 LAGLKNLDVLELFS  209 (210)
T ss_dssp             GTTCTTCSEEEEEE
T ss_pred             hcCCCCCCEEEccC
Confidence            67788888888863

>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=99.24  E-value=2.8e-12  Score=110.32  Aligned_cols=103  Identities=26%  Similarity=0.249  Sum_probs=88.3

Q ss_pred             HHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccc-cCCCCccEEecCCCCCcCccCc
Q 043450          327 LFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETL-CELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       327 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i-~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      .+..+.+|++|++++         |.+..++ .++.+++|++|++++|.++.+|+.+ ..+++|++|++++|. +..++.
T Consensus        36 ~~~~l~~L~~L~Ls~---------N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~-i~~~~~  104 (162)
T d1a9na_          36 LGATLDQFDAIDFSD---------NEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNS-LVELGD  104 (162)
T ss_dssp             GGGGTTCCSEEECCS---------SCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCC-CCCGGG
T ss_pred             cccccccCCEEECCC---------CCCCccC-CcccCcchhhhhcccccccCCCccccccccccccceecccc-cccccc
Confidence            356789999999999         7888885 4889999999999999999998764 679999999999998 777764


Q ss_pred             --ccccCCCCCeEEcCCCCCCccCcc----cccCCcCCcccC
Q 043450          406 --GIGKLKNMRSLLNGDTSSLKYLPI----GISRLTSLRTLE  441 (561)
Q Consensus       406 --~~~~l~~L~~L~l~~~~~~~~lp~----~i~~l~~L~~L~  441 (561)
                        .+..+++|++|++++|. +...|.    .+..+++|++|+
T Consensus       105 l~~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_         105 LDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             GGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEET
T ss_pred             ccccccccccchhhcCCCc-cccccchHHHHHHHCCCcCeeC
Confidence              68899999999999998 566663    478889999987

>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=99.24  E-value=1.1e-12  Score=124.39  Aligned_cols=170  Identities=19%  Similarity=0.212  Sum_probs=117.8

Q ss_pred             CcchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCC-Cc--cccccccCCCCccEEec
Q 043450          318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLR-IE--SLPETLCELYNLQKLDI  394 (561)
Q Consensus       318 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~-l~--~lp~~i~~L~~L~~L~l  394 (561)
                      ......+...+.++++|++|++++|.        .-...+..++++++|++|++++|. ++  .+..-...+++|++|++
T Consensus        57 ~i~~~~l~~l~~~c~~L~~L~L~~~~--------l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~l  128 (284)
T d2astb2          57 VIEVSTLHGILSQCSKLQNLSLEGLR--------LSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNL  128 (284)
T ss_dssp             EECHHHHHHHHTTBCCCSEEECTTCB--------CCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEEC
T ss_pred             ccCHHHHHHHHHhCCCcccccccccC--------CCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhcccccc
Confidence            33456677888999999999999952        222345667788999999999975 65  34444567899999999


Q ss_pred             CCCCCcCc--cCccccc-CCCCCeEEcCCCCC-Cc--cCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCc
Q 043450          395 RRCQDLRE--LPTGIGK-LKNMRSLLNGDTSS-LK--YLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRE  468 (561)
Q Consensus       395 ~~~~~~~~--lp~~~~~-l~~L~~L~l~~~~~-~~--~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~  468 (561)
                      ++|..+..  ++..+.. .++|+.|++++|.. +.  .+..-..++++|++|+  +.++...  ....+..+.++++|+.
T Consensus       129 s~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~--L~~~~~i--td~~~~~l~~~~~L~~  204 (284)
T d2astb2         129 SWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLD--LSDSVML--KNDCFQEFFQLNYLQH  204 (284)
T ss_dssp             CCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEE--CTTCTTC--CGGGGGGGGGCTTCCE
T ss_pred             ccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccc--cccccCC--CchhhhhhcccCcCCE
Confidence            99875542  3333444 46899999998642 22  2333346788999998  4443221  1345677788888999


Q ss_pred             eEEcCCCCCCCcchhhhcccccccccccEEEEee
Q 043450          469 CRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFG  502 (561)
Q Consensus       469 l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  502 (561)
                      |.+.++..+.   +.....+.++++|+.|+++++
T Consensus       205 L~L~~C~~i~---~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         205 LSLSRCYDII---PETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             EECTTCTTCC---GGGGGGGGGCTTCCEEECTTS
T ss_pred             EECCCCCCCC---hHHHHHHhcCCCCCEEeeeCC
Confidence            9998876553   333445778899999999765

>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=99.19  E-value=2.2e-11  Score=99.34  Aligned_cols=77  Identities=25%  Similarity=0.427  Sum_probs=68.1

Q ss_pred             CEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCCCCCeEEcCCCCCCccCcccccCCcCCcccCceeec
Q 043450          367 KYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLKNMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVG  446 (561)
Q Consensus       367 ~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~  446 (561)
                      |+|++++|+++.+|. ++.+++|++|++++|. ++.+|+.++.+++|+.|++++|. +..+| +++++++|++|+  +.+
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~~   74 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDNA-LENVD-GVANLPRLQELL--LCN   74 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSC-CCCCG-GGTTCSSCCEEE--CCS
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCCc-cCcchhhhhhhhccccccccccc-ccccC-ccccccccCeEE--CCC
Confidence            689999999998874 8999999999999998 88999999999999999999998 67776 589999999997  555


Q ss_pred             Ccc
Q 043450          447 GGV  449 (561)
Q Consensus       447 ~~~  449 (561)
                      |.+
T Consensus        75 N~i   77 (124)
T d1dcea3          75 NRL   77 (124)
T ss_dssp             SCC
T ss_pred             Ccc
Confidence            554

>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=99.01  E-value=1.3e-10  Score=102.95  Aligned_cols=80  Identities=19%  Similarity=0.275  Sum_probs=39.7

Q ss_pred             ccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCCCccCc-ccccCCcC
Q 043450          360 VEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLP-IGISRLTS  436 (561)
Q Consensus       360 ~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp-~~i~~l~~  436 (561)
                      |..+++|+.|++++|.+..+| ..+..+++|++|++++|+ +..+|+ .|.++++|++|++++|. +..+| ..+..+++
T Consensus        50 f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~-l~~l~~~~F~~l~~L~~L~L~~N~-l~~i~~~~f~~l~~  127 (192)
T d1w8aa_          50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK-IKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNS  127 (192)
T ss_dssp             GGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC-CCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTT
T ss_pred             cCCCceEeeeeccccccccccccccccccccceeeecccc-ccccCHHHHhCCCcccccccCCcc-ccccCHHHhcCCcc
Confidence            345555555555555554332 334455555555555554 444433 34555555555555555 33333 23455555


Q ss_pred             CcccC
Q 043450          437 LRTLE  441 (561)
Q Consensus       437 L~~L~  441 (561)
                      |++|+
T Consensus       128 L~~l~  132 (192)
T d1w8aa_         128 LTSLN  132 (192)
T ss_dssp             CCEEE
T ss_pred             ccccc
Confidence            55554

>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=99.00  E-value=1.8e-09  Score=104.98  Aligned_cols=32  Identities=16%  Similarity=0.190  Sum_probs=23.4

Q ss_pred             CCceEEEEeeecCCCCCcccccccCceeEEEEccC
Q 043450          241 GEKVRHIGLNFQRGASFPMSFFEFDRLRSLLIYDT  275 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~~~~~~~~Lr~L~~~~~  275 (561)
                      ..+++.+.+..+.++.+|..   +.+|+.|.+.++
T Consensus        57 ~~~L~~L~Ls~N~l~~lp~~---~~~L~~L~l~~n   88 (353)
T d1jl5a_          57 PPHLESLVASCNSLTELPEL---PQSLKSLLVDNN   88 (353)
T ss_dssp             CTTCSEEECCSSCCSSCCCC---CTTCCEEECCSS
T ss_pred             CCCCCEEECCCCCCcccccc---hhhhhhhhhhhc
Confidence            45678888888888877743   457788877776

>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=99.00  E-value=3.9e-10  Score=99.83  Aligned_cols=123  Identities=19%  Similarity=0.222  Sum_probs=92.9

Q ss_pred             ccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcc-c-cccccCCCCccEEecCCCCCcCccCcccccCC
Q 043450          334 LRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIES-L-PETLCELYNLQKLDIRRCQDLRELPTGIGKLK  411 (561)
Q Consensus       334 L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~-l-p~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~  411 (561)
                      .++++.++         +.++.+|..+.  .++++|+|++|.|+. + +..+.++++|+.|++++|......+..+..++
T Consensus        10 ~~~v~Cs~---------~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~   78 (192)
T d1w8aa_          10 GTTVDCTG---------RGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGAS   78 (192)
T ss_dssp             TTEEECTT---------SCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCT
T ss_pred             CCEEEEeC---------CCcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeecccccccccccccccccc
Confidence            35677887         78889998774  689999999999974 4 35578999999999999995555566888999


Q ss_pred             CCCeEEcCCCCCCccCcc-cccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcC
Q 043450          412 NMRSLLNGDTSSLKYLPI-GISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEG  473 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~-~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~  473 (561)
                      +|+.|++++|. +..+|. .|.++++|++|+  +.+|.+....+..+..   +..|+.+.+.+
T Consensus        79 ~L~~L~Ls~N~-l~~l~~~~F~~l~~L~~L~--L~~N~l~~i~~~~f~~---l~~L~~l~L~~  135 (192)
T d1w8aa_          79 HIQELQLGENK-IKEISNKMFLGLHQLKTLN--LYDNQISCVMPGSFEH---LNSLTSLNLAS  135 (192)
T ss_dssp             TCCEEECCSCC-CCEECSSSSTTCTTCCEEE--CCSSCCCEECTTSSTT---CTTCCEEECTT
T ss_pred             ccceeeecccc-ccccCHHHHhCCCcccccc--cCCccccccCHHHhcC---Ccccccccccc
Confidence            99999999998 556654 589999999998  7777764444433433   34444555543

>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=98.97  E-value=6.6e-12  Score=111.83  Aligned_cols=109  Identities=25%  Similarity=0.302  Sum_probs=72.6

Q ss_pred             HHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccC
Q 043450          325 RELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELP  404 (561)
Q Consensus       325 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp  404 (561)
                      +..+..+.+|++|+|++         |.++.++ .+..+++|++|++++|.++.+|..+..+++|++|++++|. +..++
T Consensus        41 ~~sl~~L~~L~~L~Ls~---------n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~-i~~l~  109 (198)
T d1m9la_          41 DATLSTLKACKHLALST---------NNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQ-IASLS  109 (198)
T ss_dssp             HHHHHHTTTCCEEECSE---------EEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEE-CCCHH
T ss_pred             hhHHhcccccceeECcc---------cCCCCcc-cccCCccccChhhccccccccccccccccccccccccccc-ccccc
Confidence            34466777777777777         6677665 3677777777777777777776555555677777777776 66554


Q ss_pred             cccccCCCCCeEEcCCCCCCccCc--ccccCCcCCcccCceeecCc
Q 043450          405 TGIGKLKNMRSLLNGDTSSLKYLP--IGISRLTSLRTLEKFVVGGG  448 (561)
Q Consensus       405 ~~~~~l~~L~~L~l~~~~~~~~lp--~~i~~l~~L~~L~~~~~~~~  448 (561)
                       .+..+++|+.|++++|. +..++  ..++.+++|+.|+  +.+|.
T Consensus       110 -~~~~l~~L~~L~L~~N~-i~~~~~~~~l~~l~~L~~L~--L~~N~  151 (198)
T d1m9la_         110 -GIEKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLL--LAGNP  151 (198)
T ss_dssp             -HHHHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEE--ECSSH
T ss_pred             -cccccccccccccccch-hccccccccccCCCccceee--cCCCc
Confidence             36677777777777776 44444  2456677777776  44543

>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=98.93  E-value=5.6e-12  Score=112.30  Aligned_cols=133  Identities=20%  Similarity=0.231  Sum_probs=102.6

Q ss_pred             CCCCCcccccccCceeEEEEccCCCCCcchhhhhhhhhhhhhhHHHhhhccCCCCCCCCCCCCCCCcchhHHHHHHhccc
Q 043450          253 RGASFPMSFFEFDRLRSLLIYDTSHYNPSLFQSMAISSAYSLVNAVLYLVSSPGLGIDDESPSNPSLNSSILRELFSKLA  332 (561)
Q Consensus       253 ~~~~~~~~~~~~~~Lr~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  332 (561)
                      ..+.++.++..+++|+.|.+.++..                                            ..++ .+..++
T Consensus        36 ~i~~l~~sl~~L~~L~~L~Ls~n~I--------------------------------------------~~i~-~l~~l~   70 (198)
T d1m9la_          36 PIEKMDATLSTLKACKHLALSTNNI--------------------------------------------EKIS-SLSGME   70 (198)
T ss_dssp             TCCCCHHHHHHTTTCCEEECSEEEE--------------------------------------------SCCC-CHHHHT
T ss_pred             chhhhhhHHhcccccceeECcccCC--------------------------------------------CCcc-cccCCc
Confidence            3456667788899999999988721                                            0111 156899


Q ss_pred             cccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCc--ccccC
Q 043450          333 CLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPT--GIGKL  410 (561)
Q Consensus       333 ~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~--~~~~l  410 (561)
                      +|++|++++         |.++.+|..+..+++|++|++++|.++.++ .+..+++|++|++++|. +..++.  .+..+
T Consensus        71 ~L~~L~Ls~---------N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~L~~N~-i~~~~~~~~l~~l  139 (198)
T d1m9la_          71 NLRILSLGR---------NLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYMSNNK-ITNWGEIDKLAAL  139 (198)
T ss_dssp             TCCEEECCE---------EEECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEEESEEE-CCCHHHHHHHTTT
T ss_pred             cccChhhcc---------cccccccccccccccccccccccccccccc-cccccccccccccccch-hccccccccccCC
Confidence            999999999         889998876677789999999999999875 48889999999999998 777763  68899


Q ss_pred             CCCCeEEcCCCCCCccCccc----------ccCCcCCcccC
Q 043450          411 KNMRSLLNGDTSSLKYLPIG----------ISRLTSLRTLE  441 (561)
Q Consensus       411 ~~L~~L~l~~~~~~~~lp~~----------i~~l~~L~~L~  441 (561)
                      ++|+.|++++|......+..          +.++++|+.|+
T Consensus       140 ~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         140 DKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             TTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCEES
T ss_pred             CccceeecCCCccccCcccccchhhHHHHHHHHCCCcCEeC
Confidence            99999999999733222211          34566666665

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.90  E-value=3.8e-09  Score=102.61  Aligned_cols=181  Identities=17%  Similarity=0.061  Sum_probs=116.8

Q ss_pred             ccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCccccccccCCCCccEEecCCCCCcCccCcccccCC
Q 043450          332 ACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIESLPETLCELYNLQKLDIRRCQDLRELPTGIGKLK  411 (561)
Q Consensus       332 ~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~lp~~~~~l~  411 (561)
                      .++++|+|++         +.++.+|+.   +++|++|++++|+|+++|..+   .+|+.|++++|. +..++..   .+
T Consensus        38 ~~l~~LdLs~---------~~L~~lp~~---~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~-l~~l~~l---p~   98 (353)
T d1jl5a_          38 RQAHELELNN---------LGLSSLPEL---PPHLESLVASCNSLTELPELP---QSLKSLLVDNNN-LKALSDL---PP   98 (353)
T ss_dssp             HTCSEEECTT---------SCCSCCCSC---CTTCSEEECCSSCCSSCCCCC---TTCCEEECCSSC-CSCCCSC---CT
T ss_pred             cCCCEEEeCC---------CCCCCCCCC---CCCCCEEECCCCCCcccccch---hhhhhhhhhhcc-cchhhhh---cc
Confidence            5799999999         778889864   468999999999999999764   578899999987 7777642   24


Q ss_pred             CCCeEEcCCCCCCccCcccccCCcCCcccCceeecCccCCCCccCchhhhccCCCCceEEcCCCCCCCcchhhhcccccc
Q 043450          412 NMRSLLNGDTSSLKYLPIGISRLTSLRTLEKFVVGGGVDGNNTCRLESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNK  491 (561)
Q Consensus       412 ~L~~L~l~~~~~~~~lp~~i~~l~~L~~L~~~~~~~~~~~~~~~~~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l  491 (561)
                      +|++|++++|. +..+|. ++++++|+.|+  ..++.... .+...      ..+..+.+......      ....+..+
T Consensus        99 ~L~~L~L~~n~-l~~lp~-~~~l~~L~~L~--l~~~~~~~-~~~~~------~~l~~l~~~~~~~~------~~~~l~~l  161 (353)
T d1jl5a_          99 LLEYLGVSNNQ-LEKLPE-LQNSSFLKIID--VDNNSLKK-LPDLP------PSLEFIAAGNNQLE------ELPELQNL  161 (353)
T ss_dssp             TCCEEECCSSC-CSSCCC-CTTCTTCCEEE--CCSSCCSC-CCCCC------TTCCEEECCSSCCS------SCCCCTTC
T ss_pred             ccccccccccc-cccccc-hhhhccceeec--cccccccc-ccccc------ccccchhhcccccc------cccccccc
Confidence            69999999998 778885 68899999997  44443311 11111      22223333222111      12235566


Q ss_pred             cccccEEEEeecCCCCCccccc-----CCCcchHHHhhcCCCCCCCceEEEeecCCCCCChhh
Q 043450          492 KNLLRLGLQFGRVADGEGEEGR-----RKNENDEQLLEALQPPVNVEELWIVYYGGNIFPKWL  549 (561)
Q Consensus       492 ~~L~~L~l~~~~~~~~~~~~~~-----~~n~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~~  549 (561)
                      ..++.|.+++|...........     ..+..... ...+..++.|+.+++++|....+|...
T Consensus       162 ~~l~~L~l~~n~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~l~~L~~l~l~~n~~~~~~~~~  223 (353)
T d1jl5a_         162 PFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEE-LPELQNLPFLTTIYADNNLLKTLPDLP  223 (353)
T ss_dssp             TTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSS-CCCCTTCTTCCEEECCSSCCSSCCSCC
T ss_pred             ccceecccccccccccccccccccccccccccccc-ccccccccccccccccccccccccccc
Confidence            7777888777654332111000     00111112 234566789999999999877777554

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.86  E-value=2.4e-09  Score=98.33  Aligned_cols=35  Identities=11%  Similarity=0.161  Sum_probs=30.0

Q ss_pred             CCceEEEEeeecCCCCCcc-cccccCceeEEEEccC
Q 043450          241 GEKVRHIGLNFQRGASFPM-SFFEFDRLRSLLIYDT  275 (561)
Q Consensus       241 ~~~~~~l~l~~~~~~~~~~-~~~~~~~Lr~L~~~~~  275 (561)
                      +.+++.+.+..+.++.++. +|.++++|++|.+.++
T Consensus        28 ~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n   63 (242)
T d1xwdc1          28 PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQN   63 (242)
T ss_dssp             CSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESC
T ss_pred             CCCCCEEECcCCcCCccChhHhhccchhhhhhhccc
Confidence            4578899999999888874 6889999999999887

>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=98.75  E-value=1.4e-08  Score=85.93  Aligned_cols=95  Identities=18%  Similarity=0.145  Sum_probs=71.6

Q ss_pred             ccccccCccccccCccCEEecCCCC-Ccccc-ccccCCCCccEEecCCCCCcCccC-cccccCCCCCeEEcCCCCCCccC
Q 043450          351 NLIREIPENVEKLIHLKYLNLSGLR-IESLP-ETLCELYNLQKLDIRRCQDLRELP-TGIGKLKNMRSLLNGDTSSLKYL  427 (561)
Q Consensus       351 ~~~~~lp~~~~~l~~L~~L~l~~~~-l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp-~~~~~l~~L~~L~l~~~~~~~~l  427 (561)
                      +.+...|..+..+++|++|++.++. ++.++ ..|.++++|+.|++++|+ ++.++ ..+..+++|++|++++|. +..+
T Consensus        18 ~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~-l~~i~~~~f~~l~~L~~L~Ls~N~-l~~l   95 (156)
T d2ifga3          18 DGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG-LRFVAPDAFHFTPRLSRLNLSFNA-LESL   95 (156)
T ss_dssp             SCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSC-CCEECTTGGGSCSCCCEEECCSSC-CSCC
T ss_pred             CCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccc-cCCcccccccccccccceeccCCC-Cccc
Confidence            6666777778788888888887664 88776 457888888888888887 77764 467888888888888888 6777


Q ss_pred             cccccCCcCCcccCceeecCcc
Q 043450          428 PIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       428 p~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      |.++....+|+.|+  +.+|.+
T Consensus        96 ~~~~~~~~~l~~L~--L~~Np~  115 (156)
T d2ifga3          96 SWKTVQGLSLQELV--LSGNPL  115 (156)
T ss_dssp             CSTTTCSCCCCEEE--CCSSCC
T ss_pred             Chhhhccccccccc--cCCCcc
Confidence            77765555677776  555554

>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=98.69  E-value=1.2e-09  Score=106.31  Aligned_cols=209  Identities=12%  Similarity=0.012  Sum_probs=118.5

Q ss_pred             HHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcc-----ccc---------cccCCCCcc
Q 043450          325 RELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIES-----LPE---------TLCELYNLQ  390 (561)
Q Consensus       325 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~-----lp~---------~i~~L~~L~  390 (561)
                      ...+...++|+.|++++|..-.    ..+..+...+...++|++|++++|.+..     +..         .....+.|+
T Consensus        86 ~~~l~~~~~L~~L~L~~n~i~~----~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~  161 (344)
T d2ca6a1          86 LQALLKCPKLHTVRLSDNAFGP----TAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLR  161 (344)
T ss_dssp             HHHHTTCTTCCEEECCSCCCCT----TTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCC
T ss_pred             HHHHhhCCCccccccccccccc----ccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccc
Confidence            3445667888888888842100    1122344455567888888888887641     101         123467788


Q ss_pred             EEecCCCCCc----CccCcccccCCCCCeEEcCCCCCCcc-----CcccccCCcCCcccCceeecCccCCCCcc-Cchhh
Q 043450          391 KLDIRRCQDL----RELPTGIGKLKNMRSLLNGDTSSLKY-----LPIGISRLTSLRTLEKFVVGGGVDGNNTC-RLESL  460 (561)
Q Consensus       391 ~L~l~~~~~~----~~lp~~~~~l~~L~~L~l~~~~~~~~-----lp~~i~~l~~L~~L~~~~~~~~~~~~~~~-~~~~l  460 (561)
                      .|++++|...    ..+...+...+.|+.|++++|.....     +...+..+++|+.|+  +.+|.+...... ....+
T Consensus       162 ~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~--Ls~N~i~~~g~~~L~~~l  239 (344)
T d2ca6a1         162 SIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLD--LQDNTFTHLGSSALAIAL  239 (344)
T ss_dssp             EEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEE--CCSSCCHHHHHHHHHHHG
T ss_pred             eeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccc--cccccccccccccccccc
Confidence            8888887622    12333456677888888888873221     233456777888887  445543111111 12345


Q ss_pred             hccCCCCceEEcCCCCCCCcchhhhcccc--cccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC-CCCCCceEEE
Q 043450          461 KNLQLLRECRVEGLSNVSHVDEAERLQLY--NKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ-PPVNVEELWI  537 (561)
Q Consensus       461 ~~L~~L~~l~i~~~~~~~~~~~~~~~~l~--~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~-~~~~L~~L~l  537 (561)
                      ...+.|+.|.++++.-.......+...+.  ....|+.|++++|.+..          .....+...+. +.++|+.|++
T Consensus       240 ~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~----------~~~~~l~~~l~~~~~~L~~L~l  309 (344)
T d2ca6a1         240 KSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIEL----------DAVRTLKTVIDEKMPDLLFLEL  309 (344)
T ss_dssp             GGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBH----------HHHHHHHHHHHHHCTTCCEEEC
T ss_pred             cccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCCh----------HHHHHHHHHHHccCCCCCEEEC
Confidence            56677777777665311111111222222  23568888998887532          12334555553 5678889999


Q ss_pred             eecCCCCCChhh
Q 043450          538 VYYGGNIFPKWL  549 (561)
Q Consensus       538 ~~~~~~~lp~~~  549 (561)
                      ++|.+..-...+
T Consensus       310 ~~N~~~~~~~~~  321 (344)
T d2ca6a1         310 NGNRFSEEDDVV  321 (344)
T ss_dssp             TTSBSCTTSHHH
T ss_pred             CCCcCCCcchHH
Confidence            888876544444

>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=98.64  E-value=1.4e-09  Score=105.82  Aligned_cols=225  Identities=18%  Similarity=0.142  Sum_probs=139.2

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCc--ccccccCccccccCccCEEecCCCCCcc-----ccccccCCCCccEEecCC
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDL--NLIREIPENVEKLIHLKYLNLSGLRIES-----LPETLCELYNLQKLDIRR  396 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~--~~~~~lp~~~~~l~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L~l~~  396 (561)
                      +...+...++|+.|+++++..-.....  ..+..+...+...++|+.|++++|.+..     +...+...++|+.|++++
T Consensus        51 l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~  130 (344)
T d2ca6a1          51 LSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHN  130 (344)
T ss_dssp             HHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCS
T ss_pred             HHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccccccccchhhhhcccccchheeccc
Confidence            334466788999999987431100000  0111233445567899999999998753     455667789999999999


Q ss_pred             CCCcCcc-C----c---------ccccCCCCCeEEcCCCCCCc----cCcccccCCcCCcccCceeecCccCCCC--ccC
Q 043450          397 CQDLREL-P----T---------GIGKLKNMRSLLNGDTSSLK----YLPIGISRLTSLRTLEKFVVGGGVDGNN--TCR  456 (561)
Q Consensus       397 ~~~~~~l-p----~---------~~~~l~~L~~L~l~~~~~~~----~lp~~i~~l~~L~~L~~~~~~~~~~~~~--~~~  456 (561)
                      |. +..- .    .         .....+.|+.+.+++|....    .+...+...+.|+.|+  +..+.+....  ...
T Consensus       131 n~-l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~--L~~n~i~~~g~~~~l  207 (344)
T d2ca6a1         131 NG-LGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVK--MVQNGIRPEGIEHLL  207 (344)
T ss_dssp             SC-CHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEE--CCSSCCCHHHHHHHH
T ss_pred             cc-ccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhcccc--cccccccccccccch
Confidence            87 3210 0    0         12356789999999886321    2334456677888887  4555442110  001


Q ss_pred             chhhhccCCCCceEEcCCCCCCCcchhhhcccccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC--CCCCCce
Q 043450          457 LESLKNLQLLRECRVEGLSNVSHVDEAERLQLYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ--PPVNVEE  534 (561)
Q Consensus       457 ~~~l~~L~~L~~l~i~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~--~~~~L~~  534 (561)
                      ...+...+.|+.|++++..-.......+...+..+++|++|++++|.+.+.          ....+.+.+.  +.+.|+.
T Consensus       208 ~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~----------g~~~l~~~l~~~~~~~L~~  277 (344)
T d2ca6a1         208 LEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSAR----------GAAAVVDAFSKLENIGLQT  277 (344)
T ss_dssp             HTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHH----------HHHHHHHHHHTCSSCCCCE
T ss_pred             hhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCch----------hhHHHHHHhhhccCCCCCE
Confidence            223566777888888754311111223445677889999999998876431          1334444443  3567999


Q ss_pred             EEEeecCCCC-----CChhh-hcccCCcEEEcC
Q 043450          535 LWIVYYGGNI-----FPKWL-TLLTNLRDLNLD  561 (561)
Q Consensus       535 L~l~~~~~~~-----lp~~~-~~l~~L~~L~L~  561 (561)
                      |++++|.+..     +...+ .++++|+.|+|+
T Consensus       278 L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~  310 (344)
T d2ca6a1         278 LRLQYNEIELDAVRTLKTVIDEKMPDLLFLELN  310 (344)
T ss_dssp             EECCSSCCBHHHHHHHHHHHHHHCTTCCEEECT
T ss_pred             EECCCCcCChHHHHHHHHHHHccCCCCCEEECC
Confidence            9999998643     34445 368899999985

>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=98.60  E-value=4.6e-08  Score=82.66  Aligned_cols=86  Identities=13%  Similarity=0.159  Sum_probs=74.8

Q ss_pred             HhccccccEEeccCCCCCCCCCcccccccC-ccccccCccCEEecCCCCCcccc-ccccCCCCccEEecCCCCCcCccCc
Q 043450          328 FSKLACLRALVISQPSPIFRPDLNLIREIP-ENVEKLIHLKYLNLSGLRIESLP-ETLCELYNLQKLDIRRCQDLRELPT  405 (561)
Q Consensus       328 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp-~~~~~l~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~lp~  405 (561)
                      +..+++|+.|++.++        +.++.++ ..|..+++|+.|++++|+|+.++ ..|..+++|++|+|++|+ ++.+|.
T Consensus        27 l~~l~~l~~L~l~~n--------~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~-l~~l~~   97 (156)
T d2ifga3          27 LPGAENLTELYIENQ--------QHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA-LESLSW   97 (156)
T ss_dssp             SCSCSCCSEEECCSC--------SSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC-CSCCCS
T ss_pred             ccCccccCeeecCCC--------ccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCC-CcccCh
Confidence            567889999999863        5688886 45889999999999999999885 558999999999999999 889988


Q ss_pred             ccccCCCCCeEEcCCCC
Q 043450          406 GIGKLKNMRSLLNGDTS  422 (561)
Q Consensus       406 ~~~~l~~L~~L~l~~~~  422 (561)
                      .+....+|++|++++|.
T Consensus        98 ~~~~~~~l~~L~L~~Np  114 (156)
T d2ifga3          98 KTVQGLSLQELVLSGNP  114 (156)
T ss_dssp             TTTCSCCCCEEECCSSC
T ss_pred             hhhccccccccccCCCc
Confidence            77666789999999987

>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=98.60  E-value=4.1e-09  Score=106.26  Aligned_cols=64  Identities=25%  Similarity=0.353  Sum_probs=41.0

Q ss_pred             cccccccccEEEEeecCCCCCcccccCCCcchHHHhhcCC-CCCCCceEEEeecCCCC-----CChhhhcccCCcEEEcC
Q 043450          488 LYNKKNLLRLGLQFGRVADGEGEEGRRKNENDEQLLEALQ-PPVNVEELWIVYYGGNI-----FPKWLTLLTNLRDLNLD  561 (561)
Q Consensus       488 l~~l~~L~~L~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~-~~~~L~~L~l~~~~~~~-----lp~~~~~l~~L~~L~L~  561 (561)
                      +....+|+.|+|++|.+.+          .....+.+.+. ..+.|+.|++++|.++.     ++..+..+++|++|+|+
T Consensus       336 ~~~~~~L~~L~Ls~N~i~~----------~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls  405 (460)
T d1z7xw1         336 LAQNRFLLELQISNNRLED----------AGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLS  405 (460)
T ss_dssp             HHHCSSCCEEECCSSBCHH----------HHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECC
T ss_pred             cccccchhhhheeeecccC----------cccchhhhhhhcccCCCCEEECCCCCCChHHHHHHHHHHhcCCCCCEEECC
Confidence            3445678888888776421          01233455553 45678888888888643     44555677888888875

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=9.9e-07  Score=88.18  Aligned_cols=101  Identities=19%  Similarity=0.221  Sum_probs=72.0

Q ss_pred             CcchhHHHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCcc-----ccccccC-CCCccE
Q 043450          318 SLNSSILRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIES-----LPETLCE-LYNLQK  391 (561)
Q Consensus       318 ~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~~-----lp~~i~~-L~~L~~  391 (561)
                      .+....+...+..++++++|+|++|+..    ...+..++..+..+++|++|+|++|.|+.     +...+.. ..+|++
T Consensus        13 ~i~~~~~~~l~~~l~~l~~L~L~~~~i~----~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~   88 (460)
T d1z7xw1          13 ELSDARWAELLPLLQQCQVVRLDDCGLT----EARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQK   88 (460)
T ss_dssp             CCCHHHHHHHHHHHTTCSEEEEESSCCC----HHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCE
T ss_pred             cCChHHHHHHHHhCCCCCEEEeCCCCCC----HHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCE
Confidence            3445566777888999999999995310    01223455667788999999999998862     2333322 357999


Q ss_pred             EecCCCCCcCc-----cCcccccCCCCCeEEcCCCCC
Q 043450          392 LDIRRCQDLRE-----LPTGIGKLKNMRSLLNGDTSS  423 (561)
Q Consensus       392 L~l~~~~~~~~-----lp~~~~~l~~L~~L~l~~~~~  423 (561)
                      |++++|. ++.     ++..+..+++|++|++++|..
T Consensus        89 L~L~~n~-it~~~~~~l~~~l~~~~~L~~L~L~~N~i  124 (460)
T d1z7xw1          89 LSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDNLL  124 (460)
T ss_dssp             EECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSSBC
T ss_pred             EECCCCC-ccccccccccchhhccccccccccccccc
Confidence            9999997 543     456677889999999999873

>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=97.84  E-value=7.2e-07  Score=75.64  Aligned_cols=80  Identities=23%  Similarity=0.169  Sum_probs=45.9

Q ss_pred             cccCccCEEecCCCCCccc---cccccCCCCccEEecCCCCCcCccCc-ccccCCCCCeEEcCCCCCCccCc-------c
Q 043450          361 EKLIHLKYLNLSGLRIESL---PETLCELYNLQKLDIRRCQDLRELPT-GIGKLKNMRSLLNGDTSSLKYLP-------I  429 (561)
Q Consensus       361 ~~l~~L~~L~l~~~~l~~l---p~~i~~L~~L~~L~l~~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~lp-------~  429 (561)
                      ..+++|++|++++|+|+.+   +..+..+++|+.|++++|. +..+++ ......+|+.|++++|.......       .
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~-i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~  140 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISA  140 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSC-CCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCc-cccchhhhhhhccccceeecCCCCcCcCcccchhHHHH
Confidence            4466677777777766644   2335566777777777766 555554 22233456777777766333222       1


Q ss_pred             cccCCcCCcccC
Q 043450          430 GISRLTSLRTLE  441 (561)
Q Consensus       430 ~i~~l~~L~~L~  441 (561)
                      .+..+++|++|+
T Consensus       141 i~~~~P~L~~LD  152 (162)
T d1koha1         141 IRERFPKLLRLD  152 (162)
T ss_dssp             HHTTSTTCCEET
T ss_pred             HHHHCCCCCEEC
Confidence            145566777766

>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=97.71  E-value=7.1e-06  Score=69.27  Aligned_cols=86  Identities=23%  Similarity=0.183  Sum_probs=65.5

Q ss_pred             HHHHHHhccccccEEeccCCCCCCCCCcccccccC---ccccccCccCEEecCCCCCccccc-cccCCCCccEEecCCCC
Q 043450          323 ILRELFSKLACLRALVISQPSPIFRPDLNLIREIP---ENVEKLIHLKYLNLSGLRIESLPE-TLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       323 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp---~~~~~l~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~  398 (561)
                      .++..+..++.|++|+|++         |.++.++   ..+..+++|++|++++|.|+.+++ ...+..+|+.|++++|+
T Consensus        56 ~l~~~~~~~~~L~~L~Ls~---------N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          56 TLRIIEENIPELLSLNLSN---------NRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHHHHHHHCTTCCCCCCCS---------SCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             hhHHHHHhCCCCCEeeCCC---------ccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCC
Confidence            3455567899999999999         7777653   456789999999999999998875 23345679999999998


Q ss_pred             CcCccCc-------ccccCCCCCeEE
Q 043450          399 DLRELPT-------GIGKLKNMRSLL  417 (561)
Q Consensus       399 ~~~~lp~-------~~~~l~~L~~L~  417 (561)
                      .......       .+..+++|+.||
T Consensus       127 l~~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         127 LSDTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             TSSSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             cCcCcccchhHHHHHHHHCCCCCEEC
Confidence            4333332       256789999986

>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=95.92  E-value=0.0069  Score=50.39  Aligned_cols=38  Identities=18%  Similarity=0.183  Sum_probs=17.7

Q ss_pred             cccCccCEEecCCCCCc-----cccccccCCCCccEEecCCCC
Q 043450          361 EKLIHLKYLNLSGLRIE-----SLPETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       361 ~~l~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~l~~~~  398 (561)
                      ...++|++|++++|.+.     .+...+...+.|+.|++++|.
T Consensus        41 ~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~   83 (167)
T d1pgva_          41 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNF   83 (167)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSB
T ss_pred             hhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhh
Confidence            33444555555555543     112233344555555555554

>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=95.83  E-value=0.0036  Score=52.22  Aligned_cols=79  Identities=19%  Similarity=0.167  Sum_probs=48.3

Q ss_pred             cCccCEEecCCCC-Cc-----cccccccCCCCccEEecCCCCCc----CccCcccccCCCCCeEEcCCCCCCcc----Cc
Q 043450          363 LIHLKYLNLSGLR-IE-----SLPETLCELYNLQKLDIRRCQDL----RELPTGIGKLKNMRSLLNGDTSSLKY----LP  428 (561)
Q Consensus       363 l~~L~~L~l~~~~-l~-----~lp~~i~~L~~L~~L~l~~~~~~----~~lp~~~~~l~~L~~L~l~~~~~~~~----lp  428 (561)
                      .++|+.|+|+++. +.     .+-..+...++|+.|++++|..-    ..+...+...+.|++|++++|.....    +-
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~   93 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLL   93 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHH
Confidence            3567777776643 43     23345666778888888888632    12223455567788888888873221    22


Q ss_pred             ccccCCcCCcccC
Q 043450          429 IGISRLTSLRTLE  441 (561)
Q Consensus       429 ~~i~~l~~L~~L~  441 (561)
                      ..+..-++|+.|+
T Consensus        94 ~aL~~n~sL~~L~  106 (167)
T d1pgva_          94 RSTLVTQSIVEFK  106 (167)
T ss_dssp             HHTTTTCCCSEEE
T ss_pred             HHHHhCCcCCEEE
Confidence            3455667788876

>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=93.64  E-value=0.071  Score=43.76  Aligned_cols=115  Identities=16%  Similarity=0.140  Sum_probs=54.2

Q ss_pred             HHHHHhccccccEEeccCCCCCCCCCcccccccCccccccCccCEEecCCCCCc-----cccccccCCCCccEEecCCCC
Q 043450          324 LRELFSKLACLRALVISQPSPIFRPDLNLIREIPENVEKLIHLKYLNLSGLRIE-----SLPETLCELYNLQKLDIRRCQ  398 (561)
Q Consensus       324 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~lp~~~~~l~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~l~~~~  398 (561)
                      +.......+.|+.|+++++..+.   ...+..+-..+...++|+.|++++|.+.     .+-..+...+.++.+++++|.
T Consensus         9 l~~~~~~~~~L~~L~L~~~~~i~---~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~   85 (166)
T d1io0a_           9 LKRIQNNDPDLEEVNLNNIMNIP---VPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNF   85 (166)
T ss_dssp             HHHHHTTCTTCCEEECTTCTTCC---HHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSC
T ss_pred             HHHHHhcCCCCcEEEcCCCCCCC---HHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhcccc
Confidence            34444455666666666521000   0011122233445566666666666654     122344556666667666665


Q ss_pred             Cc----CccCcccccCCCCCeEEcCCCC-CCc-----cCcccccCCcCCcccC
Q 043450          399 DL----RELPTGIGKLKNMRSLLNGDTS-SLK-----YLPIGISRLTSLRTLE  441 (561)
Q Consensus       399 ~~----~~lp~~~~~l~~L~~L~l~~~~-~~~-----~lp~~i~~l~~L~~L~  441 (561)
                      ..    ..+-..+...++|+.++++.+. .++     .+...+...++|+.|+
T Consensus        86 ~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~  138 (166)
T d1io0a_          86 ISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFG  138 (166)
T ss_dssp             CCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEE
T ss_pred             ccchhHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEe
Confidence            21    1122344555666665554322 121     2333344556666665

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=92.92  E-value=0.041  Score=45.31  Aligned_cols=89  Identities=18%  Similarity=0.068  Sum_probs=57.9

Q ss_pred             cccCccCEEecCCC-CCc-----cccccccCCCCccEEecCCCCCcCc----cCcccccCCCCCeEEcCCCCCCc----c
Q 043450          361 EKLIHLKYLNLSGL-RIE-----SLPETLCELYNLQKLDIRRCQDLRE----LPTGIGKLKNMRSLLNGDTSSLK----Y  426 (561)
Q Consensus       361 ~~l~~L~~L~l~~~-~l~-----~lp~~i~~L~~L~~L~l~~~~~~~~----lp~~~~~l~~L~~L~l~~~~~~~----~  426 (561)
                      ...++|++|+++++ .++     .+-..+...++|++|++++|..-..    +-..+...++++.+++++|....    .
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHH
Confidence            44578999999874 464     2445566789999999999872221    22345567889999998887422    2


Q ss_pred             CcccccCCcCCcccCceeecCcc
Q 043450          427 LPIGISRLTSLRTLEKFVVGGGV  449 (561)
Q Consensus       427 lp~~i~~l~~L~~L~~~~~~~~~  449 (561)
                      +-..+...++|+.+++..+.+.+
T Consensus        94 l~~~l~~~~~L~~l~L~l~~n~i  116 (166)
T d1io0a_          94 LVEALQSNTSLIELRIDNQSQPL  116 (166)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCC
T ss_pred             HHHHHHhCccccEEeeccCCCcC
Confidence            33455667778776543444443

>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=80.41  E-value=1.6  Score=38.05  Aligned_cols=52  Identities=17%  Similarity=0.216  Sum_probs=39.4

Q ss_pred             ceEeCCCCChhhhHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHcCCChhhHHHHhhhc
Q 043450           25 NIISIKPLPEDEFWSLFERFAFFGHSSVDREKLEPIARQIARKCKGLPLAAKVTGNLL   82 (561)
Q Consensus        25 ~~~~v~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~iv~~c~GlPLal~~~g~~L   82 (561)
                      ..+.+++++.+++.+++.+.+-. .. ...++    +++|.+.++|.|..|..+|..+
T Consensus       201 ~~i~L~~l~~~e~~~~l~~~~~~-~~-~~~~~----~~~i~~~~~G~P~~L~~~~~~~  252 (283)
T d2fnaa2         201 STVELKPFSREEAIEFLRRGFQE-AD-IDFKD----YEVVYEKIGGIPGWLTYFGFIY  252 (283)
T ss_dssp             EEEEECCCCHHHHHHHHHHHHHH-HT-CCCCC----HHHHHHHHCSCHHHHHHHHHHH
T ss_pred             eEEeeCCCCHHHHHHHHHhhhhh-cC-CCHHH----HHHHHHHhCCCHHHHHHHHHHH
Confidence            46889999999999999775421 11 12233    5689999999999999998764