Citrus Sinensis ID: 040109

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------60
Protein Sequence
MSSKCFLLLQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNIAKLQRRVRN
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHcccccccccccccccccccccccEEEcEEEccccccEEEEEccccccccccccEEEccccccccccccEEEccccccccccccccccccccccEEEcccccccccccccccccccccEEEccccccccccccccccccccccEEEccccccccccccHHHccccccccEEEccccccccccccccccccccccccEEEcccccccccccHHHHHHccccccEEEcccccccccccHHHHccccccEEEccccccccccHHHHccccccEEEccccccccccccHHHHccccccccccccEEEcccccccccccccccccccccccEEEEEEEEEEEEcccccccccccccEEEcccccccccccHHHHccccccEEccccccccccccccccccccccEEEcccccccccccHHHHccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEEEHHHHHHHHHHHHHHHccccHHHHHHHHHHccccEEEEEEHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccccccccccccccccccEEEEEcccccEEEEEEcccccccccccccccccHHHcccccccEEEccccccccccccHHHcccccccEEEcccccccccccHHHcccccccEEEccccccccccccHHHcccccccEEEcccccccccccccHHHccccccEEEEcccccccccccHHHHHcccccccEEEEcccccccccccHHHHccccccEEEEEEccccccccccHHHccccccEEEEccccccccccHHHccccccEEEEEccccccccccHHHccccHHHcccccccEEEccccccccccccHHcccccccEEEEHccccccccccccHHHcccccccEEEcccccccccccHHHccccccEEEEcccccEEccccHHccccccccEEEccccccEEcccHHHHHcccccEEEccccEEEEEccccccHHHccHHHcccccEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MSSKCFLLLQYVSLISVILFqleptvansnniISCLDEEKEALLAFKQGLidesgilsswgredekrncckwrgvrcsnktghvlgldlralsdspvdalkgtinpsllklqhltyldlswnnfsgspipeFIGSLSKLSELALSSaqlagpiphqlgnlsrlQVLDLRFNNlfssgnldwlSYLSSlryldlgdcklskfSNWFQVLSNLRSLTTLylghcdlppistpsllhlnysksLEVIdlsnnyltnsiypwLLNVSSnlvdhidlgsnrlhgsipvafGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNvssgstknssLEWLYLASNeitgtipnlggfpgmlmplIYFDKITvtwkggqyeYKSILGLIKIIdlssnklggevpEEIMDLVGLVALnlsnnnltgqitprigqlksldflDLSINhffggipssLSRLRLLSVMDLsynnfsgkipkgtqlqrfgastyagnpelcglplpnkcldeesapspsrddayntpdddgdqfiTLGFYMSMILGFFVGFWGVCGTLLvksswrcgyynFLTGVKDWLYVEAVVNIAKLQRRVRN
Flexible Loop (DISEMBL)
MSSKCFLLLQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDesgilsswgredekrncckwrgvrcsnktghvLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPspsrddayntpdDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNiaklqrrvrn
Low Complexity Region (SEG)
MSSKCFLLLQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGslsklselalssaqlaGPIPHQLGNLSRLQVLDLRFNNLFSSGNldwlsylsslryldlGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPsslsrlrllsVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNIAKLQRRVRN
Disordered region (IsUnstruct)
****CFLLLQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL***************YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNV*******SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPL***************************QFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNIAKL******
Disordered Region (DISOPRED)
***KCFLLLQYVSLISVILFQLEPTV***********EEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPN*************************QFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNIAKLQRRV**
Disordered Region (DISEMBL)
MSSKCFLLLQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLD***********AYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNIAKLQRRVRN
Disordered Region (DISPRO)
*SSKCFLLLQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKC********************DGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNIAKLQ*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSSKCFLLLQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYVEAVVNIAKLQRRVRN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	598	2.2.26 [Sep-21-2011]
Q42371	976	LRR receptor-like serine/	no	no	0.775	0.475	0.300	8e-42
Q9ZPS9	1143	Serine/threonine-protein	no	no	0.627	0.328	0.326	3e-39
C0LGQ5	1249	LRR receptor-like serine/	no	no	0.675	0.323	0.326	7e-39
C0LGE4	882	Probable LRR receptor-lik	no	no	0.772	0.523	0.287	1e-37
Q9SHI2	1101	Leucine-rich repeat recep	no	no	0.749	0.406	0.320	4e-37
C0LGW6	966	LRR receptor-like serine/	no	no	0.765	0.474	0.295	4e-35
O82318	960	Probably inactive leucine	no	no	0.700	0.436	0.334	9e-35
Q9FL51	872	Probably inactive leucine	no	no	0.839	0.575	0.279	1e-34
Q6XAT2	967	LRR receptor-like serine/	no	no	0.742	0.459	0.292	3e-34
Q9LVP0	1102	Probable leucine-rich rep	no	no	0.695	0.377	0.330	4e-34

>sp|Q42371|ERECT_ARATH LRR receptor-like serine/threonine-protein kinase ERECTA OS=Arabidopsis thaliana GN=ERECTA PE=1 SV=1

 Score =  172 bits (435), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 171/569 (30%), Positives = 255/569 (44%), Gaps = 105/569 (18%)

Query: 32  IISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRA 91
           + +   EE   LL  K+   D + +L  W       + C WRGV C N T +V+ L+L  
Sbjct: 19  VATVTSEEGATLLEIKKSFKDVNNVLYDW-TTSPSSDYCVWRGVSCENVTFNVVALNLSD 77

Query: 92  LS------------------DSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFI 133
           L+                  D   + L G I   +     L  LDLS+N  SG  IP  I
Sbjct: 78  LNLDGEISPAIGDLKSLLSIDLRGNRLSGQIPDEIGDCSSLQNLDLSFNELSGD-IPFSI 136

Query: 134 GSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSY--------- 184
             L +L +L L + QL GPIP  L  +  L++LDL  N L  SG +  L Y         
Sbjct: 137 SKLKQLEQLILKNNQLIGPIPSTLSQIPNLKILDLAQNKL--SGEIPRLIYWNEVLQYLG 194

Query: 185 ----------------LSSLRYLDLGDCKLSKF-------SNWFQVL----SNLRSLTTL 217
                           L+ L Y D+ +  L+            FQVL    + L      
Sbjct: 195 LRGNNLVGNISPDLCQLTGLWYFDVRNNSLTGSIPETIGNCTAFQVLDLSYNQLTGEIPF 254

Query: 218 YLGHCDLPPIS---------TPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD 268
            +G   +  +S          PS++ L   ++L V+DLS N L+ SI P L N++    +
Sbjct: 255 DIGFLQVATLSLQGNQLSGKIPSVIGL--MQALAVLDLSGNLLSGSIPPILGNLT--FTE 310

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGE 327
            + L SN+L GSIP   G+M+ L YL L  N L   +P  LG ++ L  L ++ N+L G 
Sbjct: 311 KLYLHSNKLTGSIPPELGNMSKLHYLELNDNHLTGHIPPELGKLTDLFDLNVANNDLEGP 370

Query: 328 LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQY 387
           + + + + ++       L  L +  N+ +GTIP    F   L  + Y +  +   KG   
Sbjct: 371 IPDHLSSCTN-------LNSLNVHGNKFSGTIPR--AF-QKLESMTYLNLSSNNIKGPIP 420

Query: 388 EYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFL 447
              S +G +  +DLS+NK+ G +P  + DL  L+ +NLS N++TG +    G L+S+  +
Sbjct: 421 VELSRIGNLDTLDLSNNKINGIIPSSLGDLEHLLKMNLSRNHITGVVPGDFGNLRSIMEI 480

Query: 448 DLSINHFFGGIPSSLSR------LRL-----------------LSVMDLSYNNFSGKIPK 484
           DLS N   G IP  L++      LRL                 L+V+++S+NN  G IPK
Sbjct: 481 DLSNNDISGPIPEELNQLQNIILLRLENNNLTGNVGSLANCLSLTVLNVSHNNLVGDIPK 540

Query: 485 GTQLQRFGASTYAGNPELCGLPLPNKCLD 513
                RF   ++ GNP LCG  L + C D
Sbjct: 541 NNNFSRFSPDSFIGNPGLCGSWLNSPCHD 569

Receptor kinase that, together with ERL1 and ERL2, regulates aerial architecture, including inflorescence (e.g. shoot apical meristem-originating organ shape, elongation of the internode and pedicels, and adaxial-abaxial polarity), and stomatal patterning (e.g. density and clustering), probably by tuning cell division and expansion. Modulates plant transpiration efficiency by controlling stomatal density, leaf photosynthetic capacity, epidermal cell expansion, mesophyll cell proliferation and cell-cell contact. Probable major trait regulating canalization (maintenance of phenotype despite varying environment) in many aspect of the plant physiology (e.g. plant morphology, light-dependent leaves number, branch number, flowering time, phytate and mineral concentrations) by transducing microenvironmental variation into phenotypic differentiation (ecological amplifier). May maintain development integrity in heat stress conditions. Regulates cell wall composition and structure. Confers resistance to the pathogenic bacteria Ralstonia solanacearum and to the necrotrophic fungi Plectosphaerella cucumerina and Pythium irregulare, and required for callose deposition upon infection. Resistance to P.cucumerina seems cell wall-mediated.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 1EC: 1EC: .EC: 1

>sp|Q9ZPS9|BRL2_ARATH Serine/threonine-protein kinase BRI1-like 2 OS=Arabidopsis thaliana GN=BRL2 PE=1 SV=1

 Score =  163 bits (413), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 154/471 (32%), Positives = 216/471 (45%), Gaps = 96/471 (20%)

Query: 112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQ-LGNLSRLQVLDLRF 170
           + L  L LS+NNF+G  IPE + S S L  L LS+  ++GP P+  L +   LQ+L L  
Sbjct: 277 RSLQNLRLSYNNFTGV-IPESLSSCSWLQSLDLSNNNISGPFPNTILRSFGSLQILLLS- 334

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWF--------QVLSNLRSLTTLYLGHC 222
           NNL S    D+ + +S+ + L + D   ++FS             L  LR    L  G  
Sbjct: 335 NNLISG---DFPTSISACKSLRIADFSSNRFSGVIPPDLCPGAASLEELRLPDNLVTG-- 389

Query: 223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYP-------------WLLNVS------ 263
           ++PP        ++    L  IDLS NYL  +I P             W  N++      
Sbjct: 390 EIPPA-------ISQCSELRTIDLSLNYLNGTIPPEIGNLQKLEQFIAWYNNIAGEIPPE 442

Query: 264 ----SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLV 318
                NL D I L +N+L G IP  F + +++ ++   SNRL  EVPK  G +S L +L 
Sbjct: 443 IGKLQNLKDLI-LNNNQLTGEIPPEFFNCSNIEWVSFTSNRLTGEVPKDFGILSRLAVLQ 501

Query: 319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP-NLGGFPGM--------- 368
           L  N   GE+   +        K ++L WL L +N +TG IP  LG  PG          
Sbjct: 502 LGNNNFTGEIPPEL-------GKCTTLVWLDLNTNHLTGEIPPRLGRQPGSKALSGLLSG 554

Query: 369 -LMPLIYFDKITVTWKGGQYEYKSI------------------------------LGLIK 397
             M  +     +    GG  E+  I                                 I+
Sbjct: 555 NTMAFVRNVGNSCKGVGGLVEFSGIRPERLLQIPSLKSCDFTRMYSGPILSLFTRYQTIE 614

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGG 457
            +DLS N+L G++P+EI +++ L  L LS+N L+G+I   IGQLK+L   D S N   G 
Sbjct: 615 YLDLSYNQLRGKIPDEIGEMIALQVLELSHNQLSGEIPFTIGQLKNLGVFDASDNRLQGQ 674

Query: 458 IPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLP 508
           IP S S L  L  +DLS N  +G IP+  QL    A+ YA NP LCG+PLP
Sbjct: 675 IPESFSNLSFLVQIDLSNNELTGPIPQRGQLSTLPATQYANNPGLCGVPLP 725

Receptor with a serine/threonine-protein kinase activity, which may transduce extracellular spatial and temporal signals into downstream cell differentiation responses in provascular and procambial cells. In contrast to BRI1, BRL1 and BRL3, it does not bind brassinolide.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|C0LGQ5|GSO1_ARATH LRR receptor-like serine/threonine-protein kinase GSO1 OS=Arabidopsis thaliana GN=GSO1 PE=2 SV=1

 Score =  162 bits (410), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 156/478 (32%), Positives = 233/478 (48%), Gaps = 74/478 (15%)

Query: 30  NNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTG--HVLGL 87
           NN +  L E K++L+   Q    E   L  W  ++   N C W GV C N TG   V+ L
Sbjct: 24  NNDLQTLLEVKKSLVTNPQ----EDDPLRQWNSDN--INYCSWTGVTCDN-TGLFRVIAL 76

Query: 88  DLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSA 147
           +L  L       L G+I+P   +  +L +LDLS NN  G PIP  + +L+ L  L L S 
Sbjct: 77  NLTGL------GLTGSISPWFGRFDNLIHLDLSSNNLVG-PIPTALSNLTSLESLFLFSN 129

Query: 148 QLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL-DWLSYLSSLRYLDLGDCKL-----SKF 201
           QL G IP QLG+L  ++ L +  N L   G++ + L  L +L+ L L  C+L     S+ 
Sbjct: 130 QLTGEIPSQLGSLVNIRSLRIGDNELV--GDIPETLGNLVNLQMLALASCRLTGPIPSQL 187

Query: 202 SNWFQVLS------NLRSLTTLYLGHCDLPPISTPSLLHLNYS--------KSLEVIDLS 247
               +V S       L       LG+C    + T +   LN +        ++LE+++L+
Sbjct: 188 GRLVRVQSLILQDNYLEGPIPAELGNCSDLTVFTAAENMLNGTIPAELGRLENLEILNLA 247

Query: 248 NNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPK 306
           NN LT  I   L  +S   + ++ L +N+L G IP +   + +L+ L L +N L  E+P+
Sbjct: 248 NNSLTGEIPSQLGEMSQ--LQYLSLMANQLQGLIPKSLADLGNLQTLDLSANNLTGEIPE 305

Query: 307 FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
              NMS L  LVL+ N L G L + I       + N++LE L L+  +++G IP      
Sbjct: 306 EFWNMSQLLDLVLANNHLSGSLPKSI------CSNNTNLEQLVLSGTQLSGEIP------ 353

Query: 367 GMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS 426
                 +   K                  +K +DLS+N L G +PE + +LV L  L L 
Sbjct: 354 ------VELSKCQS---------------LKQLDLSNNSLAGSIPEALFELVELTDLYLH 392

Query: 427 NNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
           NN L G ++P I  L +L +L L  N+  G +P  +S LR L V+ L  N FSG+IP+
Sbjct: 393 NNTLEGTLSPSISNLTNLQWLVLYHNNLEGKLPKEISALRKLEVLFLYENRFSGEIPQ 450

Together with GSO2, receptor-like serine/threonine-kinase required during the development of the epidermal surface in embryos and cotyledons.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|C0LGE4|Y1124_ARATH Probable LRR receptor-like serine/threonine-protein kinase At1g12460 OS=Arabidopsis thaliana GN=At1g12460 PE=1 SV=1

 Score =  158 bits (399), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 147/511 (28%), Positives = 234/511 (45%), Gaps = 49/511 (9%)

Query: 39  EKEALLAFKQGLIDES-GILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPV 97
           E++ LL FK  + D+    L+SW  + +   C  + G+ C N  G V  + L   S    
Sbjct: 26  ERDILLQFKGSISDDPYNSLASWVSDGDL--CNSFNGITC-NPQGFVDKIVLWNTS---- 78

Query: 98  DALKGTINPSLLKLQHLTYLDLSWNNFSGS-PIPEFIGSLSKLSELALSSAQLAGPIPHQ 156
             L GT+ P L  L+ +  L+L  N F+G+ P+  F   L  L  + +SS  L+GPIP  
Sbjct: 79  --LAGTLAPGLSNLKFIRVLNLFGNRFTGNLPLDYF--KLQTLWTINVSSNALSGPIPEF 134

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
           +  LS L+ LDL  N       +    +    +++ L    +  F +    + N  +L  
Sbjct: 135 ISELSSLRFLDLSKNGFTGEIPVSLFKFCDKTKFVSLAHNNI--FGSIPASIVNCNNLVG 192

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNR 276
               + +L  +  P +  +     LE I + NN L+  +   +      ++  +DLGSN 
Sbjct: 193 FDFSYNNLKGVLPPRICDI---PVLEYISVRNNLLSGDVSEEIQKCQRLIL--VDLGSNL 247

Query: 277 LHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNV 335
            HG  P A     ++ Y  +  NR   E+ + +    SL+ L  S NEL G        +
Sbjct: 248 FHGLAPFAVLTFKNITYFNVSWNRFGGEIGEIVDCSESLEFLDASSNELTGR-------I 300

Query: 336 SSGSTKNSSLEWLYLASNEITGTIP-NLGGFPGMLMPLIYFDKI--TVTWKGGQYEYKSI 392
            +G     SL+ L L SN++ G+IP ++G    + +  +  + I   +    G  E+  +
Sbjct: 301 PTGVMGCKSLKLLDLESNKLNGSIPGSIGKMESLSVIRLGNNSIDGVIPRDIGSLEFLQV 360

Query: 393 LGLIKI------------------IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQI 434
           L L  +                  +D+S N L G++ +++++L  +  L+L  N L G I
Sbjct: 361 LNLHNLNLIGEVPEDISNCRVLLELDVSGNDLEGKISKKLLNLTNIKILDLHRNRLNGSI 420

Query: 435 TPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGAS 494
            P +G L  + FLDLS N   G IPSSL  L  L+  ++SYNN SG IP    +Q FG+S
Sbjct: 421 PPELGNLSKVQFLDLSQNSLSGPIPSSLGSLNTLTHFNVSYNNLSGVIPPVPMIQAFGSS 480

Query: 495 TYAGNPELCGLPLPNKCLDEESAPSPSRDDA 525
            ++ NP LCG PL   C    +A      DA
Sbjct: 481 AFSNNPFLCGDPLVTPCNSRGAAAKSRNSDA 511

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9SHI2|Y1723_ARATH Leucine-rich repeat receptor-like serine/threonine-protein kinase At1g17230 OS=Arabidopsis thaliana GN=At1g17230 PE=2 SV=2

 Score =  156 bits (394), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 153/478 (32%), Positives = 232/478 (48%), Gaps = 30/478 (6%)

Query: 32  IISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRA 91
           ++  L+EE   LL FK  L D +G L+SW + D   N C W G+ C++    V  +DL  
Sbjct: 20  LVRSLNEEGRVLLEFKAFLNDSNGYLASWNQLDS--NPCNWTGIACTHLR-TVTSVDLNG 76

Query: 92  LSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG 151
           ++      L GT++P + KL  L  L++S N  SG PIP+ +     L  L L + +  G
Sbjct: 77  MN------LSGTLSPLICKLHGLRKLNVSTNFISG-PIPQDLSLCRSLEVLDLCTNRFHG 129

Query: 152 PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNL 211
            IP QL  +  L+ L L  N LF S     +  LSSL+ L +    L+        ++ L
Sbjct: 130 VIPIQLTMIITLKKLYLCENYLFGSIP-RQIGNLSSLQELVIYSNNLTGV--IPPSMAKL 186

Query: 212 RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID 271
           R L  +  G      +  PS   ++  +SL+V+ L+ N L  S+ P  L    NL D I 
Sbjct: 187 RQLRIIRAGRNGFSGV-IPS--EISGCESLKVLGLAENLLEGSL-PKQLEKLQNLTDLI- 241

Query: 272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSE 330
           L  NRL G IP + G+++ L  L L  N     +P+ +G ++ +K L L  N+L GE+  
Sbjct: 242 LWQNRLSGEIPPSVGNISRLEVLALHENYFTGSIPREIGKLTKMKRLYLYTNQLTGEIPR 301

Query: 331 FIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYK 390
            I N+   +        +  + N++TG IP   G    L  L  F+ I +   G      
Sbjct: 302 EIGNLIDAAE-------IDFSENQLTGFIPKEFGHILNLKLLHLFENILL---GPIPREL 351

Query: 391 SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS 450
             L L++ +DLS N+L G +P+E+  L  LV L L +N L G+I P IG   +   LD+S
Sbjct: 352 GELTLLEKLDLSINRLNGTIPQELQFLPYLVDLQLFDNQLEGKIPPLIGFYSNFSVLDMS 411

Query: 451 INHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCG-LPL 507
            N   G IP+   R + L ++ L  N  SG IP+  +  +       G+ +L G LP+
Sbjct: 412 ANSLSGPIPAHFCRFQTLILLSLGSNKLSGNIPRDLKTCKSLTKLMLGDNQLTGSLPI 469

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|C0LGW6|ERL1_ARATH LRR receptor-like serine/threonine-protein kinase ERL1 OS=Arabidopsis thaliana GN=ERL1 PE=2 SV=1

 Score =  150 bits (378), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 165/558 (29%), Positives = 250/558 (44%), Gaps = 100/558 (17%)

Query: 32  IISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRA 91
           + S ++ E +AL+A K    +   +L  W  +    + C WRGV C N +  V+ L+L +
Sbjct: 22  VASAMNNEGKALMAIKGSFSNLVNMLLDWD-DVHNSDLCSWRGVFCDNVSYSVVSLNLSS 80

Query: 92  LSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG 151
           L+      L G I+P++  L++L  +DL  N  +G  IP+ IG+ + L  L LS   L G
Sbjct: 81  LN------LGGEISPAIGDLRNLQSIDLQGNKLAGQ-IPDEIGNCASLVYLDLSENLLYG 133

Query: 152 PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG----DCKLSKFSNWFQV 207
            IP  +  L +L+ L+L+ NN  +      L+ + +L+ LDL       ++S+   W +V
Sbjct: 134 DIPFSISKLKQLETLNLK-NNQLTGPVPATLTQIPNLKRLDLAGNHLTGEISRLLYWNEV 192

Query: 208 LSNL----RSLT-TLYLGHCDLPPI------------STPSLLHLNYSKSLEVIDLSNNY 250
           L  L      LT TL    C L  +            + P    +    S +++D+S N 
Sbjct: 193 LQYLGLRGNMLTGTLSSDMCQLTGLWYFDVRGNNLTGTIPE--SIGNCTSFQILDISYNQ 250

Query: 251 LTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLG 309
           +T  I P+  N+    V  + L  NRL G IP   G M +L  L L  N L   +P  LG
Sbjct: 251 ITGEI-PY--NIGFLQVATLSLQGNRLTGRIPEVIGLMQALAVLDLSDNELVGPIPPILG 307

Query: 310 NMSSLKMLVLSYNELRGELSEFIQNVSSGS--------------TKNSSLEWLY---LAS 352
           N+S    L L  N L G +   + N+S  S               +   LE L+   LA+
Sbjct: 308 NLSFTGKLYLHGNMLTGPIPSELGNMSRLSYLQLNDNKLVGTIPPELGKLEQLFELNLAN 367

Query: 353 NEITGTIP----------------NL--GGFP---GMLMPLIYFDKITVTWKGG-QYEYK 390
           N + G IP                NL  G  P     L  L Y +  +  +KG    E  
Sbjct: 368 NRLVGPIPSNISSCAALNQFNVHGNLLSGSIPLAFRNLGSLTYLNLSSNNFKGKIPVELG 427

Query: 391 SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS 450
            I+ L K +DLS N   G +P  + DL  L+ LNLS N+L+GQ+    G L+S+  +D+S
Sbjct: 428 HIINLDK-LDLSGNNFSGSIPLTLGDLEHLLILNLSRNHLSGQLPAEFGNLRSIQMIDVS 486

Query: 451 INHFFGGIPSSLSRLRL------------------------LSVMDLSYNNFSGKIPKGT 486
            N   G IP+ L +L+                         L  +++S+NN SG +P   
Sbjct: 487 FNLLSGVIPTELGQLQNLNSLILNNNKLHGKIPDQLTNCFTLVNLNVSFNNLSGIVPPMK 546

Query: 487 QLQRFGASTYAGNPELCG 504
              RF  +++ GNP LCG
Sbjct: 547 NFSRFAPASFVGNPYLCG 564

Receptor kinase that regulates inflorescence architecture and organ shape as well as stomatal patterning, including density and clustering, together with ER and ERL2.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|O82318|Y2579_ARATH Probably inactive leucine-rich repeat receptor-like protein kinase At2g25790 OS=Arabidopsis thaliana GN=At2g25790 PE=1 SV=1

 Score =  149 bits (375), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 152/455 (33%), Positives = 224/455 (49%), Gaps = 36/455 (7%)

Query: 34  SCLD-EEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRAL 92
           SCL   E E LL+FK  + D    LSSW       + C W GV C+N    V+ LDL   
Sbjct: 25  SCLHANELELLLSFKSSIQDPLKHLSSWSYS-STNDVCLWSGVVCNN-ISRVVSLDLSG- 81

Query: 93  SDSPVDALKGTI-NPSLLKLQHLTYLDLSWNNFSGSPIPE--FIGSLSKLSELALSSAQL 149
                  + G I   +  +L  L  ++LS NN SG PIP   F  S   L  L LS+   
Sbjct: 82  -----KNMSGQILTAATFRLPFLQTINLSNNNLSG-PIPHDIFTTSSPSLRYLNLSNNNF 135

Query: 150 AGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLS 209
           +G IP   G L  L  LDL  NN+F+    + +   S+LR LDLG   L+     +  L 
Sbjct: 136 SGSIPR--GFLPNLYTLDLS-NNMFTGEIYNDIGVFSNLRVLDLGGNVLTGHVPGY--LG 190

Query: 210 NLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDH 269
           NL  L  L L    L     P  + L   K+L+ I L  N L+  I P+ +   S+L +H
Sbjct: 191 NLSRLEFLTLASNQLTG-GVP--VELGKMKNLKWIYLGYNNLSGEI-PYQIGGLSSL-NH 245

Query: 270 IDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGEL 328
           +DL  N L G IP + G +  L Y+ L  N+L  ++P  + ++ +L  L  S N L GE+
Sbjct: 246 LDLVYNNLSGPIPPSLGDLKKLEYMFLYQNKLSGQIPPSIFSLQNLISLDFSDNSLSGEI 305

Query: 329 SEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQY 387
            E +  +        SLE L+L SN +TG IP  +   P + +  ++ ++    + GG  
Sbjct: 306 PELVAQM-------QSLEILHLFSNNLTGKIPEGVTSLPRLKVLQLWSNR----FSGGIP 354

Query: 388 EYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFL 447
                   + ++DLS+N L G++P+ + D   L  L L +N+L  QI P +G  +SL+ +
Sbjct: 355 ANLGKHNNLTVLDLSTNNLTGKLPDTLCDSGHLTKLILFSNSLDSQIPPSLGMCQSLERV 414

Query: 448 DLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKI 482
            L  N F G +P   ++L+L++ +DLS NN  G I
Sbjct: 415 RLQNNGFSGKLPRGFTKLQLVNFLDLSNNNLQGNI 449

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL51|Y5694_ARATH Probably inactive leucine-rich repeat receptor-like protein kinase At5g06940 OS=Arabidopsis thaliana GN=At5g06940 PE=3 SV=1

 Score =  148 bits (373), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 163/583 (27%), Positives = 259/583 (44%), Gaps = 81/583 (13%)

Query: 37  DEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNK-TGHVLGLDLRALSDS 95
           +EE   LL FK    D  G LS W       +C  W G+ C+   T +V  ++L++L+  
Sbjct: 30  NEELGNLLRFKASFDDPKGSLSGWFNTSSSHHC-NWTGITCTRAPTLYVSSINLQSLN-- 86

Query: 96  PVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPH 155
               L G I+ S+  L +LT+LDLS N F   PIP  +     L  L LSS  + G IP 
Sbjct: 87  ----LSGEISDSICDLPYLTHLDLSLN-FFNQPIPLQLSRCVTLETLNLSSNLIWGTIPD 141

Query: 156 QLGNLSRLQVLDLRFN-----------------------NLFSSGNLDWLSYLSSLRYLD 192
           Q+   S L+V+D   N                       NL +      +  LS L  LD
Sbjct: 142 QISEFSSLKVIDFSSNHVEGMIPEDLGLLFNLQVLNLGSNLLTGIVPPAIGKLSELVVLD 201

Query: 193 LGDCK--LSKFSNWFQVLSNLRSLTTLYLG-HCDLPP--ISTPSLLHLNYS--------- 238
           L +    +S+  ++   L  L  L     G H ++P   +   SL  L+ S         
Sbjct: 202 LSENSYLVSEIPSFLGKLDKLEQLLLHRSGFHGEIPTSFVGLTSLRTLDLSLNNLSGEIP 261

Query: 239 -------KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASL 291
                  K+L  +D+S N L+ S +P  +     L++ + L SN   GS+P + G   SL
Sbjct: 262 RSLGPSLKNLVSLDVSQNKLSGS-FPSGICSGKRLIN-LSLHSNFFEGSLPNSIGECLSL 319

Query: 292 RYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL 350
             L + +N    E P  L  +  +K++    N   G++ E +       +  S+LE + +
Sbjct: 320 ERLQVQNNGFSGEFPVVLWKLPRIKIIRADNNRFTGQVPESV-------SLASALEQVEI 372

Query: 351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEV 410
            +N  +G IP+  G  G++  L  F      + G          ++ I+++S N+L G++
Sbjct: 373 VNNSFSGEIPH--GL-GLVKSLYKFSASQNRFSGELPPNFCDSPVLSIVNISHNRLLGKI 429

Query: 411 PEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSV 470
           PE + +   LV+L+L+ N  TG+I P +  L  L +LDLS N   G IP  L  L+ L++
Sbjct: 430 PE-LKNCKKLVSLSLAGNAFTGEIPPSLADLHVLTYLDLSDNSLTGLIPQGLQNLK-LAL 487

Query: 471 MDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAYNTPD 530
            ++S+N  SG++P  + +    AS   GNPELCG  LPN C            D  N   
Sbjct: 488 FNVSFNGLSGEVPH-SLVSGLPASFLQGNPELCGPGLPNSC----------SSDRSNFHK 536

Query: 531 DDGDQFITLGFYMSMILGFFVG--FWGVCGTLLVKSSWRCGYY 571
             G   +     +++ +  F+   +      +  KS+WR  +Y
Sbjct: 537 KGGKALVLSLICLALAIATFLAVLYRYSRKKVQFKSTWRSEFY 579

Arabidopsis thaliana (taxid: 3702)

>sp|Q6XAT2|ERL2_ARATH LRR receptor-like serine/threonine-protein kinase ERL2 OS=Arabidopsis thaliana GN=ERL2 PE=2 SV=1

 Score =  147 bits (370), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 167/570 (29%), Positives = 253/570 (44%), Gaps = 126/570 (22%)

Query: 33  ISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRAL 92
           +S ++ E +AL+A K    + + +L  W  +    + C WRGV C N + +V+ L+L  L
Sbjct: 25  VSPMNNEGKALMAIKASFSNVANMLLDW-DDVHNHDFCSWRGVFCDNVSLNVVSLNLSNL 83

Query: 93  SDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIG------------------ 134
           +      L G I+ +L  L +L  +DL  N   G  IP+ IG                  
Sbjct: 84  N------LGGEISSALGDLMNLQSIDLQGNKLGGQ-IPDEIGNCVSLAYVDFSTNLLFGD 136

Query: 135 ---SLSKLSELA---LSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS- 187
              S+SKL +L    L + QL GPIP  L  +  L+ LDL  N L  +G +  L Y +  
Sbjct: 137 IPFSISKLKQLEFLNLKNNQLTGPIPATLTQIPNLKTLDLARNQL--TGEIPRLLYWNEV 194

Query: 188 LRYLDLGD-----------CKLSKFSNWFQVL-SNLRSLTTLYLGHCD------------ 223
           L+YL L             C+L+    +F V  +NL       +G+C             
Sbjct: 195 LQYLGLRGNMLTGTLSPDMCQLTGLW-YFDVRGNNLTGTIPESIGNCTSFEILDVSYNQI 253

Query: 224 ---LP------PISTPSLLH----------LNYSKSLEVIDLSNNYLTNSIYPWLLNVSS 264
              +P       ++T SL            +   ++L V+DLS+N LT  I P L N+S 
Sbjct: 254 TGVIPYNIGFLQVATLSLQGNKLTGRIPEVIGLMQALAVLDLSDNELTGPIPPILGNLS- 312

Query: 265 NLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNE 323
                + L  N+L G IP   G+M+ L YL L  N L  ++P  LG +  L  L L+ N 
Sbjct: 313 -FTGKLYLHGNKLTGQIPPELGNMSRLSYLQLNDNELVGKIPPELGKLEQLFELNLANNN 371

Query: 324 LRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP----NLGGFPGMLMPLIYFDKIT 379
           L G +     N+SS     ++L    +  N ++G +P    NLG        L Y +  +
Sbjct: 372 LVGLIPS---NISSC----AALNQFNVHGNFLSGAVPLEFRNLGS-------LTYLNLSS 417

Query: 380 VTWKGG-QYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI 438
            ++KG    E   I+ L   +DLS N   G +P  + DL  L+ LNLS N+L G +    
Sbjct: 418 NSFKGKIPAELGHIINL-DTLDLSGNNFSGSIPLTLGDLEHLLILNLSRNHLNGTLPAEF 476

Query: 439 GQLKSLDFLDLSINHFFGGIPSSLSRLRL------------------------LSVMDLS 474
           G L+S+  +D+S N   G IP+ L +L+                         L+ +++S
Sbjct: 477 GNLRSIQIIDVSFNFLAGVIPTELGQLQNINSLILNNNKIHGKIPDQLTNCFSLANLNIS 536

Query: 475 YNNFSGKIPKGTQLQRFGASTYAGNPELCG 504
           +NN SG IP      RF  +++ GNP LCG
Sbjct: 537 FNNLSGIIPPMKNFTRFSPASFFGNPFLCG 566

Receptor kinase that regulates inflorescence architecture and organ shape as well as stomatal patterning, including density and clustering, together with ERL1 and ER.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9LVP0|Y5639_ARATH Probable leucine-rich repeat receptor-like protein kinase At5g63930 OS=Arabidopsis thaliana GN=At5g63930 PE=1 SV=1

 Score =  146 bits (369), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 152/460 (33%), Positives = 222/460 (48%), Gaps = 44/460 (9%)

Query: 36  LDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTG--HVLGLDLRALS 93
           L+ E + LL  K   +D    L +W   D     C W GV CSN +    VL L+L ++ 
Sbjct: 27  LNLEGQYLLEIKSKFVDAKQNLRNWNSNDSVP--CGWTGVMCSNYSSDPEVLSLNLSSM- 83

Query: 94  DSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPI 153
                 L G ++PS+  L HL  LDLS+N  SG  IP+ IG+ S L  L L++ Q  G I
Sbjct: 84  -----VLSGKLSPSIGGLVHLKQLDLSYNGLSGK-IPKEIGNCSSLEILKLNNNQFDGEI 137

Query: 154 PHQLGNLSRLQVLDLRFNNLFSS------GNLDWLSYLSSLRYLDLGDCKLSKFSNWFQV 207
           P ++G L  L+ L + +NN  S       GNL  LS L +      G    S        
Sbjct: 138 PVEIGKLVSLENL-IIYNNRISGSLPVEIGNLLSLSQLVTYSNNISGQLPRS-------- 188

Query: 208 LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV 267
           + NL+ LT+   G  ++   S PS   +   +SL ++ L+ N L+  + P  + +   L 
Sbjct: 189 IGNLKRLTSFRAGQ-NMISGSLPS--EIGGCESLVMLGLAQNQLSGEL-PKEIGMLKKL- 243

Query: 268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRL-REVPKFLGNMSSLKMLVLSYNELRG 326
             + L  N   G IP    +  SL  L L  N+L   +PK LG++ SL+ L L  N L G
Sbjct: 244 SQVILWENEFSGFIPREISNCTSLETLALYKNQLVGPIPKELGDLQSLEFLYLYRNGLNG 303

Query: 327 ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP-NLGGFPGMLMPLIYFDKITVTWKGG 385
            +   I N+S       ++E +  + N +TG IP  LG   G+ +  ++ +++T T    
Sbjct: 304 TIPREIGNLSY------AIE-IDFSENALTGEIPLELGNIEGLELLYLFENQLTGTIP-- 354

Query: 386 QYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLD 445
             E  ++  L K+ DLS N L G +P     L GL  L L  N+L+G I P++G    L 
Sbjct: 355 -VELSTLKNLSKL-DLSINALTGPIPLGFQYLRGLFMLQLFQNSLSGTIPPKLGWYSDLW 412

Query: 446 FLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG 485
            LD+S NH  G IPS L     + +++L  NN SG IP G
Sbjct: 413 VLDMSDNHLSGRIPSYLCLHSNMIILNLGTNNLSGNIPTG 452

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

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	598
302143724	546	unnamed protein product [Vitis vinifera]	0.866	0.948	0.408	4e-94
147843620	722	hypothetical protein VITISV_031344 [Viti	0.919	0.761	0.368	9e-91
225464712	1021	PREDICTED: receptor-like protein 12-like	0.740	0.433	0.421	4e-84
359490572	975	PREDICTED: probable LRR receptor-like se	0.719	0.441	0.439	3e-79
225466147	1024	PREDICTED: LRR receptor-like serine/thre	0.846	0.494	0.361	2e-78
147855809	1107	hypothetical protein VITISV_029207 [Viti	0.739	0.399	0.440	1e-77
359490164	1198	PREDICTED: LRR receptor-like serine/thre	0.851	0.424	0.362	9e-77
302143881	691	unnamed protein product [Vitis vinifera]	0.886	0.767	0.366	1e-76
147834202	1270	hypothetical protein VITISV_011552 [Viti	0.816	0.384	0.381	2e-74
357451397	614	Receptor protein kinase-like protein [Me	0.809	0.788	0.391	8e-73

>gi|302143724|emb|CBI22585.3| unnamed protein product [Vitis vinifera]

 Score =  352 bits (902), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 240/588 (40%), Positives = 321/588 (54%), Gaps = 70/588 (11%)

Query: 33  ISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRAL 92
           + C + E++ALL FKQGL+ +  +LSSWG E++KR+CCKWRGV C+N+TGHV+ LDL   
Sbjct: 7   VGCTERERQALLHFKQGLVHDYRVLSSWGNEEDKRDCCKWRGVECNNQTGHVISLDLHG- 65

Query: 93  SDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGP 152
               V  L G I+PSL +LQHL +L+LS+N F G                          
Sbjct: 66  -TDFVRYLGGKIDPSLAELQHLKHLNLSFNRFEGV------------------------- 99

Query: 153 IPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLR 212
           +P QLGNLS LQ LDL +N   + GNLDWLS L  L +LDL    LSK  +W Q ++ + 
Sbjct: 100 LPTQLGNLSNLQSLDLAYNLGMTCGNLDWLSRLPLLTHLDLSGVDLSKAIHWPQAINKMP 159

Query: 213 SLTTLYLGHCDLP-PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID 271
           SLT LYL H  LP  I T  + H N S SL V+DLS N LT+SIYPWL N SS+L+  +D
Sbjct: 160 SLTELYLSHTQLPWIIPTIFISHTNSSTSLAVLDLSRNGLTSSIYPWLFNFSSSLLH-LD 218

Query: 272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSE 330
           L  N L+GS P AF +M  L    L  N L  E+PKF     S   L LS N+L G + +
Sbjct: 219 LSYNHLNGSFPDAFTNMVFLESFVLSRNELEGEIPKFFS--VSFVHLDLSGNQLHGLIPD 276

Query: 331 FIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYK 390
              N+       + L +L L+SN++ G IP       +   +++ D       G   +  
Sbjct: 277 AFGNM-------TILAYLDLSSNQLKGEIPK-----SLSTSVVHLDLSWNLLHGSIPDAF 324

Query: 391 SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS 450
             +  +  +DLSSN L GE+P+ +      V L+LS N L G I    G + +L +LDLS
Sbjct: 325 GNMTTLAYLDLSSNHLEGEIPKSLS--TSFVHLDLSWNQLHGSILDAFGNMTTLAYLDLS 382

Query: 451 INHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP-------------------KGTQLQRF 491
            N   G IP SLS       + LSYN+  G IP                   +GTQLQ F
Sbjct: 383 SNQLEGEIPKSLS--TSFVHLGLSYNHLQGSIPDAFGNMTALAYLHLSWNQLEGTQLQSF 440

Query: 492 GASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFV 551
            ASTY GNP LCG PL  KCL +E+  +   D +    D+  D    + F  S++LGF +
Sbjct: 441 SASTYQGNPRLCGPPLLKKCLGDETKEASFIDPS--NRDNIQDDANKIWFSGSIVLGFII 498

Query: 552 GFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYV-EAVVNIAKLQRRVRN 598
           GFWGVCGTLL+ SSWR  Y+ FL  +KD LY+    + + +L+R  ++
Sbjct: 499 GFWGVCGTLLLNSSWRHAYFQFLNKIKDRLYMTTTTITMNRLRRSFQS 546

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147843620|emb|CAN79880.1| hypothetical protein VITISV_031344 [Vitis vinifera]

 Score =  340 bits (873), Expect = 9e-91,   Method: Compositional matrix adjust.
 Identities = 259/703 (36%), Positives = 346/703 (49%), Gaps = 153/703 (21%)

Query: 33  ISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRAL 92
           + C + E++ALL FKQGL+ +  +LSSWG E++KR+CCKWRGV C+N+TGHV+ LDL   
Sbjct: 34  VGCTERERQALLHFKQGLVHDXRVLSSWGNEEDKRDCCKWRGVECNNQTGHVISLDLHG- 92

Query: 93  SDSPVDALKGTINPSLLKLQHL-------------------------------------- 114
               V  L G I+PSL +LQHL                                      
Sbjct: 93  -TDFVRYLGGKIDPSLAELQHLKHLNLSFNRFEDAFGNMTXLAYLDLSSNQLKGSRFRWL 151

Query: 115 -------TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLD 167
                   +LDLSWN   GS IP+  G+++ L+ L LSS  L G IP  L   +    LD
Sbjct: 152 INLSTSVVHLDLSWNLLHGS-IPDXFGNMTTLAYLDLSSNHLEGEIPKSLS--TSFVHLD 208

Query: 168 LRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLS---------------------------K 200
           L +N L  S  LD    +++L YLDL   +L                             
Sbjct: 209 LSWNQLHGSI-LDAFENMTTLAYLDLSSNQLEGEIPKSLSTSFVHLGLSYNHLQGSIPDA 267

Query: 201 FSN----------WFQV-------LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEV 243
           F N          W Q+       L +L +L TL+L   +L  +     L  + + +LE 
Sbjct: 268 FGNMTALAYLHLSWNQLEGEIPKSLRDLCNLQTLFLTSNNLTGLLEKDFLACS-NNTLEG 326

Query: 244 IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE 303
           +DLS+N L  S  P L   S      + LG N+L+G++P + G +A    L + SN L+ 
Sbjct: 327 LDLSHNQLRGSC-PHLFGFSQ--XRELSLGFNQLNGTLPESIGQLAQXEVLSIPSNSLQG 383

Query: 304 V--PKFLGNMSSLKMLVLSYNELRGELS-----EFIQ-----------------NVSSGS 339
                 L  +S L  L LS+N L   +S     +F                      S  
Sbjct: 384 TVSANHLFGLSKLFYLDLSFNSLTFNISLEQVPQFQALYIMLPSCKLGPRFAXLATXSKR 443

Query: 340 TKNSS---LEWLYLASNEITGTIPNLGG--------------FPGMLMP----LIYFDKI 378
           T N S   L  L L++N ++G +PN  G              F G +      L     +
Sbjct: 444 TXNQSXXGLSHLDLSNNRLSGELPNCWGQWKDLIVLNLANNNFSGKIKNSXGLLHQIQTL 503

Query: 379 TVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI 438
            +     + EYK  LGLI+ ID S+NKL GE+P E+ DLV LV+LNLS NNLTG I   I
Sbjct: 504 HLRNNRKELEYKKTLGLIRSIDFSNNKLIGEIPXEVTDLVELVSLNLSRNNLTGSIPSMI 563

Query: 439 GQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAG 498
           GQLKSLDFLDLS N   G IP+SLS++  LSV+DLS NN  GKIP GTQLQ F ASTY G
Sbjct: 564 GQLKSLDFLDLSQNQLHGRIPASLSQIADLSVLDLSNNNLLGKIPSGTQLQSFSASTYQG 623

Query: 499 NPELCGLPLPNKCLDEESAPSPSRDDAYNTP---DDDGDQFITLGFYMSMILGFFVGFWG 555
           NP LCG PL  KCL +E     +R+ ++  P   D+  D    + F  S++LGF +GFWG
Sbjct: 624 NPRLCGPPLLKKCLGDE-----TREASFVGPSNRDNIQDDANKIWFSGSIVLGFIIGFWG 678

Query: 556 VCGTLLVKSSWRCGYYNFLTGVKDWLYV-EAVVNIAKLQRRVR 597
           VCGTLL  SSWR  Y+ FL  +KDWLY+    + + +L+R  +
Sbjct: 679 VCGTLLFNSSWRYAYFQFLNKIKDWLYMTTTTITMNRLRRSFQ 721

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225464712|ref|XP_002276171.1| PREDICTED: receptor-like protein 12-like [Vitis vinifera]

 Score =  318 bits (816), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 211/501 (42%), Positives = 285/501 (56%), Gaps = 58/501 (11%)

Query: 35  CLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSD 94
           C+++E++ALL FKQGL+D+ GILSSWG E+++R+CCKWRGV+CSN+T HV+ LDL AL  
Sbjct: 52  CVEKERQALLDFKQGLVDDFGILSSWGNEEDRRDCCKWRGVQCSNRTSHVIMLDLHALPT 111

Query: 95  SPV---DALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG 151
             V    +L+G I+ SLL+LQHL +LDLS N+F GS +PEFIG  SKL  L LS A+LAG
Sbjct: 112 DTVHKYQSLRGRISSSLLELQHLNHLDLSLNDFQGSYVPEFIGLFSKLRYLNLSEARLAG 171

Query: 152 PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNL 211
            IP  LGNLS L  LDL  N   SS  L+WLS LSSLR+LDL    L K   W  V++ L
Sbjct: 172 MIPSHLGNLSNLHFLDLSRNYGMSSETLEWLSRLSSLRHLDLSGLNLDKAIYWEHVINRL 231

Query: 212 RSLTTLYLGHCDLPPISTPSLL-HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD-- 268
            SLT L L    LP I TPS L + N SKSL V+DLS N+L++S+YPWL N+SS+LV   
Sbjct: 232 PSLTDLLLHDSALPQIITPSALSYTNSSKSLVVLDLSWNFLSSSVYPWLFNLSSSLVHLD 291

Query: 269 --------------------------------------------HIDLGSNRLHGSIPVA 284
                                                       H+DL  N LHGSIP  
Sbjct: 292 LSINQIQGLIPDTFGEMVSLEYLDLFFNQLEGEIPQSLTSTSLVHLDLSVNHLHGSIPDT 351

Query: 285 FGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNS 343
           FGHM SL YL L  N+L   +PK   N+ SL+M++L  N L  +L EF+QN  S S    
Sbjct: 352 FGHMTSLSYLDLSLNQLEGGIPKSFKNLCSLQMVMLLSNSLTAQLPEFVQN--SLSCSKD 409

Query: 344 SLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSS 403
           +LE L L+ N+ TG+ PN  GF  +    I  +++  T+     E+   L  ++++++S 
Sbjct: 410 TLEVLVLSWNQFTGSFPNFTGFSVLGHLYIDHNRLNGTFP----EHIGQLSQLEVLEISG 465

Query: 404 NKLGGEVPE-EIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL 462
           N L G + E  +  L  L  L+LS+N+L  +++P       + +L L         P  L
Sbjct: 466 NSLHGNITEAHLSSLSKLYWLDLSSNSLALELSPEWTPPFQVGYLGLLSCKMGPNFPGWL 525

Query: 463 SRLRLLSVMDLSYNNFSGKIP 483
              + L  +D+S ++ S  IP
Sbjct: 526 QTQKDLFSLDISNSSISDVIP 546

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490572|ref|XP_003634116.1| PREDICTED: probable LRR receptor-like serine/threonine-protein kinase At4g36180-like [Vitis vinifera]

 Score =  302 bits (774), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 199/453 (43%), Positives = 266/453 (58%), Gaps = 23/453 (5%)

Query: 33  ISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRAL 92
           + C++ E++ALL FK+ + D+ GILSSW  E  KR+CCKWRGV+CS++TGH+  LDL A 
Sbjct: 34  VGCIERERQALLKFKEDIADDFGILSSWRSEKNKRDCCKWRGVQCSSQTGHITSLDLSAY 93

Query: 93  S-DSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG 151
                   L+G I+PSLL+LQ L +LDLS N+F G  +PEFIGSL+K+  L LSS  LAG
Sbjct: 94  EYKDEFRHLRGKISPSLLELQQLNHLDLSGNDFEGRSMPEFIGSLTKMRYLDLSSTYLAG 153

Query: 152 PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNL 211
           P+PHQLGNLS L  LDL  N+  SS NLDWLS LSSL +L L    LSK   W   ++ L
Sbjct: 154 PLPHQLGNLSNLNFLDLSGNSNMSSENLDWLSRLSSLTHLGLNHLNLSKAIRWADAINKL 213

Query: 212 RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID 271
            SL  L L  CDLP   TPSL  +  S SL V+DLS N L+ SIYPWL N +S+LV H+D
Sbjct: 214 PSLIDLLLKSCDLPSPITPSLSLVTSSMSLAVLDLSCNQLSTSIYPWLFNFNSSLV-HLD 272

Query: 272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSE 330
           L  N L  S P AFG+M SL YL L  N+L+ E+PK     SSL  L LS N+L+G + +
Sbjct: 273 LSYNHLQASPPDAFGNMVSLEYLDLSWNQLKGEIPKSFS--SSLVFLDLSNNQLQGSIPD 330

Query: 331 FIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGML-MPLIYFDKITVTWKGGQYEY 389
              N++S  T N       L  N++ G IP    F  +  + ++   +  +     +   
Sbjct: 331 TFGNMTSLRTVN-------LTRNQLEGEIPK--SFNNLCNLQILKLHRNNLAGVLVKNLL 381

Query: 390 KSILGLIKIIDLSSNKLGGEVPEEIMDLVG---LVALNLSNNNLTGQITPRIGQLKSLDF 446
                 ++I+DLS N+  G +P    DL+G   L  L+L +N L G +   I QL  L+ 
Sbjct: 382 ACANDTLEILDLSHNQFIGSLP----DLIGFSSLTRLHLGHNQLNGTLPESIAQLAQLEL 437

Query: 447 LDLSINHFFGGIPSS-LSRLRLLSVMDLSYNNF 478
           L +  N   G +  + L  L  L  +DLS+N+ 
Sbjct: 438 LKIPSNSLQGTVSEAHLFSLSKLQRLDLSFNSL 470

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225466147|ref|XP_002270042.1| PREDICTED: LRR receptor-like serine/threonine-protein kinase GSO1-like [Vitis vinifera]

 Score =  300 bits (767), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 229/633 (36%), Positives = 334/633 (52%), Gaps = 127/633 (20%)

Query: 75   VRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIG 134
            V C+N T     L+   LSD   +   G++ P+L+    L  L L +N  +G+ +PE +G
Sbjct: 408  VACANDT-----LETLFLSD---NQFSGSV-PALIGFSSLRELHLDFNQLNGT-LPESVG 457

Query: 135  SLSKLSELALSSAQLAGPIPH-QLGNLSRLQVLDLRFNNLFSSGNLDWL----------- 182
             L+ L  L ++S  L G I    L NLS L  L+L  N+L  + +LDW+           
Sbjct: 458  QLANLQSLDIASNSLQGTISEAHLFNLSWLSYLNLSSNSLTFNMSLDWVPPFQLLSLRLA 517

Query: 183  ---------SYLSS---LRYLDLGDCKLSK-FSNWFQVLSNLRSLTTLYLGH----CDLP 225
                     S+L +   L  LD+ + ++S    +WF  +++  ++ TL + +      LP
Sbjct: 518  SCKLGPRFPSWLRTQNQLSELDISNSEISDVLPDWFWNVTS--TVNTLSISNNRIKGTLP 575

Query: 226  PISTP--SLLHLNYSKS------------LEVIDLSNNYLTNSIYPWLLNVSSNLVDH-- 269
             +S+   S  +++ S +            ++ +DLSNN L+ SI   L  V + L+    
Sbjct: 576  NLSSEFGSFSNIDMSSNCFEGSIPQLPYDVQWLDLSNNKLSGSI-SLLCTVGTELLLLDL 634

Query: 270  ---------------------IDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKF 307
                                 ++L +NR  G IP++FG + S++ L L +N L  E+P  
Sbjct: 635  SNNSLSGGLPNCWAQWESLVVLNLENNRFSGQIPISFGSLRSIQTLHLRNNNLTGELPLS 694

Query: 308  LGNMSSLKMLVLSYNELRGELSEFIQN-------VSSGSTKNS-----------SLEWLY 349
              N +SL+ + L+ N L G++ E+I         ++ GS + S           +++ L 
Sbjct: 695  FKNCTSLRFIDLAKNRLSGKIPEWIGGSLPNLTVLNLGSNRFSGGICPELCQLKNIQILD 754

Query: 350  LASNEITGTIPN-LGGFPGM-----------------------LMPLIYFDKITVTWKGG 385
            L+SN + G +P  +GGF  M                       +    Y D+  V WKG 
Sbjct: 755  LSSNNMLGVVPRCVGGFTAMTKKGSLVIVHNYSFADFSSKYSLIRNAFYVDRALVKWKGR 814

Query: 386  QYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLD 445
            ++EYKS LGL+K ID SSNKL GE+PEE++DLV LV+LNLS NNLT  I  RIGQLKSL+
Sbjct: 815  EFEYKSTLGLVKSIDFSSNKLSGEIPEEVIDLVELVSLNLSRNNLTRLIPARIGQLKSLE 874

Query: 446  FLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGL 505
             LDLS N  FG IP+SL  +  LSV+DLS NN SGKIP+GTQLQ F   +Y GNP LCGL
Sbjct: 875  VLDLSQNQLFGEIPASLVEISDLSVLDLSDNNLSGKIPQGTQLQSFNIDSYKGNPALCGL 934

Query: 506  PLPNKCLDEE-SAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKS 564
            PL  KC +++    SP+ +       D  D +    FY+S+ LGF VGFWGVCGTLL+ +
Sbjct: 935  PLLKKCFEDKIKQDSPTHNIEDKIQQDGNDMW----FYVSVALGFIVGFWGVCGTLLLNN 990

Query: 565  SWRCGYYNFLTGVKDWLYVEAVVNIAKLQRRVR 597
            SWR  Y+ FL  +KDWLYV   +N+A+LQR ++
Sbjct: 991  SWRYAYFQFLNKIKDWLYVIIAINMARLQRSLQ 1023

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147855809|emb|CAN79130.1| hypothetical protein VITISV_029207 [Vitis vinifera]

 Score =  297 bits (760), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 209/474 (44%), Positives = 289/474 (60%), Gaps = 32/474 (6%)

Query: 22  LEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKT 81
           ++P +  +   + C++ E++ALL FK+GL+D+ G+LS WG E +KR+CC+WRGVRC+N++
Sbjct: 20  VKPGLGTTLEKVGCIEGERQALLKFKRGLVDDYGLLSLWGDEQDKRDCCRWRGVRCNNRS 79

Query: 82  GHVLGLDLRALSDSPVD------ALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGS 135
           GHV+ L L A    P+D      +L+G I+PSLL+L+HL +LDLS+N+F G  IP F+GS
Sbjct: 80  GHVIMLRLPA---PPIDEYGNYQSLRGEISPSLLELEHLNHLDLSYNDFEGKQIPSFLGS 136

Query: 136 LSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL-FSSGNLDWLSYLSSLRYLDLG 194
           LSK+  L LS A+ A  IP QLGNLS L  LDL  +    +SGNL+WLS+LSSLR+LDL 
Sbjct: 137 LSKMQYLNLSYAKFAKTIPTQLGNLSNLLSLDLSGSYYELNSGNLEWLSHLSSLRFLDLS 196

Query: 195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN- 253
              L    +W Q ++ L SL  L L    LPP +T SL H N S  L  +DLSNNYL N 
Sbjct: 197 LVDLGAAIHWSQAINKLPSLVXLNLYGXSLPPFTTGSLFHANSSAPLVFLDLSNNYLINS 256

Query: 254 SIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMS 312
           SIYPW  N S+ LV H+DL SN L+GSIP AFG+M SL YL L       E+P   G MS
Sbjct: 257 SIYPWXFNFSTTLV-HLDLSSNDLNGSIPDAFGNMISLAYLNLRDCAFEGEIPFXFGGMS 315

Query: 313 SLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPL 372
           +L+ L +S + L GE+ +   N+       +SL +L L+SN++ G IP+     G L  L
Sbjct: 316 ALEYLDISGHGLHGEIPDTFGNM-------TSLAYLALSSNQLQGGIPDA---VGDLASL 365

Query: 373 IYFDKITVTWKGGQYEY--KSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNL 430
            Y +       G Q +   K+    +  +D+SSN++ G +P+   ++V L  L LS+N L
Sbjct: 366 TYLELF-----GNQLKALPKTFGRSLVHVDISSNQMKGSIPDTFGNMVSLEELXLSHNQL 420

Query: 431 TGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
            G+I    G  +SL  LDLS N   G IP ++  +  L  + LS N   G+IPK
Sbjct: 421 EGEIPKSFG--RSLVILDLSSNXLQGSIPDTVGDMVSLERLSLSXNQLQGEIPK 472

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490164|ref|XP_002268910.2| PREDICTED: LRR receptor-like serine/threonine-protein kinase GSO2-like [Vitis vinifera]

 Score =  294 bits (752), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 230/634 (36%), Positives = 330/634 (52%), Gaps = 125/634 (19%)

Query: 75   VRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIG 134
            V C+N T     L+  +LSD   +   G++ P+L+    L  L L +N  +G+ +PE +G
Sbjct: 578  VACANDT-----LETLSLSD---NQFSGSV-PALIGFSSLRKLHLDFNQLNGT-LPESVG 627

Query: 135  SLSKLSELALSSAQLAGPIPH-QLGNLSRLQVLDLRFNNLFSSGNLDWLS--YLSSLRY- 190
             L+ L  L ++S  L   I    L NLSRL  LDL  N+L  + + +W+    L SLR  
Sbjct: 628  QLANLQSLDIASNSLQDTINEAHLFNLSRLSYLDLSSNSLTFNMSFEWVPPFQLYSLRLA 687

Query: 191  --------------------LDLGDCKLSK-FSNWF-QVLSNLRSLT---TLYLGHCDLP 225
                                LD+ + ++S    +WF  V S + +L+       G     
Sbjct: 688  SCKLGPHFPSWLRTQNLLIELDISNSEISDVLPDWFWNVTSTISTLSISNNRIKGTLQNL 747

Query: 226  PISTPSLLHLNYSKS------------LEVIDLSNNYLTNSIYPW---------LLNVSS 264
            P++  SL +++ S +            +  +DLSNN L+ SI            LL++S+
Sbjct: 748  PLNFGSLSNIDMSSNYFEGLIPQLPSDVRWLDLSNNKLSGSISLLCAVVNPPLVLLDLSN 807

Query: 265  NLVDH--------------IDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLG 309
            N +                ++L +NR  G IP +FG + S+R L L +N L  E+P    
Sbjct: 808  NSLTGGLPNCWAQWERLVVLNLENNRFSGQIPNSFGSLRSIRTLHLRNNNLTGELPLSFK 867

Query: 310  NMSSLKMLVLSYNELRGELSEFIQN-------VSSGSTKNS-----------SLEWLYLA 351
            N + L+ + L  N L G++ E+I         ++ GS + S           +++ L L+
Sbjct: 868  NCTKLRFIDLGKNRLSGKIPEWIGGSLPNLIVLNLGSNRFSGVICPELCQLKNIQILDLS 927

Query: 352  SNEITGTIPN-LGGFPGM------------------------LMPL--IYFDKITVTWKG 384
            +N I G +P  +GGF  M                         MP+   Y D+  V WK 
Sbjct: 928  NNNILGVVPRCVGGFTAMTKKGSLVIAYNYSFTQNGRCRDDGCMPINASYVDRAMVRWKE 987

Query: 385  GQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSL 444
             ++++KS LGL+K IDLSSNKL GE+PEE++DL+ LV+LNLS NNLT  I  RIGQLKSL
Sbjct: 988  REFDFKSTLGLVKSIDLSSNKLSGEIPEEVIDLIELVSLNLSRNNLTRLIPTRIGQLKSL 1047

Query: 445  DFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCG 504
            + LDLS N  FG IP+SL  +  LSV+DLS NN SGKIP+GTQLQ F   +Y GNP LCG
Sbjct: 1048 EVLDLSQNQLFGEIPASLVEISDLSVLDLSDNNLSGKIPQGTQLQSFNIDSYKGNPALCG 1107

Query: 505  LPLPNKCLDEE-SAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVK 563
            LPL  KC +++    SP+    YN  D        + FY+S+ LGF VGFWGVCGTLL+ 
Sbjct: 1108 LPLLKKCSEDKIKQGSPT----YNIEDKIQQDGNDMWFYISVALGFIVGFWGVCGTLLLN 1163

Query: 564  SSWRCGYYNFLTGVKDWLYVEAVVNIAKLQRRVR 597
            +SWR  Y+ FL  +KDWLY+   +N+A+LQR  +
Sbjct: 1164 NSWRYAYFQFLNKIKDWLYMIIAINMARLQRSFQ 1197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143881|emb|CBI22742.3| unnamed protein product [Vitis vinifera]

 Score =  294 bits (752), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 220/600 (36%), Positives = 302/600 (50%), Gaps = 70/600 (11%)

Query: 29  SNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLD 88
           +NN++ C ++EK+ALL+FK  L+  +  LSSW     K +CC WRGV CSN T  VL L+
Sbjct: 26  ANNLV-CNEKEKQALLSFKHALLHPANQLSSWSI---KEDCCGWRGVHCSNVTARVLKLE 81

Query: 89  LRALSDSPVDALKGTIN---PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALS 145
           L  ++   +D  +  IN   P+ L            +N     IPE +G    L  L LS
Sbjct: 82  LADMNLGVLDLSENKINQEMPNWLFNLSSLASLSLSDNQFKGQIPESLGHFKYLEYLDLS 141

Query: 146 SAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL-DWLSYLSSLRYLDLGDCKLSKF--S 202
           S    GPIP  +GNLS L+ L+L +N L  +G L   +  LS+L  L LG   L+     
Sbjct: 142 SNSFHGPIPTSIGNLSSLRELNLYYNRL--NGTLPTSMGRLSNLMALALGHDSLTGAISE 199

Query: 203 NWFQVLSNLRSLTTLYLGHCDLPPISTPSLL-HLNYSKSLEVIDLSNNYLTNSIYPWLLN 261
             F  LSNL+++            IS  SL  ++N +  LEV+D+S N L+  I    ++
Sbjct: 200 AHFTTLSNLKTVQ-----------ISETSLFFNMNGTSQLEVLDISINALSGEISDCWMH 248

Query: 262 VSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLS 320
             S  + HI++GSN L G IP + G +  L+ L L +N    +VP  L N   L ++ LS
Sbjct: 249 WQS--LTHINMGSNNLSGKIPNSMGSLVGLKALSLHNNSFYGDVPSSLENCKVLGLINLS 306

Query: 321 YNELRGELSEFIQNVSSGSTKN-----------------SSLEWLYLASNEITGTIPN-L 362
            N+  G +  +I   ++    +                 SSL  L LA N ++G IP  L
Sbjct: 307 DNKFSGIIPRWIVERTTVMVIHLRTNKFNGIIPPQICQLSSLIVLDLADNSLSGEIPKCL 366

Query: 363 GGFPGMLMPLI-------------------YFDKITVTWKGGQYEYKSILGLIKIIDLSS 403
             F  M    I                   Y + + +  KG + EYK IL  ++ IDLSS
Sbjct: 367 NNFSAMAEGPIRGQYDILYDALEAEYDYESYMESLVLDIKGRESEYKEILKYVRAIDLSS 426

Query: 404 NKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLS 463
           N L G +P EI  L GL  LNLS N+L G I+ +IG ++ L+ LDLS NH  G IP S++
Sbjct: 427 NNLSGSIPVEIFSLSGLQLLNLSCNHLRGMISAKIGGMEYLESLDLSRNHLSGEIPQSIA 486

Query: 464 RLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRD 523
            L  LS +++SYN FSGKIP  TQLQ      + GN ELCG PL   C  +E        
Sbjct: 487 NLTFLSYLNVSYNKFSGKIPSSTQLQSLDPLYFFGNAELCGAPLSKNCTKDEEPQDT--- 543

Query: 524 DAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLTGVKDWLYV 583
              NT ++ G+      FY+ M  GF VGFWGVCG L  K SWR  Y+  L  +KD +YV
Sbjct: 544 ---NTNEESGEHPEIAWFYIGMGTGFVVGFWGVCGALFFKRSWRHAYFRVLDDMKDRVYV 600

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147834202|emb|CAN64227.1| hypothetical protein VITISV_011552 [Vitis vinifera]

 Score =  286 bits (732), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 216/566 (38%), Positives = 299/566 (52%), Gaps = 78/566 (13%)

Query: 77  CSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSL 136
           CSN T  VL        D   +  KG+  P L     L  L L +N  +G+ +PE IG L
Sbjct: 352 CSNNTLEVL--------DLSHNQFKGSF-PDLSGFSQLRELHLEFNQLNGT-LPESIGQL 401

Query: 137 SKLSELALSSAQLAGPI-PHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGD 195
           ++L  L+L S  L G +  + L  LS+L  LDL FN+L  + +L+ +    ++  + L  
Sbjct: 402 AQLQVLSLRSNSLRGTVSANHLFGLSKLWDLDLSFNSLTVNISLEQVPQFQAIE-IKLAS 460

Query: 196 CKLS-KFSNWFQVLSNLRSL---------------TTLYLGHCDLPPISTPSLLHLNYS- 238
           CKL   F NW +   +L  L                 L +    +  IST  ++  +   
Sbjct: 461 CKLGPHFPNWLRTQKHLSMLDISASGIANAQFLYRAGLLINLVGVCLISTSQIIDCSGEL 520

Query: 239 -------KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID---LGSNRLHGSIPVAFGHM 288
                  K L V++L+NN  +  I       S  L  H+    L +N L G++P +  + 
Sbjct: 521 PKCWEQWKDLIVLNLANNNFSGKIKN-----SIGLSYHMQTLHLRNNSLTGALPWSLKNC 575

Query: 289 ASLRYLGLLSNRLR-EVPKFLG-NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE 346
             LR L L  N+L  ++P ++G ++S+L ++ L  NE  G +   +  +         + 
Sbjct: 576 RDLRLLDLGKNKLSGKIPGWIGGSLSNLIVVNLRSNEFNGSIPLNLCQLKK-------IH 628

Query: 347 WLYLASNEITGTIPN-LGGFPGM----------------LMPLIYFDKITVTWKGGQYEY 389
            L L+SN ++GTIP  L    GM                LM L Y+D   V WKG + EY
Sbjct: 629 MLDLSSNNLSGTIPKCLNNLSGMAQNGSLVITYEEDLLFLMSLSYYDNTLVQWKGKELEY 688

Query: 390 KSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDL 449
              LGL+K ID S+NKL GE+P E+ DLV LV+LNLS N L G I   IGQLKSLD LDL
Sbjct: 689 NKTLGLVKSIDFSNNKLIGEIPTEVTDLVELVSLNLSRNYLIGPIPLMIGQLKSLDSLDL 748

Query: 450 SINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPN 509
           S N   GGIP SLS++  LSV+DLS N  SGKIP GTQLQ F ASTY GNP LCG PL  
Sbjct: 749 SRNRLHGGIPXSLSQIARLSVLDLSDNILSGKIPSGTQLQSFNASTYDGNPGLCGPPLLK 808

Query: 510 KCLDEESAPSPSRDDAY---NTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSW 566
           KC ++E     +R+ ++   +  +D  D    + FY +++LGF +GFWGVCGTLL+ SSW
Sbjct: 809 KCQEDE-----NREVSFTGLSNEEDIQDDANNIWFYGNIVLGFIIGFWGVCGTLLLNSSW 863

Query: 567 RCGYYNFLTGVKDWLYVEAVVNIAKL 592
           R  Y+ FL+ +KDWLYV   VN+ K+
Sbjct: 864 RYAYFQFLSKIKDWLYVTTTVNMNKI 889

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357451397|ref|XP_003595975.1| Receptor protein kinase-like protein [Medicago truncatula] gi|355485023|gb|AES66226.1| Receptor protein kinase-like protein [Medicago truncatula]

 Score =  281 bits (718), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 225/575 (39%), Positives = 293/575 (50%), Gaps = 91/575 (15%)

Query: 26  VANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVL 85
            A +N    C + E++ALL FKQGL DE+ +L +W ++    +CCKW             
Sbjct: 25  TATNNGDTKCKERERQALLRFKQGLKDENVMLFTW-KDGPTADCCKWE------------ 71

Query: 86  GLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALS 145
                           G IN SL +LQHL YLDLS+ + SG  IP+FIGS SKL  L LS
Sbjct: 72  ---------------IGEINSSLTELQHLKYLDLSYLHTSGQ-IPKFIGSFSKLQYLNLS 115

Query: 146 SAQLAGPIPHQLGNLSRLQVLDLRFNNL-----FSSGNLDWLSYL-----SSLRYLDLGD 195
           +    G IP QLGNLS+LQ LDL  N L     F  GNL  L  L     S+LR   + +
Sbjct: 116 TGHYDGKIPSQLGNLSQLQHLDLSNNELIGAIPFQLGNLSSLESLVLHHNSNLR---INN 172

Query: 196 CKLSKFSNWFQVLSNLRSLTTLYLGHCDLP-----PISTPSLLHLNYS-KSLEVIDLSNN 249
                  N  +    L SL  L+L  C L      P+S     HLN+S  SL V+DLS N
Sbjct: 173 QSHDSTINILEFRVKLPSLEELHLSECSLSGTNMLPLSDS---HLNFSTSSLNVLDLSEN 229

Query: 250 YLTNS-IYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGH-MASLRYLGLLSNRLR-EVPK 306
            L +S I+  + N SSNL  H+DL  N   G+IP  FG+ M  L  L L SN     +P 
Sbjct: 230 RLESSMIFNLVFNYSSNL-QHLDLYDNLSRGTIPGDFGNIMQGLLILSLPSNSFNGALPL 288

Query: 307 FLGN-MSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGG 364
           ++G+ +    +L L  N   G L+  +  +         L+ L L+ N  +G IP+ +  
Sbjct: 289 WIGDSLQGSLILSLRSNSFNGSLASNLCYLRE-------LQVLDLSLNSFSGGIPSCVKN 341

Query: 365 FPGMLMPLI---------------------YFDKITVTWKGGQYEYKSILGLIKIIDLSS 403
           F  M    +                     Y   +++ WKG    YK+    +K IDLSS
Sbjct: 342 FTSMTKDTVSLTVGLDHYLLFTHYGPFMINYEIDLSMVWKGVNQRYKNADRFLKTIDLSS 401

Query: 404 NKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLS 463
           N L GE+P E+  L GL+ALNLS NNL+ +I   IG  KSL+FLDLS N   G IPSSL+
Sbjct: 402 NHLTGEIPTEMKRLFGLIALNLSRNNLSVEIISNIGNFKSLEFLDLSRNRLSGRIPSSLA 461

Query: 464 RLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCL-DEESAPSPSR 522
            +  L+++DLS+N   GKIP GTQLQ F AS++ GN  LCG PL  KC  +E+S P    
Sbjct: 462 HIDRLAMLDLSHNQLYGKIPIGTQLQTFNASSFDGNSNLCGDPLDRKCPGEEQSKPQVPT 521

Query: 523 DDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVC 557
            D      DD   F+   FYMSM LGFF GF G+ 
Sbjct: 522 TDV----GDDNSIFLE-AFYMSMGLGFFTGFVGLA 551

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	598
TAIR|locus:2044767	905	AT2G34930 "AT2G34930" [Arabido	0.714	0.471	0.334	2.2e-45
TAIR|locus:2155909	908	RLP56 "AT5G49290" [Arabidopsis	0.752	0.495	0.279	7.6e-38
TAIR|locus:2040075	935	RLP21 "AT2G25470" [Arabidopsis	0.727	0.465	0.290	3.3e-35
TAIR|locus:2169384	872	AT5G06940 [Arabidopsis thalian	0.615	0.422	0.282	1.4e-34
TAIR|locus:2020382	756	RLP3 "AT1G17250" [Arabidopsis	0.735	0.582	0.268	1.9e-34
TAIR|locus:2025012	1083	RLP1 "AT1G07390" [Arabidopsis	0.545	0.301	0.311	9.5e-34
TAIR|locus:2020457	1166	BRL1 "BRI1 like" [Arabidopsis	0.464	0.238	0.341	3.2e-33
TAIR|locus:2101943	891	RLP45 "AT3G53240" [Arabidopsis	0.749	0.502	0.314	3.3e-33
TAIR|locus:2011339	1120	AT1G35710 [Arabidopsis thalian	0.712	0.380	0.313	4.1e-33
TAIR|locus:2034725	882	AT1G12460 [Arabidopsis thalian	0.819	0.555	0.265	4.4e-33

TAIR|locus:2044767 AT2G34930 "AT2G34930" [Arabidopsis thaliana (taxid:3702)]

 Score = 485 (175.8 bits), Expect = 2.2e-45, P = 2.2e-45
 Identities = 153/458 (33%), Positives = 219/458 (47%)

Query:    11 YVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCC 70
             ++S + +IL  L+     S     C+  E++ALL F+  L D S  L SW   D    CC
Sbjct:    10 FISFLILILL-LKNLNYGSAASPKCISTERQALLTFRAALTDLSSRLFSWSGPD----CC 64

Query:    71 KWRGVRCSNKTGHVLGLDLRALS-DSPVD-----ALKGTINPSLLKLQHLTYLDLSWNNF 124
              W GV C  +T HV+ +DLR  S D   D     +L+G I+PSL +L+ L+YLDLS N+F
Sbjct:    65 NWPGVLCDARTSHVVKIDLRNPSQDVRSDEYKRGSLRGKIHPSLTQLKFLSYLDLSSNDF 124

Query:   125 SGSPIPEFIGXXXXXXXXXXXXXXXXGPIPHQLGNLSRLQVLDLRFNNLFSSGNXXXXXX 184
             +   IPEFIG                G IP  LGNLS+L+ LDL   +   SG       
Sbjct:   125 NELEIPEFIGQIVSLRYLNLSSSSFSGEIPTSLGNLSKLESLDLYAESFGDSGTLSLRAS 184

Query:   185 XXXXXXXXXGDCKLSKFS---------NWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHL 235
                         K               W Q  S + +L  L+L + +L  +  P+L   
Sbjct:   185 NLRWLSSLSSSLKYLNMGYVNLSGAGETWLQDFSRISALKELHLFNSELKNLP-PTLSSS 243

Query:   236 NYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLG 295
                K LEV+DLS N L + I  WL  ++ NL   + L  + L GSIP  F ++  L  L 
Sbjct:   244 ADLKLLEVLDLSENSLNSPIPNWLFGLT-NL-RKLFLRWDFLQGSIPTGFKNLKLLETLD 301

Query:   296 LLSN-RLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASN 353
             L +N  L+ E+P  LG++  LK L LS NEL G++  F+   S    K +SL +L L+SN
Sbjct:   302 LSNNLALQGEIPSVLGDLPQLKFLDLSANELNGQIHGFLDAFSRN--KGNSLVFLDLSSN 359

Query:   354 EITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEE 413
             ++ GT+P      G L  L   D  + ++ G        +  +K +DLS+N + G + E 
Sbjct:   360 KLAGTLPES---LGSLRNLQTLDLSSNSFTGSVPSSIGNMASLKKLDLSNNAMNGTIAES 416

Query:   414 IMDLVGLVALNLSNNNLTGQITP-RIGQLKSLDFLDLS 450
             +  L  LV LNL  N   G +       L+SL  + L+
Sbjct:   417 LGQLAELVDLNLMANTWGGVLQKSHFVNLRSLKSIRLT 454

GO:0006952 "defense response" evidence=ISS

GO:0007165 "signal transduction" evidence=IC

GO:0005618 "cell wall" evidence=IDA

GO:0050832 "defense response to fungus" evidence=IEP;IMP

TAIR|locus:2155909 RLP56 "AT5G49290" [Arabidopsis thaliana (taxid:3702)]

 Score = 371 (135.7 bits), Expect = 7.6e-38, Sum P(2) = 7.6e-38
 Identities = 136/486 (27%), Positives = 207/486 (42%)

Query:    98 DALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGXXXXXXXXXXXXXXXXGP-IPHQ 156
             +  +G    S+ ++ ++++LDLS+NN SG     F+                 G  +P Q
Sbjct:   424 NGFQGNFPSSMGEMYNISFLDLSYNNLSGELPQSFVSSCFSLSILQLSHNKFSGHFLPRQ 483

Query:   157 LGNLSRLQVLDLRFNNLFSSGNXXXXXXXXXXXXXXXGDCKLSKFSNWFQVLSNLRSLTT 216
               N + L VL +  NNLF+ G                  C L   +N+ +       L  
Sbjct:   484 T-NFTSLIVLRIN-NNLFT-GKIGVGLLTLVDL------CILDMSNNFLEGELPPLLLVF 534

Query:   217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNR 276
              YL   DL        L  + S    V+ L NN  T  I    L      +  +DL +N+
Sbjct:   535 EYLNFLDLSGNLLSGALPSHVSLD-NVLFLHNNNFTGPIPDTFLGS----IQILDLRNNK 589

Query:   277 LHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQNV 335
             L G+IP  F     + +L L  N L   +P  L   S +++L LS N+L G +     N+
Sbjct:   590 LSGNIP-QFVDTQDISFLLLRGNSLTGYIPSTLCEFSKMRLLDLSDNKLNGFIPSCFNNL 648

Query:   336 SSGSTKNSSLEWLYLA---SNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSI 392
             S G  +   +   Y+A    +   G   +        +    + +I V +   Q  Y S 
Sbjct:   649 SFGLARKEEITNYYVAVALESFYLGFYKSTFVVENFRLDYSNYFEIDVKFATKQ-RYDSY 707

Query:   393 LGLIKI----------IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLK 442
             +G  +           +DLSSN+L G +P E+ DL  L ALNLS+N L+  I     +L+
Sbjct:   708 IGAFQFSEGTLNSMYGLDLSSNELSGVIPAELGDLFKLRALNLSHNFLSSHIPDSFSKLQ 767

Query:   443 SLDFLDLSINHFFGGIPXXXXXXXXXXVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPEL 502
              ++ LDLS N   G IP          + ++SYNN SG IP+G Q   F  ++Y GNP L
Sbjct:   768 DIESLDLSYNMLQGSIPHQLTNLTSLAIFNVSYNNLSGIIPQGKQFNTFDENSYLGNPLL 827

Query:   503 CGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFIT-LGFYMSMILGFFVGFWGVCGTLL 561
             CG P    C  +++    S ++A    +DD +  I  L FY S    +     G+   + 
Sbjct:   828 CGPPTDTSCETKKN----SEENANGGEEDDKEVAIDMLVFYWSTAGTYVTALIGILVLMC 883

Query:   562 VKSSWR 567
             V  SWR
Sbjct:   884 VDCSWR 889

GO:0007165 "signal transduction" evidence=IC

TAIR|locus:2040075 RLP21 "AT2G25470" [Arabidopsis thaliana (taxid:3702)]

 Score = 331 (121.6 bits), Expect = 3.3e-35, Sum P(2) = 3.3e-35
 Identities = 137/471 (29%), Positives = 201/471 (42%)

Query:   114 LTYLDLSWNNFSGSPIPEFIGXXXXXXXXXXXXXXXXGPIPHQLGNLSRLQVLDLRFNNL 173
             + +L LS N FSG  +P                    G I   L N + L++LD+  N L
Sbjct:   465 IMFLKLSHNKFSGRFLPRETNFPSLDVLRMDNNLFT-GNIGGGLSNSTMLRILDMSNNGL 523

Query:   174 FSSGNXXXXXXXXXXXXXXXGDCKLSKFSNWFQVLSNLRSLTTL-YLGHCDLPPISTPSL 232
               SG                 D  L   SN F   +   SL  + +L   DL        
Sbjct:   524 --SGAIPRWLFEFPYL-----DYVL--ISNNFLEGTIPPSLLGMPFLSFLDLSGNQFSGA 574

Query:   233 LHLNYSKSLEV-IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASL 291
             L  +    L + + L NN  T  I   LL      V  +DL +N+L GSIP  F    S+
Sbjct:   575 LPSHVDSELGIYMFLHNNNFTGPIPDTLLKS----VQILDLRNNKLSGSIP-QFDDTQSI 629

Query:   292 RYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL 350
               L L  N L   +P+ L ++S++++L LS N+L G +   + N+S G  +  ++  L +
Sbjct:   630 NILLLKGNNLTGSIPRELCDLSNVRLLDLSDNKLNGVIPSCLSNLSFGRLQEDAMA-LNI 688

Query:   351 ASNEITGTIPNLGGFPGMLMPLIYFDKIT-----VTWKG--------GQYEY-KSILGLI 396
               + +  ++         L+  I  D+ T     + +          G+ E+ + IL L+
Sbjct:   689 PPSFLQTSLEMELYKSTFLVDKIEVDRSTYQETEIKFAAKQRYDSYSGRSEFSEGILRLM 748

Query:   397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG 456
               +DLS+N+L G +P E+ DL+ L  LNLS+N+L G I     +L  ++ LDLS N   G
Sbjct:   749 YGMDLSNNELSGVIPTELGDLLKLRTLNLSHNSLLGSIPSSFSKLIDVESLDLSHNMLQG 808

Query:   457 GIPXXXXXXXXXXVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEES 516
              IP          V D+S NN SG IP+G Q   F   +Y GNP LCG P    C   E+
Sbjct:   809 SIPQLLSSLTSLAVFDVSSNNLSGIIPQGRQFNTFEEESYLGNPLLCGPPTSRSC---ET 865

Query:   517 APSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWR 567
               SP   D     +DD      + FY S    +     GV   +     WR
Sbjct:   866 NKSPEEADNGQEEEDDKAAIDMMVFYFSTASIYVTALIGVLVLMCFDCPWR 916

GO:0007165 "signal transduction" evidence=IC

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2169384 AT5G06940 [Arabidopsis thaliana (taxid:3702)]

 Score = 295 (108.9 bits), Expect = 1.4e-34, Sum P(2) = 1.4e-34
 Identities = 110/390 (28%), Positives = 174/390 (44%)

Query:   129 IPEFIGXXXXXXXXXXXXXXXXGPIPHQLGNLSRLQVLDLRFNNLFSSGNXXXXXXXXXX 188
             IPE +G                G +P  +G LS L VLDL  N+   S            
Sbjct:   163 IPEDLGLLFNLQVLNLGSNLLTGIVPPAIGKLSELVVLDLSENSYLVS-----EIPSFLG 217

Query:   189 XXXXXGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYS-KSLEVIDLS 247
                      L +     ++ ++   LT+L      L  +S      L  S K+L  +D+S
Sbjct:   218 KLDKLEQLLLHRSGFHGEIPTSFVGLTSLRTLDLSLNNLSGEIPRSLGPSLKNLVSLDVS 277

Query:   248 NNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPK 306
              N L+ S +P  +     L++ + L SN   GS+P + G   SL  L + +N    E P 
Sbjct:   278 QNKLSGS-FPSGICSGKRLIN-LSLHSNFFEGSLPNSIGECLSLERLQVQNNGFSGEFPV 335

Query:   307 FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
              L  +  +K++    N   G++ E   +VS  S    +LE + + +N  +G IP+  G  
Sbjct:   336 VLWKLPRIKIIRADNNRFTGQVPE---SVSLAS----ALEQVEIVNNSFSGEIPH--GL- 385

Query:   367 GMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS 426
             G++  L  F      + G          ++ I+++S N+L G++PE + +   LV+L+L+
Sbjct:   386 GLVKSLYKFSASQNRFSGELPPNFCDSPVLSIVNISHNRLLGKIPE-LKNCKKLVSLSLA 444

Query:   427 NNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPXXXXXXXXXXVMDLSYNNFSGKIPKGT 486
              N  TG+I P +  L  L +LDLS N   G IP          + ++S+N  SG++P   
Sbjct:   445 GNAFTGEIPPSLADLHVLTYLDLSDNSLTGLIPQGLQNLKLA-LFNVSFNGLSGEVPHSL 503

Query:   487 QLQRFGASTYAGNPELCGLPLPNKCLDEES 516
              +    AS   GNPELCG  LPN C  + S
Sbjct:   504 -VSGLPASFLQGNPELCGPGLPNSCSSDRS 532

GO:0004672 "protein kinase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005576 "extracellular region" evidence=ISM

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0016301 "kinase activity" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

TAIR|locus:2020382 RLP3 "AT1G17250" [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 1.9e-34, Sum P(2) = 1.9e-34
 Identities = 128/476 (26%), Positives = 208/476 (43%)

Query:    96 PVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGXXXXXXXXXXXXXXXXGPIPH 155
             PV+ L G IN  +  L  L  L+L ++N  G  IP  IG                G +P 
Sbjct:   283 PVNHLSGKINDDITHLTKLKSLEL-YSNHLGGEIPMDIGQLSRLQSLQLHINNITGTVPP 341

Query:   156 QLGNLSRLQVLDLRFNNLFSSGNXXXXXXXXXXXXXXXGDCKLSKFSNWFQVLSNLRSLT 215
              L N + L  L+LR N L  + +               G+   S    W +V S  +SL+
Sbjct:   342 SLANCTNLVKLNLRLNRLEGTLSELDFSRFQSLSILDLGNNSFSGDFPW-RVHS-CKSLS 399

Query:   216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPW-LLNVSSNLVDHIDLGS 274
              +      L    +P +L L   +SL ++ LS+N L N      +L    NL   + +G 
Sbjct:   400 AMRFASNKLTGQISPHVLEL---ESLSILSLSDNKLMNITGALGILQGCRNLSTLL-IGK 455

Query:   275 NRLHGSIP-----VAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGEL 328
             N  + + P     ++     +L+      + LR E+P +L  + SL ++ LS+N+L G +
Sbjct:   456 NFYNETFPSDKDLISSDGFPNLQIFASGGSGLRGEIPAWLIKLKSLAVIDLSHNQLVGSI 515

Query:   329 SEFIQNVSSGSTKNSSLEWLYLASNEITGTIP-NLGGFPGMLMPLIY------FDKITVT 381
               ++     G+  +  L ++ L+ N ++G +P +L     ++    Y      + K+ V 
Sbjct:   516 PGWL-----GTFPH--LFYIDLSENLLSGELPKDLFQLKALMSQKAYDATERNYLKLPVF 568

Query:   382 WKGGQY----EYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPR 437
                       +Y  +  L   I +  N L G +P E+  L  L  L LS+N L+G I   
Sbjct:   569 VSPNNVTTHQQYNQLFSLPPGIYIRRNNLKGSIPIEVGQLKVLHVLELSHNYLSGIIPHE 628

Query:   438 IGQLKSLDFLDLSINHFFGGIPXXXXXXXXXXVMDLSYNNFSGKIPKGTQLQRFGASTYA 497
             + +L SL+ LDLS NH  G IP            ++  N+  G IP G+Q   F  + + 
Sbjct:   629 LSKLTSLERLDLSNNHLSGRIPWSLTSLHYMSYFNVVNNSLDGPIPTGSQFDTFPQANFK 688

Query:   498 GNPELCGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGF 553
             GNP LCG  L   C      P+ + + A +T D++  +FI   F + +  GFFV +
Sbjct:   689 GNPLLCGGILLTSCKASTKLPATTTNKA-DTEDEEELKFI---FILGVATGFFVSY 740

GO:0004672 "protein kinase activity" evidence=ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0007165 "signal transduction" evidence=IC

TAIR|locus:2025012 RLP1 "AT1G07390" [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 9.5e-34, Sum P(2) = 9.5e-34
 Identities = 109/350 (31%), Positives = 167/350 (47%)

Query:   234 HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRY 293
             ++N+  SL  + L NN  T  + P  L  ++ L + +DL +N   G I       + LR 
Sbjct:   716 NVNFP-SLRELRLQNNEFTGLV-PGNLFKAAGL-EVLDLRNNNFSGKILNTIDQTSKLRI 772

Query:   294 LGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNS---SL---- 345
             L L +N  +  +P  +  +S + +L LS+N+ RG +      +S G+ +N    SL    
Sbjct:   773 LLLRNNSFQTYIPGKICQLSEVGLLDLSHNQFRGPIPSCFSKMSFGAEQNDRTMSLVADF 832

Query:   346 EWLYLA--SNEITGTIPNL--GGFPGML-MPLIYFDKITVTWKGGQYE-YKS-ILGLIKI 398
             ++ Y+    +   G+  NL  G   G    P    D +T +    +YE Y+  IL  +  
Sbjct:   833 DFSYITFLPHCQYGSHLNLDDGVRNGYQPKPATVVDFLTKS----RYEAYQGDILRYMHG 888

Query:   399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGI 458
             +DLSSN+L GE+P EI DL  + +LNLS+N LTG I   I +LK L+ LDLS N   G I
Sbjct:   889 LDLSSNELSGEIPIEIGDLQNIRSLNLSSNRLTGSIPDSISKLKGLESLDLSNNKLDGSI 948

Query:   459 PXXXXXXXXXXVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEE--S 516
             P           +++SYNN SG+IP    L  F   +Y GN  LCGLP    C+ +    
Sbjct:   949 PPALADLNSLGYLNISYNNLSGEIPFKGHLVTFDERSYIGNAHLCGLPTNKNCISQRVPE 1008

Query:   517 APSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSW 566
              PS S        +++G+    + FY +    +      +   L + S W
Sbjct:  1009 PPSVSTHAKEEENEEEGNVIDMVWFYWTCAAVYISTSLALFAFLYIDSRW 1058

GO:0005575 "cellular_component" evidence=ND

GO:0007165 "signal transduction" evidence=IC

GO:0006457 "protein folding" evidence=RCA

GO:0006857 "oligopeptide transport" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

TAIR|locus:2020457 BRL1 "BRI1 like" [Arabidopsis thaliana (taxid:3702)]

 Score = 315 (115.9 bits), Expect = 3.2e-33, Sum P(2) = 3.2e-33
 Identities = 101/296 (34%), Positives = 143/296 (48%)

Query:   240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN 299
             +LE + L+NN LT SI P  ++  +N++  I L SNRL G IP   G+++ L  L L +N
Sbjct:   476 NLETLILNNNLLTGSI-PESISRCTNMI-WISLSSNRLTGKIPSGIGNLSKLAILQLGNN 533

Query:   300 RLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLA--SNEIT 356
              L   VP+ LGN  SL  L L+ N L G+L   + +  +G     S+     A   NE  
Sbjct:   534 SLSGNVPRQLGNCKSLIWLDLNSNNLTGDLPGELAS-QAGLVMPGSVSGKQFAFVRNEGG 592

Query:   357 GTIPNLGG---FPGML------MPLIYFDKITVTWKG-GQYEYKSILGLIKIIDLSSNKL 406
                   GG   F G+       +P+++    T  + G   Y + S  G +   D+S N +
Sbjct:   593 TDCRGAGGLVEFEGIRAERLERLPMVHSCPATRIYSGMTMYTF-SANGSMIYFDISYNAV 651

Query:   407 GGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPXXXXXXX 466
              G +P    ++  L  LNL +N +TG I    G LK++  LDLS N+  G +P       
Sbjct:   652 SGFIPPGYGNMGYLQVLNLGHNRITGTIPDSFGGLKAIGVLDLSHNNLQGYLPGSLGSLS 711

Query:   467 XXXVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSR 522
                 +D+S NN +G IP G QL  F  S YA N  LCG+PL   C      P  SR
Sbjct:   712 FLSDLDVSNNNLTGPIPFGGQLTTFPVSRYANNSGLCGVPL-RPCGSAPRRPITSR 766

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA

GO:0004713 "protein tyrosine kinase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0016301 "kinase activity" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

TAIR|locus:2101943 RLP45 "AT3G53240" [Arabidopsis thaliana (taxid:3702)]

 Score = 386 (140.9 bits), Expect = 3.3e-33, P = 3.3e-33
 Identities = 154/489 (31%), Positives = 221/489 (45%)

Query:   114 LTYLDLSWNNFSGSPIPEFIGXXXXXXXXXXXXXXXXGPIPHQLGNLSRLQVLDLRFNNL 173
             L++L LS N FSG PI                     G IP  L NL  L V+DL  NNL
Sbjct:   424 LSWLKLSHNRFSG-PIIRKSSDETSLITLIMDNNMFTGKIPRTLLNLRMLSVIDLS-NNL 481

Query:   174 FSSGNXXXXXXXXXXXXXXXGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLL 233
              + G                 + +L        +  +L ++  L+L   DL        L
Sbjct:   482 LT-GTIPRWLGNFFLEVLRISNNRLQG-----AIPPSLFNIPYLWL--LDLSGNFLSGSL 533

Query:   234 HLNYSKSLE-VIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLR 292
              L  S     ++DL NN LT SI P  L     L   +DL +N+L G+IP+ F    S+ 
Sbjct:   534 PLRSSSDYGYILDLHNNNLTGSI-PDTLWYGLRL---LDLRNNKLSGNIPL-FRSTPSIS 588

Query:   293 YLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVS--SGSTKNSSLEWL- 348
              + L  N L  ++P  L  +S+++ML  ++N L   +   + N+S  SG   N+  +W  
Sbjct:   589 VVLLRENNLTGKIPVELCGLSNVRMLDFAHNRLNESIPSCVTNLSFGSGGHSNADSDWYP 648

Query:   349 -YLASN--EITGTIPNLGGFPGMLMPLIY-FD-KITVTWKGGQ-YE-Y-KSILGLIKIID 400
               L SN  EI   +            L Y  D  + V +   Q Y+ Y +  L  +  +D
Sbjct:   649 ASLLSNFMEIYTEVYYESLIVSDRFSLDYSVDFNVQVEFAVKQRYDLYMRGTLNQMFGLD 708

Query:   401 LSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPX 460
             LSSN+L G +PEE+ DL  + +LNLS N+L+G I      L+S++ LDLS N   G IP 
Sbjct:   709 LSSNELSGNIPEELGDLKRVRSLNLSRNSLSGSIPGSFSNLRSIESLDLSFNKLHGTIPS 768

Query:   461 XXXXXXXXXVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSP 520
                      V ++SYNN SG IP+G Q   FG  +Y GN  LCG P    C       + 
Sbjct:   769 QLTLLQSLVVFNVSYNNLSGVIPQGKQFNTFGEKSYLGNFLLCGSPTKRSC----GGTTI 824

Query:   521 SRDDAYNTPDDDG--DQFI---TLGF-YMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFL 574
             S    Y   D+ G  D  +   +LG  Y+++++GF V F  +C     + +W C    F+
Sbjct:   825 SSGKEYEDDDESGLLDIVVLWWSLGTTYVTVMMGFLV-F--LCFDSPWRRAWFCLVDTFI 881

Query:   575 TGVKDWLYV 583
               VKD L V
Sbjct:   882 DRVKDVLGV 890

GO:0007165 "signal transduction" evidence=IC

TAIR|locus:2011339 AT1G35710 [Arabidopsis thaliana (taxid:3702)]

 Score = 387 (141.3 bits), Expect = 4.1e-33, P = 4.1e-33
 Identities = 151/482 (31%), Positives = 211/482 (43%)

Query:    39 EKEALLAFKQGLIDESGILSSWGREDEKR---NCCKWRGVRCSNKTGHVLGLDLRALSDS 95
             E  ALL +K    + S  LSSW  +       +C  W GV C N  G +  L+L      
Sbjct:    33 EANALLKWKSTFTNSSK-LSSWVHDANTNTSFSCTSWYGVSC-NSRGSIEELNLTNTG-- 88

Query:    96 PVDALKGTINP-SLLKLQHLTYLDLSWNNFSGSPIPEFIGXXXXXXXXXXXXXXXXGPIP 154
                 ++GT      + L +L Y+DLS N  SG+  P+F G                G I 
Sbjct:    89 ----IEGTFQDFPFISLSNLAYVDLSMNLLSGTIPPQF-GNLSKLIYFDLSTNHLTGEIS 143

Query:   155 HQLGNLSRLQVLDLRFNNLFSS-----GNXXXXXXXXXXXX-------XXXGDCK----L 198
               LGNL  L VL L  N L S      GN                      G+ K    L
Sbjct:   144 PSLGNLKNLTVLYLHQNYLTSVIPSELGNMESMTDLALSQNKLTGSIPSSLGNLKNLMVL 203

Query:   199 SKFSNWFQ-----VLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
               + N+        L N+ S+T L L    L   S PS L  N  K+L V+ L  NYLT 
Sbjct:   204 YLYENYLTGVIPPELGNMESMTDLALSQNKLTG-SIPSTLG-NL-KNLMVLYLYENYLTG 260

Query:   254 SIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMS 312
              I P + N+ S  + ++ L  N+L GSIP + G++ +L  L L  N L   +P  LGN+ 
Sbjct:   261 VIPPEIGNMES--MTNLALSQNKLTGSIPSSLGNLKNLTLLSLFQNYLTGGIPPKLGNIE 318

Query:   313 SLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP-NLGGFPGMLMP 371
             S+  L LS N+L G +       S G+ KN ++  LYL  N +TG IP  LG    M+  
Sbjct:   319 SMIDLELSNNKLTGSIPS-----SLGNLKNLTI--LYLYENYLTGVIPPELGNMESMIDL 371

Query:   372 LIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT 431
              +  +K+T +        K++  L     L  N L G +P+E+ ++  ++ L+LS N LT
Sbjct:   372 QLNNNKLTGSIPSSFGNLKNLTYLY----LYLNYLTGVIPQELGNMESMINLDLSQNKLT 427

Query:   432 GQITPRIGQLKSLDFLDLSINHFFGGIPXXXXXXXXXXVMDLSYNNFSGKIP----KGTQ 487
             G +    G    L+ L L +NH  G IP           + L  NNF+G  P    KG +
Sbjct:   428 GSVPDSFGNFTKLESLYLRVNHLSGAIPPGVANSSHLTTLILDTNNFTGFFPETVCKGRK 487

Query:   488 LQ 489
             LQ
Sbjct:   488 LQ 489

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine kinase activity" evidence=ISS

GO:0004713 "protein tyrosine kinase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0006468 "protein phosphorylation" evidence=IEA;ISS

GO:0007169 "transmembrane receptor protein tyrosine kinase signaling pathway" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0000165 "MAPK cascade" evidence=RCA

GO:0009814 "defense response, incompatible interaction" evidence=RCA

TAIR|locus:2034725 AT1G12460 [Arabidopsis thaliana (taxid:3702)]

 Score = 385 (140.6 bits), Expect = 4.4e-33, P = 4.4e-33
 Identities = 143/538 (26%), Positives = 231/538 (42%)

Query:     9 LQYVSLISVILFQLEPTVANSNNIISCLDEEKEALLAFKQGLIDES-GILSSWGREDEKR 67
             ++ V L  V++  +  + + S++I      E++ LL FK  + D+    L+SW  + +  
Sbjct:     1 MRKVHLFLVLVHFIYISTSRSDSI-----SERDILLQFKGSISDDPYNSLASWVSDGDL- 54

Query:    68 NCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGS 127
              C  + G+ C N  G V   D   L ++   +L GT+ P L  L+ +  L+L  N F+G+
Sbjct:    55 -CNSFNGITC-NPQGFV---DKIVLWNT---SLAGTLAPGLSNLKFIRVLNLFGNRFTGN 106

Query:   128 -PIPEFIGXXXXXXXXXXXXXXXXGPIPHQLGNLSRLQVLDLRFNNLFSSGNXXXXXXXX 186
              P+  F                  GPIP  +  LS L+ LDL  N    +G         
Sbjct:   107 LPLDYF--KLQTLWTINVSSNALSGPIPEFISELSSLRFLDLSKNGF--TGEIPVSLFKF 162

Query:   187 XXXXXXXGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDL 246
                         + F +    + N  +L      + +L  +  P +  +     LE I +
Sbjct:   163 CDKTKFVSLAHNNIFGSIPASIVNCNNLVGFDFSYNNLKGVLPPRICDIPV---LEYISV 219

Query:   247 SNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVP 305
              NN L+  +   +      ++  +DLGSN  HG  P A     ++ Y  +  NR   E+ 
Sbjct:   220 RNNLLSGDVSEEIQKCQRLIL--VDLGSNLFHGLAPFAVLTFKNITYFNVSWNRFGGEIG 277

Query:   306 KFLGNMSSLKMLVLSYNELRG------------ELSEFIQNVSSGSTKNS-----SLEWL 348
             + +    SL+ L  S NEL G            +L +   N  +GS   S     SL  +
Sbjct:   278 EIVDCSESLEFLDASSNELTGRIPTGVMGCKSLKLLDLESNKLNGSIPGSIGKMESLSVI 337

Query:   349 YLASNEITGTIP-NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLG 407
              L +N I G IP ++G      + ++    + +   G   E  S   ++  +D+S N L 
Sbjct:   338 RLGNNSIDGVIPRDIGSLE--FLQVLNLHNLNLI--GEVPEDISNCRVLLELDVSGNDLE 393

Query:   408 GEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPXXXXXXXX 467
             G++ +++++L  +  L+L  N L G I P +G L  + FLDLS N   G IP        
Sbjct:   394 GKISKKLLNLTNIKILDLHRNRLNGSIPPELGNLSKVQFLDLSQNSLSGPIPSSLGSLNT 453

Query:   468 XXVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDA 525
                 ++SYNN SG IP    +Q FG+S ++ NP LCG PL   C    +A      DA
Sbjct:   454 LTHFNVSYNNLSGVIPPVPMIQAFGSSAFSNNPFLCGDPLVTPCNSRGAAAKSRNSDA 511

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine kinase activity" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

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

GO:0006468 "protein phosphorylation" evidence=IEA;ISS

GO:0007169 "transmembrane receptor protein tyrosine kinase signaling pathway" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0002237 "response to molecule of bacterial origin" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	598
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-47
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	1e-36
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	3e-35
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-34
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-17
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	1e-16
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	5e-09
cd00116	319	cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribo	7e-08
pfam08263	42	pfam08263, LRRNT_2, Leucine rich repeat N-terminal	1e-07
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-06
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	3e-06
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	4e-06
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	6e-06
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	8e-06
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	2e-05
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	1e-04
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	1e-04
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	4e-04
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.003

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score =  178 bits (453), Expect = 2e-47
 Identities = 149/449 (33%), Positives = 229/449 (51%), Gaps = 37/449 (8%)

Query: 38  EEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPV 97
           EE E LL+FK  + D    LS+W   +   + C W+G+ C+N +  V+ +DL   + S  
Sbjct: 29  EELELLLSFKSSINDPLKYLSNW---NSSADVCLWQGITCNNSS-RVVSIDLSGKNIS-- 82

Query: 98  DALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLS-KLSELALSSAQLAGPIPHQ 156
               G I+ ++ +L ++  ++LS N  SG PIP+ I + S  L  L LS+    G IP  
Sbjct: 83  ----GKISSAIFRLPYIQTINLSNNQLSG-PIPDDIFTTSSSLRYLNLSNNNFTGSIPR- 136

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLS-KFSNWFQVLSNLRSLT 215
            G++  L+ LDL  NN+ S    + +   SSL+ LDLG   L  K  N    L+NL SL 
Sbjct: 137 -GSIPNLETLDLS-NNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNS---LTNLTSLE 191

Query: 216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSN 275
            L L    L     P    L   KSL+ I L  N L+  I   +  ++S  ++H+DL  N
Sbjct: 192 FLTLASNQLVG-QIPR--ELGQMKSLKWIYLGYNNLSGEIPYEIGGLTS--LNHLDLVYN 246

Query: 276 RLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQN 334
            L G IP + G++ +L+YL L  N+L   +P  + ++  L  L LS N L GE+ E +  
Sbjct: 247 NLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELV-- 304

Query: 335 VSSGSTKNSSLEWLYLASNEITGTIP-NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSIL 393
                 +  +LE L+L SN  TG IP  L   P + +  ++ +K +    G   +     
Sbjct: 305 -----IQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFS----GEIPKNLGKH 355

Query: 394 GLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINH 453
             + ++DLS+N L GE+PE +     L  L L +N+L G+I   +G  +SL  + L  N 
Sbjct: 356 NNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNS 415

Query: 454 FFGGIPSSLSRLRLLSVMDLSYNNFSGKI 482
           F G +PS  ++L L+  +D+S NN  G+I
Sbjct: 416 FSGELPSEFTKLPLVYFLDISNNNLQGRI 444

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score =  146 bits (369), Expect = 1e-36
 Identities = 134/389 (34%), Positives = 188/389 (48%), Gaps = 49/389 (12%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L G I   +     L  LDL  N   G  IP  + +L+ L  L L+S QL G IP +LG 
Sbjct: 152 LSGEIPNDIGSFSSLKVLDLGGNVLVGK-IPNSLTNLTSLEFLTLASNQLVGQIPRELGQ 210

Query: 160 LSRLQVLDLRFNNLFSSGNLDW-LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
           +  L+ + L +NNL  SG + + +  L+SL +LDL    L+        L NL++L  L+
Sbjct: 211 MKSLKWIYLGYNNL--SGEIPYEIGGLTSLNHLDLVYNNLT--GPIPSSLGNLKNLQYLF 266

Query: 219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           L    L     PS+  L   + L  +DLS+N L+  I P L+    NL + + L SN   
Sbjct: 267 LYQNKLSGPIPPSIFSL---QKLISLDLSDNSLSGEI-PELVIQLQNL-EILHLFSNNFT 321

Query: 279 GSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS 337
           G IPVA   +  L+ L L SN+   E+PK LG  ++L +L LS N L GE+ E +   SS
Sbjct: 322 GKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGL--CSS 379

Query: 338 GSTKNSSLEWLYLASNEITGTIP-NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLI 396
           G+     L  L L SN + G IP +LG    +                            
Sbjct: 380 GN-----LFKLILFSNSLEGEIPKSLGACRSL---------------------------- 406

Query: 397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG 456
           + + L  N   GE+P E   L  +  L++SNNNL G+I  R   + SL  L L+ N FFG
Sbjct: 407 RRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFG 466

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSGKIPKG 485
           G+P S    + L  +DLS N FSG +P+ 
Sbjct: 467 GLPDS-FGSKRLENLDLSRNQFSGAVPRK 494

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score =  141 bits (357), Expect = 3e-35
 Identities = 141/431 (32%), Positives = 186/431 (43%), Gaps = 95/431 (22%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L G I  SL  L++L YL L  N  SG PIP  I SL KL  L LS   L+G IP  +  
Sbjct: 248 LTGPIPSSLGNLKNLQYLFLYQNKLSG-PIPPSIFSLQKLISLDLSDNSLSGEIPELVIQ 306

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           L  L++L L F+N F+      L+ L  L+ L L   K S                    
Sbjct: 307 LQNLEILHL-FSNNFTGKIPVALTSLPRLQVLQLWSNKFSG------------------- 346

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
              ++P        +L    +L V+DLS N LT  I P  L  S NL   I L SN L G
Sbjct: 347 ---EIPK-------NLGKHNNLTVLDLSTNNLTGEI-PEGLCSSGNLFKLI-LFSNSLEG 394

Query: 280 SIPVAFGHMASLRYLGLLSNRLR-EVP-----------------KFLGN-------MSSL 314
            IP + G   SLR + L  N    E+P                    G        M SL
Sbjct: 395 EIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSL 454

Query: 315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLI 373
           +ML L+ N+  G L +     S GS +   LE L L+ N+ +G +P  LG     LM L 
Sbjct: 455 QMLSLARNKFFGGLPD-----SFGSKR---LENLDLSRNQFSGAVPRKLGSLS-ELMQL- 504

Query: 374 YFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ 433
                                      LS NKL GE+P+E+     LV+L+LS+N L+GQ
Sbjct: 505 --------------------------KLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQ 538

Query: 434 ITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGA 493
           I     ++  L  LDLS N   G IP +L  +  L  +++S+N+  G +P         A
Sbjct: 539 IPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHGSLPSTGAFLAINA 598

Query: 494 STYAGNPELCG 504
           S  AGN +LCG
Sbjct: 599 SAVAGNIDLCG 609

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score =  138 bits (349), Expect = 4e-34
 Identities = 126/387 (32%), Positives = 179/387 (46%), Gaps = 47/387 (12%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L G I   +  L  L +LDL +NN +G PIP  +G+L  L  L L   +L+GPIP  + +
Sbjct: 224 LSGEIPYEIGGLTSLNHLDLVYNNLTG-PIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFS 282

Query: 160 LSRLQVLDLRFNNLFSSGNL-DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
           L +L  LDL  N+L  SG + + +  L +L  L L       FSN F           + 
Sbjct: 283 LQKLISLDLSDNSL--SGEIPELVIQLQNLEILHL-------FSNNFT--------GKIP 325

Query: 219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           +    LP               L+V+ L +N  +  I P  L   +NL   +DL +N L 
Sbjct: 326 VALTSLP--------------RLQVLQLWSNKFSGEI-PKNLGKHNNLT-VLDLSTNNLT 369

Query: 279 GSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS 337
           G IP       +L  L L SN L  E+PK LG   SL+ + L  N   GEL        S
Sbjct: 370 GEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELP-------S 422

Query: 338 GSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK 397
             TK   + +L +++N + G I +        MP +    +      G          ++
Sbjct: 423 EFTKLPLVYFLDISNNNLQGRINS----RKWDMPSLQMLSLARNKFFGGLPDSFGSKRLE 478

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGG 457
            +DLS N+  G VP ++  L  L+ L LS N L+G+I   +   K L  LDLS N   G 
Sbjct: 479 NLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQ 538

Query: 458 IPSSLSRLRLLSVMDLSYNNFSGKIPK 484
           IP+S S + +LS +DLS N  SG+IPK
Sbjct: 539 IPASFSEMPVLSQLDLSQNQLSGEIPK 565

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 84.9 bits (210), Expect = 4e-17
 Identities = 54/171 (31%), Positives = 82/171 (47%), Gaps = 35/171 (20%)

Query: 314 LKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLI 373
           ++ + LS N+L G + + I       T +SSL +L L++N  TG+IP   G         
Sbjct: 95  IQTINLSNNQLSGPIPDDI------FTTSSSLRYLNLSNNNFTGSIPR--GS-------- 138

Query: 374 YFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ 433
                              +  ++ +DLS+N L GE+P +I     L  L+L  N L G+
Sbjct: 139 -------------------IPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGK 179

Query: 434 ITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
           I   +  L SL+FL L+ N   G IP  L +++ L  + L YNN SG+IP 
Sbjct: 180 IPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPY 230

Length = 968

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 83.3 bits (206), Expect = 1e-16
 Identities = 47/129 (36%), Positives = 72/129 (55%), Gaps = 4/129 (3%)

Query: 382 WKGGQYEYKSILG--LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIG 439
           W G   ++ S  G   I  + L +  L G +P +I  L  L ++NLS N++ G I P +G
Sbjct: 404 WSGADCQFDSTKGKWFIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLG 463

Query: 440 QLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK--GTQLQRFGASTYA 497
            + SL+ LDLS N F G IP SL +L  L +++L+ N+ SG++P   G +L    +  + 
Sbjct: 464 SITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFT 523

Query: 498 GNPELCGLP 506
            N  LCG+P
Sbjct: 524 DNAGLCGIP 532

Length = 623

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 59.1 bits (143), Expect = 5e-09
 Identities = 37/106 (34%), Positives = 54/106 (50%), Gaps = 11/106 (10%)

Query: 72  WRGVRCS--NKTGH--VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGS 127
           W G  C   +  G   + GL L          L+G I   + KL+HL  ++LS N+  G+
Sbjct: 404 WSGADCQFDSTKGKWFIDGLGLDN------QGLRGFIPNDISKLRHLQSINLSGNSIRGN 457

Query: 128 PIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL 173
            IP  +GS++ L  L LS     G IP  LG L+ L++L+L  N+L
Sbjct: 458 -IPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSL 502

Length = 623

>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

 Score = 54.3 bits (131), Expect = 7e-08
 Identities = 67/280 (23%), Positives = 100/280 (35%), Gaps = 42/280 (15%)

Query: 110 KLQHLTYLDLSWNNFS---GSPIPEFIGSLSKLSELALSSAQLAGP------IPHQLGNL 160
           KL  L  L L  N         +   +     L EL LS  +          +   L   
Sbjct: 21  KLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKG 80

Query: 161 SRLQVLDLRFNNLFS---SGNLDWLSYLSSLRYLDLGDCKLSKFSNWF---QVLSNLRSL 214
             LQ LDL  +N       G L+ L   SSL+ L L +  L           +     +L
Sbjct: 81  CGLQELDLS-DNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPAL 139

Query: 215 TTLYLGHCDLPPISTPSLLH-LNYSKSLEVIDLSNNYLTNSIYPWL---LNVSSNLVDHI 270
             L LG   L   S  +L   L  ++ L+ ++L+NN + ++    L   L  + NL   +
Sbjct: 140 EKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLE-VL 198

Query: 271 DLGSNRLH----GSIPVAFGHMASLRYLGLLSNRLREV------PKFLGNMSSLKMLVLS 320
           DL +N L      ++      + SL  L L  N L +          L    SL  L LS
Sbjct: 199 DLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLS 258

Query: 321 YNELRGE----LSEFIQNVSSGSTKNSSLEWLYLASNEIT 356
            N++  +    L+E +           SL  L L  N+  
Sbjct: 259 CNDITDDGAKDLAEVLAE-------KESLLELDLRGNKFG 291

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). Length = 319

>gnl|CDD|219766 pfam08263, LRRNT_2, Leucine rich repeat N-terminal domain

 Score = 48.1 bits (115), Expect = 1e-07
 Identities = 20/44 (45%), Positives = 26/44 (59%), Gaps = 3/44 (6%)

Query: 36 LDEEKEALLAFKQGL-IDESGILSSWGREDEKRNCCKWRGVRCS 78
          L+++++ALLAFK  L  D SG LSSW       + C W GV C 
Sbjct: 1  LNDDRDALLAFKSSLNGDPSGALSSWNPSS--SDPCSWTGVTCD 42

Leucine Rich Repeats pfam00560 are short sequence motifs present in a number of proteins with diverse functions and cellular locations. Leucine Rich Repeats are often flanked by cysteine rich domains. This domain is often found at the N-terminus of tandem leucine rich repeats. Length = 42

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 50.6 bits (121), Expect = 2e-06
 Identities = 24/68 (35%), Positives = 42/68 (61%), Gaps = 1/68 (1%)

Query: 420 LVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRL-LSVMDLSYNNF 478
           +V+++LS  N++G+I+  I +L  +  ++LS N   G IP  +      L  ++LS NNF
Sbjct: 71  VVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNF 130

Query: 479 SGKIPKGT 486
           +G IP+G+
Sbjct: 131 TGSIPRGS 138

Length = 968

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 49.8 bits (119), Expect = 3e-06
 Identities = 29/72 (40%), Positives = 41/72 (56%), Gaps = 3/72 (4%)

Query: 239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLS 298
           + L+ I+LS N +  +I P L +++S  V  +DL  N  +GSIP + G + SLR L L  
Sbjct: 442 RHLQSINLSGNSIRGNIPPSLGSITSLEV--LDLSYNSFNGSIPESLGQLTSLRILNLNG 499

Query: 299 NRLR-EVPKFLG 309
           N L   VP  LG
Sbjct: 500 NSLSGRVPAALG 511

Length = 623

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 49.4 bits (118), Expect = 4e-06
 Identities = 34/103 (33%), Positives = 53/103 (51%), Gaps = 9/103 (8%)

Query: 266 LVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNEL 324
            +D + L +  L G IP     +  L+ + L  N +R  +P  LG+++SL++L LSYN  
Sbjct: 419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSF 478

Query: 325 RGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP-NLGGFP 366
            G + E     S G  + +SL  L L  N ++G +P  LGG  
Sbjct: 479 NGSIPE-----SLG--QLTSLRILNLNGNSLSGRVPAALGGRL 514

Length = 623

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

 Score = 43.3 bits (103), Expect = 6e-06
 Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 3/63 (4%)

Query: 162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH 221
            L+ LDL  N L    +      L +L+ LDL    L+  S   +  S L SL +L L  
Sbjct: 1   NLKSLDLSNNRLTVIPD-GAFKGLPNLKVLDLSGNNLTSISP--EAFSGLPSLRSLDLSG 57

Query: 222 CDL 224
            +L
Sbjct: 58  NNL 60

Length = 60

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

 Score = 48.0 bits (114), Expect = 8e-06
 Identities = 58/215 (26%), Positives = 83/215 (38%), Gaps = 22/215 (10%)

Query: 92  LSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG 151
           LS + +  L       L  L +L  LDLS N  S   +P  I  LS L EL LS+  +  
Sbjct: 170 LSFNDLSDLP----KLLSNLSNLNNLDLSGNKIS--DLPPEIELLSALEELDLSNNSII- 222

Query: 152 PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNL 211
            +   L NL  L  L+L  N L      + +  LS+L  LDL + ++S  S+    L +L
Sbjct: 223 ELLSSLSNLKNLSGLELSNNKLEDL--PESIGNLSNLETLDLSNNQISSISS----LGSL 276

Query: 212 RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID 271
            +L  L         +S    L       LE++      L        L +  N +   +
Sbjct: 277 TNLREL---DLSGNSLSNALPLIALLLLLLELLLNLLLTLKA------LELKLNSILLNN 327

Query: 272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK 306
              +    S P A   + SL  L  L N L E   
Sbjct: 328 NILSNGETSSPEALSILESLNNLWTLDNALDESNL 362

Length = 394

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

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 52/228 (22%), Positives = 95/228 (41%), Gaps = 24/228 (10%)

Query: 145 SSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL------SYLSSLRYLDLGDCKL 198
           +  +LA  +      L    +  L   +L S   +  L        L  L  LDL   +L
Sbjct: 46  AVNRLALNLSSNTLLLLPSSLSRLLSLDLLSPSGISSLDGSENLLNLLPLPSLDLNLNRL 105

Query: 199 SKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPW 258
               +    L+NL SL        D+PP+            +L+ +DLS+N +  S+   
Sbjct: 106 RSNISELLELTNLTSLDLDNNNITDIPPLIGLL------KSNLKELDLSDNKIE-SLPSP 158

Query: 259 LLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV 318
           L N+ +    ++DL  N L   +P    ++++L  L L  N++ ++P  +  +S+L+ L 
Sbjct: 159 LRNLPNLK--NLDLSFNDLS-DLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELD 215

Query: 319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
           LS N         I  + S  +   +L  L L++N++     ++G   
Sbjct: 216 LSNNS--------IIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLS 255

Length = 394

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

 Score = 40.2 bits (95), Expect = 1e-04
 Identities = 24/61 (39%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 138 KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCK 197
            L  L LS+ +L          L  L+VLDL  NNL +S + +  S L SLR LDL    
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNL-TSISPEAFSGLPSLRSLDLSGNN 59

Query: 198 L 198
           L
Sbjct: 60  L 60

Length = 60

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 44.5 bits (105), Expect = 1e-04
 Identities = 42/168 (25%), Positives = 62/168 (36%), Gaps = 20/168 (11%)

Query: 92  LSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIP---EFIGSLSKLSELALSSAQ 148
             D     L   +  +LLK   L  +DLS N F         + I S + L  L L++  
Sbjct: 73  DKDELYSNLV-MLLKALLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNG 131

Query: 149 LAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSN--WFQ 206
           L GPI    G + +          LF        +    L  +  G  +L   S      
Sbjct: 132 L-GPIAG--GRIGK---------ALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAA 179

Query: 207 VLSNLRSLTTLYLGHCDLPPISTPSLLH--LNYSKSLEVIDLSNNYLT 252
           +L +  +L  + +    + P     L    L YS SLEV+DL +N  T
Sbjct: 180 LLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFT 227

Length = 388

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

 Score = 38.3 bits (90), Expect = 4e-04
 Identities = 25/62 (40%), Positives = 30/62 (48%), Gaps = 2/62 (3%)

Query: 240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN 299
           +L+ +DLSNN LT  I         NL   +DL  N L    P AF  + SLR L L  N
Sbjct: 1   NLKSLDLSNNRLT-VIPDGAFKGLPNL-KVLDLSGNNLTSISPEAFSGLPSLRSLDLSGN 58

Query: 300 RL 301
            L
Sbjct: 59  NL 60

Length = 60

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

 Score = 36.0 bits (84), Expect = 0.003
 Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNEL 324
            +DL +NRL      AF  + +L+ L L  N L  +       + SL+ L LS N L
Sbjct: 4   SLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	598
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	100.0
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	100.0
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	100.0
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.97
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.96
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.95
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.94
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.91
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.9
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.89
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.89
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.89
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.87
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.85
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.84
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.8
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.78
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.74
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.71
PLN03150	623	hypothetical protein; Provisional	99.64
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.61
PLN03150	623	hypothetical protein; Provisional	99.55
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.32
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.25
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.25
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.22
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.18
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.17
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.13
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.11
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.09
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.08
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.01
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.94
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.86
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.82
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.82
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.81
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.77
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.77
PF08263	43	LRRNT_2: Leucine rich repeat N-terminal domain; In	98.69
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.56
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.54
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.53
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.48
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.38
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.31
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.3
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.25
PRK15386	426	type III secretion protein GogB; Provisional	98.13
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.11
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.04
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.99
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.91
KOG4341	483	consensus F-box protein containing LRR [General fu	97.89
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.89
PRK15386	426	type III secretion protein GogB; Provisional	97.81
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.75
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.71
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.62
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.58
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.29
KOG4341	483	consensus F-box protein containing LRR [General fu	97.11
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.87
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.4
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	96.24
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.98
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.62
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.45
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.29
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.25
KOG4308	478	consensus LRR-containing protein [Function unknown	94.46
KOG4308	478	consensus LRR-containing protein [Function unknown	94.26
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.44
KOG0473	326	consensus Leucine-rich repeat protein [Function un	91.97
KOG3864	221	consensus Uncharacterized conserved protein [Funct	90.2
KOG0473	326	consensus Leucine-rich repeat protein [Function un	88.43
KOG3864	221	consensus Uncharacterized conserved protein [Funct	87.25
TIGR00864	2740	PCC polycystin cation channel protein. Note: this	86.94
smart00370	26	LRR Leucine-rich repeats, outliers.	86.82
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	86.82
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	85.61
smart00370	26	LRR Leucine-rich repeats, outliers.	85.61
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	85.33
PF07172	95	GRP: Glycine rich protein family; InterPro: IPR010	82.37
KOG4242	553	consensus Predicted myosin-I-binding protein [Cell	80.15

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

Probab=100.00  E-value=1.3e-52  Score=487.05  Aligned_cols=455  Identities=31%  Similarity=0.495  Sum_probs=284.2

Q ss_pred             cHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCC
Q 040109           36 LDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLT  115 (598)
Q Consensus        36 ~~~~~~~l~~~k~~~~~~~~~l~~W~~~~~~~~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~  115 (598)
                      .++|+.||++||+++.+|...+.+|.   ...+||.|.||+|++ .++|+.+++++      +.++|.+++.+..+++|+
T Consensus        27 ~~~~~~~l~~~~~~~~~~~~~~~~w~---~~~~~c~w~gv~c~~-~~~v~~L~L~~------~~i~~~~~~~~~~l~~L~   96 (968)
T PLN00113         27 HAEELELLLSFKSSINDPLKYLSNWN---SSADVCLWQGITCNN-SSRVVSIDLSG------KNISGKISSAIFRLPYIQ   96 (968)
T ss_pred             CHHHHHHHHHHHHhCCCCcccCCCCC---CCCCCCcCcceecCC-CCcEEEEEecC------CCccccCChHHhCCCCCC
Confidence            56899999999999988888889997   467899999999974 57899999998      555666666666666666


Q ss_pred             EEECcCCCCCCCCcchhcC-CCCCCCEEECCCCCC----------------------CCCCccccCCCCCCCEEEccCCC
Q 040109          116 YLDLSWNNFSGSPIPEFIG-SLSKLSELALSSAQL----------------------AGPIPHQLGNLSRLQVLDLRFNN  172 (598)
Q Consensus       116 ~L~Ls~n~l~~~~~p~~l~-~l~~L~~L~Ls~n~l----------------------~~~~p~~l~~l~~L~~L~Ls~n~  172 (598)
                      +|+|++|.+.+. +|..+. .+++|++|+|++|.+                      ++.+|..++++++|++|++++|.
T Consensus        97 ~L~Ls~n~~~~~-ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~  175 (968)
T PLN00113         97 TINLSNNQLSGP-IPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNV  175 (968)
T ss_pred             EEECCCCccCCc-CChHHhccCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCc
Confidence            666666655543 444322 344444444444433                      33344444445555555555554


Q ss_pred             CCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhc-----------------
Q 040109          173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHL-----------------  235 (598)
Q Consensus       173 l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~-----------------  235 (598)
                      + ....+..+.++++|++|++++|.+.+.  +|..+..+++|++|++++|.+.+..+..+..+                 
T Consensus       176 l-~~~~p~~~~~l~~L~~L~L~~n~l~~~--~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~  252 (968)
T PLN00113        176 L-VGKIPNSLTNLTSLEFLTLASNQLVGQ--IPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPI  252 (968)
T ss_pred             c-cccCChhhhhCcCCCeeeccCCCCcCc--CChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceecccc
Confidence            3 122223344444444444444444332  22334444444444444444433332211111                 


Q ss_pred             ----cccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcC
Q 040109          236 ----NYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGN  310 (598)
Q Consensus       236 ----~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~  310 (598)
                          ..+++|+.|++++|.+.+.+|..+..+++  |++|++++|.+.+.+|..+.++++|++|++++|.+.+ +|..+..
T Consensus       253 p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~--L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~  330 (968)
T PLN00113        253 PSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQK--LISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTS  330 (968)
T ss_pred             ChhHhCCCCCCEEECcCCeeeccCchhHhhccC--cCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhc
Confidence                00144555555555555555555555555  5566666666655566656666666666666666654 5555555


Q ss_pred             CCCCcEEEcccCcCccchhhhhhhcCC------------CC-----------------------------CCCCCCCEEE
Q 040109          311 MSSLKMLVLSYNELRGELSEFIQNVSS------------GS-----------------------------TKNSSLEWLY  349 (598)
Q Consensus       311 l~~L~~L~Ls~n~l~~~~~~~l~~l~~------------g~-----------------------------~~~~~L~~L~  349 (598)
                      +++|+.|++++|.+.+.+|..+..+..            +.                             ..+++|+.|+
T Consensus       331 l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~  410 (968)
T PLN00113        331 LPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVR  410 (968)
T ss_pred             CCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEE
Confidence            666666666666665555554443331            00                             0123344444


Q ss_pred             ccCccccccCCC-CCCC------------------------CcCccccccccceE--------------EE-----EcCC
Q 040109          350 LASNEITGTIPN-LGGF------------------------PGMLMPLIYFDKIT--------------VT-----WKGG  385 (598)
Q Consensus       350 Ls~N~l~~~~p~-l~~l------------------------~~l~~~~~~~~~~~--------------~~-----~~~~  385 (598)
                      +++|++++.+|. +.++                        ++|.......+.+.              ..     ..+.
T Consensus       411 L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~n~l~~~  490 (968)
T PLN00113        411 LQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGA  490 (968)
T ss_pred             CcCCEeeeECChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEECcCceeeeecCcccccccceEEECcCCccCCc
Confidence            444444433332 1111                        12211111111110              00     1233


Q ss_pred             cccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCC
Q 040109          386 QYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRL  465 (598)
Q Consensus       386 ~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l  465 (598)
                      .+..+..+++|+.|+|++|++.+.+|..+.++++|++|+|++|.+++.+|..+..+++|+.|||++|++++.+|..+.++
T Consensus       491 ~~~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l  570 (968)
T PLN00113        491 VPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLSGEIPKNLGNV  570 (968)
T ss_pred             cChhhhhhhccCEEECcCCcceeeCChHHcCccCCCEEECCCCcccccCChhHhCcccCCEEECCCCcccccCChhHhcC
Confidence            44456678889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          466 RLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       466 ~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      ++|+.|++++|++.|.+|...++..+...++.|||.+|+.+
T Consensus       571 ~~L~~l~ls~N~l~~~~p~~~~~~~~~~~~~~~n~~lc~~~  611 (968)
T PLN00113        571 ESLVQVNISHNHLHGSLPSTGAFLAINASAVAGNIDLCGGD  611 (968)
T ss_pred             cccCEEeccCCcceeeCCCcchhcccChhhhcCCccccCCc
Confidence            99999999999999999999999999999999999999854

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

Probab=100.00  E-value=9.1e-38  Score=362.99  Aligned_cols=372  Identities=32%  Similarity=0.418  Sum_probs=271.8

Q ss_pred             CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccC-CCCCCCEEEccCCCCCCCCCcccccCCCCCCE
Q 040109          112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLG-NLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRY  190 (598)
Q Consensus       112 ~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~-~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~  190 (598)
                      .+++.|+|++|.+++. ++..+..+++|++|+|++|++++.+|..+. .+++|++|++++|.+.... +  ...+++|++
T Consensus        69 ~~v~~L~L~~~~i~~~-~~~~~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~-p--~~~l~~L~~  144 (968)
T PLN00113         69 SRVVSIDLSGKNISGK-ISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSI-P--RGSIPNLET  144 (968)
T ss_pred             CcEEEEEecCCCcccc-CChHHhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCcccccc-C--ccccCCCCE
Confidence            3689999999999986 889999999999999999999988887765 8999999999999873222 2  245778888


Q ss_pred             EEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEE
Q 040109          191 LDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHI  270 (598)
Q Consensus       191 L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L  270 (598)
                      |++++|.+.+.  .+..+..+++|++|++++|.+.+..+..+..+   ++|++|++++|.+.+.+|..+..+.+  |+.|
T Consensus       145 L~Ls~n~~~~~--~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l---~~L~~L~L~~n~l~~~~p~~l~~l~~--L~~L  217 (968)
T PLN00113        145 LDLSNNMLSGE--IPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNL---TSLEFLTLASNQLVGQIPRELGQMKS--LKWI  217 (968)
T ss_pred             EECcCCccccc--CChHHhcCCCCCEEECccCcccccCChhhhhC---cCCCeeeccCCCCcCcCChHHcCcCC--ccEE
Confidence            88888887753  45677888888888888888777666433332   77888888888887777777777777  8888


Q ss_pred             EccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEE
Q 040109          271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLY  349 (598)
Q Consensus       271 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~  349 (598)
                      ++++|.+++.+|..++++++|++|++++|.+.+ +|..+.++++|+.|++++|.+.+..|..+..+.       +|+.|+
T Consensus       218 ~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~-------~L~~L~  290 (968)
T PLN00113        218 YLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQ-------KLISLD  290 (968)
T ss_pred             ECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhcc-------CcCEEE
Confidence            888888877777777777888888888877775 777777777788888877777777777777666       677777


Q ss_pred             ccCccccccCCC-CCCCCcCccccccccceE--------------------EEEcCCcccccccccccceEeccCCcCCC
Q 040109          350 LASNEITGTIPN-LGGFPGMLMPLIYFDKIT--------------------VTWKGGQYEYKSILGLIKIIDLSSNKLGG  408 (598)
Q Consensus       350 Ls~N~l~~~~p~-l~~l~~l~~~~~~~~~~~--------------------~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~  408 (598)
                      +++|.+++.+|. +.+++++.......+.+.                    ....+..+..++.+++|+.|++++|++++
T Consensus       291 Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~  370 (968)
T PLN00113        291 LSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTG  370 (968)
T ss_pred             CcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEe
Confidence            777766666554 344444433221111110                    00122334444556667777777777766


Q ss_pred             cCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC-Cc
Q 040109          409 EVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQ  487 (598)
Q Consensus       409 ~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~  487 (598)
                      .+|..+..+++|+.|++++|++.+.+|..+..+++|+.|++++|++++.+|..+.+++.|+.|++++|++++.+|.. ..
T Consensus       371 ~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  450 (968)
T PLN00113        371 EIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWD  450 (968)
T ss_pred             eCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCcccCccChhhcc
Confidence            67777766777777777777777777777777778888888888887777777888888888888888888777654 35


Q ss_pred             cCccCCCccCCCCC
Q 040109          488 LQRFGASTYAGNPE  501 (598)
Q Consensus       488 ~~~l~~~~~~gnp~  501 (598)
                      ++++..+.+.+|..
T Consensus       451 l~~L~~L~L~~n~~  464 (968)
T PLN00113        451 MPSLQMLSLARNKF  464 (968)
T ss_pred             CCCCcEEECcCcee
Confidence            67777888888764

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

Probab=100.00  E-value=1.8e-38  Score=316.15  Aligned_cols=401  Identities=23%  Similarity=0.242  Sum_probs=328.0

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCC
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR  162 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~  162 (598)
                      .+..||++.      |.++..-+..|.++++|+.+++.+|.++  .+|.+.+...+|+.|+|.+|.|+..-.+.+..++.
T Consensus        79 ~t~~Ldlsn------Nkl~~id~~~f~nl~nLq~v~l~~N~Lt--~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~a  150 (873)
T KOG4194|consen   79 QTQTLDLSN------NKLSHIDFEFFYNLPNLQEVNLNKNELT--RIPRFGHESGHLEKLDLRHNLISSVTSEELSALPA  150 (873)
T ss_pred             ceeeeeccc------cccccCcHHHHhcCCcceeeeeccchhh--hcccccccccceeEEeeeccccccccHHHHHhHhh
Confidence            356677777      7777666667889999999999999998  48888777888999999999998777788888999


Q ss_pred             CCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCcc
Q 040109          163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLE  242 (598)
Q Consensus       163 L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~  242 (598)
                      |+.||||.|.+ .....+.|..-.++++|+|++|.|+.+..  +.|..+.+|..|.|+.|+++..+...|..+   ++|+
T Consensus       151 lrslDLSrN~i-s~i~~~sfp~~~ni~~L~La~N~It~l~~--~~F~~lnsL~tlkLsrNrittLp~r~Fk~L---~~L~  224 (873)
T KOG4194|consen  151 LRSLDLSRNLI-SEIPKPSFPAKVNIKKLNLASNRITTLET--GHFDSLNSLLTLKLSRNRITTLPQRSFKRL---PKLE  224 (873)
T ss_pred             hhhhhhhhchh-hcccCCCCCCCCCceEEeecccccccccc--ccccccchheeeecccCcccccCHHHhhhc---chhh
Confidence            99999999987 55566677888899999999999998855  788888899999999999999887545433   8899


Q ss_pred             EEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEccc
Q 040109          243 VIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSY  321 (598)
Q Consensus       243 ~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls~  321 (598)
                      .|+|..|.+.-.---.|.++++  |+.|.+..|.++..-...|..+.++++|+|+.|++..+. .++.+++.|++|++|+
T Consensus       225 ~LdLnrN~irive~ltFqgL~S--l~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~  302 (873)
T KOG4194|consen  225 SLDLNRNRIRIVEGLTFQGLPS--LQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSY  302 (873)
T ss_pred             hhhccccceeeehhhhhcCchh--hhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccch
Confidence            9999999887444556777888  999999999998777788899999999999999998844 5788899999999999


Q ss_pred             CcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEec
Q 040109          322 NELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDL  401 (598)
Q Consensus       322 n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~L  401 (598)
                      |.+..+.++.+.-.+       +|++|+|++|+++..-+                           ..+..+..|++|+|
T Consensus       303 NaI~rih~d~Wsftq-------kL~~LdLs~N~i~~l~~---------------------------~sf~~L~~Le~LnL  348 (873)
T KOG4194|consen  303 NAIQRIHIDSWSFTQ-------KLKELDLSSNRITRLDE---------------------------GSFRVLSQLEELNL  348 (873)
T ss_pred             hhhheeecchhhhcc-------cceeEeccccccccCCh---------------------------hHHHHHHHhhhhcc
Confidence            999988888887777       89999999999984322                           23455778999999


Q ss_pred             cCCcCCCcCchhhhcccCCcEEECcCCcCcccCCc---ccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          402 SSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITP---RIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       402 s~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~---~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      ++|.++..-...|..+++|+.|||++|.++..|.+   .|.+|++|+.|++.+|++..+...+|..+..|+.|||.+|.+
T Consensus       349 s~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~LE~LdL~~Nai  428 (873)
T KOG4194|consen  349 SHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEALEHLDLGDNAI  428 (873)
T ss_pred             cccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCceeeecchhhhccCcccceecCCCCcc
Confidence            99999977778899999999999999999876654   578899999999999999865556999999999999999999


Q ss_pred             eecCCCCCccCccCCCccCCCCCCCCCCCC----------------CCCCCCCCCCCCCCCCCCCCCCCCC
Q 040109          479 SGKIPKGTQLQRFGASTYAGNPELCGLPLP----------------NKCLDEESAPSPSRDDAYNTPDDDG  533 (598)
Q Consensus       479 ~~~~p~~~~~~~l~~~~~~gnp~lC~~~~~----------------~~c~~~~~~~~~~~~~~~~~~~~~~  533 (598)
                      ...-|....-..++.+.+..-.++|+|++.                -.|.+|+...+.+..........|.
T Consensus       429 aSIq~nAFe~m~Lk~Lv~nSssflCDCql~Wl~qWl~~~~lq~sv~a~CayPe~Lad~~i~svd~~~lvC~  499 (873)
T KOG4194|consen  429 ASIQPNAFEPMELKELVMNSSSFLCDCQLKWLAQWLYRRKLQSSVIAKCAYPEPLADQSIVSVDTANLVCD  499 (873)
T ss_pred             eeecccccccchhhhhhhcccceEEeccHHHHHHHHHhcccccceeeeccCCcccccceeEeechhhceec
Confidence            865565533337778888888899999876                2598888876554443333333333

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

Probab=100.00  E-value=7.7e-36  Score=297.46  Aligned_cols=352  Identities=28%  Similarity=0.290  Sum_probs=305.8

Q ss_pred             CceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCc
Q 040109          100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL  179 (598)
Q Consensus       100 l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~  179 (598)
                      +.|-+|.      .-+.||+++|.++.. -+.+|.++++|+++++.+|.++ .+|...+...+|+.|+|.+|.| .....
T Consensus        72 l~g~lp~------~t~~LdlsnNkl~~i-d~~~f~nl~nLq~v~l~~N~Lt-~IP~f~~~sghl~~L~L~~N~I-~sv~s  142 (873)
T KOG4194|consen   72 LKGFLPS------QTQTLDLSNNKLSHI-DFEFFYNLPNLQEVNLNKNELT-RIPRFGHESGHLEKLDLRHNLI-SSVTS  142 (873)
T ss_pred             cCCcCcc------ceeeeeccccccccC-cHHHHhcCCcceeeeeccchhh-hcccccccccceeEEeeecccc-ccccH
Confidence            4555553      457899999999986 7888999999999999999999 7888777777899999999998 55566


Q ss_pred             ccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhh
Q 040109          180 DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWL  259 (598)
Q Consensus       180 ~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l  259 (598)
                      +.+..++.|+.|||+.|.|+.++.  ..|..-.++++|+|++|+|+......|..+   .+|..|.|+.|.++...+..|
T Consensus       143 e~L~~l~alrslDLSrN~is~i~~--~sfp~~~ni~~L~La~N~It~l~~~~F~~l---nsL~tlkLsrNrittLp~r~F  217 (873)
T KOG4194|consen  143 EELSALPALRSLDLSRNLISEIPK--PSFPAKVNIKKLNLASNRITTLETGHFDSL---NSLLTLKLSRNRITTLPQRSF  217 (873)
T ss_pred             HHHHhHhhhhhhhhhhchhhcccC--CCCCCCCCceEEeecccccccccccccccc---chheeeecccCcccccCHHHh
Confidence            679999999999999999999865  677777899999999999999888777766   689999999999997666778


Q ss_pred             hhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEcccCcCccchhhhhhhcCCC
Q 040109          260 LNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSG  338 (598)
Q Consensus       260 ~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g  338 (598)
                      .+++.  |+.|+|..|++.-.---.|.++++|+.|.+..|.+..+. ..|..+.++++|+|+.|+++..-..++.++.  
T Consensus       218 k~L~~--L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt--  293 (873)
T KOG4194|consen  218 KRLPK--LESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLT--  293 (873)
T ss_pred             hhcch--hhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccc--
Confidence            88999  999999999998554667899999999999999999854 4788899999999999999988888888887  


Q ss_pred             CCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhccc
Q 040109          339 STKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLV  418 (598)
Q Consensus       339 ~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  418 (598)
                           +|+.|++|+|.+...-+                           ..+...++|++|||++|+|+...+.+|..+.
T Consensus       294 -----~L~~L~lS~NaI~rih~---------------------------d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~  341 (873)
T KOG4194|consen  294 -----SLEQLDLSYNAIQRIHI---------------------------DSWSFTQKLKELDLSSNRITRLDEGSFRVLS  341 (873)
T ss_pred             -----hhhhhccchhhhheeec---------------------------chhhhcccceeEeccccccccCChhHHHHHH
Confidence                 99999999999874322                           2234467899999999999988889999999


Q ss_pred             CCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcc---cccCCCCCCEEeCCCCcceecCCCC--CccCccCC
Q 040109          419 GLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS---SLSRLRLLSVMDLSYNNFSGKIPKG--TQLQRFGA  493 (598)
Q Consensus       419 ~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~---~l~~l~~L~~L~ls~N~l~~~~p~~--~~~~~l~~  493 (598)
                      .|++|+|++|+++..-...|..+++|+.|||++|.++..+.+   .|..+++|+.|++.+|++. .||..  ..+..++.
T Consensus       342 ~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk-~I~krAfsgl~~LE~  420 (873)
T KOG4194|consen  342 QLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLK-SIPKRAFSGLEALEH  420 (873)
T ss_pred             HhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCceee-ecchhhhccCcccce
Confidence            999999999999977777899999999999999999877655   5888999999999999997 77765  46888899


Q ss_pred             CccCCCCCC
Q 040109          494 STYAGNPEL  502 (598)
Q Consensus       494 ~~~~gnp~l  502 (598)
                      +++.+|+..
T Consensus       421 LdL~~Naia  429 (873)
T KOG4194|consen  421 LDLGDNAIA  429 (873)
T ss_pred             ecCCCCcce
Confidence            999999754

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

Probab=100.00  E-value=7.4e-36  Score=299.29  Aligned_cols=368  Identities=26%  Similarity=0.353  Sum_probs=323.0

Q ss_pred             CcEEEEEcCCCCCCCCCCCc-eecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCC
Q 040109           82 GHVLGLDLRALSDSPVDALK-GTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNL  160 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~-g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l  160 (598)
                      .-|+.+|+++      +.++ +..|.....++.++.|.|....+.  .+|+.++.+.+|++|.+++|++. .+-..+..+
T Consensus         7 pFVrGvDfsg------NDFsg~~FP~~v~qMt~~~WLkLnrt~L~--~vPeEL~~lqkLEHLs~~HN~L~-~vhGELs~L   77 (1255)
T KOG0444|consen    7 PFVRGVDFSG------NDFSGDRFPHDVEQMTQMTWLKLNRTKLE--QVPEELSRLQKLEHLSMAHNQLI-SVHGELSDL   77 (1255)
T ss_pred             ceeecccccC------CcCCCCcCchhHHHhhheeEEEechhhhh--hChHHHHHHhhhhhhhhhhhhhH-hhhhhhccc
Confidence            3578889998      7888 578889999999999999999998  59999999999999999999998 666778999


Q ss_pred             CCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCC
Q 040109          161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKS  240 (598)
Q Consensus       161 ~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~  240 (598)
                      +.|+.+++.+|++...+.++.+-.+..|..|||++|++...   |..+...+++-.|++++|+|..++...+..+   +.
T Consensus        78 p~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShNqL~Ev---P~~LE~AKn~iVLNLS~N~IetIPn~lfinL---tD  151 (1255)
T KOG0444|consen   78 PRLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHNQLREV---PTNLEYAKNSIVLNLSYNNIETIPNSLFINL---TD  151 (1255)
T ss_pred             hhhHHHhhhccccccCCCCchhcccccceeeecchhhhhhc---chhhhhhcCcEEEEcccCccccCCchHHHhh---Hh
Confidence            99999999999998889999999999999999999999985   4678888999999999999999988655554   88


Q ss_pred             ccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC--cchhhcCCCCCcEEE
Q 040109          241 LEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE--VPKFLGNMSSLKMLV  318 (598)
Q Consensus       241 L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~--lp~~l~~l~~L~~L~  318 (598)
                      |-.||||+|.+. .+|+.+..+..  |+.|+|++|.+...--..+..+++|++|++++.+-+-  +|.++..+.+|..+|
T Consensus       152 LLfLDLS~NrLe-~LPPQ~RRL~~--LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvD  228 (1255)
T KOG0444|consen  152 LLFLDLSNNRLE-MLPPQIRRLSM--LQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVD  228 (1255)
T ss_pred             Hhhhccccchhh-hcCHHHHHHhh--hhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhcc
Confidence            999999999998 78888999988  9999999998874433445567889999999987654  999999999999999


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +|.|.+. ..|+.+..+.       +|+.|+||+|+++..--                            ..+...+|++
T Consensus       229 lS~N~Lp-~vPecly~l~-------~LrrLNLS~N~iteL~~----------------------------~~~~W~~lEt  272 (1255)
T KOG0444|consen  229 LSENNLP-IVPECLYKLR-------NLRRLNLSGNKITELNM----------------------------TEGEWENLET  272 (1255)
T ss_pred             ccccCCC-cchHHHhhhh-------hhheeccCcCceeeeec----------------------------cHHHHhhhhh
Confidence            9999987 6788888888       99999999999983211                            1123457999


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCc-ccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCc
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT-GQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNN  477 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~-~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~  477 (598)
                      |+||.|+++ ..|..+.+++.|+.|.+.+|+++ +-||+.++.+.+|+++..++|.+. ..|+.++.|..|+.|.|+.|+
T Consensus       273 LNlSrNQLt-~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~LE-lVPEglcRC~kL~kL~L~~Nr  350 (1255)
T KOG0444|consen  273 LNLSRNQLT-VLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLE-LVPEGLCRCVKLQKLKLDHNR  350 (1255)
T ss_pred             hccccchhc-cchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccccc-cCchhhhhhHHHHHhcccccc
Confidence            999999999 89999999999999999999987 348999999999999999999986 899999999999999999999


Q ss_pred             ceecCCCC-CccCccCCCccCCCCCCCCCC
Q 040109          478 FSGKIPKG-TQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       478 l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      +. .+|+. -.++.++.+++..||.+--+|
T Consensus       351 Li-TLPeaIHlL~~l~vLDlreNpnLVMPP  379 (1255)
T KOG0444|consen  351 LI-TLPEAIHLLPDLKVLDLRENPNLVMPP  379 (1255)
T ss_pred             ee-echhhhhhcCCcceeeccCCcCccCCC
Confidence            98 67876 467888999999999886544

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

Probab=99.97  E-value=1.3e-34  Score=276.95  Aligned_cols=387  Identities=27%  Similarity=0.339  Sum_probs=248.2

Q ss_pred             EEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCC
Q 040109           84 VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRL  163 (598)
Q Consensus        84 v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L  163 (598)
                      .+.+++.+      +.++ .+|++++++..++.++.++|+++  .+|..++.+.+|+.|+.++|.+. .+|+.++.+..|
T Consensus        70 l~vl~~~~------n~l~-~lp~aig~l~~l~~l~vs~n~ls--~lp~~i~s~~~l~~l~~s~n~~~-el~~~i~~~~~l  139 (565)
T KOG0472|consen   70 LTVLNVHD------NKLS-QLPAAIGELEALKSLNVSHNKLS--ELPEQIGSLISLVKLDCSSNELK-ELPDSIGRLLDL  139 (565)
T ss_pred             eeEEEecc------chhh-hCCHHHHHHHHHHHhhcccchHh--hccHHHhhhhhhhhhhcccccee-ecCchHHHHhhh
Confidence            45666665      5555 67888888989999999999888  48888888889999999998888 777788888888


Q ss_pred             CEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccE
Q 040109          164 QVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEV  243 (598)
Q Consensus       164 ~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~  243 (598)
                      +.|+..+|++  ...++.+.++.+|..+++.+|++...+.  ..+ .++.|++++...|-+...++. ...   +.+|+.
T Consensus       140 ~dl~~~~N~i--~slp~~~~~~~~l~~l~~~~n~l~~l~~--~~i-~m~~L~~ld~~~N~L~tlP~~-lg~---l~~L~~  210 (565)
T KOG0472|consen  140 EDLDATNNQI--SSLPEDMVNLSKLSKLDLEGNKLKALPE--NHI-AMKRLKHLDCNSNLLETLPPE-LGG---LESLEL  210 (565)
T ss_pred             hhhhcccccc--ccCchHHHHHHHHHHhhccccchhhCCH--HHH-HHHHHHhcccchhhhhcCChh-hcc---hhhhHH
Confidence            8888888887  3344556666777777777777766532  222 266666666666666555442 111   155555


Q ss_pred             EEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhh-cCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccC
Q 040109          244 IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF-GHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYN  322 (598)
Q Consensus       244 L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l-~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n  322 (598)
                      |++..|++. .+| .|.++..  |++|+++.|+++ .+|... .++.++..||+.+|+++++|+.+.-+.+|.+||+|+|
T Consensus       211 LyL~~Nki~-~lP-ef~gcs~--L~Elh~g~N~i~-~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN  285 (565)
T KOG0472|consen  211 LYLRRNKIR-FLP-EFPGCSL--LKELHVGENQIE-MLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNN  285 (565)
T ss_pred             HHhhhcccc-cCC-CCCccHH--HHHHHhcccHHH-hhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCC
Confidence            666666554 233 4444444  555555555554 222222 2445555555555555555554444445555555555


Q ss_pred             cCccchhhhhhhcC-----------------------C-------------C------------C-----C----CCCCC
Q 040109          323 ELRGELSEFIQNVS-----------------------S-------------G------------S-----T----KNSSL  345 (598)
Q Consensus       323 ~l~~~~~~~l~~l~-----------------------~-------------g------------~-----~----~~~~L  345 (598)
                      .+++.++ .++++.                       .             |            .     .    ...+.
T Consensus       286 ~is~Lp~-sLgnlhL~~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~t  364 (565)
T KOG0472|consen  286 DISSLPY-SLGNLHLKFLALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITT  364 (565)
T ss_pred             ccccCCc-ccccceeeehhhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhh
Confidence            5443322 233321                       0             0            0     0    00122


Q ss_pred             CEEEccCccccccCCC---------------------------CCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          346 EWLYLASNEITGTIPN---------------------------LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       346 ~~L~Ls~N~l~~~~p~---------------------------l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +.|++++-+++ .+|+                           +..+..+.......++    ..+..+..++.+++|+.
T Consensus       365 kiL~~s~~qlt-~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn----~isfv~~~l~~l~kLt~  439 (565)
T KOG0472|consen  365 KILDVSDKQLT-LVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNN----KISFVPLELSQLQKLTF  439 (565)
T ss_pred             hhhcccccccc-cCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcC----ccccchHHHHhhhccee
Confidence            23333333222 1111                           0000000000011111    13344566778899999


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      |+|++|-+. .+|..++.+..|+.||+|+|+|. .+|..+..+..|+.+-.++|++...-|+.+.++.+|.+||+.+|.+
T Consensus       440 L~L~NN~Ln-~LP~e~~~lv~Lq~LnlS~NrFr-~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~nNdl  517 (565)
T KOG0472|consen  440 LDLSNNLLN-DLPEEMGSLVRLQTLNLSFNRFR-MLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQNNDL  517 (565)
T ss_pred             eecccchhh-hcchhhhhhhhhheecccccccc-cchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCCCch
Confidence            999999988 89999999999999999999998 8899888888899888899999866667799999999999999999


Q ss_pred             eecCCCCCccCccCCCccCCCCCC
Q 040109          479 SGKIPKGTQLQRFGASTYAGNPEL  502 (598)
Q Consensus       479 ~~~~p~~~~~~~l~~~~~~gnp~l  502 (598)
                      ....|..+.++++..+.+.|||+.
T Consensus       518 q~IPp~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  518 QQIPPILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             hhCChhhccccceeEEEecCCccC
Confidence            855555688999999999999976

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

Probab=99.96  E-value=4.3e-32  Score=272.38  Aligned_cols=328  Identities=25%  Similarity=0.308  Sum_probs=262.2

Q ss_pred             eecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCC-CCCccccCCCCCCCEEEccCCCCCCCCCcc
Q 040109          102 GTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLA-GPIPHQLGNLSRLQVLDLRFNNLFSSGNLD  180 (598)
Q Consensus       102 g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~-~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~  180 (598)
                      ..+|..++.+.+|++|.+++|++..  +...+..++.|+.+++..|++. .-+|..+..+..|..||||+|++  ...+.
T Consensus        45 ~~vPeEL~~lqkLEHLs~~HN~L~~--vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShNqL--~EvP~  120 (1255)
T KOG0444|consen   45 EQVPEELSRLQKLEHLSMAHNQLIS--VHGELSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHNQL--REVPT  120 (1255)
T ss_pred             hhChHHHHHHhhhhhhhhhhhhhHh--hhhhhccchhhHHHhhhccccccCCCCchhcccccceeeecchhhh--hhcch
Confidence            3689999999999999999999984  7788999999999999999986 35788888999999999999997  44566


Q ss_pred             cccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhh
Q 040109          181 WLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLL  260 (598)
Q Consensus       181 ~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~  260 (598)
                      .+..-+++-+|+|++|+|.++|.  ..+.+++.|-.|++++|++...+|..-    .+..|++|+|++|.+...-...+.
T Consensus       121 ~LE~AKn~iVLNLS~N~IetIPn--~lfinLtDLLfLDLS~NrLe~LPPQ~R----RL~~LqtL~Ls~NPL~hfQLrQLP  194 (1255)
T KOG0444|consen  121 NLEYAKNSIVLNLSYNNIETIPN--SLFINLTDLLFLDLSNNRLEMLPPQIR----RLSMLQTLKLSNNPLNHFQLRQLP  194 (1255)
T ss_pred             hhhhhcCcEEEEcccCccccCCc--hHHHhhHhHhhhccccchhhhcCHHHH----HHhhhhhhhcCCChhhHHHHhcCc
Confidence            68888999999999999999987  788899999999999999999887422    227899999999988765555566


Q ss_pred             hcCccCccEEEccCCccc-cccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCC
Q 040109          261 NVSSNLVDHIDLGSNRLH-GSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS  339 (598)
Q Consensus       261 ~~~~~~L~~L~L~~n~l~-~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~  339 (598)
                      .+++  |+.|++++.+-+ ..+|.++..+.+|..+|+|.|.+..+|..+..+++|+.|+||+|+++..... .....   
T Consensus       195 smts--L~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~-~~~W~---  268 (1255)
T KOG0444|consen  195 SMTS--LSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMT-EGEWE---  268 (1255)
T ss_pred             cchh--hhhhhcccccchhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeecc-HHHHh---
Confidence            6777  999999987644 5689999999999999999999999999999999999999999998754321 22222   


Q ss_pred             CCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCC-CcCchhhhccc
Q 040109          340 TKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLG-GEVPEEIMDLV  418 (598)
Q Consensus       340 ~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~p~~l~~l~  418 (598)
                          +|++|++|.|+++.. |                           .....++.|+.|.+.+|+++ .-+|..|+++.
T Consensus       269 ----~lEtLNlSrNQLt~L-P---------------------------~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~  316 (1255)
T KOG0444|consen  269 ----NLETLNLSRNQLTVL-P---------------------------DAVCKLTKLTKLYANNNKLTFEGIPSGIGKLI  316 (1255)
T ss_pred             ----hhhhhccccchhccc-h---------------------------HHHhhhHHHHHHHhccCcccccCCccchhhhh
Confidence                799999999999842 2                           23344556677777777664 23666777777


Q ss_pred             CCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcce
Q 040109          419 GLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       419 ~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~  479 (598)
                      +|+.+..++|.+. .+|+.++.+..|+.|.|++|++- .+|+++.-++.|+.||+..|+-.
T Consensus       317 ~Levf~aanN~LE-lVPEglcRC~kL~kL~L~~NrLi-TLPeaIHlL~~l~vLDlreNpnL  375 (1255)
T KOG0444|consen  317 QLEVFHAANNKLE-LVPEGLCRCVKLQKLKLDHNRLI-TLPEAIHLLPDLKVLDLRENPNL  375 (1255)
T ss_pred             hhHHHHhhccccc-cCchhhhhhHHHHHhccccccee-echhhhhhcCCcceeeccCCcCc
Confidence            7777777777776 67777777777777777777765 66777777777777777777543

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

Probab=99.95  E-value=6.2e-30  Score=268.43  Aligned_cols=363  Identities=29%  Similarity=0.421  Sum_probs=238.5

Q ss_pred             EEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCC
Q 040109           84 VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRL  163 (598)
Q Consensus        84 v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L  163 (598)
                      ..+||+++       ...+..|..+..+.+|+.|+++.|.+..  .|.+..++.+|++|.|.+|.+. ..|..+..+.+|
T Consensus        47 L~~l~lsn-------n~~~~fp~~it~l~~L~~ln~s~n~i~~--vp~s~~~~~~l~~lnL~~n~l~-~lP~~~~~lknl  116 (1081)
T KOG0618|consen   47 LKSLDLSN-------NQISSFPIQITLLSHLRQLNLSRNYIRS--VPSSCSNMRNLQYLNLKNNRLQ-SLPASISELKNL  116 (1081)
T ss_pred             eEEeeccc-------cccccCCchhhhHHHHhhcccchhhHhh--Cchhhhhhhcchhheeccchhh-cCchhHHhhhcc
Confidence            67888886       4556788888888888888888888873  7788888888888888888877 778888888888


Q ss_pred             CEEEccCCCCCCCCCcccccCCC----------------------------------------CCCE-EEcCCCcCCCCC
Q 040109          164 QVLDLRFNNLFSSGNLDWLSYLS----------------------------------------SLRY-LDLGDCKLSKFS  202 (598)
Q Consensus       164 ~~L~Ls~n~l~~~~~~~~l~~l~----------------------------------------~L~~-L~L~~n~l~~~~  202 (598)
                      ++|+++.|.+..  .+..+..++                                        .|++ |+|.+|.+..  
T Consensus       117 ~~LdlS~N~f~~--~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i~~l~~~ldLr~N~~~~--  192 (1081)
T KOG0618|consen  117 QYLDLSFNHFGP--IPLVIEVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLIDIYNLTHQLDLRYNEMEV--  192 (1081)
T ss_pred             cccccchhccCC--CchhHHhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcchhhhheeeecccchhhh--
Confidence            888888887621  111111111                                        2222 4444444431  


Q ss_pred             chhHhhcCCC--------------------CCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhc
Q 040109          203 NWFQVLSNLR--------------------SLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV  262 (598)
Q Consensus       203 ~~~~~l~~l~--------------------~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  262 (598)
                         ..+..++                    +|+.|+.++|.++....     ...+.+|+.++++.|+++ .+|+|+..+
T Consensus       193 ---~dls~~~~l~~l~c~rn~ls~l~~~g~~l~~L~a~~n~l~~~~~-----~p~p~nl~~~dis~n~l~-~lp~wi~~~  263 (1081)
T KOG0618|consen  193 ---LDLSNLANLEVLHCERNQLSELEISGPSLTALYADHNPLTTLDV-----HPVPLNLQYLDISHNNLS-NLPEWIGAC  263 (1081)
T ss_pred             ---hhhhhccchhhhhhhhcccceEEecCcchheeeeccCcceeecc-----ccccccceeeecchhhhh-cchHHHHhc
Confidence               1122222                    23333333333331111     001145556666666655 344666666


Q ss_pred             CccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCC-----
Q 040109          263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS-----  337 (598)
Q Consensus       263 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~-----  337 (598)
                      .+  |+.++..+|.++ .+|..+...++|+.|.+..|.+..+|....+++.|++|+|..|++...++..+.....     
T Consensus       264 ~n--le~l~~n~N~l~-~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~l  340 (1081)
T KOG0618|consen  264 AN--LEALNANHNRLV-ALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTL  340 (1081)
T ss_pred             cc--ceEecccchhHH-hhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHH
Confidence            66  666666666663 4555555556666666666666666665555666666666666665444433322221     


Q ss_pred             -------------CCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCC
Q 040109          338 -------------GSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSN  404 (598)
Q Consensus       338 -------------g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n  404 (598)
                                   +....+.|+.|++.+|.++                           ...+..+-.+.+|+.|+|++|
T Consensus       341 n~s~n~l~~lp~~~e~~~~~Lq~LylanN~Lt---------------------------d~c~p~l~~~~hLKVLhLsyN  393 (1081)
T KOG0618|consen  341 NVSSNKLSTLPSYEENNHAALQELYLANNHLT---------------------------DSCFPVLVNFKHLKVLHLSYN  393 (1081)
T ss_pred             hhhhccccccccccchhhHHHHHHHHhcCccc---------------------------ccchhhhccccceeeeeeccc
Confidence                         0111223333444444443                           233445567889999999999


Q ss_pred             cCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcce-ecCC
Q 040109          405 KLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS-GKIP  483 (598)
Q Consensus       405 ~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~-~~~p  483 (598)
                      ++.......+.+++.|++|+||+|+++ .+|..+..+..|++|...+|++. ..| .+.++++|+.+|+|.|+++ ..+|
T Consensus       394 rL~~fpas~~~kle~LeeL~LSGNkL~-~Lp~tva~~~~L~tL~ahsN~l~-~fP-e~~~l~qL~~lDlS~N~L~~~~l~  470 (1081)
T KOG0618|consen  394 RLNSFPASKLRKLEELEELNLSGNKLT-TLPDTVANLGRLHTLRAHSNQLL-SFP-ELAQLPQLKVLDLSCNNLSEVTLP  470 (1081)
T ss_pred             ccccCCHHHHhchHHhHHHhcccchhh-hhhHHHHhhhhhHHHhhcCCcee-ech-hhhhcCcceEEecccchhhhhhhh
Confidence            998555566789999999999999999 88999999999999999999997 677 7899999999999999997 3456


Q ss_pred             CCCccCccCCCccCCCCCC
Q 040109          484 KGTQLQRFGASTYAGNPEL  502 (598)
Q Consensus       484 ~~~~~~~l~~~~~~gnp~l  502 (598)
                      .....++++.+++.||+++
T Consensus       471 ~~~p~p~LkyLdlSGN~~l  489 (1081)
T KOG0618|consen  471 EALPSPNLKYLDLSGNTRL  489 (1081)
T ss_pred             hhCCCcccceeeccCCccc
Confidence            5555589999999999974

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

Probab=99.94  E-value=2.7e-30  Score=247.50  Aligned_cols=245  Identities=28%  Similarity=0.369  Sum_probs=215.9

Q ss_pred             CCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCC
Q 040109           98 DALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSG  177 (598)
Q Consensus        98 ~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~  177 (598)
                      +.+. .+.+.+.++..+.+|++++|.+.  .+|.+++.+..++.++.++|++. .+|+.++.+.+|..|++++|.+  ..
T Consensus        55 N~l~-~l~~dl~nL~~l~vl~~~~n~l~--~lp~aig~l~~l~~l~vs~n~ls-~lp~~i~s~~~l~~l~~s~n~~--~e  128 (565)
T KOG0472|consen   55 NDLE-VLREDLKNLACLTVLNVHDNKLS--QLPAAIGELEALKSLNVSHNKLS-ELPEQIGSLISLVKLDCSSNEL--KE  128 (565)
T ss_pred             Cchh-hccHhhhcccceeEEEeccchhh--hCCHHHHHHHHHHHhhcccchHh-hccHHHhhhhhhhhhhccccce--ee
Confidence            4444 45667889999999999999998  58999999999999999999999 8999999999999999999986  44


Q ss_pred             CcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcch
Q 040109          178 NLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYP  257 (598)
Q Consensus       178 ~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~  257 (598)
                      .++.++.+..|+.++..+|++++.   |..+..+.+|..+++.+|.+...++....   . +.|++||...|.++ .+|+
T Consensus       129 l~~~i~~~~~l~dl~~~~N~i~sl---p~~~~~~~~l~~l~~~~n~l~~l~~~~i~---m-~~L~~ld~~~N~L~-tlP~  200 (565)
T KOG0472|consen  129 LPDSIGRLLDLEDLDATNNQISSL---PEDMVNLSKLSKLDLEGNKLKALPENHIA---M-KRLKHLDCNSNLLE-TLPP  200 (565)
T ss_pred             cCchHHHHhhhhhhhccccccccC---chHHHHHHHHHHhhccccchhhCCHHHHH---H-HHHHhcccchhhhh-cCCh
Confidence            566788999999999999999985   46788899999999999999998875433   2 88999999999887 8899


Q ss_pred             hhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhc-CCCCCcEEEcccCcCccchhhhhhhcC
Q 040109          258 WLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLG-NMSSLKMLVLSYNELRGELSEFIQNVS  336 (598)
Q Consensus       258 ~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~-~l~~L~~L~Ls~n~l~~~~~~~l~~l~  336 (598)
                      .++.+.+  |+.|++..|++. .+| .|.++..|++|+++.|+++-+|.... +++++..||+..|++.+ .|+.+.-+.
T Consensus       201 ~lg~l~~--L~~LyL~~Nki~-~lP-ef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke-~Pde~clLr  275 (565)
T KOG0472|consen  201 ELGGLES--LELLYLRRNKIR-FLP-EFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKE-VPDEICLLR  275 (565)
T ss_pred             hhcchhh--hHHHHhhhcccc-cCC-CCCccHHHHHHHhcccHHHhhHHHHhcccccceeeecccccccc-CchHHHHhh
Confidence            9999999  999999999998 566 79999999999999999999997655 89999999999999985 566777776


Q ss_pred             CCCCCCCCCCEEEccCccccccCCCCCCCCcCc
Q 040109          337 SGSTKNSSLEWLYLASNEITGTIPNLGGFPGML  369 (598)
Q Consensus       337 ~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~  369 (598)
                             +|++||+|+|.+++..+.++++ .+.
T Consensus       276 -------sL~rLDlSNN~is~Lp~sLgnl-hL~  300 (565)
T KOG0472|consen  276 -------SLERLDLSNNDISSLPYSLGNL-HLK  300 (565)
T ss_pred             -------hhhhhcccCCccccCCcccccc-eee
Confidence                   8999999999999998888887 443

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

Probab=99.91  E-value=9.3e-27  Score=244.72  Aligned_cols=368  Identities=24%  Similarity=0.244  Sum_probs=251.3

Q ss_pred             CCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCC
Q 040109          110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLR  189 (598)
Q Consensus       110 ~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~  189 (598)
                      +.-+|+.||+++|.+..  .|..+..+.+|+.|+++.|.|. ..|.+..++.+|++|+|.+|.+  ...+..+..+++|+
T Consensus        43 ~~v~L~~l~lsnn~~~~--fp~~it~l~~L~~ln~s~n~i~-~vp~s~~~~~~l~~lnL~~n~l--~~lP~~~~~lknl~  117 (1081)
T KOG0618|consen   43 KRVKLKSLDLSNNQISS--FPIQITLLSHLRQLNLSRNYIR-SVPSSCSNMRNLQYLNLKNNRL--QSLPASISELKNLQ  117 (1081)
T ss_pred             heeeeEEeecccccccc--CCchhhhHHHHhhcccchhhHh-hCchhhhhhhcchhheeccchh--hcCchhHHhhhccc
Confidence            34459999999999984  7888999999999999999998 7888999999999999999986  45566789999999


Q ss_pred             EEEcCCCcCCCCCchhHhhcCCCCCcEEeccCc-------------------CCCCCCCChhhhccccCCcc-EEEccCC
Q 040109          190 YLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC-------------------DLPPISTPSLLHLNYSKSLE-VIDLSNN  249 (598)
Q Consensus       190 ~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n-------------------~l~~~~~~~~~~~~~~~~L~-~L~Ls~n  249 (598)
                      +|+++.|.+..+|.   .+..+..++.+..++|                   .+.+......      ..++ .|+|++|
T Consensus       118 ~LdlS~N~f~~~Pl---~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i------~~l~~~ldLr~N  188 (1081)
T KOG0618|consen  118 YLDLSFNHFGPIPL---VIEVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLIDI------YNLTHQLDLRYN  188 (1081)
T ss_pred             ccccchhccCCCch---hHHhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcch------hhhheeeecccc
Confidence            99999999998653   4444444444555544                   3333322111      2333 4888888


Q ss_pred             CCCCCcchhhhhcC---------------ccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCC
Q 040109          250 YLTNSIYPWLLNVS---------------SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSL  314 (598)
Q Consensus       250 ~l~~~~~~~l~~~~---------------~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L  314 (598)
                      .+.......+.++.               ...++.|+.++|.++...+  -....+|++++++.|+++.+|.++..+.+|
T Consensus       189 ~~~~~dls~~~~l~~l~c~rn~ls~l~~~g~~l~~L~a~~n~l~~~~~--~p~p~nl~~~dis~n~l~~lp~wi~~~~nl  266 (1081)
T KOG0618|consen  189 EMEVLDLSNLANLEVLHCERNQLSELEISGPSLTALYADHNPLTTLDV--HPVPLNLQYLDISHNNLSNLPEWIGACANL  266 (1081)
T ss_pred             hhhhhhhhhccchhhhhhhhcccceEEecCcchheeeeccCcceeecc--ccccccceeeecchhhhhcchHHHHhcccc
Confidence            77621111111110               0114555555555552222  123367888888888888888888888888


Q ss_pred             cEEEcccCcCccchhhhhhhcCC----------------CCCCCCCCCEEEccCccccccCCCCCCCCc--Ccccccccc
Q 040109          315 KMLVLSYNELRGELSEFIQNVSS----------------GSTKNSSLEWLYLASNEITGTIPNLGGFPG--MLMPLIYFD  376 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~----------------g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~--l~~~~~~~~  376 (598)
                      +.++..+|.++. +|..+....+                -..+.++|++|+|..|++....+.+.....  +........
T Consensus       267 e~l~~n~N~l~~-lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n  345 (1081)
T KOG0618|consen  267 EALNANHNRLVA-LPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSN  345 (1081)
T ss_pred             eEecccchhHHh-hHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhc
Confidence            888888888853 3443333330                000233555666666655422111000000  000000011


Q ss_pred             ceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCC
Q 040109          377 KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG  456 (598)
Q Consensus       377 ~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~  456 (598)
                      .+...    ....-..+..|+.|.+.+|.++...-+.+.++.+|+.|+|++|++.......+.++..|+.|+||+|+++ 
T Consensus       346 ~l~~l----p~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~-  420 (1081)
T KOG0618|consen  346 KLSTL----PSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLT-  420 (1081)
T ss_pred             ccccc----ccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhh-
Confidence            11000    0011124667999999999999998889999999999999999999433446789999999999999997 


Q ss_pred             CCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCC
Q 040109          457 GIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNP  500 (598)
Q Consensus       457 ~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp  500 (598)
                      .+|+.+.+++.|++|...+|++. ..|+..+++.+..++++.|.
T Consensus       421 ~Lp~tva~~~~L~tL~ahsN~l~-~fPe~~~l~qL~~lDlS~N~  463 (1081)
T KOG0618|consen  421 TLPDTVANLGRLHTLRAHSNQLL-SFPELAQLPQLKVLDLSCNN  463 (1081)
T ss_pred             hhhHHHHhhhhhHHHhhcCCcee-echhhhhcCcceEEecccch
Confidence            88899999999999999999998 77888889999888888773

>PLN03210 Resistant to P

Probab=99.90  E-value=2.6e-22  Score=234.31  Aligned_cols=318  Identities=23%  Similarity=0.259  Sum_probs=194.6

Q ss_pred             ecCccccCCC-CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCccc
Q 040109          103 TINPSLLKLQ-HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDW  181 (598)
Q Consensus       103 ~l~~~l~~l~-~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~  181 (598)
                      .+|..+..++ +|+.|++.++.+.  .+|..+ .+.+|++|++++|.+. .++..+..+++|+.|+|+++...  ...+.
T Consensus       579 ~lp~~~~~lp~~Lr~L~~~~~~l~--~lP~~f-~~~~L~~L~L~~s~l~-~L~~~~~~l~~Lk~L~Ls~~~~l--~~ip~  652 (1153)
T PLN03210        579 HLPEGFDYLPPKLRLLRWDKYPLR--CMPSNF-RPENLVKLQMQGSKLE-KLWDGVHSLTGLRNIDLRGSKNL--KEIPD  652 (1153)
T ss_pred             ecCcchhhcCcccEEEEecCCCCC--CCCCcC-CccCCcEEECcCcccc-ccccccccCCCCCEEECCCCCCc--CcCCc
Confidence            3444444443 4666666666555  255555 3566666777666665 45566666667777777665421  22233


Q ss_pred             ccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhh
Q 040109          182 LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLN  261 (598)
Q Consensus       182 l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~  261 (598)
                      +..+++|++|++++|....  .+|..+..+++|+.|++++|......+...   +. ++|+.|++++|.....+|..   
T Consensus       653 ls~l~~Le~L~L~~c~~L~--~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i---~l-~sL~~L~Lsgc~~L~~~p~~---  723 (1153)
T PLN03210        653 LSMATNLETLKLSDCSSLV--ELPSSIQYLNKLEDLDMSRCENLEILPTGI---NL-KSLYRLNLSGCSRLKSFPDI---  723 (1153)
T ss_pred             cccCCcccEEEecCCCCcc--ccchhhhccCCCCEEeCCCCCCcCccCCcC---CC-CCCCEEeCCCCCCccccccc---
Confidence            5666667777776654222  244556666677777776654333222111   22 66667777666544444432   


Q ss_pred             cCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCc--------chhhcCCCCCcEEEcccCcCccchhhhhh
Q 040109          262 VSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV--------PKFLGNMSSLKMLVLSYNELRGELSEFIQ  333 (598)
Q Consensus       262 ~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~l--------p~~l~~l~~L~~L~Ls~n~l~~~~~~~l~  333 (598)
                      ..+  |+.|++++|.+. .+|..+ .+++|++|++.++....+        |......++|+.|++++|...+.+|..++
T Consensus       724 ~~n--L~~L~L~~n~i~-~lP~~~-~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~  799 (1153)
T PLN03210        724 STN--ISWLDLDETAIE-EFPSNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQ  799 (1153)
T ss_pred             cCC--cCeeecCCCccc-cccccc-cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhh
Confidence            223  666667666665 344433 456666666655332111        11122345677777777776666777777


Q ss_pred             hcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchh
Q 040109          334 NVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEE  413 (598)
Q Consensus       334 ~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~  413 (598)
                      +++       +|+.|++++|...+.+|..                            ..+++|+.|++++|.....+|..
T Consensus       800 ~L~-------~L~~L~Ls~C~~L~~LP~~----------------------------~~L~sL~~L~Ls~c~~L~~~p~~  844 (1153)
T PLN03210        800 NLH-------KLEHLEIENCINLETLPTG----------------------------INLESLESLDLSGCSRLRTFPDI  844 (1153)
T ss_pred             CCC-------CCCEEECCCCCCcCeeCCC----------------------------CCccccCEEECCCCCcccccccc
Confidence            666       7777777776544444421                            13667888999988655455543


Q ss_pred             hhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          414 IMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       414 l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                         .++|+.|+|++|.++ .+|.++..+++|++|++++|+-...+|..+..+++|+.+++++|.-
T Consensus       845 ---~~nL~~L~Ls~n~i~-~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~~  905 (1153)
T PLN03210        845 ---STNISDLNLSRTGIE-EVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGA  905 (1153)
T ss_pred             ---ccccCEeECCCCCCc-cChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCcc
Confidence               367889999999888 7888888899999999988654456777788888899999988853

syringae 6; Provisional

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.89  E-value=7.1e-23  Score=222.39  Aligned_cols=175  Identities=19%  Similarity=0.254  Sum_probs=97.5

Q ss_pred             CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEE
Q 040109          112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYL  191 (598)
Q Consensus       112 ~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L  191 (598)
                      ..-..|+++.+.++  .+|..+.  ++|+.|++++|+++ .+|.   .+++|++|++++|++...  +.   ..++|+.|
T Consensus       201 ~~~~~LdLs~~~Lt--sLP~~l~--~~L~~L~L~~N~Lt-~LP~---lp~~Lk~LdLs~N~LtsL--P~---lp~sL~~L  267 (788)
T PRK15387        201 NGNAVLNVGESGLT--TLPDCLP--AHITTLVIPDNNLT-SLPA---LPPELRTLEVSGNQLTSL--PV---LPPGLLEL  267 (788)
T ss_pred             CCCcEEEcCCCCCC--cCCcchh--cCCCEEEccCCcCC-CCCC---CCCCCcEEEecCCccCcc--cC---ccccccee
Confidence            34566777777776  3666654  46777777777777 3553   246777777777776321  11   23567777


Q ss_pred             EcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEE
Q 040109          192 DLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID  271 (598)
Q Consensus       192 ~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~  271 (598)
                      ++++|.++.++..      ..+|+.|++++|+++..+.    .   +++|+.|++++|++++ +|..   ...  |+.|+
T Consensus       268 ~Ls~N~L~~Lp~l------p~~L~~L~Ls~N~Lt~LP~----~---p~~L~~LdLS~N~L~~-Lp~l---p~~--L~~L~  328 (788)
T PRK15387        268 SIFSNPLTHLPAL------PSGLCKLWIFGNQLTSLPV----L---PPGLQELSVSDNQLAS-LPAL---PSE--LCKLW  328 (788)
T ss_pred             eccCCchhhhhhc------hhhcCEEECcCCccccccc----c---ccccceeECCCCcccc-CCCC---ccc--ccccc
Confidence            7777776664332      2456666677776665432    1   1556666666666653 2221   112  55555


Q ss_pred             ccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCc
Q 040109          272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELR  325 (598)
Q Consensus       272 L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~  325 (598)
                      +++|.+++ +|..   ..+|++|++++|+++++|..   .++|+.|++++|.+.
T Consensus       329 Ls~N~L~~-LP~l---p~~Lq~LdLS~N~Ls~LP~l---p~~L~~L~Ls~N~L~  375 (788)
T PRK15387        329 AYNNQLTS-LPTL---PSGLQELSVSDNQLASLPTL---PSELYKLWAYNNRLT  375 (788)
T ss_pred             cccCcccc-cccc---ccccceEecCCCccCCCCCC---Ccccceehhhccccc
Confidence            56665552 3321   13455555555555555532   234555555555554

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.89  E-value=1.2e-22  Score=220.56  Aligned_cols=263  Identities=24%  Similarity=0.257  Sum_probs=209.1

Q ss_pred             CCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcE
Q 040109          137 SKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT  216 (598)
Q Consensus       137 ~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~  216 (598)
                      .+-..|+++.+.++ .+|..+.  ++|+.|++++|++..  .+   ..+++|++|++++|+++.+|..      .++|+.
T Consensus       201 ~~~~~LdLs~~~Lt-sLP~~l~--~~L~~L~L~~N~Lt~--LP---~lp~~Lk~LdLs~N~LtsLP~l------p~sL~~  266 (788)
T PRK15387        201 NGNAVLNVGESGLT-TLPDCLP--AHITTLVIPDNNLTS--LP---ALPPELRTLEVSGNQLTSLPVL------PPGLLE  266 (788)
T ss_pred             CCCcEEEcCCCCCC-cCCcchh--cCCCEEEccCCcCCC--CC---CCCCCCcEEEecCCccCcccCc------ccccce
Confidence            55788999999999 6788775  489999999999833  22   1358999999999999987642      468999


Q ss_pred             EeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEee
Q 040109          217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGL  296 (598)
Q Consensus       217 L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  296 (598)
                      |++++|.++..+.       .+++|+.|++++|+++. +|..   .+.  |+.|++++|++++ +|..   ..+|+.|++
T Consensus       267 L~Ls~N~L~~Lp~-------lp~~L~~L~Ls~N~Lt~-LP~~---p~~--L~~LdLS~N~L~~-Lp~l---p~~L~~L~L  329 (788)
T PRK15387        267 LSIFSNPLTHLPA-------LPSGLCKLWIFGNQLTS-LPVL---PPG--LQELSVSDNQLAS-LPAL---PSELCKLWA  329 (788)
T ss_pred             eeccCCchhhhhh-------chhhcCEEECcCCcccc-cccc---ccc--cceeECCCCcccc-CCCC---ccccccccc
Confidence            9999999886543       12679999999999984 4542   345  9999999999985 4542   346889999


Q ss_pred             ccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcccccccc
Q 040109          297 LSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD  376 (598)
Q Consensus       297 s~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~  376 (598)
                      ++|+++++|..   ..+|+.|++++|++++. |...   .       +|+.|++++|++++ +|.+              
T Consensus       330 s~N~L~~LP~l---p~~Lq~LdLS~N~Ls~L-P~lp---~-------~L~~L~Ls~N~L~~-LP~l--------------  380 (788)
T PRK15387        330 YNNQLTSLPTL---PSGLQELSVSDNQLASL-PTLP---S-------ELYKLWAYNNRLTS-LPAL--------------  380 (788)
T ss_pred             ccCcccccccc---ccccceEecCCCccCCC-CCCC---c-------ccceehhhcccccc-Cccc--------------
Confidence            99999998852   25899999999999864 3221   2       78999999999884 4421              


Q ss_pred             ceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCC
Q 040109          377 KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG  456 (598)
Q Consensus       377 ~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~  456 (598)
                                      +.+|+.|++++|+|+ .+|..   .++|+.|++++|+++ .+|...   .+|+.|++++|+++ 
T Consensus       381 ----------------~~~L~~LdLs~N~Lt-~LP~l---~s~L~~LdLS~N~Ls-sIP~l~---~~L~~L~Ls~NqLt-  435 (788)
T PRK15387        381 ----------------PSGLKELIVSGNRLT-SLPVL---PSELKELMVSGNRLT-SLPMLP---SGLLSLSVYRNQLT-  435 (788)
T ss_pred             ----------------ccccceEEecCCccc-CCCCc---ccCCCEEEccCCcCC-CCCcch---hhhhhhhhccCccc-
Confidence                            346899999999999 46643   368999999999998 577643   46889999999997 


Q ss_pred             CCcccccCCCCCCEEeCCCCcceecCCC
Q 040109          457 GIPSSLSRLRLLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       457 ~~p~~l~~l~~L~~L~ls~N~l~~~~p~  484 (598)
                      .+|..+.+++.|+.|++++|+++|.+|.
T Consensus       436 ~LP~sl~~L~~L~~LdLs~N~Ls~~~~~  463 (788)
T PRK15387        436 RLPESLIHLSSETTVNLEGNPLSERTLQ  463 (788)
T ss_pred             ccChHHhhccCCCeEECCCCCCCchHHH
Confidence            7899999999999999999999987665

>PLN03210 Resistant to P

Probab=99.89  E-value=8.1e-22  Score=230.15  Aligned_cols=345  Identities=21%  Similarity=0.236  Sum_probs=243.1

Q ss_pred             ccccCCCCCCEEECcCCCC------CCCCcchhcCCCC-CCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCC
Q 040109          106 PSLLKLQHLTYLDLSWNNF------SGSPIPEFIGSLS-KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGN  178 (598)
Q Consensus       106 ~~l~~l~~L~~L~Ls~n~l------~~~~~p~~l~~l~-~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~  178 (598)
                      .+|.++++|+.|.+..+..      .. .+|..+..++ +|+.|++.++.+. .+|..| ...+|++|++++|.+.  ..
T Consensus       552 ~aF~~m~~L~~L~~~~~~~~~~~~~~~-~lp~~~~~lp~~Lr~L~~~~~~l~-~lP~~f-~~~~L~~L~L~~s~l~--~L  626 (1153)
T PLN03210        552 NAFKGMRNLLFLKFYTKKWDQKKEVRW-HLPEGFDYLPPKLRLLRWDKYPLR-CMPSNF-RPENLVKLQMQGSKLE--KL  626 (1153)
T ss_pred             HHHhcCccccEEEEeccccccccccee-ecCcchhhcCcccEEEEecCCCCC-CCCCcC-CccCCcEEECcCcccc--cc
Confidence            4588899999998876532      22 2666666664 6999999988887 677777 5789999999998872  33


Q ss_pred             cccccCCCCCCEEEcCCCc-CCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcch
Q 040109          179 LDWLSYLSSLRYLDLGDCK-LSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYP  257 (598)
Q Consensus       179 ~~~l~~l~~L~~L~L~~n~-l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~  257 (598)
                      +..+..+++|+.|+++++. +..+|    .+..+++|+.|++++|......+..+..+   ++|+.|++++|.....+|.
T Consensus       627 ~~~~~~l~~Lk~L~Ls~~~~l~~ip----~ls~l~~Le~L~L~~c~~L~~lp~si~~L---~~L~~L~L~~c~~L~~Lp~  699 (1153)
T PLN03210        627 WDGVHSLTGLRNIDLRGSKNLKEIP----DLSMATNLETLKLSDCSSLVELPSSIQYL---NKLEDLDMSRCENLEILPT  699 (1153)
T ss_pred             ccccccCCCCCEEECCCCCCcCcCC----ccccCCcccEEEecCCCCccccchhhhcc---CCCCEEeCCCCCCcCccCC
Confidence            4456788999999998864 44443    36778999999999887655544333322   8899999998765556676


Q ss_pred             hhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCC
Q 040109          258 WLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS  337 (598)
Q Consensus       258 ~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~  337 (598)
                      .+ ++++  |+.|++++|...+.+|..   .++|++|++++|.++.+|..+ .+++|+.|++.++..... +..+..+..
T Consensus       700 ~i-~l~s--L~~L~Lsgc~~L~~~p~~---~~nL~~L~L~~n~i~~lP~~~-~l~~L~~L~l~~~~~~~l-~~~~~~l~~  771 (1153)
T PLN03210        700 GI-NLKS--LYRLNLSGCSRLKSFPDI---STNISWLDLDETAIEEFPSNL-RLENLDELILCEMKSEKL-WERVQPLTP  771 (1153)
T ss_pred             cC-CCCC--CCEEeCCCCCCccccccc---cCCcCeeecCCCccccccccc-cccccccccccccchhhc-cccccccch
Confidence            55 5666  999999998766666643   467889999999988888755 578888888877542211 111110000


Q ss_pred             -CCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhc
Q 040109          338 -GSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD  416 (598)
Q Consensus       338 -g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~  416 (598)
                       .....++|+.|++++|...+.+|.                           .++.+++|+.|++++|..-+.+|..+ +
T Consensus       772 ~~~~~~~sL~~L~Ls~n~~l~~lP~---------------------------si~~L~~L~~L~Ls~C~~L~~LP~~~-~  823 (1153)
T PLN03210        772 LMTMLSPSLTRLFLSDIPSLVELPS---------------------------SIQNLHKLEHLEIENCINLETLPTGI-N  823 (1153)
T ss_pred             hhhhccccchheeCCCCCCccccCh---------------------------hhhCCCCCCEEECCCCCCcCeeCCCC-C
Confidence             000123899999999877655552                           23557788999999886544777665 7


Q ss_pred             ccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC-CccCccCCCc
Q 040109          417 LVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQLQRFGAST  495 (598)
Q Consensus       417 l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~~~~l~~~~  495 (598)
                      +++|+.|++++|.....+|..   .++|+.|+|++|.++ .+|..+..+++|+.|++++|+-...+|.. ..++++..+.
T Consensus       824 L~sL~~L~Ls~c~~L~~~p~~---~~nL~~L~Ls~n~i~-~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~  899 (1153)
T PLN03210        824 LESLESLDLSGCSRLRTFPDI---STNISDLNLSRTGIE-EVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVD  899 (1153)
T ss_pred             ccccCEEECCCCCcccccccc---ccccCEeECCCCCCc-cChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeee
Confidence            889999999998766566653   367889999999987 67888899999999999985433345543 4566666666


Q ss_pred             cCCCCCC
Q 040109          496 YAGNPEL  502 (598)
Q Consensus       496 ~~gnp~l  502 (598)
                      +.+|+.+
T Consensus       900 l~~C~~L  906 (1153)
T PLN03210        900 FSDCGAL  906 (1153)
T ss_pred             cCCCccc
Confidence            6666544

syringae 6; Provisional

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

Probab=99.87  E-value=1.5e-23  Score=201.20  Aligned_cols=367  Identities=25%  Similarity=0.249  Sum_probs=227.8

Q ss_pred             EEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCC-CCCCCCCccccCCCCC
Q 040109           84 VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSS-AQLAGPIPHQLGNLSR  162 (598)
Q Consensus        84 v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~-n~l~~~~p~~l~~l~~  162 (598)
                      .+.+.|..      |.++..-|.+|..+++||.||||+|.|+.+ -|+.|..+++|.+|-+.+ |+|+...-+.|+++..
T Consensus        69 tveirLdq------N~I~~iP~~aF~~l~~LRrLdLS~N~Is~I-~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~s  141 (498)
T KOG4237|consen   69 TVEIRLDQ------NQISSIPPGAFKTLHRLRRLDLSKNNISFI-APDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSS  141 (498)
T ss_pred             ceEEEecc------CCcccCChhhccchhhhceecccccchhhc-ChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHH
Confidence            44555544      556554455677777777777777777765 677777777776655544 7777555566777777


Q ss_pred             CCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCC------------
Q 040109          163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP------------  230 (598)
Q Consensus       163 L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~------------  230 (598)
                      |+.|.+.-|++ .-...+.|..+++|..|.+.+|.+..++.  ..+..+..++.+.+..|.+...-..            
T Consensus       142 lqrLllNan~i-~Cir~~al~dL~~l~lLslyDn~~q~i~~--~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~i  218 (498)
T KOG4237|consen  142 LQRLLLNANHI-NCIRQDALRDLPSLSLLSLYDNKIQSICK--GTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPI  218 (498)
T ss_pred             HHHHhcChhhh-cchhHHHHHHhhhcchhcccchhhhhhcc--ccccchhccchHhhhcCccccccccchhhhHHhhchh
Confidence            77777777765 33444567777777777777777776544  4677777777777766652211110            


Q ss_pred             hhhhccc-------------------cCCccEE--Ecc-CCCCCCCc-chhhhhcCccCccEEEccCCccccccchhhcC
Q 040109          231 SLLHLNY-------------------SKSLEVI--DLS-NNYLTNSI-YPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGH  287 (598)
Q Consensus       231 ~~~~~~~-------------------~~~L~~L--~Ls-~n~l~~~~-~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~  287 (598)
                      .+....+                   ...++.+  .++ .+...+.. ...|..+++  |++|++++|++++.-+.+|..
T Consensus       219 etsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~--L~~lnlsnN~i~~i~~~aFe~  296 (498)
T KOG4237|consen  219 ETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPN--LRKLNLSNNKITRIEDGAFEG  296 (498)
T ss_pred             hcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhccc--ceEeccCCCccchhhhhhhcc
Confidence            0000000                   0111111  111 11111222 235677788  999999999999888889999


Q ss_pred             CCCccEEeeccCCCCCcc-hhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC-----
Q 040109          288 MASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-----  361 (598)
Q Consensus       288 l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~-----  361 (598)
                      ...+++|.|..|++..+. ..|.++..|+.|+|.+|+++...|..|..+.       +|.+|++-.|.+....--     
T Consensus       297 ~a~l~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~-------~l~~l~l~~Np~~CnC~l~wl~~  369 (498)
T KOG4237|consen  297 AAELQELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLF-------SLSTLNLLSNPFNCNCRLAWLGE  369 (498)
T ss_pred             hhhhhhhhcCcchHHHHHHHhhhccccceeeeecCCeeEEEecccccccc-------eeeeeehccCcccCccchHHHHH
Confidence            999999999999998844 4788899999999999999998898888887       888898888877532110     


Q ss_pred             -------C--------CCCCcCccccccccceEEEEcCC---cc--cccccccccc-eEeccCCcCCCcCchhhhcccCC
Q 040109          362 -------L--------GGFPGMLMPLIYFDKITVTWKGG---QY--EYKSILGLIK-IIDLSSNKLGGEVPEEIMDLVGL  420 (598)
Q Consensus       362 -------l--------~~l~~l~~~~~~~~~~~~~~~~~---~~--~~~~~l~~L~-~L~Ls~n~l~~~~p~~l~~l~~L  420 (598)
                             .        +.+..+.....-.........++   ..  .-...++-+. +...|+..+. .+|..+.  ..-
T Consensus       370 Wlr~~~~~~~~~Cq~p~~~~~~~~~dv~~~~~~c~~~ee~~~~~s~~cP~~c~c~~tVvRcSnk~lk-~lp~~iP--~d~  446 (498)
T KOG4237|consen  370 WLRKKSVVGNPRCQSPGFVRQIPISDVAFGDFRCGGPEELGCLTSSPCPPPCTCLDTVVRCSNKLLK-LLPRGIP--VDV  446 (498)
T ss_pred             HHhhCCCCCCCCCCCCchhccccchhccccccccCCccccCCCCCCCCCCCcchhhhhHhhcccchh-hcCCCCC--chh
Confidence                   0        00001110000000000000000   00  0001111222 2334444444 5555443  245


Q ss_pred             cEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCC
Q 040109          421 VALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYN  476 (598)
Q Consensus       421 ~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N  476 (598)
                      ++|++.+|.++ .+|..  .+.+| .+|+++|+++...-..|.++++|.+|-|++|
T Consensus       447 telyl~gn~~~-~vp~~--~~~~l-~~dls~n~i~~Lsn~tf~n~tql~tlilsyn  498 (498)
T KOG4237|consen  447 TELYLDGNAIT-SVPDE--LLRSL-LLDLSNNRISSLSNYTFSNMTQLSTLILSYN  498 (498)
T ss_pred             HHHhcccchhc-ccCHH--HHhhh-hcccccCceehhhcccccchhhhheeEEecC
Confidence            78899999998 77876  56788 8999999987665668889999999999887

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

Probab=99.85  E-value=7.5e-23  Score=196.47  Aligned_cols=282  Identities=21%  Similarity=0.158  Sum_probs=153.6

Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccC-cCCCCCCCChhhhccccCC
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH-CDLPPISTPSLLHLNYSKS  240 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~-n~l~~~~~~~~~~~~~~~~  240 (598)
                      .-..++|..|.| ...++..|+.+++|++|||++|.|+.+  -+++|.++++|..|-+.+ |+|+..+...|..+   ..
T Consensus        68 ~tveirLdqN~I-~~iP~~aF~~l~~LRrLdLS~N~Is~I--~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL---~s  141 (498)
T KOG4237|consen   68 ETVEIRLDQNQI-SSIPPGAFKTLHRLRRLDLSKNNISFI--APDAFKGLASLLSLVLYGNNKITDLPKGAFGGL---SS  141 (498)
T ss_pred             cceEEEeccCCc-ccCChhhccchhhhceecccccchhhc--ChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhH---HH
Confidence            345677777776 455556677777777777777777776  346777777666655544 66666665544444   44


Q ss_pred             ccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch-hhcCCCCCcEEEc
Q 040109          241 LEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVL  319 (598)
Q Consensus       241 L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~-~l~~l~~L~~L~L  319 (598)
                      ++.|.+.-|.+.-...+.                          |..++++..|.+.+|.+..++. .|..+..++.+.+
T Consensus       142 lqrLllNan~i~Cir~~a--------------------------l~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhl  195 (498)
T KOG4237|consen  142 LQRLLLNANHINCIRQDA--------------------------LRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHL  195 (498)
T ss_pred             HHHHhcChhhhcchhHHH--------------------------HHHhhhcchhcccchhhhhhccccccchhccchHhh
Confidence            555555555444444444                          4444444444444444444443 3444444444444


Q ss_pred             ccCcCccc------------hhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcc
Q 040109          320 SYNELRGE------------LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQY  387 (598)
Q Consensus       320 s~n~l~~~------------~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~  387 (598)
                      ..|.+...            .|..++...       ......+.++++...-+                          .
T Consensus       196 A~np~icdCnL~wla~~~a~~~ietsgar-------c~~p~rl~~~Ri~q~~a--------------------------~  242 (498)
T KOG4237|consen  196 AQNPFICDCNLPWLADDLAMNPIETSGAR-------CVSPYRLYYKRINQEDA--------------------------R  242 (498)
T ss_pred             hcCccccccccchhhhHHhhchhhcccce-------ecchHHHHHHHhcccch--------------------------h
Confidence            44442110            000111100       11111111111110000                          0


Q ss_pred             cccccccccceEeccCCcCCCcCc-hhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCC
Q 040109          388 EYKSILGLIKIIDLSSNKLGGEVP-EEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR  466 (598)
Q Consensus       388 ~~~~~l~~L~~L~Ls~n~l~~~~p-~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~  466 (598)
                      .+......+..=-.+.+...+..| ..|..+++|+.|+|++|++++.-+.+|.++..+++|.|..|++...-...|.++.
T Consensus       243 kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f~~ls  322 (498)
T KOG4237|consen  243 KFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSSGMFQGLS  322 (498)
T ss_pred             hhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHHHhhhccc
Confidence            011111111111122232333333 4577778888888888888877777788888888888888877655556777777


Q ss_pred             CCCEEeCCCCcceecCCCC-CccCccCCCccCCCCCCCCCCCC
Q 040109          467 LLSVMDLSYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       467 ~L~~L~ls~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~~~  508 (598)
                      .|++|+|.+|+++..-|.. ....++..+.+.+|||.|+|.+.
T Consensus       323 ~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~~CnC~l~  365 (498)
T KOG4237|consen  323 GLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPFNCNCRLA  365 (498)
T ss_pred             cceeeeecCCeeEEEecccccccceeeeeehccCcccCccchH
Confidence            8888888888887666654 23556666777788888877654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.84  E-value=2.5e-20  Score=204.00  Aligned_cols=253  Identities=19%  Similarity=0.241  Sum_probs=119.9

Q ss_pred             CcHHHHHHHHHHHhcCCCCCCCCCC----CCCCCCCCCCCCccC----------------eeeCCCCCcEEEEEcCCCCC
Q 040109           35 CLDEEKEALLAFKQGLIDESGILSS----WGREDEKRNCCKWRG----------------VRCSNKTGHVLGLDLRALSD   94 (598)
Q Consensus        35 ~~~~~~~~l~~~k~~~~~~~~~l~~----W~~~~~~~~~c~w~g----------------v~C~~~~~~v~~l~l~~~~~   94 (598)
                      ..++|...++++.+.+.-|. ...+    |.   ..+++|.-.+                |.|.  .+.|+.+...+...
T Consensus        60 ~~~~~~~~~~~~~~~l~~p~-~~~~~~~~~~---~~~~fc~~~~~~~~~l~~~~~~~~~tv~~~--~~~vt~l~~~g~~~  133 (754)
T PRK15370         60 ASPEEIKSKFECLRMLAFPA-YADNIQYSRG---GADQYCILSENSQEILSIVFNTEGYTVEGG--GKSVTYTRVTESEQ  133 (754)
T ss_pred             CCHHHHHHHHHHHHHhcCCc-hhhccccccC---CCCcccccCCcchhhheeeecCCceEEecC--CCcccccccccccc
Confidence            46788889999988887554 3444    87   4667886554                4553  24455555544221


Q ss_pred             CCCCCCcee--------------cC--------ccc-----cCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCC
Q 040109           95 SPVDALKGT--------------IN--------PSL-----LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSA  147 (598)
Q Consensus        95 ~~~~~l~g~--------------l~--------~~l-----~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n  147 (598)
                      .+...-+..              -+        .++     +-..+...|+++++.++.  +|..+.  ++|+.|+|++|
T Consensus       134 ~~~~~~~~~~~~~~~~w~~w~~~~~~~~~~~r~~a~~r~~~Cl~~~~~~L~L~~~~Lts--LP~~Ip--~~L~~L~Ls~N  209 (754)
T PRK15370        134 ASSASGSKDAVNYELIWSEWVKEAPAKEAANREEAVQRMRDCLKNNKTELRLKILGLTT--IPACIP--EQITTLILDNN  209 (754)
T ss_pred             cccCCCCCChhhHHHHHHHHHhcCCCCccccHHHHHHHHHhhcccCceEEEeCCCCcCc--CCcccc--cCCcEEEecCC
Confidence            110000000              00        000     112345566666666653  555442  45666666666


Q ss_pred             CCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCC
Q 040109          148 QLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPI  227 (598)
Q Consensus       148 ~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~  227 (598)
                      +++ .+|..+.  .+|++|++++|.+..  .+..+  ..+|+.|++++|.+..+|.   .+.  .+|+.|++++|+++..
T Consensus       210 ~Lt-sLP~~l~--~nL~~L~Ls~N~Lts--LP~~l--~~~L~~L~Ls~N~L~~LP~---~l~--s~L~~L~Ls~N~L~~L  277 (754)
T PRK15370        210 ELK-SLPENLQ--GNIKTLYANSNQLTS--IPATL--PDTIQEMELSINRITELPE---RLP--SALQSLDLFHNKISCL  277 (754)
T ss_pred             CCC-cCChhhc--cCCCEEECCCCcccc--CChhh--hccccEEECcCCccCcCCh---hHh--CCCCEEECcCCccCcc
Confidence            666 4444432  356666666665521  11111  1345666666666555432   221  3455555555555543


Q ss_pred             CCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchh
Q 040109          228 STPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF  307 (598)
Q Consensus       228 ~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~  307 (598)
                      +..      ..++|+.|++++|++++ +|..+.  ..  |+.|++++|.++. +|..+.  ++|+.|++++|.++.+|..
T Consensus       278 P~~------l~~sL~~L~Ls~N~Lt~-LP~~lp--~s--L~~L~Ls~N~Lt~-LP~~l~--~sL~~L~Ls~N~Lt~LP~~  343 (754)
T PRK15370        278 PEN------LPEELRYLSVYDNSIRT-LPAHLP--SG--ITHLNVQSNSLTA-LPETLP--PGLKTLEAGENALTSLPAS  343 (754)
T ss_pred             ccc------cCCCCcEEECCCCcccc-Ccccch--hh--HHHHHhcCCcccc-CCcccc--ccceeccccCCccccCChh
Confidence            221      01345555555555542 222221  12  4445555554442 222221  3444445555444444433


Q ss_pred             hcCCCCCcEEEcccCcCc
Q 040109          308 LGNMSSLKMLVLSYNELR  325 (598)
Q Consensus       308 l~~l~~L~~L~Ls~n~l~  325 (598)
                      +.  ++|+.|++++|+++
T Consensus       344 l~--~sL~~L~Ls~N~L~  359 (754)
T PRK15370        344 LP--PELQVLDVSKNQIT  359 (754)
T ss_pred             hc--CcccEEECCCCCCC
Confidence            32  34444444444443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.80  E-value=2.9e-19  Score=195.66  Aligned_cols=183  Identities=27%  Similarity=0.436  Sum_probs=95.0

Q ss_pred             CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEc
Q 040109          240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVL  319 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L  319 (598)
                      +|+.|++++|.+. .+|..+.  ..  |+.|++++|+++ .+|..+.  ++|+.|++++|+++.+|..+.  ++|+.|++
T Consensus       242 ~L~~L~Ls~N~L~-~LP~~l~--s~--L~~L~Ls~N~L~-~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~L  311 (754)
T PRK15370        242 TIQEMELSINRIT-ELPERLP--SA--LQSLDLFHNKIS-CLPENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNV  311 (754)
T ss_pred             cccEEECcCCccC-cCChhHh--CC--CCEEECcCCccC-ccccccC--CCCcEEECCCCccccCcccch--hhHHHHHh
Confidence            4555555555544 3343332  12  555555555555 2344332  355666666666655554332  34566666


Q ss_pred             ccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceE
Q 040109          320 SYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKII  399 (598)
Q Consensus       320 s~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L  399 (598)
                      ++|.++.. |..+.  +       +|+.|++++|.+++ +|.                             ..+++|+.|
T Consensus       312 s~N~Lt~L-P~~l~--~-------sL~~L~Ls~N~Lt~-LP~-----------------------------~l~~sL~~L  351 (754)
T PRK15370        312 QSNSLTAL-PETLP--P-------GLKTLEAGENALTS-LPA-----------------------------SLPPELQVL  351 (754)
T ss_pred             cCCccccC-Ccccc--c-------cceeccccCCcccc-CCh-----------------------------hhcCcccEE
Confidence            66665542 22111  1       56666666666553 221                             002356666


Q ss_pred             eccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccc----cCCCCCCEEeCCC
Q 040109          400 DLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL----SRLRLLSVMDLSY  475 (598)
Q Consensus       400 ~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l----~~l~~L~~L~ls~  475 (598)
                      ++++|+++ .+|..+.  ++|+.|+|++|+++ .+|..+.  .+|+.|++++|+++ .+|+.+    ..++.+..|++.+
T Consensus       352 ~Ls~N~L~-~LP~~lp--~~L~~LdLs~N~Lt-~LP~~l~--~sL~~LdLs~N~L~-~LP~sl~~~~~~~~~l~~L~L~~  424 (754)
T PRK15370        352 DVSKNQIT-VLPETLP--PTITTLDVSRNALT-NLPENLP--AALQIMQASRNNLV-RLPESLPHFRGEGPQPTRIIVEY  424 (754)
T ss_pred             ECCCCCCC-cCChhhc--CCcCEEECCCCcCC-CCCHhHH--HHHHHHhhccCCcc-cCchhHHHHhhcCCCccEEEeeC
Confidence            66666665 4555442  46666666666666 4555443  25666666666665 344333    3345666667777


Q ss_pred             Ccce
Q 040109          476 NNFS  479 (598)
Q Consensus       476 N~l~  479 (598)
                      |+++
T Consensus       425 Npls  428 (754)
T PRK15370        425 NPFS  428 (754)
T ss_pred             CCcc
Confidence            7664

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

Probab=99.78  E-value=2e-19  Score=182.60  Aligned_cols=58  Identities=22%  Similarity=0.212  Sum_probs=37.4

Q ss_pred             EEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCC----CccccCCCCCCCEEEccCCCC
Q 040109          116 YLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGP----IPHQLGNLSRLQVLDLRFNNL  173 (598)
Q Consensus       116 ~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~----~p~~l~~l~~L~~L~Ls~n~l  173 (598)
                      .|+|+.+.+++...+..+..+.+|++|+++++.++..    ++..+...++|++|+++++.+
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~   63 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNET   63 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEecccccc
Confidence            4667777776444556666677778888877777532    344455666677777776654

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

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

Probab=99.74  E-value=8.8e-19  Score=177.92  Aligned_cols=61  Identities=23%  Similarity=0.153  Sum_probs=36.0

Q ss_pred             EEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCC--CchhHhhcCCCCCcEEeccCcCCC
Q 040109          165 VLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKF--SNWFQVLSNLRSLTTLYLGHCDLP  225 (598)
Q Consensus       165 ~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~--~~~~~~l~~l~~L~~L~l~~n~l~  225 (598)
                      .|+|..+.+........+..+.+|++|+++++.++..  ..++..+...++|++++++++.+.
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~   64 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETG   64 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccC
Confidence            3566666653333344456666777777777776532  123445556666777777766654

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

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

Probab=99.71  E-value=1.4e-19  Score=154.77  Aligned_cols=153  Identities=24%  Similarity=0.453  Sum_probs=101.9

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE  346 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~  346 (598)
                      ++.|.+++|+++ .+|..+..+.+|+.|++++|+++++|..+..+++|+.|+++-|++. ..|..|+.++       .|+
T Consensus        35 ITrLtLSHNKl~-~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~-~lprgfgs~p-------~le  105 (264)
T KOG0617|consen   35 ITRLTLSHNKLT-VVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLN-ILPRGFGSFP-------ALE  105 (264)
T ss_pred             hhhhhcccCcee-ecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhh-cCccccCCCc-------hhh
Confidence            666777777777 5666777788888888888888888888888888888888877765 4555566555       666


Q ss_pred             EEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECc
Q 040109          347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS  426 (598)
Q Consensus       347 ~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls  426 (598)
                      .|||.+|++...                                                  ..|..|..++.|+.|+|+
T Consensus       106 vldltynnl~e~--------------------------------------------------~lpgnff~m~tlralyl~  135 (264)
T KOG0617|consen  106 VLDLTYNNLNEN--------------------------------------------------SLPGNFFYMTTLRALYLG  135 (264)
T ss_pred             hhhccccccccc--------------------------------------------------cCCcchhHHHHHHHHHhc
Confidence            666666665521                                                  344555555666666666


Q ss_pred             CCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCccee
Q 040109          427 NNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       427 ~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      +|.+. .+|..++++++|+.|.+..|.+. .+|..++.+++|++|++.+|+++-
T Consensus       136 dndfe-~lp~dvg~lt~lqil~lrdndll-~lpkeig~lt~lrelhiqgnrl~v  187 (264)
T KOG0617|consen  136 DNDFE-ILPPDVGKLTNLQILSLRDNDLL-SLPKEIGDLTRLRELHIQGNRLTV  187 (264)
T ss_pred             CCCcc-cCChhhhhhcceeEEeeccCchh-hCcHHHHHHHHHHHHhcccceeee
Confidence            66665 55666666666666666666654 556666666666666666666653

>PLN03150 hypothetical protein; Provisional

Probab=99.64  E-value=6.6e-16  Score=168.79  Aligned_cols=118  Identities=36%  Similarity=0.654  Sum_probs=107.0

Q ss_pred             ccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCC
Q 040109          395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLS  474 (598)
Q Consensus       395 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls  474 (598)
                      .++.|+|++|.+.|.+|..+..+++|+.|+|++|++.|.+|..++.+++|+.|+|++|+++|.+|+.+.++++|+.|+|+
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            47889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcceecCCCCC--ccCccCCCccCCCCCCCCCCCCCCCC
Q 040109          475 YNNFSGKIPKGT--QLQRFGASTYAGNPELCGLPLPNKCL  512 (598)
Q Consensus       475 ~N~l~~~~p~~~--~~~~l~~~~~~gnp~lC~~~~~~~c~  512 (598)
                      +|+++|.+|...  ....+..+.+.+|+.+|+.|....|.
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~~p~l~~C~  538 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNAGLCGIPGLRACG  538 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCccccCCCCCCCCc
Confidence            999999999752  23345567899999999987655673

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

Probab=99.61  E-value=1.8e-17  Score=141.91  Aligned_cols=162  Identities=26%  Similarity=0.462  Sum_probs=131.5

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV  318 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  318 (598)
                      ..++.|.+++|+++ .+|+.+..+.+  |+.|++++|+++ .+|..++.+++|+.|+++-|++..+|..|+.++.|+.||
T Consensus        33 s~ITrLtLSHNKl~-~vppnia~l~n--levln~~nnqie-~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levld  108 (264)
T KOG0617|consen   33 SNITRLTLSHNKLT-VVPPNIAELKN--LEVLNLSNNQIE-ELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLD  108 (264)
T ss_pred             hhhhhhhcccCcee-ecCCcHHHhhh--hhhhhcccchhh-hcChhhhhchhhhheecchhhhhcCccccCCCchhhhhh
Confidence            56777788888887 67778888888  999999999998 688899999999999999999999999999999999999


Q ss_pred             cccCcCccc-hhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccc
Q 040109          319 LSYNELRGE-LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK  397 (598)
Q Consensus       319 Ls~n~l~~~-~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~  397 (598)
                      +++|.+.+. +|..|..                                                          +..|+
T Consensus       109 ltynnl~e~~lpgnff~----------------------------------------------------------m~tlr  130 (264)
T KOG0617|consen  109 LTYNNLNENSLPGNFFY----------------------------------------------------------MTTLR  130 (264)
T ss_pred             ccccccccccCCcchhH----------------------------------------------------------HHHHH
Confidence            999977542 2222222                                                          34566


Q ss_pred             eEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCC
Q 040109          398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRL  465 (598)
Q Consensus       398 ~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l  465 (598)
                      .|+|++|.+. .+|..++++++|+.|.+..|.+. .+|..++.++.|++|.+.+|+++ .+|..++++
T Consensus       131 alyl~dndfe-~lp~dvg~lt~lqil~lrdndll-~lpkeig~lt~lrelhiqgnrl~-vlppel~~l  195 (264)
T KOG0617|consen  131 ALYLGDNDFE-ILPPDVGKLTNLQILSLRDNDLL-SLPKEIGDLTRLRELHIQGNRLT-VLPPELANL  195 (264)
T ss_pred             HHHhcCCCcc-cCChhhhhhcceeEEeeccCchh-hCcHHHHHHHHHHHHhcccceee-ecChhhhhh
Confidence            6777777777 78888888888998988888888 78888888888999999999887 666665544

>PLN03150 hypothetical protein; Provisional

Probab=99.55  E-value=3.5e-14  Score=155.31  Aligned_cols=151  Identities=32%  Similarity=0.465  Sum_probs=121.7

Q ss_pred             cCCcHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCC----CCccCeeeCC--CC--CcEEEEEcCCCCCCCCCCCceec
Q 040109           33 ISCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNC----CKWRGVRCSN--KT--GHVLGLDLRALSDSPVDALKGTI  104 (598)
Q Consensus        33 ~~~~~~~~~~l~~~k~~~~~~~~~l~~W~~~~~~~~~----c~w~gv~C~~--~~--~~v~~l~l~~~~~~~~~~l~g~l  104 (598)
                      ....++|..||+++|+++.++..  .+|..    ..|    |.|.||.|..  ..  .+|+.|+|++      +.+.|.+
T Consensus       367 ~~t~~~~~~aL~~~k~~~~~~~~--~~W~g----~~C~p~~~~w~Gv~C~~~~~~~~~~v~~L~L~~------n~L~g~i  434 (623)
T PLN03150        367 SKTLLEEVSALQTLKSSLGLPLR--FGWNG----DPCVPQQHPWSGADCQFDSTKGKWFIDGLGLDN------QGLRGFI  434 (623)
T ss_pred             cccCchHHHHHHHHHHhcCCccc--CCCCC----CCCCCcccccccceeeccCCCCceEEEEEECCC------CCccccC
Confidence            45677899999999999976542  48962    333    3799999952  22  2589999998      8899999


Q ss_pred             CccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccC
Q 040109          105 NPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSY  184 (598)
Q Consensus       105 ~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~  184 (598)
                      |+.++.+++|+.|+|++|.+.+. +|..++.+++|++|+|++|++++.+|+.++++++|++|+|++|.+ ....+..+..
T Consensus       435 p~~i~~L~~L~~L~Ls~N~l~g~-iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~N~l-~g~iP~~l~~  512 (623)
T PLN03150        435 PNDISKLRHLQSINLSGNSIRGN-IPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSL-SGRVPAALGG  512 (623)
T ss_pred             CHHHhCCCCCCEEECCCCcccCc-CChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcCCcc-cccCChHHhh
Confidence            99999999999999999999986 999999999999999999999999999999999999999999987 3333333443


Q ss_pred             -CCCCCEEEcCCCc
Q 040109          185 -LSSLRYLDLGDCK  197 (598)
Q Consensus       185 -l~~L~~L~L~~n~  197 (598)
                       ..++..+++.+|.
T Consensus       513 ~~~~~~~l~~~~N~  526 (623)
T PLN03150        513 RLLHRASFNFTDNA  526 (623)
T ss_pred             ccccCceEEecCCc
Confidence             2455666766664

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

Probab=99.32  E-value=6.9e-14  Score=141.18  Aligned_cols=169  Identities=28%  Similarity=0.430  Sum_probs=88.8

Q ss_pred             EEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEE
Q 040109          269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWL  348 (598)
Q Consensus       269 ~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L  348 (598)
                      ..|++.|++. .+|..+..+..|+.+.++.|.+..+|..+.++..|++|+|+.|+++ .+|..+..++        |+.|
T Consensus        79 ~aDlsrNR~~-elp~~~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS-~lp~~lC~lp--------Lkvl  148 (722)
T KOG0532|consen   79 FADLSRNRFS-ELPEEACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSSNQLS-HLPDGLCDLP--------LKVL  148 (722)
T ss_pred             hhhccccccc-cCchHHHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhccchhh-cCChhhhcCc--------ceeE
Confidence            3445555554 4455555555555555555555555555555555555555555554 3344444444        5555


Q ss_pred             EccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCC
Q 040109          349 YLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNN  428 (598)
Q Consensus       349 ~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N  428 (598)
                      -+++|+++...+.+                            +....|..||.+.|++. .+|..++.+.+|+.|++..|
T Consensus       149 i~sNNkl~~lp~~i----------------------------g~~~tl~~ld~s~nei~-slpsql~~l~slr~l~vrRn  199 (722)
T KOG0532|consen  149 IVSNNKLTSLPEEI----------------------------GLLPTLAHLDVSKNEIQ-SLPSQLGYLTSLRDLNVRRN  199 (722)
T ss_pred             EEecCccccCCccc----------------------------ccchhHHHhhhhhhhhh-hchHHhhhHHHHHHHHHhhh
Confidence            55555555322221                            12334555555555555 45555555555555555555


Q ss_pred             cCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcce
Q 040109          429 NLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       429 ~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~  479 (598)
                      ++. .+|..+..+ .|..||+|.|+++ .+|..|.+|+.|++|-|.+|+++
T Consensus       200 ~l~-~lp~El~~L-pLi~lDfScNkis-~iPv~fr~m~~Lq~l~LenNPLq  247 (722)
T KOG0532|consen  200 HLE-DLPEELCSL-PLIRLDFSCNKIS-YLPVDFRKMRHLQVLQLENNPLQ  247 (722)
T ss_pred             hhh-hCCHHHhCC-ceeeeecccCcee-ecchhhhhhhhheeeeeccCCCC
Confidence            555 444445433 3555555555554 55555555555555555555554

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

Probab=99.25  E-value=4.2e-13  Score=135.58  Aligned_cols=169  Identities=24%  Similarity=0.351  Sum_probs=91.5

Q ss_pred             ccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcc
Q 040109          241 LEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLS  320 (598)
Q Consensus       241 L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls  320 (598)
                      |+.+.+..|.+. .+|+.+.++..  |++|+++.|+++ ..|..++.++ |+.|.+++|+++.+|..++....|..||.+
T Consensus       100 Le~liLy~n~~r-~ip~~i~~L~~--lt~l~ls~NqlS-~lp~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s  174 (722)
T KOG0532|consen  100 LESLILYHNCIR-TIPEAICNLEA--LTFLDLSSNQLS-HLPDGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVS  174 (722)
T ss_pred             HHHHHHHhccce-ecchhhhhhhH--HHHhhhccchhh-cCChhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhh
Confidence            344444444443 44455555555  555555555555 3444444433 555555566655555555555555556665


Q ss_pred             cCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEe
Q 040109          321 YNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIID  400 (598)
Q Consensus       321 ~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~  400 (598)
                      .|++... |..++.+.       +|+.|.+..|++....+.+..+                             .|..||
T Consensus       175 ~nei~sl-psql~~l~-------slr~l~vrRn~l~~lp~El~~L-----------------------------pLi~lD  217 (722)
T KOG0532|consen  175 KNEIQSL-PSQLGYLT-------SLRDLNVRRNHLEDLPEELCSL-----------------------------PLIRLD  217 (722)
T ss_pred             hhhhhhc-hHHhhhHH-------HHHHHHHhhhhhhhCCHHHhCC-----------------------------ceeeee
Confidence            5555432 33334443       4555555555554332222111                             256677


Q ss_pred             ccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCC---CCCCeeeCCCCc
Q 040109          401 LSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQL---KSLDFLDLSINH  453 (598)
Q Consensus       401 Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l---~~L~~L~Ls~N~  453 (598)
                      +|.|+++ .+|-.|.+|..|++|-|.+|.+. ..|..++..   .-.++|+..-++
T Consensus       218 fScNkis-~iPv~fr~m~~Lq~l~LenNPLq-SPPAqIC~kGkVHIFKyL~~qA~q  271 (722)
T KOG0532|consen  218 FSCNKIS-YLPVDFRKMRHLQVLQLENNPLQ-SPPAQICEKGKVHIFKYLSTQACQ  271 (722)
T ss_pred             cccCcee-ecchhhhhhhhheeeeeccCCCC-CChHHHHhccceeeeeeecchhcc
Confidence            7777776 67777777777777777777777 555555432   234556666553

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

Probab=99.25  E-value=1.3e-12  Score=128.33  Aligned_cols=113  Identities=27%  Similarity=0.307  Sum_probs=58.8

Q ss_pred             CCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCC--CCccccCCCCCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG--PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       110 ~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~--~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      +++.|+...|.++.+...........|++++.|||+.|-+..  .+......+++|+.|+++.|++........-..+++
T Consensus       119 n~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~  198 (505)
T KOG3207|consen  119 NLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSH  198 (505)
T ss_pred             hHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhh
Confidence            455666666666665532111344556666666666665542  122233456666666666666533222222234556


Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcC
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCD  223 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~  223 (598)
                      |+.|.|+.|.++. .++...+..+|+|+.|++..|.
T Consensus       199 lK~L~l~~CGls~-k~V~~~~~~fPsl~~L~L~~N~  233 (505)
T KOG3207|consen  199 LKQLVLNSCGLSW-KDVQWILLTFPSLEVLYLEANE  233 (505)
T ss_pred             hheEEeccCCCCH-HHHHHHHHhCCcHHHhhhhccc
Confidence            6666666666552 2333444555566666665553

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

Probab=99.22  E-value=2.1e-11  Score=127.56  Aligned_cols=84  Identities=38%  Similarity=0.502  Sum_probs=44.3

Q ss_pred             cceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCC
Q 040109          396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSY  475 (598)
Q Consensus       396 L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~  475 (598)
                      |++|++++|.+. ..+..+.++.++..+.+++|++. .++..++.+++++.|++++|+++... . +..+.+++.|++++
T Consensus       211 L~~l~~~~N~~~-~~~~~~~~~~~l~~l~l~~n~~~-~~~~~~~~l~~l~~L~~s~n~i~~i~-~-~~~~~~l~~L~~s~  286 (394)
T COG4886         211 LEELDLSNNSII-ELLSSLSNLKNLSGLELSNNKLE-DLPESIGNLSNLETLDLSNNQISSIS-S-LGSLTNLRELDLSG  286 (394)
T ss_pred             hhhhhhcCCcce-ecchhhhhcccccccccCCceee-eccchhccccccceeccccccccccc-c-ccccCccCEEeccC
Confidence            455555555332 34445555555555555555555 33455555555666666666655222 2 55555666666666


Q ss_pred             CcceecCC
Q 040109          476 NNFSGKIP  483 (598)
Q Consensus       476 N~l~~~~p  483 (598)
                      |.+....|
T Consensus       287 n~~~~~~~  294 (394)
T COG4886         287 NSLSNALP  294 (394)
T ss_pred             ccccccch
Confidence            65554433

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

Probab=99.18  E-value=4.6e-12  Score=124.44  Aligned_cols=165  Identities=21%  Similarity=0.226  Sum_probs=111.6

Q ss_pred             CCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccc
Q 040109          158 GNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNY  237 (598)
Q Consensus       158 ~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~  237 (598)
                      .++.+|+...|.++.+...+.......+++++.|||+.|-+..+..+......+|+|+.|+++.|++..........  .
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~--~  195 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTL--L  195 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchh--h
Confidence            45677777777777653333224567788888888888888776556677778888899999888876544321111  2


Q ss_pred             cCCccEEEccCCCCCCC-cchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc--hhhcCCCCC
Q 040109          238 SKSLEVIDLSNNYLTNS-IYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP--KFLGNMSSL  314 (598)
Q Consensus       238 ~~~L~~L~Ls~n~l~~~-~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp--~~l~~l~~L  314 (598)
                      .+.|+.|.++.|.++.. +...+..+++  ++.|++..|.....-.....-++.|++|||++|++...+  ...+.++.|
T Consensus       196 l~~lK~L~l~~CGls~k~V~~~~~~fPs--l~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L  273 (505)
T KOG3207|consen  196 LSHLKQLVLNSCGLSWKDVQWILLTFPS--LEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGL  273 (505)
T ss_pred             hhhhheEEeccCCCCHHHHHHHHHhCCc--HHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccch
Confidence            27788888888888742 2233445666  888888888533233334455677888888888887755  356677888


Q ss_pred             cEEEcccCcCcc
Q 040109          315 KMLVLSYNELRG  326 (598)
Q Consensus       315 ~~L~Ls~n~l~~  326 (598)
                      ..|+++.+.+..
T Consensus       274 ~~Lnls~tgi~s  285 (505)
T KOG3207|consen  274 NQLNLSSTGIAS  285 (505)
T ss_pred             hhhhccccCcch
Confidence            888887776653

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

Probab=99.17  E-value=5e-11  Score=124.70  Aligned_cols=156  Identities=36%  Similarity=0.504  Sum_probs=101.4

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE  346 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~  346 (598)
                      |+.|++++|.+. .+|..+..+++|+.|++++|++..+|......+.|+.|++++|++....+. .....       .|+
T Consensus       142 L~~L~l~~N~i~-~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~-~~~~~-------~L~  212 (394)
T COG4886         142 LKELDLSDNKIE-SLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPE-IELLS-------ALE  212 (394)
T ss_pred             cccccccccchh-hhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCccccCchh-hhhhh-------hhh
Confidence            556666666665 344456667777777777777777666555667777777777776644332 22222       477


Q ss_pred             EEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECc
Q 040109          347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS  426 (598)
Q Consensus       347 ~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls  426 (598)
                      ++++++|.....+.                            ....+.++..+.+.+|++. ..+..+..+++++.|+++
T Consensus       213 ~l~~~~N~~~~~~~----------------------------~~~~~~~l~~l~l~~n~~~-~~~~~~~~l~~l~~L~~s  263 (394)
T COG4886         213 ELDLSNNSIIELLS----------------------------SLSNLKNLSGLELSNNKLE-DLPESIGNLSNLETLDLS  263 (394)
T ss_pred             hhhhcCCcceecch----------------------------hhhhcccccccccCCceee-eccchhccccccceeccc
Confidence            77777775332221                            1233445666667777776 446777788888888888


Q ss_pred             CCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccc
Q 040109          427 NNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL  462 (598)
Q Consensus       427 ~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l  462 (598)
                      +|.++ .++. ++.+.+++.|++++|.++...|...
T Consensus       264 ~n~i~-~i~~-~~~~~~l~~L~~s~n~~~~~~~~~~  297 (394)
T COG4886         264 NNQIS-SISS-LGSLTNLRELDLSGNSLSNALPLIA  297 (394)
T ss_pred             ccccc-cccc-ccccCccCEEeccCccccccchhhh
Confidence            88888 4444 7788888888888888876665543

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

Probab=99.13  E-value=3.1e-11  Score=108.60  Aligned_cols=131  Identities=31%  Similarity=0.300  Sum_probs=40.2

Q ss_pred             cCCCCCCEEECcCCCCCCCCcchhcC-CCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          109 LKLQHLTYLDLSWNNFSGSPIPEFIG-SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~~p~~l~-~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      .+...++.|+|++|.|+..   +.++ .+.+|+.|++++|.|+. +. .+..+++|++|++++|++... .......+++
T Consensus        16 ~n~~~~~~L~L~~n~I~~I---e~L~~~l~~L~~L~Ls~N~I~~-l~-~l~~L~~L~~L~L~~N~I~~i-~~~l~~~lp~   89 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQISTI---ENLGATLDKLEVLDLSNNQITK-LE-GLPGLPRLKTLDLSNNRISSI-SEGLDKNLPN   89 (175)
T ss_dssp             -----------------------S--TT-TT--EEE-TTS--S---T-T----TT--EEE--SS---S--CHHHHHH-TT
T ss_pred             ccccccccccccccccccc---cchhhhhcCCCEEECCCCCCcc-cc-CccChhhhhhcccCCCCCCcc-ccchHHhCCc
Confidence            3444567777777777642   2344 46677777777777763 32 466677777777777776221 1111234667


Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEc
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDL  246 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~L  246 (598)
                      |++|++++|++..+.++ ..+..+++|+.|++.+|+++............+|+|+.||-
T Consensus        90 L~~L~L~~N~I~~l~~l-~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   90 LQELYLSNNKISDLNEL-EPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             --EEE-TTS---SCCCC-GGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             CCEEECcCCcCCChHHh-HHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCC
Confidence            77777777777665442 45566677777777777665443321122222355555543

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

Probab=99.11  E-value=1.6e-11  Score=117.54  Aligned_cols=231  Identities=29%  Similarity=0.285  Sum_probs=119.0

Q ss_pred             ccccCCCCCCEEECcCCCCCCC---CcchhcCCCCCCCEEECCCC---CCCCCCcc-------ccCCCCCCCEEEccCCC
Q 040109          106 PSLLKLQHLTYLDLSWNNFSGS---PIPEFIGSLSKLSELALSSA---QLAGPIPH-------QLGNLSRLQVLDLRFNN  172 (598)
Q Consensus       106 ~~l~~l~~L~~L~Ls~n~l~~~---~~p~~l~~l~~L~~L~Ls~n---~l~~~~p~-------~l~~l~~L~~L~Ls~n~  172 (598)
                      +.+-.+..+++++||+|.+...   .+...+.+.++|+..++++-   +....+|+       .+-.+++|++||||.|.
T Consensus        24 ~~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA  103 (382)
T KOG1909|consen   24 EELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNA  103 (382)
T ss_pred             HHhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccc
Confidence            3455678899999999988642   13344667788888888763   22233443       33466788888888887


Q ss_pred             CCCCCCcc---cccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCC
Q 040109          173 LFSSGNLD---WLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNN  249 (598)
Q Consensus       173 l~~~~~~~---~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n  249 (598)
                      +...+...   .+..+..|++|.|.+|.+.....  ..++.  .|.+|.  .+          ......+.|+++...+|
T Consensus       104 ~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag--~~l~~--al~~l~--~~----------kk~~~~~~Lrv~i~~rN  167 (382)
T KOG1909|consen  104 FGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAG--GRLGR--ALFELA--VN----------KKAASKPKLRVFICGRN  167 (382)
T ss_pred             cCccchHHHHHHHHhccCHHHHhhhcCCCChhHH--HHHHH--HHHHHH--HH----------hccCCCcceEEEEeecc
Confidence            73333221   24455566666666665543210  11000  000010  00          00011145555555555


Q ss_pred             CCCCCc----chhhhhcCccCccEEEccCCcccc----ccchhhcCCCCccEEeeccCCCCC-----cchhhcCCCCCcE
Q 040109          250 YLTNSI----YPWLLNVSSNLVDHIDLGSNRLHG----SIPVAFGHMASLRYLGLLSNRLRE-----VPKFLGNMSSLKM  316 (598)
Q Consensus       250 ~l~~~~----~~~l~~~~~~~L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L~~  316 (598)
                      .+....    ...+...+.  |+.+.+..|.|..    .+...+.++++|+.|||.+|-++.     +...+..+++|+.
T Consensus       168 rlen~ga~~~A~~~~~~~~--leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~E  245 (382)
T KOG1909|consen  168 RLENGGATALAEAFQSHPT--LEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRE  245 (382)
T ss_pred             ccccccHHHHHHHHHhccc--cceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchhee
Confidence            554321    122233333  5555555555431    123345666777777777776653     3445666667777


Q ss_pred             EEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          317 LVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       317 L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      |++++|.+.......+...-..  .+|+|+.|.+.+|.++
T Consensus       246 l~l~dcll~~~Ga~a~~~al~~--~~p~L~vl~l~gNeIt  283 (382)
T KOG1909|consen  246 LNLGDCLLENEGAIAFVDALKE--SAPSLEVLELAGNEIT  283 (382)
T ss_pred             ecccccccccccHHHHHHHHhc--cCCCCceeccCcchhH
Confidence            7777776655444333221100  1235555555555554

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

Probab=99.09  E-value=2.9e-11  Score=115.85  Aligned_cols=234  Identities=22%  Similarity=0.215  Sum_probs=144.9

Q ss_pred             CcEEEEEcCCCCCCCCCCCce----ecCccccCCCCCCEEECcCCC---CCCCCcchh-------cCCCCCCCEEECCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKG----TINPSLLKLQHLTYLDLSWNN---FSGSPIPEF-------IGSLSKLSELALSSA  147 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g----~l~~~l~~l~~L~~L~Ls~n~---l~~~~~p~~-------l~~l~~L~~L~Ls~n  147 (598)
                      ..++.++|+|      +.+..    .+.+.+.+.++|+..++|.-.   +.. .+|..       +...++|++||||.|
T Consensus        30 ~s~~~l~lsg------nt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~-Ei~e~L~~l~~aL~~~~~L~~ldLSDN  102 (382)
T KOG1909|consen   30 DSLTKLDLSG------NTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKD-EIPEALKMLSKALLGCPKLQKLDLSDN  102 (382)
T ss_pred             CceEEEeccC------CchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHH-HHHHHHHHHHHHHhcCCceeEeecccc
Confidence            4578899998      55532    344567778899999988632   121 24433       445679999999999


Q ss_pred             CCCCCCccc----cCCCCCCCEEEccCCCCCCCCC------------cccccCCCCCCEEEcCCCcCCCCC--chhHhhc
Q 040109          148 QLAGPIPHQ----LGNLSRLQVLDLRFNNLFSSGN------------LDWLSYLSSLRYLDLGDCKLSKFS--NWFQVLS  209 (598)
Q Consensus       148 ~l~~~~p~~----l~~l~~L~~L~Ls~n~l~~~~~------------~~~l~~l~~L~~L~L~~n~l~~~~--~~~~~l~  209 (598)
                      -+...-+..    +..+..|++|.|.+|.+.....            ......-++|+++..++|++...+  .+...+.
T Consensus       103 A~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~  182 (382)
T KOG1909|consen  103 AFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQ  182 (382)
T ss_pred             ccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHH
Confidence            887554443    3568899999999998722111            112455678999999999887643  2456677


Q ss_pred             CCCCCcEEeccCcCCCCCCC-ChhhhccccCCccEEEccCCCCCCCcc----hhhhhcCccCccEEEccCCccccccchh
Q 040109          210 NLRSLTTLYLGHCDLPPIST-PSLLHLNYSKSLEVIDLSNNYLTNSIY----PWLLNVSSNLVDHIDLGSNRLHGSIPVA  284 (598)
Q Consensus       210 ~l~~L~~L~l~~n~l~~~~~-~~~~~~~~~~~L~~L~Ls~n~l~~~~~----~~l~~~~~~~L~~L~L~~n~l~~~~p~~  284 (598)
                      ..+.|+.+.+..|.|..... .....+..+++|++|||.+|.++....    ..+..++.  |+.|++++|.+...-...
T Consensus       183 ~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~--L~El~l~dcll~~~Ga~a  260 (382)
T KOG1909|consen  183 SHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPH--LRELNLGDCLLENEGAIA  260 (382)
T ss_pred             hccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccch--heeecccccccccccHHH
Confidence            78889999999888765433 112233334788888888888775332    33334444  666666666665432222


Q ss_pred             h-----cCCCCccEEeeccCCCCC-----cchhhcCCCCCcEEEcccCcC
Q 040109          285 F-----GHMASLRYLGLLSNRLRE-----VPKFLGNMSSLKMLVLSYNEL  324 (598)
Q Consensus       285 l-----~~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L~~L~Ls~n~l  324 (598)
                      +     ...++|++|.+.+|.++.     +...+...+.|+.|+|++|++
T Consensus       261 ~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  261 FVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             HHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            2     124556666666665553     222334455555555555555

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

Probab=99.08  E-value=1.7e-11  Score=114.64  Aligned_cols=131  Identities=24%  Similarity=0.279  Sum_probs=76.5

Q ss_pred             CCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCC
Q 040109          287 HMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP  366 (598)
Q Consensus       287 ~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~  366 (598)
                      ..+.|+++||++|.++.+..++.-.|.++.|++|+|.+.....  ++.++       +|+.||||+|.++          
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n--La~L~-------~L~~LDLS~N~Ls----------  342 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN--LAELP-------QLQLLDLSGNLLA----------  342 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh--hhhcc-------cceEeecccchhH----------
Confidence            3456777777777777777777777777777777777654321  33333       4555555555444          


Q ss_pred             cCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCe
Q 040109          367 GMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDF  446 (598)
Q Consensus       367 ~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~  446 (598)
                                                                .+..+-.++-+.+.|.|+.|.+..  -+.++.+-+|..
T Consensus       343 ------------------------------------------~~~Gwh~KLGNIKtL~La~N~iE~--LSGL~KLYSLvn  378 (490)
T KOG1259|consen  343 ------------------------------------------ECVGWHLKLGNIKTLKLAQNKIET--LSGLRKLYSLVN  378 (490)
T ss_pred             ------------------------------------------hhhhhHhhhcCEeeeehhhhhHhh--hhhhHhhhhhee
Confidence                                                      333333445555666666665542  234555566666


Q ss_pred             eeCCCCccCCCC-cccccCCCCCCEEeCCCCccee
Q 040109          447 LDLSINHFFGGI-PSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       447 L~Ls~N~l~~~~-p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      ||+++|+|...- -..++++|-|+.+.+.+|++.+
T Consensus       379 LDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~  413 (490)
T KOG1259|consen  379 LDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAG  413 (490)
T ss_pred             ccccccchhhHHHhcccccccHHHHHhhcCCCccc
Confidence            666666664221 1356666667777777777663

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

Probab=99.01  E-value=3.9e-10  Score=101.51  Aligned_cols=34  Identities=29%  Similarity=0.380  Sum_probs=12.1

Q ss_pred             hcCCCCccEEeeccCCCCCcch----hhcCCCCCcEEE
Q 040109          285 FGHMASLRYLGLLSNRLREVPK----FLGNMSSLKMLV  318 (598)
Q Consensus       285 l~~l~~L~~L~Ls~n~l~~lp~----~l~~l~~L~~L~  318 (598)
                      +..+++|+.|++.+|+++..+.    .+..+|+|+.||
T Consensus       109 L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD  146 (175)
T PF14580_consen  109 LSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLD  146 (175)
T ss_dssp             GGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEET
T ss_pred             HHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeC
Confidence            3344555555555555543221    234445555554

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

Probab=98.94  E-value=2.9e-10  Score=106.61  Aligned_cols=207  Identities=21%  Similarity=0.273  Sum_probs=121.3

Q ss_pred             cCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCccccc
Q 040109          104 INPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLS  183 (598)
Q Consensus       104 l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~  183 (598)
                      +|-.+.-+++|+.+.+|.+.-..  +-+....-+.|+++...+..++. .|. +--...+....-+.-..........+.
T Consensus       206 l~f~l~~f~~l~~~~~s~~~~~~--i~~~~~~kptl~t~~v~~s~~~~-~~~-l~pe~~~~D~~~~E~~t~~G~~~~~~d  281 (490)
T KOG1259|consen  206 LSFNLNAFRNLKTLKFSALSTEN--IVDIELLKPTLQTICVHNTTIQD-VPS-LLPETILADPSGSEPSTSNGSALVSAD  281 (490)
T ss_pred             cccchHHhhhhheeeeeccchhh--eeceeecCchhheeeeecccccc-ccc-ccchhhhcCccCCCCCccCCceEEecc
Confidence            34445566777777777764332  22323334677888777665541 111 111111111111110000001111233


Q ss_pred             CCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcC
Q 040109          184 YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVS  263 (598)
Q Consensus       184 ~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~  263 (598)
                      .-+.|+++||++|.|+.+   -.+..-.|.++.|++++|.+.....  ...+   ++|+.|||++|.++ .+..|-..+.
T Consensus       282 TWq~LtelDLS~N~I~~i---DESvKL~Pkir~L~lS~N~i~~v~n--La~L---~~L~~LDLS~N~Ls-~~~Gwh~KLG  352 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQI---DESVKLAPKLRRLILSQNRIRTVQN--LAEL---PQLQLLDLSGNLLA-ECVGWHLKLG  352 (490)
T ss_pred             hHhhhhhccccccchhhh---hhhhhhccceeEEeccccceeeehh--hhhc---ccceEeecccchhH-hhhhhHhhhc
Confidence            335677888888877764   2456667788888888888776544  3332   77888888888776 3444545555


Q ss_pred             ccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc--hhhcCCCCCcEEEcccCcCccc
Q 040109          264 SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP--KFLGNMSSLKMLVLSYNELRGE  327 (598)
Q Consensus       264 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp--~~l~~l~~L~~L~Ls~n~l~~~  327 (598)
                      +  ++.|.+++|.+...  ..++.+-+|..||+++|++..+.  ..++++|.|+.+.|.+|++.+.
T Consensus       353 N--IKtL~La~N~iE~L--SGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  353 N--IKTLKLAQNKIETL--SGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAGS  414 (490)
T ss_pred             C--EeeeehhhhhHhhh--hhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCcccc
Confidence            6  77788888877532  34566677888888888887643  4677788888888888887654

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.86  E-value=1.3e-09  Score=122.14  Aligned_cols=110  Identities=34%  Similarity=0.369  Sum_probs=72.9

Q ss_pred             cccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCC
Q 040109          107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLS  186 (598)
Q Consensus       107 ~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~  186 (598)
                      .|..++.|+.|||++|.--+ .+|..++.|-+||+|+++++.+. .+|..++++.+|.+||+..+.. ....+.....++
T Consensus       566 ff~~m~~LrVLDLs~~~~l~-~LP~~I~~Li~LryL~L~~t~I~-~LP~~l~~Lk~L~~Lnl~~~~~-l~~~~~i~~~L~  642 (889)
T KOG4658|consen  566 FFRSLPLLRVLDLSGNSSLS-KLPSSIGELVHLRYLDLSDTGIS-HLPSGLGNLKKLIYLNLEVTGR-LESIPGILLELQ  642 (889)
T ss_pred             HHhhCcceEEEECCCCCccC-cCChHHhhhhhhhcccccCCCcc-ccchHHHHHHhhheeccccccc-cccccchhhhcc
Confidence            36668888888888765444 48888888888888888888887 7788888888888888887764 222244455588


Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEec
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL  219 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l  219 (598)
                      +|++|.+..............+..+.+|+.+..
T Consensus       643 ~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~  675 (889)
T KOG4658|consen  643 SLRVLRLPRSALSNDKLLLKELENLEHLENLSI  675 (889)
T ss_pred             cccEEEeeccccccchhhHHhhhcccchhhhee
Confidence            888888766542221122334445555555544

>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=98.82  E-value=1.8e-09  Score=79.90  Aligned_cols=59  Identities=41%  Similarity=0.528  Sum_probs=27.9

Q ss_pred             ccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCc
Q 040109          395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINH  453 (598)
Q Consensus       395 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~  453 (598)
                      +|++|++++|+++...+..|..+++|++|++++|+++...|..|.++++|++|++++|+
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            34445555555443333444444445555555444444444444444444444444444

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.82  E-value=7.5e-09  Score=116.12  Aligned_cols=59  Identities=27%  Similarity=0.330  Sum_probs=36.2

Q ss_pred             cccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCccc-CCcccCCCCCCCeeeCC
Q 040109          392 ILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ-ITPRIGQLKSLDFLDLS  450 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~-~p~~l~~l~~L~~L~Ls  450 (598)
                      ..++|+.|.+..+.....+.+....+..+..+-+..+.+.+. .-...++++++..+.++
T Consensus       768 f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l~  827 (889)
T KOG4658|consen  768 FAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPLS  827 (889)
T ss_pred             ccCcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEecccC
Confidence            466788888887776656666666677777666666666654 23344444444444333

>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=98.81  E-value=2.8e-09  Score=78.84  Aligned_cols=61  Identities=39%  Similarity=0.452  Sum_probs=56.5

Q ss_pred             cCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          418 VGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       418 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      ++|++|++++|+++...+..|..+++|++|++++|+++...|+.|.++++|++|++++|++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            5789999999999977678999999999999999999988788999999999999999985

...

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

Probab=98.77  E-value=6.6e-10  Score=116.54  Aligned_cols=130  Identities=34%  Similarity=0.396  Sum_probs=73.5

Q ss_pred             CCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCC
Q 040109          110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLR  189 (598)
Q Consensus       110 ~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~  189 (598)
                      .+..++.+.+..|.+..  +-..+..+++|..|++.+|.|.. +...+..+++|++|++++|.|.   ....+..++.|+
T Consensus        70 ~l~~l~~l~l~~n~i~~--~~~~l~~~~~l~~l~l~~n~i~~-i~~~l~~~~~L~~L~ls~N~I~---~i~~l~~l~~L~  143 (414)
T KOG0531|consen   70 SLTSLKELNLRQNLIAK--ILNHLSKLKSLEALDLYDNKIEK-IENLLSSLVNLQVLDLSFNKIT---KLEGLSTLTLLK  143 (414)
T ss_pred             HhHhHHhhccchhhhhh--hhcccccccceeeeeccccchhh-cccchhhhhcchheeccccccc---cccchhhccchh
Confidence            45555666666666653  23345666777777777777763 2222556677777777777662   223345555577


Q ss_pred             EEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCC
Q 040109          190 YLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLT  252 (598)
Q Consensus       190 ~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~  252 (598)
                      .|++++|.++.+.    .+..+++|+.+++++|++......  . .....+++.+++.+|.+.
T Consensus       144 ~L~l~~N~i~~~~----~~~~l~~L~~l~l~~n~i~~ie~~--~-~~~~~~l~~l~l~~n~i~  199 (414)
T KOG0531|consen  144 ELNLSGNLISDIS----GLESLKSLKLLDLSYNRIVDIEND--E-LSELISLEELDLGGNSIR  199 (414)
T ss_pred             hheeccCcchhcc----CCccchhhhcccCCcchhhhhhhh--h-hhhccchHHHhccCCchh
Confidence            7777777666652    344466666666666666554331  0 111255555555555554

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

Probab=98.77  E-value=1.4e-09  Score=114.00  Aligned_cols=234  Identities=29%  Similarity=0.289  Sum_probs=161.9

Q ss_pred             cCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCccccc
Q 040109          104 INPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLS  183 (598)
Q Consensus       104 l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~  183 (598)
                      +-..+..+++|+.|++..|.+..  +...+..+++|++|++++|.|+...  .+..++.|+.|++++|.+   .....+.
T Consensus        87 ~~~~l~~~~~l~~l~l~~n~i~~--i~~~l~~~~~L~~L~ls~N~I~~i~--~l~~l~~L~~L~l~~N~i---~~~~~~~  159 (414)
T KOG0531|consen   87 ILNHLSKLKSLEALDLYDNKIEK--IENLLSSLVNLQVLDLSFNKITKLE--GLSTLTLLKELNLSGNLI---SDISGLE  159 (414)
T ss_pred             hhcccccccceeeeeccccchhh--cccchhhhhcchheecccccccccc--chhhccchhhheeccCcc---hhccCCc
Confidence            33457889999999999999985  4444788999999999999998543  367788899999999998   3344566


Q ss_pred             CCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcC
Q 040109          184 YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVS  263 (598)
Q Consensus       184 ~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~  263 (598)
                      .+++|+.+++++|.+..++.. . ...+.+++.+++.+|.+.....  ....   ..+..+++..|.++..-+-......
T Consensus       160 ~l~~L~~l~l~~n~i~~ie~~-~-~~~~~~l~~l~l~~n~i~~i~~--~~~~---~~l~~~~l~~n~i~~~~~l~~~~~~  232 (414)
T KOG0531|consen  160 SLKSLKLLDLSYNRIVDIEND-E-LSELISLEELDLGGNSIREIEG--LDLL---KKLVLLSLLDNKISKLEGLNELVML  232 (414)
T ss_pred             cchhhhcccCCcchhhhhhhh-h-hhhccchHHHhccCCchhcccc--hHHH---HHHHHhhcccccceeccCcccchhH
Confidence            799999999999999986321 1 5789999999999999887654  2222   4555668888877642211111111


Q ss_pred             ccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCC
Q 040109          264 SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNS  343 (598)
Q Consensus       264 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~  343 (598)
                      .  |+.+++++|.+.. ++..+..+.++..|++.+|++..+.. +...+.+..+....|.+...... ...  .+....+
T Consensus       233 ~--L~~l~l~~n~i~~-~~~~~~~~~~l~~l~~~~n~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~~~~~  305 (414)
T KOG0531|consen  233 H--LRELYLSGNRISR-SPEGLENLKNLPVLDLSSNRISNLEG-LERLPKLSELWLNDNKLALSEAI-SQE--YITSAAP  305 (414)
T ss_pred             H--HHHHhcccCcccc-ccccccccccccccchhhcccccccc-ccccchHHHhccCcchhcchhhh-hcc--ccccccc
Confidence            2  6788888888873 33556677888889999888876432 44456667777777766532111 000  0111223


Q ss_pred             CCCEEEccCcccccc
Q 040109          344 SLEWLYLASNEITGT  358 (598)
Q Consensus       344 ~L~~L~Ls~N~l~~~  358 (598)
                      +++.+.+..|.....
T Consensus       306 ~~~~~~~~~~~~~~~  320 (414)
T KOG0531|consen  306 TLVTLTLELNPIRKI  320 (414)
T ss_pred             cccccccccCccccc
Confidence            677777887776643

>PF08263 LRRNT_2: Leucine rich repeat N-terminal domain; InterPro: IPR013210 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=98.69  E-value=2.5e-08  Score=67.48  Aligned_cols=41  Identities=46%  Similarity=0.998  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHhcCC-CCCCCCCCCCCCCCCCCCCCccCeeeC
Q 040109           37 DEEKEALLAFKQGLI-DESGILSSWGREDEKRNCCKWRGVRCS   78 (598)
Q Consensus        37 ~~~~~~l~~~k~~~~-~~~~~l~~W~~~~~~~~~c~w~gv~C~   78 (598)
                      ++|++||++||+++. +|.+.+.+|+... ..+||.|.||+|+
T Consensus         2 ~~d~~aLl~~k~~l~~~~~~~l~~W~~~~-~~~~C~W~GV~Cd   43 (43)
T PF08263_consen    2 NQDRQALLAFKKSLNNDPSGVLSSWNPSS-DSDPCSWSGVTCD   43 (43)
T ss_dssp             HHHHHHHHHHHHCTT-SC-CCCTT--TT---S-CCCSTTEEE-
T ss_pred             cHHHHHHHHHHHhcccccCcccccCCCcC-CCCCeeeccEEeC
Confidence            689999999999999 5678999998411 2799999999995

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 []. This domain is often found at the N terminus of tandem leucine rich repeats.; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1OGQ_A.

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

Probab=98.56  E-value=2.8e-09  Score=100.07  Aligned_cols=185  Identities=21%  Similarity=0.186  Sum_probs=112.9

Q ss_pred             CCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCC
Q 040109          161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKS  240 (598)
Q Consensus       161 ~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~  240 (598)
                      +.||+|||+...+........+..+.+|+.|.+.++++.+-  +...+.+..+|+.|+++.+.--..... -..+..++.
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~--I~~~iAkN~~L~~lnlsm~sG~t~n~~-~ll~~scs~  261 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDP--IVNTIAKNSNLVRLNLSMCSGFTENAL-QLLLSSCSR  261 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcH--HHHHHhccccceeeccccccccchhHH-HHHHHhhhh
Confidence            35777888777663333334466777888888888877763  667777788888888877643221111 112223377


Q ss_pred             ccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccc---cccchhhcCCCCccEEeeccCCC-CC-cchhhcCCCCCc
Q 040109          241 LEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH---GSIPVAFGHMASLRYLGLLSNRL-RE-VPKFLGNMSSLK  315 (598)
Q Consensus       241 L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~---~~~p~~l~~l~~L~~L~Ls~n~l-~~-lp~~l~~l~~L~  315 (598)
                      |..|+++++.+.......+-.--...++.|+++++.-.   ..+..-...+++|.+|||++|.. +. .-..+..++.|+
T Consensus       262 L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~  341 (419)
T KOG2120|consen  262 LDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQ  341 (419)
T ss_pred             HhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchhe
Confidence            88888888877654332222211122777777776321   12222335778888888888653 33 445677788888


Q ss_pred             EEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCcc
Q 040109          316 MLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNE  354 (598)
Q Consensus       316 ~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~  354 (598)
                      +|.++.|.  +++|+.+-.+.    ..|+|.+||..++-
T Consensus       342 ~lSlsRCY--~i~p~~~~~l~----s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  342 HLSLSRCY--DIIPETLLELN----SKPSLVYLDVFGCV  374 (419)
T ss_pred             eeehhhhc--CCChHHeeeec----cCcceEEEEecccc
Confidence            88888774  46666554433    23478888876653

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.54  E-value=1.8e-08  Score=94.69  Aligned_cols=88  Identities=27%  Similarity=0.287  Sum_probs=59.9

Q ss_pred             CCCEEEccCCCCCCCCCcccc-cCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCC
Q 040109          162 RLQVLDLRFNNLFSSGNLDWL-SYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKS  240 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l-~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~  240 (598)
                      .++.|.+.++.+-..+....| ...+.++.+||.+|.|++..++...+.++|.|+.|+++.|.+...+....  ... .+
T Consensus        46 a~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp--~p~-~n  122 (418)
T KOG2982|consen   46 ALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP--LPL-KN  122 (418)
T ss_pred             chhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc--ccc-cc
Confidence            455566666665333333333 34567889999999999887788888899999999999998876654221  111 66


Q ss_pred             ccEEEccCCCCC
Q 040109          241 LEVIDLSNNYLT  252 (598)
Q Consensus       241 L~~L~Ls~n~l~  252 (598)
                      |++|-|.+..+.
T Consensus       123 l~~lVLNgT~L~  134 (418)
T KOG2982|consen  123 LRVLVLNGTGLS  134 (418)
T ss_pred             eEEEEEcCCCCC
Confidence            777777766554

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

Probab=98.53  E-value=3.6e-09  Score=110.32  Aligned_cols=110  Identities=27%  Similarity=0.273  Sum_probs=85.2

Q ss_pred             cccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCC
Q 040109          390 KSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLS  469 (598)
Q Consensus       390 ~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~  469 (598)
                      +.-++.|+.|||++|+++. .. .+..++.|++|||++|.+. .+|.--..-..|..|.+++|.++..  ..+.++.+|+
T Consensus       183 Lqll~ale~LnLshNk~~~-v~-~Lr~l~~LkhLDlsyN~L~-~vp~l~~~gc~L~~L~lrnN~l~tL--~gie~LksL~  257 (1096)
T KOG1859|consen  183 LQLLPALESLNLSHNKFTK-VD-NLRRLPKLKHLDLSYNCLR-HVPQLSMVGCKLQLLNLRNNALTTL--RGIENLKSLY  257 (1096)
T ss_pred             HHHHHHhhhhccchhhhhh-hH-HHHhcccccccccccchhc-cccccchhhhhheeeeecccHHHhh--hhHHhhhhhh
Confidence            3457789999999999983 33 8889999999999999998 6665322223499999999998633  4678999999


Q ss_pred             EEeCCCCcceecCC--CCCccCccCCCccCCCCCCCC
Q 040109          470 VMDLSYNNFSGKIP--KGTQLQRFGASTYAGNPELCG  504 (598)
Q Consensus       470 ~L~ls~N~l~~~~p--~~~~~~~l~~~~~~gnp~lC~  504 (598)
                      .||+++|-+.+.-.  ....+..+..+.++|||.-|.
T Consensus       258 ~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl~c~  294 (1096)
T KOG1859|consen  258 GLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPLCCA  294 (1096)
T ss_pred             ccchhHhhhhcchhhhHHHHHHHHHHHhhcCCccccC
Confidence            99999998875322  224566777888999999884

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

Probab=98.48  E-value=4.9e-09  Score=98.49  Aligned_cols=180  Identities=22%  Similarity=0.204  Sum_probs=109.7

Q ss_pred             CCCEEECCCCCCCC-CCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCc-CCCCCchhHhhcCCCCCc
Q 040109          138 KLSELALSSAQLAG-PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCK-LSKFSNWFQVLSNLRSLT  215 (598)
Q Consensus       138 ~L~~L~Ls~n~l~~-~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~-l~~~~~~~~~l~~l~~L~  215 (598)
                      .|++|||++..|+. .+-..+..|.+|+.|.+.++++ .......+..-.+|+.|+++.+. ++.. ..--.+.+++.|.
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~L-dD~I~~~iAkN~~L~~lnlsm~sG~t~n-~~~ll~~scs~L~  263 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRL-DDPIVNTIAKNSNLVRLNLSMCSGFTEN-ALQLLLSSCSRLD  263 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhcccccccc-CcHHHHHHhccccceeeccccccccchh-HHHHHHHhhhhHh
Confidence            46777777666652 2223345666777777777765 33333446666677777777653 3322 2234566777888


Q ss_pred             EEeccCcCCCCCCCChhhhccccCCccEEEccCCCC---CCCcchhhhhcCccCccEEEccCCc-cccccchhhcCCCCc
Q 040109          216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYL---TNSIYPWLLNVSSNLVDHIDLGSNR-LHGSIPVAFGHMASL  291 (598)
Q Consensus       216 ~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l---~~~~~~~l~~~~~~~L~~L~L~~n~-l~~~~p~~l~~l~~L  291 (598)
                      .|++++|.+...... .......++|+.|+++++.-   ...+..-...+++  +.+|||++|. ++......|..++.|
T Consensus       264 ~LNlsWc~l~~~~Vt-v~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~--l~~LDLSD~v~l~~~~~~~~~kf~~L  340 (419)
T KOG2120|consen  264 ELNLSWCFLFTEKVT-VAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPN--LVHLDLSDSVMLKNDCFQEFFKFNYL  340 (419)
T ss_pred             hcCchHhhccchhhh-HHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCc--eeeeccccccccCchHHHHHHhcchh
Confidence            888888876554322 22222236788888877531   1233333445666  8888888774 444444566778889


Q ss_pred             cEEeeccCCCCCcch---hhcCCCCCcEEEcccCc
Q 040109          292 RYLGLLSNRLREVPK---FLGNMSSLKMLVLSYNE  323 (598)
Q Consensus       292 ~~L~Ls~n~l~~lp~---~l~~l~~L~~L~Ls~n~  323 (598)
                      ++|.++.|-.- +|.   .+...|.|.+|++-++-
T Consensus       341 ~~lSlsRCY~i-~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  341 QHLSLSRCYDI-IPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             eeeehhhhcCC-ChHHeeeeccCcceEEEEecccc
Confidence            99988887532 222   46677889999988764

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

Probab=98.38  E-value=8.4e-08  Score=89.16  Aligned_cols=228  Identities=21%  Similarity=0.108  Sum_probs=121.2

Q ss_pred             ccCCCCCCEEECcCCCCCCCC---cchhcCCCCCCCEEECCCCCC---CCCCc-------cccCCCCCCCEEEccCCCCC
Q 040109          108 LLKLQHLTYLDLSWNNFSGSP---IPEFIGSLSKLSELALSSAQL---AGPIP-------HQLGNLSRLQVLDLRFNNLF  174 (598)
Q Consensus       108 l~~l~~L~~L~Ls~n~l~~~~---~p~~l~~l~~L~~L~Ls~n~l---~~~~p-------~~l~~l~~L~~L~Ls~n~l~  174 (598)
                      +..+..++.+|||+|.|....   +...+.+-.+|+..+++.--.   ...++       ..+-+|++|+..+||.|.+.
T Consensus        26 l~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg  105 (388)
T COG5238          26 LEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFG  105 (388)
T ss_pred             HHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccC
Confidence            344677888888888876531   223344556777777765321   12222       34567888888888888773


Q ss_pred             CCCCc---ccccCCCCCCEEEcCCCcCCCCCc--hhH---------hhcCCCCCcEEeccCcCCCCCCCChhh-hccccC
Q 040109          175 SSGNL---DWLSYLSSLRYLDLGDCKLSKFSN--WFQ---------VLSNLRSLTTLYLGHCDLPPISTPSLL-HLNYSK  239 (598)
Q Consensus       175 ~~~~~---~~l~~l~~L~~L~L~~n~l~~~~~--~~~---------~l~~l~~L~~L~l~~n~l~~~~~~~~~-~~~~~~  239 (598)
                      ...+.   +.++.-+.|++|.+++|.+..+..  +..         ....-|.|+.+....|++..-+..... .+....
T Consensus       106 ~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~sh~  185 (388)
T COG5238         106 SEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLESHE  185 (388)
T ss_pred             cccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHhhc
Confidence            33222   246666777777777776654311  111         122335555555555555433221111 111113


Q ss_pred             CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-----cchhhcCCCCC
Q 040109          240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-----VPKFLGNMSSL  314 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L  314 (598)
                      .|+++.+..|.|..   ..+..                  .+--.+..+++|+.||+.+|-++.     +...+...+.|
T Consensus       186 ~lk~vki~qNgIrp---egv~~------------------L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~l  244 (388)
T COG5238         186 NLKEVKIQQNGIRP---EGVTM------------------LAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLL  244 (388)
T ss_pred             CceeEEeeecCcCc---chhHH------------------HHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchh
Confidence            44445554444431   11100                  011123455677777777777664     33456666778


Q ss_pred             cEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccc
Q 040109          315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITG  357 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~  357 (598)
                      +.|.+..|-++......+-..- .....++|..|...+|...+
T Consensus       245 rEL~lnDClls~~G~~~v~~~f-~e~~~p~l~~L~~~Yne~~~  286 (388)
T COG5238         245 RELRLNDCLLSNEGVKSVLRRF-NEKFVPNLMPLPGDYNERRG  286 (388)
T ss_pred             hhccccchhhccccHHHHHHHh-hhhcCCCccccccchhhhcC
Confidence            8888888877654433322110 01123577888888877664

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

Probab=98.31  E-value=4.1e-08  Score=102.65  Aligned_cols=102  Identities=26%  Similarity=0.312  Sum_probs=59.6

Q ss_pred             CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchh-hcCCCCCcEEE
Q 040109          240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLV  318 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~-l~~l~~L~~L~  318 (598)
                      .|...+.++|.+. .....+.-++.  ++.|+|++|+++..  +.+..++.|++|||++|.+..+|.. ..++ +|+.|.
T Consensus       165 ~L~~a~fsyN~L~-~mD~SLqll~a--le~LnLshNk~~~v--~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~~L~  238 (1096)
T KOG1859|consen  165 KLATASFSYNRLV-LMDESLQLLPA--LESLNLSHNKFTKV--DNLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQLLN  238 (1096)
T ss_pred             hHhhhhcchhhHH-hHHHHHHHHHH--hhhhccchhhhhhh--HHHHhcccccccccccchhccccccchhhh-hheeee
Confidence            4555566666655 33444555555  66777777776633  2566667777777777777666642 2223 367777


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      +++|.++..  ..+.++.       +|+.||+++|-+.
T Consensus       239 lrnN~l~tL--~gie~Lk-------sL~~LDlsyNll~  267 (1096)
T KOG1859|consen  239 LRNNALTTL--RGIENLK-------SLYGLDLSYNLLS  267 (1096)
T ss_pred             ecccHHHhh--hhHHhhh-------hhhccchhHhhhh
Confidence            777766532  2234444       6666666666655

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

Probab=98.30  E-value=5.2e-08  Score=81.28  Aligned_cols=88  Identities=26%  Similarity=0.324  Sum_probs=52.5

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEe
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD  472 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  472 (598)
                      ++.++.|+|++|.|+ .+|..+..++.|+.|+++.|.+. ..|..+..+.+|..||..+|.+. .+|-.+---+.....+
T Consensus        76 f~t~t~lNl~~neis-dvPeE~Aam~aLr~lNl~~N~l~-~~p~vi~~L~~l~~Lds~~na~~-eid~dl~~s~~~al~~  152 (177)
T KOG4579|consen   76 FPTATTLNLANNEIS-DVPEELAAMPALRSLNLRFNPLN-AEPRVIAPLIKLDMLDSPENARA-EIDVDLFYSSLPALIK  152 (177)
T ss_pred             cchhhhhhcchhhhh-hchHHHhhhHHhhhcccccCccc-cchHHHHHHHhHHHhcCCCCccc-cCcHHHhccccHHHHH
Confidence            334566666667666 67777777777777777777777 55666666777777777777665 4443322112222234


Q ss_pred             CCCCcceecCC
Q 040109          473 LSYNNFSGKIP  483 (598)
Q Consensus       473 ls~N~l~~~~p  483 (598)
                      +.++++.+..|
T Consensus       153 lgnepl~~~~~  163 (177)
T KOG4579|consen  153 LGNEPLGDETK  163 (177)
T ss_pred             hcCCcccccCc
Confidence            45555544443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.25  E-value=3.1e-07  Score=86.54  Aligned_cols=212  Identities=21%  Similarity=0.168  Sum_probs=107.9

Q ss_pred             CCCCCCEEECcCCCCCCCCcchhcC-CCCCCCEEECCCCCCCC--CCccccCCCCCCCEEEccCCCCCCCCCcccc-cCC
Q 040109          110 KLQHLTYLDLSWNNFSGSPIPEFIG-SLSKLSELALSSAQLAG--PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL-SYL  185 (598)
Q Consensus       110 ~l~~L~~L~Ls~n~l~~~~~p~~l~-~l~~L~~L~Ls~n~l~~--~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l-~~l  185 (598)
                      ..+.++.|.+.++.|.....-..|+ ..++++++||.+|.|+.  .+...+.++|.|++|+++.|.+.  ..+..+ ...
T Consensus        43 s~ra~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~--s~I~~lp~p~  120 (418)
T KOG2982|consen   43 SLRALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLS--SDIKSLPLPL  120 (418)
T ss_pred             cccchhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCC--CccccCcccc
Confidence            3344455555555554332222232 34667777777777762  33344567777777777777762  222223 345


Q ss_pred             CCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCC--CcchhhhhcC
Q 040109          186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN--SIYPWLLNVS  263 (598)
Q Consensus       186 ~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~--~~~~~l~~~~  263 (598)
                      .+|++|-|.+..+.-. ..-..+..+|.+++|+++.|.........-..-...+.+++|..-.|....  .+-.--.-++
T Consensus       121 ~nl~~lVLNgT~L~w~-~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fp  199 (418)
T KOG2982|consen  121 KNLRVLVLNGTGLSWT-QSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFP  199 (418)
T ss_pred             cceEEEEEcCCCCChh-hhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcc
Confidence            6777777777655421 122456667777777777774332211100000011334444433332110  0000001123


Q ss_pred             ccCccEEEccCCccccc-cchhhcCCCCccEEeeccCCCCCc--chhhcCCCCCcEEEcccCcCcc
Q 040109          264 SNLVDHIDLGSNRLHGS-IPVAFGHMASLRYLGLLSNRLREV--PKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       264 ~~~L~~L~L~~n~l~~~-~p~~l~~l~~L~~L~Ls~n~l~~l--p~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      +  +..+.+..|.+... ....+..++.+..|+|+.|++.+.  -+.+.+++.|..|.++++++..
T Consensus       200 n--v~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d  263 (418)
T KOG2982|consen  200 N--VNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPLSD  263 (418)
T ss_pred             c--chheeeecCcccchhhcccCCCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCcccc
Confidence            3  55566666655432 122344456666777777777762  2456777777777777777654

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.13  E-value=7e-06  Score=83.18  Aligned_cols=75  Identities=19%  Similarity=0.264  Sum_probs=48.2

Q ss_pred             hhhcCccCccEEEccCCccccccchhhcCCCCccEEeecc-CCCCCcchhhcCCCCCcEEEcccC-cCccchhhhhhhcC
Q 040109          259 LLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLS-NRLREVPKFLGNMSSLKMLVLSYN-ELRGELSEFIQNVS  336 (598)
Q Consensus       259 l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~-n~l~~lp~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~l~  336 (598)
                      +..+..  ++.|++++|.++ .+|.   -..+|++|.+++ +.++.+|..+  .++|+.|++++| .+. .+|.      
T Consensus        48 ~~~~~~--l~~L~Is~c~L~-sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~-sLP~------  112 (426)
T PRK15386         48 IEEARA--SGRLYIKDCDIE-SLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEIS-GLPE------  112 (426)
T ss_pred             HHHhcC--CCEEEeCCCCCc-ccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccc-cccc------
Confidence            444555  888888888776 4452   234688888877 4555577654  257888888887 333 2221      


Q ss_pred             CCCCCCCCCCEEEccCccc
Q 040109          337 SGSTKNSSLEWLYLASNEI  355 (598)
Q Consensus       337 ~g~~~~~~L~~L~Ls~N~l  355 (598)
                             +|+.|+++.+..
T Consensus       113 -------sLe~L~L~~n~~  124 (426)
T PRK15386        113 -------SVRSLEIKGSAT  124 (426)
T ss_pred             -------ccceEEeCCCCC
Confidence                   677777776554

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

Probab=98.11  E-value=1.1e-06  Score=81.83  Aligned_cols=236  Identities=18%  Similarity=0.182  Sum_probs=147.7

Q ss_pred             CcEEEEEcCCCCCCCCCCCce----ecCccccCCCCCCEEECcCCCCCC--CCcc-------hhcCCCCCCCEEECCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKG----TINPSLLKLQHLTYLDLSWNNFSG--SPIP-------EFIGSLSKLSELALSSAQ  148 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g----~l~~~l~~l~~L~~L~Ls~n~l~~--~~~p-------~~l~~l~~L~~L~Ls~n~  148 (598)
                      ..++.+||+|      |.+..    .+...+.+-++|+..+++.-....  ..++       ..+..+++|+..+||.|.
T Consensus        30 d~~~evdLSG------NtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNA  103 (388)
T COG5238          30 DELVEVDLSG------NTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNA  103 (388)
T ss_pred             cceeEEeccC------CcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccc
Confidence            3578889988      55543    334456677888888887632211  1133       334578999999999998


Q ss_pred             CCCCCccc----cCCCCCCCEEEccCCCCCCCCCc------------ccccCCCCCCEEEcCCCcCCCCCc--hhHhhcC
Q 040109          149 LAGPIPHQ----LGNLSRLQVLDLRFNNLFSSGNL------------DWLSYLSSLRYLDLGDCKLSKFSN--WFQVLSN  210 (598)
Q Consensus       149 l~~~~p~~----l~~l~~L~~L~Ls~n~l~~~~~~------------~~l~~l~~L~~L~L~~n~l~~~~~--~~~~l~~  210 (598)
                      +....|+.    ++.-+.|.+|.+++|.+-.....            ....+-|.|++.....|++...+.  +...+..
T Consensus       104 fg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~s  183 (388)
T COG5238         104 FGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLES  183 (388)
T ss_pred             cCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHh
Confidence            88666654    45668899999999976221110            123456899999999999886533  2334555


Q ss_pred             CCCCcEEeccCcCCCCCC--CChhhhccccCCccEEEccCCCCCCCcchh----hhhcCccCccEEEccCCccccccchh
Q 040109          211 LRSLTTLYLGHCDLPPIS--TPSLLHLNYSKSLEVIDLSNNYLTNSIYPW----LLNVSSNLVDHIDLGSNRLHGSIPVA  284 (598)
Q Consensus       211 l~~L~~L~l~~n~l~~~~--~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~----l~~~~~~~L~~L~L~~n~l~~~~p~~  284 (598)
                      -.+|+.+.+..|.|....  .-.+..+..+.+|++||+.+|.++......    +..++.  |+.|.+.+|-++..-..+
T Consensus       184 h~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~--lrEL~lnDClls~~G~~~  261 (388)
T COG5238         184 HENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNL--LRELRLNDCLLSNEGVKS  261 (388)
T ss_pred             hcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccch--hhhccccchhhccccHHH
Confidence            579999999999887542  222333344589999999999988543332    333444  777888887776433322


Q ss_pred             h------cCCCCccEEeeccCCCCC--c-----chh-hcCCCCCcEEEcccCcCc
Q 040109          285 F------GHMASLRYLGLLSNRLRE--V-----PKF-LGNMSSLKMLVLSYNELR  325 (598)
Q Consensus       285 l------~~l~~L~~L~Ls~n~l~~--l-----p~~-l~~l~~L~~L~Ls~n~l~  325 (598)
                      +      ...++|..|-..+|...+  +     |.. -..+|-|..|.+.+|++.
T Consensus       262 v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr~~  316 (388)
T COG5238         262 VLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNRIK  316 (388)
T ss_pred             HHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccCcch
Confidence            2      124566666666666543  1     110 123455555556666554

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

Probab=98.04  E-value=3.6e-07  Score=76.35  Aligned_cols=59  Identities=25%  Similarity=0.390  Sum_probs=29.4

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCcc
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      ++.|++++|.++ .+|..+..++.|+.|+++.|.+...|..+..+.++..|+..+|.+..
T Consensus        79 ~t~lNl~~neis-dvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds~~na~~e  137 (177)
T KOG4579|consen   79 ATTLNLANNEIS-DVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDSPENARAE  137 (177)
T ss_pred             hhhhhcchhhhh-hchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcCCCCcccc
Confidence            444444444444 34444555555555555555555555444445555555555554443

>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=97.99  E-value=9.7e-06  Score=54.86  Aligned_cols=37  Identities=32%  Similarity=0.492  Sum_probs=22.6

Q ss_pred             CccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCcc
Q 040109          290 SLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       290 ~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      +|++|++++|+++++|..+.++++|+.|++++|+++.
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSB
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCC
Confidence            5666666666666666556666666666666666653

...

>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=97.91  E-value=9.9e-06  Score=54.83  Aligned_cols=36  Identities=39%  Similarity=0.639  Sum_probs=17.5

Q ss_pred             ccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCc
Q 040109          395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT  431 (598)
Q Consensus       395 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  431 (598)
                      +|++|++++|+|+ .+|..+.++++|+.|++++|+++
T Consensus         2 ~L~~L~l~~N~i~-~l~~~l~~l~~L~~L~l~~N~i~   37 (44)
T PF12799_consen    2 NLEELDLSNNQIT-DLPPELSNLPNLETLNLSNNPIS   37 (44)
T ss_dssp             T-SEEEETSSS-S-SHGGHGTTCTTSSEEEETSSCCS
T ss_pred             cceEEEccCCCCc-ccCchHhCCCCCCEEEecCCCCC
Confidence            3455555555555 34444555555555555555554

...

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

Probab=97.89  E-value=7.9e-07  Score=87.79  Aligned_cols=37  Identities=14%  Similarity=0.190  Sum_probs=20.7

Q ss_pred             ccccceEeccCCc-CCCcCchhhhcccCCcEEECcCCc
Q 040109          393 LGLIKIIDLSSNK-LGGEVPEEIMDLVGLVALNLSNNN  429 (598)
Q Consensus       393 l~~L~~L~Ls~n~-l~~~~p~~l~~l~~L~~L~Ls~N~  429 (598)
                      +..|..+.|+++. ++...-+.+..+++|+.+++-+++
T Consensus       400 ~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q  437 (483)
T KOG4341|consen  400 LEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQ  437 (483)
T ss_pred             ccccceeeecCCCCchHHHHHHHhhCcccceeeeechh
Confidence            3345555555553 554555555666666666666654

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

Probab=97.89  E-value=1.5e-05  Score=71.47  Aligned_cols=108  Identities=28%  Similarity=0.323  Sum_probs=75.7

Q ss_pred             CCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCE
Q 040109          111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRY  190 (598)
Q Consensus       111 l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~  190 (598)
                      +.+...+||+.|.+...   +.|..+++|.+|.|++|+|+.+-|.--..+++|+.|.|.+|.+...+....+..+++|++
T Consensus        41 ~d~~d~iDLtdNdl~~l---~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKL---DNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEY  117 (233)
T ss_pred             ccccceecccccchhhc---ccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccce
Confidence            34667888998888642   457778889999999999886666544566788888888888877677777778888888


Q ss_pred             EEcCCCcCCCCCch-hHhhcCCCCCcEEeccC
Q 040109          191 LDLGDCKLSKFSNW-FQVLSNLRSLTTLYLGH  221 (598)
Q Consensus       191 L~L~~n~l~~~~~~-~~~l~~l~~L~~L~l~~  221 (598)
                      |.+-+|..+....- .-.+..+|+|+.||...
T Consensus       118 Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  118 LTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             eeecCCchhcccCceeEEEEecCcceEeehhh
Confidence            88888877654220 02344555555555543

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.81  E-value=7.6e-05  Score=75.82  Aligned_cols=77  Identities=16%  Similarity=0.321  Sum_probs=46.3

Q ss_pred             hhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCC-ccccccchhh
Q 040109          207 VLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSN-RLHGSIPVAF  285 (598)
Q Consensus       207 ~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n-~l~~~~p~~l  285 (598)
                      .+..+.+++.|++++|.++..+.       .+++|+.|.++++.--..+|..+.  ..  |++|++++| .+. .+|   
T Consensus        47 r~~~~~~l~~L~Is~c~L~sLP~-------LP~sLtsL~Lsnc~nLtsLP~~LP--~n--Le~L~Ls~Cs~L~-sLP---  111 (426)
T PRK15386         47 QIEEARASGRLYIKDCDIESLPV-------LPNELTEITIENCNNLTTLPGSIP--EG--LEKLTVCHCPEIS-GLP---  111 (426)
T ss_pred             HHHHhcCCCEEEeCCCCCcccCC-------CCCCCcEEEccCCCCcccCCchhh--hh--hhheEccCccccc-ccc---
Confidence            35556888889999887777642       226788888877443334444332  23  777777776 333 333   


Q ss_pred             cCCCCccEEeeccCCC
Q 040109          286 GHMASLRYLGLLSNRL  301 (598)
Q Consensus       286 ~~l~~L~~L~Ls~n~l  301 (598)
                         .+|+.|+++.+..
T Consensus       112 ---~sLe~L~L~~n~~  124 (426)
T PRK15386        112 ---ESVRSLEIKGSAT  124 (426)
T ss_pred             ---cccceEEeCCCCC
Confidence               3456666665543

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

Probab=97.75  E-value=5.5e-05  Score=67.92  Aligned_cols=130  Identities=22%  Similarity=0.230  Sum_probs=86.6

Q ss_pred             CCEEECcCCCCCCCCcchhcC-CCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEE
Q 040109          114 LTYLDLSWNNFSGSPIPEFIG-SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLD  192 (598)
Q Consensus       114 L~~L~Ls~n~l~~~~~p~~l~-~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~  192 (598)
                      =+.++|.+..+...   ..++ -+.+...+||++|.+..  -+.|..+++|.+|.+++|+| ....+.--..+++|+.|.
T Consensus        21 e~e~~LR~lkip~i---enlg~~~d~~d~iDLtdNdl~~--l~~lp~l~rL~tLll~nNrI-t~I~p~L~~~~p~l~~L~   94 (233)
T KOG1644|consen   21 ERELDLRGLKIPVI---ENLGATLDQFDAIDLTDNDLRK--LDNLPHLPRLHTLLLNNNRI-TRIDPDLDTFLPNLKTLI   94 (233)
T ss_pred             ccccccccccccch---hhccccccccceecccccchhh--cccCCCccccceEEecCCcc-eeeccchhhhccccceEE
Confidence            35556665554321   1122 23567789999998862  24577889999999999998 334444445567899999


Q ss_pred             cCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCC
Q 040109          193 LGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNY  250 (598)
Q Consensus       193 L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~  250 (598)
                      |.+|.+..+.++ ..+..+|+|++|.+-+|+++.....-.......++|+.||.+.-.
T Consensus        95 LtnNsi~~l~dl-~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen   95 LTNNSIQELGDL-DPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             ecCcchhhhhhc-chhccCCccceeeecCCchhcccCceeEEEEecCcceEeehhhhh
Confidence            999988876443 567788899999998888876544322222233778888776543

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

Probab=97.71  E-value=1.5e-05  Score=87.58  Aligned_cols=114  Identities=25%  Similarity=0.240  Sum_probs=58.1

Q ss_pred             CCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCC
Q 040109          110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLR  189 (598)
Q Consensus       110 ~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~  189 (598)
                      .||.|+.|.+++-.+.....-....++++|..||+|+++++..  ..++++++|++|.+.+=.+........+.++++|+
T Consensus       146 ~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl--~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~  223 (699)
T KOG3665|consen  146 MLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL--SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLR  223 (699)
T ss_pred             hCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc--HHHhccccHHHHhccCCCCCchhhHHHHhcccCCC
Confidence            3566666666665554322333444566666666666666532  44556666666666555443333334455566666


Q ss_pred             EEEcCCCcCCCCCchh----HhhcCCCCCcEEeccCcCCC
Q 040109          190 YLDLGDCKLSKFSNWF----QVLSNLRSLTTLYLGHCDLP  225 (598)
Q Consensus       190 ~L~L~~n~l~~~~~~~----~~l~~l~~L~~L~l~~n~l~  225 (598)
                      .||+|..+....+.+.    +.-..+|+|+.||.+++.+.
T Consensus       224 vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  224 VLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             eeeccccccccchHHHHHHHHhcccCccccEEecCCcchh
Confidence            6666655444332111    11223455555555544443

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

Probab=97.62  E-value=2.7e-05  Score=72.90  Aligned_cols=113  Identities=24%  Similarity=0.264  Sum_probs=68.6

Q ss_pred             cCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCC--CCCCCCccccCCCCCCCEEEccCCCCCCCCCccc
Q 040109          104 INPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSA--QLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDW  181 (598)
Q Consensus       104 l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n--~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~  181 (598)
                      +....-.+..|+.|++.+..++..   ..+..|++|++|.++.|  ++.+.++.-...+++|++|++++|++........
T Consensus        35 ~~gl~d~~~~le~ls~~n~gltt~---~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~p  111 (260)
T KOG2739|consen   35 LGGLTDEFVELELLSVINVGLTTL---TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRP  111 (260)
T ss_pred             cccccccccchhhhhhhccceeec---ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccch
Confidence            333344556666777776666532   34556788888888888  6665555555666888888888888743333444


Q ss_pred             ccCCCCCCEEEcCCCcCCCCCch-hHhhcCCCCCcEEec
Q 040109          182 LSYLSSLRYLDLGDCKLSKFSNW-FQVLSNLRSLTTLYL  219 (598)
Q Consensus       182 l~~l~~L~~L~L~~n~l~~~~~~-~~~l~~l~~L~~L~l  219 (598)
                      +..+.+|..|++.+|..+...+- -..|.-+++|++|+-
T Consensus       112 l~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~  150 (260)
T KOG2739|consen  112 LKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDG  150 (260)
T ss_pred             hhhhcchhhhhcccCCccccccHHHHHHHHhhhhccccc
Confidence            56666677777777765543211 123444555555543

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

Probab=97.58  E-value=3.1e-05  Score=85.19  Aligned_cols=41  Identities=20%  Similarity=0.312  Sum_probs=18.1

Q ss_pred             CCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCC
Q 040109          185 LSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP  226 (598)
Q Consensus       185 l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~  226 (598)
                      +|.|+.|.+++-.+... ++.....++|+|..||+++++++.
T Consensus       147 LPsL~sL~i~~~~~~~~-dF~~lc~sFpNL~sLDIS~TnI~n  187 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDND-DFSQLCASFPNLRSLDISGTNISN  187 (699)
T ss_pred             CcccceEEecCceecch-hHHHHhhccCccceeecCCCCccC
Confidence            44455555444433321 123334444555555555544443

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

Probab=97.29  E-value=0.00012  Score=68.63  Aligned_cols=115  Identities=22%  Similarity=0.277  Sum_probs=72.0

Q ss_pred             cchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcc-cccCCCCCCEEEcCCCcCCCCCchhHh
Q 040109          129 IPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLD-WLSYLSSLRYLDLGDCKLSKFSNWFQV  207 (598)
Q Consensus       129 ~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~  207 (598)
                      +..-...+..|+.|.+.+..++..  ..|-.+++|++|.++.|......... -...+++|+++++++|++..+.. ...
T Consensus        35 ~~gl~d~~~~le~ls~~n~gltt~--~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lst-l~p  111 (260)
T KOG2739|consen   35 LGGLTDEFVELELLSVINVGLTTL--TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLST-LRP  111 (260)
T ss_pred             cccccccccchhhhhhhccceeec--ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccc-cch
Confidence            333344566777777777776622  34567889999999999432222222 24556899999999998876533 245


Q ss_pred             hcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEc
Q 040109          208 LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDL  246 (598)
Q Consensus       208 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~L  246 (598)
                      +..+.+|..|++.+|..+.....--..+..+++|++|+-
T Consensus       112 l~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~  150 (260)
T KOG2739|consen  112 LKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDG  150 (260)
T ss_pred             hhhhcchhhhhcccCCccccccHHHHHHHHhhhhccccc
Confidence            667777888888888777644432223333356665543

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

Probab=97.11  E-value=4.6e-05  Score=75.60  Aligned_cols=88  Identities=20%  Similarity=0.145  Sum_probs=51.2

Q ss_pred             cccccceEeccCCcCC--CcCchhhhcccCCcEEECcCCcCcccC-----CcccCCCCCCCeeeCCCCccC-CCCccccc
Q 040109          392 ILGLIKIIDLSSNKLG--GEVPEEIMDLVGLVALNLSNNNLTGQI-----TPRIGQLKSLDFLDLSINHFF-GGIPSSLS  463 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~--~~~p~~l~~l~~L~~L~Ls~N~l~~~~-----p~~l~~l~~L~~L~Ls~N~l~-~~~p~~l~  463 (598)
                      +.+.|+.+|+.++...  +.+..--.+++.|+.|.++++......     ...-..+..|+.+.|+++... ...-+.+.
T Consensus       344 n~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~  423 (483)
T KOG4341|consen  344 NCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLS  423 (483)
T ss_pred             CChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHh
Confidence            3445666666655432  111222235677788888877543211     222345677888888888653 23334567


Q ss_pred             CCCCCCEEeCCCCcce
Q 040109          464 RLRLLSVMDLSYNNFS  479 (598)
Q Consensus       464 ~l~~L~~L~ls~N~l~  479 (598)
                      .++.|+.+++-+++-.
T Consensus       424 ~c~~Leri~l~~~q~v  439 (483)
T KOG4341|consen  424 ICRNLERIELIDCQDV  439 (483)
T ss_pred             hCcccceeeeechhhh
Confidence            7788888888777543

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.87  E-value=3.8e-05  Score=72.12  Aligned_cols=103  Identities=26%  Similarity=0.245  Sum_probs=69.0

Q ss_pred             CCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCE
Q 040109          111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRY  190 (598)
Q Consensus       111 l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~  190 (598)
                      +.+.+.|++-++.++++   .....|+.|++|.|+-|+|+..-  .+..|++|++|+|..|.|........+.++++|+.
T Consensus        18 l~~vkKLNcwg~~L~DI---sic~kMp~lEVLsLSvNkIssL~--pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~   92 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDI---SICEKMPLLEVLSLSVNKISSLA--PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRT   92 (388)
T ss_pred             HHHhhhhcccCCCccHH---HHHHhcccceeEEeeccccccch--hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhh
Confidence            55677788888888754   34557888888888888887443  36778888888888888755555566777888888


Q ss_pred             EEcCCCcCCCCCc---hhHhhcCCCCCcEEe
Q 040109          191 LDLGDCKLSKFSN---WFQVLSNLRSLTTLY  218 (598)
Q Consensus       191 L~L~~n~l~~~~~---~~~~l~~l~~L~~L~  218 (598)
                      |.|..|...+-..   -...+..+|+|++||
T Consensus        93 LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   93 LWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            8887776543211   012344556666554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.40  E-value=0.00025  Score=66.83  Aligned_cols=83  Identities=24%  Similarity=0.257  Sum_probs=38.4

Q ss_pred             CCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcE
Q 040109          137 SKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT  216 (598)
Q Consensus       137 ~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~  216 (598)
                      .+.+.|+.-++.+..+  ....+++.|++|.|+-|+|.   ....+..+++|++|+|..|.|.++.+ ..-+.++++|+.
T Consensus        19 ~~vkKLNcwg~~L~DI--sic~kMp~lEVLsLSvNkIs---sL~pl~rCtrLkElYLRkN~I~sldE-L~YLknlpsLr~   92 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDDI--SICEKMPLLEVLSLSVNKIS---SLAPLQRCTRLKELYLRKNCIESLDE-LEYLKNLPSLRT   92 (388)
T ss_pred             HHhhhhcccCCCccHH--HHHHhcccceeEEeeccccc---cchhHHHHHHHHHHHHHhcccccHHH-HHHHhcCchhhh
Confidence            3444555555555421  12234555555555555541   12234455555555555555554422 233444455555


Q ss_pred             EeccCcCCC
Q 040109          217 LYLGHCDLP  225 (598)
Q Consensus       217 L~l~~n~l~  225 (598)
                      |.|..|.-.
T Consensus        93 LWL~ENPCc  101 (388)
T KOG2123|consen   93 LWLDENPCC  101 (388)
T ss_pred             HhhccCCcc
Confidence            555444433

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

Probab=96.24  E-value=0.011  Score=50.71  Aligned_cols=13  Identities=31%  Similarity=0.508  Sum_probs=4.8

Q ss_pred             hhcCCCCCcEEec
Q 040109          207 VLSNLRSLTTLYL  219 (598)
Q Consensus       207 ~l~~l~~L~~L~l  219 (598)
                      .+.++++++.+.+
T Consensus        53 ~F~~~~~l~~i~~   65 (129)
T PF13306_consen   53 AFSNCKSLESITF   65 (129)
T ss_dssp             TTTT-TT-EEEEE
T ss_pred             eeecccccccccc
Confidence            3444444444444

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

Probab=95.98  E-value=0.021  Score=48.90  Aligned_cols=60  Identities=25%  Similarity=0.355  Sum_probs=25.1

Q ss_pred             ccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccC
Q 040109          182 LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSN  248 (598)
Q Consensus       182 l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~  248 (598)
                      |.++++|+.+.+.. .+..++.  ..|..+++|+.+.+..+ +.......+...   ++++.+.+.+
T Consensus         8 F~~~~~l~~i~~~~-~~~~I~~--~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~---~~l~~i~~~~   67 (129)
T PF13306_consen    8 FYNCSNLESITFPN-TIKKIGE--NAFSNCTSLKSINFPNN-LTSIGDNAFSNC---KSLESITFPN   67 (129)
T ss_dssp             TTT-TT--EEEETS-T--EE-T--TTTTT-TT-SEEEESST-TSCE-TTTTTT----TT-EEEEETS
T ss_pred             HhCCCCCCEEEECC-CeeEeCh--hhccccccccccccccc-ccccceeeeecc---cccccccccc
Confidence            55555566666553 3444322  45666666666666553 444333223222   4566666643

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

Probab=95.62  E-value=0.0023  Score=68.72  Aligned_cols=113  Identities=27%  Similarity=0.269  Sum_probs=48.5

Q ss_pred             CCCCCEEECcCCC-CCCCCcchhcCCCCCCCEEECCCC-CCCCCCc----cccCCCCCCCEEEccCCCCCCCCCcccc-c
Q 040109          111 LQHLTYLDLSWNN-FSGSPIPEFIGSLSKLSELALSSA-QLAGPIP----HQLGNLSRLQVLDLRFNNLFSSGNLDWL-S  183 (598)
Q Consensus       111 l~~L~~L~Ls~n~-l~~~~~p~~l~~l~~L~~L~Ls~n-~l~~~~p----~~l~~l~~L~~L~Ls~n~l~~~~~~~~l-~  183 (598)
                      .+.|+.|.+.++. +....+-.....+++|+.|+++++ ......+    .....+.+|+.|+++++...+......+ .
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            4555555555542 221112233444566666666552 1111111    1223445556666655552122222222 2


Q ss_pred             CCCCCCEEEcCCCc-CCCCCchhHhhcCCCCCcEEeccCcCC
Q 040109          184 YLSSLRYLDLGDCK-LSKFSNWFQVLSNLRSLTTLYLGHCDL  224 (598)
Q Consensus       184 ~l~~L~~L~L~~n~-l~~~~~~~~~l~~l~~L~~L~l~~n~l  224 (598)
                      .+++|++|.+.++. +++. .+......+++|++|++++|..
T Consensus       267 ~c~~L~~L~l~~c~~lt~~-gl~~i~~~~~~L~~L~l~~c~~  307 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDE-GLVSIAERCPSLRELDLSGCHG  307 (482)
T ss_pred             hCCCcceEccCCCCccchh-HHHHHHHhcCcccEEeeecCcc
Confidence            25555555555544 3321 2333344455555555555544

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

Probab=95.45  E-value=0.0038  Score=67.07  Aligned_cols=117  Identities=27%  Similarity=0.196  Sum_probs=77.6

Q ss_pred             ccccCCCCCCEEECcCC-CC-CCC--CcchhcCCCCCCCEEECCCCC-CCCCCccccC-CCCCCCEEEccCCC-CCCCCC
Q 040109          106 PSLLKLQHLTYLDLSWN-NF-SGS--PIPEFIGSLSKLSELALSSAQ-LAGPIPHQLG-NLSRLQVLDLRFNN-LFSSGN  178 (598)
Q Consensus       106 ~~l~~l~~L~~L~Ls~n-~l-~~~--~~p~~l~~l~~L~~L~Ls~n~-l~~~~p~~l~-~l~~L~~L~Ls~n~-l~~~~~  178 (598)
                      +.....++|+.|+++++ .. ...  ........+++|+.|+++++. ++...-..+. .+++|++|.+.++. +...+.
T Consensus       208 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl  287 (482)
T KOG1947|consen  208 ALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGL  287 (482)
T ss_pred             HHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHH
Confidence            44567899999999973 11 111  012334567899999999998 6544334443 38899999988887 434444


Q ss_pred             cccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCc
Q 040109          179 LDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC  222 (598)
Q Consensus       179 ~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n  222 (598)
                      ......+++|++|+++++.......+.....++++|+.|.+...
T Consensus       288 ~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~~~  331 (482)
T KOG1947|consen  288 VSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLLSL  331 (482)
T ss_pred             HHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhhhc
Confidence            44567789999999999876543334444566777777655443

>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=95.29  E-value=0.0058  Score=34.31  Aligned_cols=18  Identities=50%  Similarity=0.599  Sum_probs=7.7

Q ss_pred             CcEEECcCCcCcccCCccc
Q 040109          420 LVALNLSNNNLTGQITPRI  438 (598)
Q Consensus       420 L~~L~Ls~N~l~~~~p~~l  438 (598)
                      |++|+|++|+++ .+|+.|
T Consensus         2 L~~Ldls~n~l~-~ip~~~   19 (22)
T PF00560_consen    2 LEYLDLSGNNLT-SIPSSF   19 (22)
T ss_dssp             ESEEEETSSEES-EEGTTT
T ss_pred             ccEEECCCCcCE-eCChhh
Confidence            344444444444 344333

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 ....

>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=0.0073  Score=33.91  Aligned_cols=18  Identities=33%  Similarity=0.689  Sum_probs=8.4

Q ss_pred             cceEeccCCcCCCcCchhh
Q 040109          396 IKIIDLSSNKLGGEVPEEI  414 (598)
Q Consensus       396 L~~L~Ls~n~l~~~~p~~l  414 (598)
                      |++|||++|+++ .+|..|
T Consensus         2 L~~Ldls~n~l~-~ip~~~   19 (22)
T PF00560_consen    2 LEYLDLSGNNLT-SIPSSF   19 (22)
T ss_dssp             ESEEEETSSEES-EEGTTT
T ss_pred             ccEEECCCCcCE-eCChhh
Confidence            444555555544 444433

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 ....

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=94.46  E-value=0.00044  Score=72.98  Aligned_cols=61  Identities=31%  Similarity=0.342  Sum_probs=33.9

Q ss_pred             cceEeccCCcCCCc----Cchhhhcc-cCCcEEECcCCcCcccC----CcccCCCCCCCeeeCCCCccCC
Q 040109          396 IKIIDLSSNKLGGE----VPEEIMDL-VGLVALNLSNNNLTGQI----TPRIGQLKSLDFLDLSINHFFG  456 (598)
Q Consensus       396 L~~L~Ls~n~l~~~----~p~~l~~l-~~L~~L~Ls~N~l~~~~----p~~l~~l~~L~~L~Ls~N~l~~  456 (598)
                      +..|++..|++.+.    ..+.+..+ ..++.++++.|.|++.-    ...+...+.++++.++.|.+..
T Consensus       235 ~~el~l~~n~l~d~g~~~L~~~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l~~  304 (478)
T KOG4308|consen  235 LRELDLASNKLGDVGVEKLLPCLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPLTD  304 (478)
T ss_pred             hHHHHHHhcCcchHHHHHHHHHhcccchhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCcccc
Confidence            44466666666533    12233334 45567777777776432    2344455667777777776643

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=94.26  E-value=0.00093  Score=70.54  Aligned_cols=87  Identities=31%  Similarity=0.301  Sum_probs=53.5

Q ss_pred             CCEEECCCCCCCCCCc----cccCCCCCCCEEEccCCCCCCCCCc---ccccCC-CCCCEEEcCCCcCCCC--CchhHhh
Q 040109          139 LSELALSSAQLAGPIP----HQLGNLSRLQVLDLRFNNLFSSGNL---DWLSYL-SSLRYLDLGDCKLSKF--SNWFQVL  208 (598)
Q Consensus       139 L~~L~Ls~n~l~~~~p----~~l~~l~~L~~L~Ls~n~l~~~~~~---~~l~~l-~~L~~L~L~~n~l~~~--~~~~~~l  208 (598)
                      +..|.|.+|.+.....    ..+...+.|+.|++++|.+...+..   ..+... ..|++|++..|.++..  ..+...+
T Consensus        89 l~~L~L~~~~l~~~~~~~l~~~l~t~~~L~~L~l~~n~l~~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~l~~~L  168 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALKTLPTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPLAAVL  168 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhcccccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHHHHHH
Confidence            7788888888874432    3456778888888888887321111   122232 4566777777766643  2234555


Q ss_pred             cCCCCCcEEeccCcCCC
Q 040109          209 SNLRSLTTLYLGHCDLP  225 (598)
Q Consensus       209 ~~l~~L~~L~l~~n~l~  225 (598)
                      .....++.++++.|.+.
T Consensus       169 ~~~~~l~~l~l~~n~l~  185 (478)
T KOG4308|consen  169 EKNEHLTELDLSLNGLI  185 (478)
T ss_pred             hcccchhHHHHHhcccc
Confidence            55667777777777664

>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=93.44  E-value=0.058  Score=28.05  Aligned_cols=15  Identities=47%  Similarity=0.643  Sum_probs=5.9

Q ss_pred             CccEEeeccCCCCCc
Q 040109          290 SLRYLGLLSNRLREV  304 (598)
Q Consensus       290 ~L~~L~Ls~n~l~~l  304 (598)
                      +|++|++++|+++++
T Consensus         2 ~L~~L~l~~n~L~~l   16 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSL   16 (17)
T ss_dssp             T-SEEEETSS--SSE
T ss_pred             ccCEEECCCCCCCCC
Confidence            345555555554443

...

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

Probab=91.97  E-value=0.0056  Score=56.42  Aligned_cols=85  Identities=21%  Similarity=0.187  Sum_probs=68.2

Q ss_pred             cccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEE
Q 040109          392 ILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVM  471 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L  471 (598)
                      .+...+.||++.|++. ..-..|+.++.|..|+++.|++. ..|..++++..+..+++..|..+ ..|.++...+.++++
T Consensus        40 ~~kr~tvld~~s~r~v-n~~~n~s~~t~~~rl~~sknq~~-~~~~d~~q~~e~~~~~~~~n~~~-~~p~s~~k~~~~k~~  116 (326)
T KOG0473|consen   40 SFKRVTVLDLSSNRLV-NLGKNFSILTRLVRLDLSKNQIK-FLPKDAKQQRETVNAASHKNNHS-QQPKSQKKEPHPKKN  116 (326)
T ss_pred             ccceeeeehhhhhHHH-hhccchHHHHHHHHHhccHhhHh-hChhhHHHHHHHHHHHhhccchh-hCCccccccCCcchh
Confidence            3456788888888876 45556777888888888888887 77888888888888888888876 778888888888888


Q ss_pred             eCCCCcce
Q 040109          472 DLSYNNFS  479 (598)
Q Consensus       472 ~ls~N~l~  479 (598)
                      ++-+|.+.
T Consensus       117 e~k~~~~~  124 (326)
T KOG0473|consen  117 EQKKTEFF  124 (326)
T ss_pred             hhccCcch
Confidence            88888764

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.20  E-value=0.042  Score=49.89  Aligned_cols=82  Identities=28%  Similarity=0.250  Sum_probs=60.8

Q ss_pred             ccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCccc-CCcccC-CCCCCCeeeCCCC-ccCCCCcccccCCCCCCEE
Q 040109          395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ-ITPRIG-QLKSLDFLDLSIN-HFFGGIPSSLSRLRLLSVM  471 (598)
Q Consensus       395 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~-~p~~l~-~l~~L~~L~Ls~N-~l~~~~p~~l~~l~~L~~L  471 (598)
                      .++.+|-++..|..+--+.+.+++.++.|.+.+|.--+. --+.++ -.++|+.|+|++| +||..--..+..+++|+.|
T Consensus       102 ~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L  181 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRL  181 (221)
T ss_pred             eEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHH
Confidence            478899999999887778888899999999988864321 111121 3478999999988 5776555677888888888


Q ss_pred             eCCCC
Q 040109          472 DLSYN  476 (598)
Q Consensus       472 ~ls~N  476 (598)
                      .+.+=
T Consensus       182 ~l~~l  186 (221)
T KOG3864|consen  182 HLYDL  186 (221)
T ss_pred             HhcCc
Confidence            87754

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

Probab=88.43  E-value=0.03  Score=51.82  Aligned_cols=62  Identities=21%  Similarity=0.189  Sum_probs=50.8

Q ss_pred             cccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccC
Q 040109          392 ILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  455 (598)
                      .++.+..||++.|.+. ..|..+.....++.+++..|..+ ..|.+++..+.++++++..|.+.
T Consensus        63 ~~t~~~rl~~sknq~~-~~~~d~~q~~e~~~~~~~~n~~~-~~p~s~~k~~~~k~~e~k~~~~~  124 (326)
T KOG0473|consen   63 ILTRLVRLDLSKNQIK-FLPKDAKQQRETVNAASHKNNHS-QQPKSQKKEPHPKKNEQKKTEFF  124 (326)
T ss_pred             HHHHHHHHhccHhhHh-hChhhHHHHHHHHHHHhhccchh-hCCccccccCCcchhhhccCcch
Confidence            3556777888888877 77888888888888888888887 78888888899999998888864

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.25  E-value=0.097  Score=47.58  Aligned_cols=80  Identities=24%  Similarity=0.287  Sum_probs=38.1

Q ss_pred             CCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCccccc-CCCCCCEEEcCCCc-CCCCCchhHhhcCCCCCcE
Q 040109          139 LSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLS-YLSSLRYLDLGDCK-LSKFSNWFQVLSNLRSLTT  216 (598)
Q Consensus       139 L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~-~l~~L~~L~L~~n~-l~~~~~~~~~l~~l~~L~~  216 (598)
                      ++.+|-++..|..+--+.+.+++.++.|.+.+|.-........++ -.++|+.|++++|. |++.  ....+..+++|+.
T Consensus       103 IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~--GL~~L~~lknLr~  180 (221)
T KOG3864|consen  103 IEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDG--GLACLLKLKNLRR  180 (221)
T ss_pred             EEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechh--HHHHHHHhhhhHH
Confidence            445555555555444444555555555555555432222222222 23456666666553 4432  2344555555555


Q ss_pred             Eecc
Q 040109          217 LYLG  220 (598)
Q Consensus       217 L~l~  220 (598)
                      |.+.
T Consensus       181 L~l~  184 (221)
T KOG3864|consen  181 LHLY  184 (221)
T ss_pred             HHhc
Confidence            5544

>TIGR00864 PCC polycystin cation channel protein

Probab=86.94  E-value=0.62  Score=58.07  Aligned_cols=36  Identities=31%  Similarity=0.165  Sum_probs=20.6

Q ss_pred             eCCCCccCCCCcccccCCCCCCEEeCCCCcceecCC
Q 040109          448 DLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       448 ~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                      ||++|+|+..-+..|..+++|+.|+|++|++.+.+.
T Consensus         1 DLSnN~LstLp~g~F~~L~sL~~LdLsgNPw~CDC~   36 (2740)
T TIGR00864         1 DISNNKISTIEEGICANLCNLSEIDLSGNPFECDCG   36 (2740)
T ss_pred             CCCCCcCCccChHHhccCCCceEEEeeCCccccccc
Confidence            456666654444555666666666666655555444

Note: this model has been restricted to the amino half because for technical reasons.

>smart00370 LRR Leucine-rich repeats, outliers

Probab=86.82  E-value=0.58  Score=27.21  Aligned_cols=14  Identities=43%  Similarity=0.392  Sum_probs=6.9

Q ss_pred             CCCCeeeCCCCccC
Q 040109          442 KSLDFLDLSINHFF  455 (598)
Q Consensus       442 ~~L~~L~Ls~N~l~  455 (598)
                      ++|++|+|++|+++
T Consensus         2 ~~L~~L~L~~N~l~   15 (26)
T smart00370        2 PNLRELDLSNNQLS   15 (26)
T ss_pred             CCCCEEECCCCcCC
Confidence            34455555555554

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

Probab=86.82  E-value=0.58  Score=27.21  Aligned_cols=14  Identities=43%  Similarity=0.392  Sum_probs=6.9

Q ss_pred             CCCCeeeCCCCccC
Q 040109          442 KSLDFLDLSINHFF  455 (598)
Q Consensus       442 ~~L~~L~Ls~N~l~  455 (598)
                      ++|++|+|++|+++
T Consensus         2 ~~L~~L~L~~N~l~   15 (26)
T smart00369        2 PNLRELDLSNNQLS   15 (26)
T ss_pred             CCCCEEECCCCcCC
Confidence            34455555555554

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

Probab=85.61  E-value=0.75  Score=26.73  Aligned_cols=14  Identities=50%  Similarity=0.641  Sum_probs=7.0

Q ss_pred             CCCCEEECCCCCCC
Q 040109          137 SKLSELALSSAQLA  150 (598)
Q Consensus       137 ~~L~~L~Ls~n~l~  150 (598)
                      ++|++|+|++|+++
T Consensus         2 ~~L~~L~L~~N~l~   15 (26)
T smart00369        2 PNLRELDLSNNQLS   15 (26)
T ss_pred             CCCCEEECCCCcCC
Confidence            34455555555554

>smart00370 LRR Leucine-rich repeats, outliers

Probab=85.61  E-value=0.75  Score=26.73  Aligned_cols=14  Identities=50%  Similarity=0.641  Sum_probs=7.0

Q ss_pred             CCCCEEECCCCCCC
Q 040109          137 SKLSELALSSAQLA  150 (598)
Q Consensus       137 ~~L~~L~Ls~n~l~  150 (598)
                      ++|++|+|++|+++
T Consensus         2 ~~L~~L~L~~N~l~   15 (26)
T smart00370        2 PNLRELDLSNNQLS   15 (26)
T ss_pred             CCCCEEECCCCcCC
Confidence            34455555555554

>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A

Probab=85.33  E-value=0.45  Score=27.09  Aligned_cols=20  Identities=30%  Similarity=0.305  Sum_probs=9.8

Q ss_pred             CCCcEEEcccCcCccchhhh
Q 040109          312 SSLKMLVLSYNELRGELSEF  331 (598)
Q Consensus       312 ~~L~~L~Ls~n~l~~~~~~~  331 (598)
                      ++|++|+|++|++++.....
T Consensus         2 ~~L~~L~l~~n~i~~~g~~~   21 (24)
T PF13516_consen    2 PNLETLDLSNNQITDEGASA   21 (24)
T ss_dssp             TT-SEEE-TSSBEHHHHHHH
T ss_pred             CCCCEEEccCCcCCHHHHHH
Confidence            45666666666655544443

...

>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins

Probab=82.37  E-value=0.96  Score=36.17  Aligned_cols=21  Identities=43%  Similarity=0.603  Sum_probs=11.7

Q ss_pred             CchhHHHHHHHHHHHHHHHHhc
Q 040109            1 MSSKCFLLLQYVSLISVILFQL   22 (598)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~   22 (598)
                      |+|+.|+++ .++|++++|+++
T Consensus         1 MaSK~~llL-~l~LA~lLlisS   21 (95)
T PF07172_consen    1 MASKAFLLL-GLLLAALLLISS   21 (95)
T ss_pred             CchhHHHHH-HHHHHHHHHHHh
Confidence            999976654 333334444443

Some of them may be involved in resistance to environmental stress [].

>KOG4242 consensus Predicted myosin-I-binding protein [Cell motility]

Probab=80.15  E-value=12  Score=39.02  Aligned_cols=19  Identities=16%  Similarity=0.328  Sum_probs=10.1

Q ss_pred             CCCCEEECCCCCCCCCCcc
Q 040109          137 SKLSELALSSAQLAGPIPH  155 (598)
Q Consensus       137 ~~L~~L~Ls~n~l~~~~p~  155 (598)
                      +.+++++++.|.+....|-
T Consensus       165 pr~r~~dls~npi~dkvpi  183 (553)
T KOG4242|consen  165 PRARQHDLSPNPIGDKVPI  183 (553)
T ss_pred             chhhhhccCCCcccccCCc
Confidence            3455666666655544443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	598
3rgx_A	768	Structural Insight Into Brassinosteroid Perception		4e-24
3riz_A	772	Crystal Structure Of The Plant Steroid Receptor Bri		4e-24
1ogq_A	313	The Crystal Structure Of Pgip (Polygalacturonase In		1e-17
3a79_B	562	Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex Len		6e-04
2z7x_B	520	Crystal Structure Of The Tlr1-Tlr2 Heterodimer Indu		7e-04

>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1 Length = 768

Iteration: 1
 Score =  109 bits (273), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 133/457 (29%), Positives = 187/457 (40%), Gaps = 57/457 (12%)
Query: 87  LDLRALS--DSPVDALKGTINPSLLKLQ-HLTYLDLSWNNFSGSPIPEFI-GXXXXXXXX 142
           L +R L   D   +   G +  SL  L   L  LDLS NNFSG  +P             
Sbjct: 340 LKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQEL 399
Query: 143 XXXXXXXXGPIPHQLGNLSRLQVLDLRFNNLFSSGNXXXXXXXXXXXXXXXGDCKLSKFS 202
                   G IP  L N S L  L L FN L  SG                   KL    
Sbjct: 400 YLQNNGFTGKIPPTLSNCSELVSLHLSFNYL--SGTIPSSLGSLS---------KLRDLK 448
Query: 203 NWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV 262
            W  +L              ++P         L Y K+LE + L  N LT  I   L N 
Sbjct: 449 LWLNMLEG------------EIPQ-------ELMYVKTLETLILDFNDLTGEIPSGLSNC 489
Query: 263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSY 321
           ++  ++ I L +NRL G IP   G + +L  L L +N     +P  LG+  SL  L L+ 
Sbjct: 490 TN--LNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT 547
Query: 322 NELRGEL--SEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGG---FPGM----LMPL 372
           N   G +  + F Q+    +   +   ++Y+ ++ +       G    F G+    L  L
Sbjct: 548 NLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRL 607
Query: 373 IYFDKITVT---WKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNN 429
              +   +T   + G         G +  +D+S N L G +P+EI  +  L  LNL +N+
Sbjct: 608 STRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHND 667
Query: 430 LTGQITPRIGQLKSLDFLDLSINHFFGGIPXXXXXXXXXXVMDLSYNNFSGKIPKGTQLQ 489
           ++G I   +G L+ L+ LDLS N   G IP           +DLS NN SG IP+  Q +
Sbjct: 668 ISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFE 727
Query: 490 RFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAY 526
            F  + +  NP LCG PLP +C        PS  D Y
Sbjct: 728 TFPPAKFLNNPGLCGYPLP-RC-------DPSNADGY 756

>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1 Ectodomain Length = 772

Iteration: 1
 Score =  109 bits (273), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 133/457 (29%), Positives = 187/457 (40%), Gaps = 57/457 (12%)
Query: 87  LDLRALS--DSPVDALKGTINPSLLKLQ-HLTYLDLSWNNFSGSPIPEFI-GXXXXXXXX 142
           L +R L   D   +   G +  SL  L   L  LDLS NNFSG  +P             
Sbjct: 337 LKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQEL 396
Query: 143 XXXXXXXXGPIPHQLGNLSRLQVLDLRFNNLFSSGNXXXXXXXXXXXXXXXGDCKLSKFS 202
                   G IP  L N S L  L L FN L  SG                   KL    
Sbjct: 397 YLQNNGFTGKIPPTLSNCSELVSLHLSFNYL--SGTIPSSLGSLS---------KLRDLK 445
Query: 203 NWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV 262
            W  +L              ++P         L Y K+LE + L  N LT  I   L N 
Sbjct: 446 LWLNMLEG------------EIPQ-------ELMYVKTLETLILDFNDLTGEIPSGLSNC 486
Query: 263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSY 321
           ++  ++ I L +NRL G IP   G + +L  L L +N     +P  LG+  SL  L L+ 
Sbjct: 487 TN--LNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT 544
Query: 322 NELRGEL--SEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGG---FPGM----LMPL 372
           N   G +  + F Q+    +   +   ++Y+ ++ +       G    F G+    L  L
Sbjct: 545 NLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRL 604
Query: 373 IYFDKITVT---WKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNN 429
              +   +T   + G         G +  +D+S N L G +P+EI  +  L  LNL +N+
Sbjct: 605 STRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHND 664
Query: 430 LTGQITPRIGQLKSLDFLDLSINHFFGGIPXXXXXXXXXXVMDLSYNNFSGKIPKGTQLQ 489
           ++G I   +G L+ L+ LDLS N   G IP           +DLS NN SG IP+  Q +
Sbjct: 665 ISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFE 724
Query: 490 RFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAY 526
            F  + +  NP LCG PLP +C        PS  D Y
Sbjct: 725 TFPPAKFLNNPGLCGYPLP-RC-------DPSNADGY 753

>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase Inhibiting Protein), A Leucine Rich Repeat Protein Involved In Plant Defense Length = 313

Iteration: 1
 Score = 88.6 bits (218), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 72/240 (30%), Positives = 110/240 (45%), Gaps = 18/240 (7%)
Query: 273 GSNRLHGSIPVAFGHMASLRYLGLL-SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEF 331
           G N L G IP A   +  L YL +  +N    +P FL  + +L  L  SYN L G L   
Sbjct: 85  GINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPS 144
Query: 332 IQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQYEYK 390
           I ++ +       L  +    N I+G IP+  G F  +      F  +T++      +  
Sbjct: 145 ISSLPN-------LVGITFDGNRISGAIPDSYGSFSKL------FTSMTISRNRLTGKIP 191
Query: 391 SILGLIKI--IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLD 448
                + +  +DLS N L G+             ++L+ N+L   +  ++G  K+L+ LD
Sbjct: 192 PTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLD 250
Query: 449 LSINHFFGGIPXXXXXXXXXXVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLP 508
           L  N  +G +P           +++S+NN  G+IP+G  LQRF  S YA N  LCG PLP
Sbjct: 251 LRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGSPLP 310

>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex Length = 562

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 55/168 (32%), Positives = 80/168 (47%), Gaps = 31/168 (18%)
Query: 205 FQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIY----PW-- 258
           FQ  S L+ L TL L    L      +L+  N S SLE +D+S N L +  Y     W  
Sbjct: 370 FQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMS-SLETLDVSLNSLNSHAYDRTCAWAE 428
Query: 259 ---LLNVSSNL------------VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE 303
              +LN+SSN+            V  +DL +NR+  SIP    H+ +L+ L + SN+L+ 
Sbjct: 429 SILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRI-MSIPKDVTHLQALQELNVASNQLKS 487
Query: 304 VPK-FLGNMSSLKMLVLSYNELRGE------LSEFIQNVSSGSTKNSS 344
           VP      ++SL+ + L  N           LSE+I N  SG  +NS+
Sbjct: 488 VPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWI-NKHSGVVRNSA 534

>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By Binding Of A Tri-Acylated Lipopeptide Length = 520

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 44/172 (25%), Positives = 74/172 (43%), Gaps = 49/172 (28%)
Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK---FLGNMSSLKML-----VLS 320
           H+D  +N L  ++    GH+  L  L L  N+L+E+ K       M SL+ L      +S
Sbjct: 328 HLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVS 387
Query: 321 YNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITV 380
           Y+E +G+ S              SL  L ++SN +T TI                     
Sbjct: 388 YDEKKGDCSW-----------TKSLLSLNMSSNILTDTI--------------------- 415
Query: 381 TWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTG 432
                   ++ +   IK++DL SNK+   +P++++ L  L  LN+++N L  
Sbjct: 416 --------FRCLPPRIKVLDLHSNKIKS-IPKQVVKLEALQELNVASNQLKS 458

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	598
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-95
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-89
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-79
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	9e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-56
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-56
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-22
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-15
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	8e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-56
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-52
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-49
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-47
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-47
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-46
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-25
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-51
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-49
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-39
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-47
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-47
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-44
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-23
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-19
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-16
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-46
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-44
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-43
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-41
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-39
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	6e-33
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	9e-46
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-42
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-41
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-40
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-39
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-38
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-38
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-38
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-18
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-42
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-42
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-36
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-34
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-29
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-39
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-38
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-25
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-37
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-32
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-26
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-20
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-33
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-30
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-28
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-23
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-14
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-32
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-18
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-32
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-31
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-29
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-25
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-25
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-24
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-17
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-31
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-29
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-28
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-13
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-31
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	9e-31
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-30
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-31
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-30
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-28
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	5e-18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	7e-30
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-19
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-18
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-29
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-27
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-26
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	8e-26
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-29
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-28
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-27
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-25
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-23
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	7e-28
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-20
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-20
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-19
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-15
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-27
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-26
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	9e-26
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-26
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-25
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	9e-18
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	7e-25
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-19
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-17
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-17
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-16
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-13
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-24
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-20
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-17
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-14
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	9e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	4e-24
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-23
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-16
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-16
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-24
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-21
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-18
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-10
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-23
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-15
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-08
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	6e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-23
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-21
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	9e-20
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-18
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-18
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-12
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	5e-23
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	9e-18
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-17
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-15
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-14
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-10
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-22
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-18
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	4e-14
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	8e-08
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-22
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-18
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	6e-17
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-22
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-20
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-22
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-22
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-20
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-20
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-19
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-20
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-18
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-17
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	8e-20
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-19
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-16
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	8e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-18
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-16
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	5e-15
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-12
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-05
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	4e-18
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	1e-15
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-14
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	8e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-16
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-15
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-15
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-11
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	8e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-16
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-12
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	6e-11
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-08
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	8e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	7e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	5e-15
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	9e-10
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	9e-15
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-12
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	6e-04
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	9e-15
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	5e-09
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	1e-07
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-14
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	6e-14
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-12
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	5e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	4e-06
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-14
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-13
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	6e-13
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	6e-10
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-09
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-14
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-04
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	7e-14
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	2e-11
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	3e-10
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	3e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	4e-11
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	9e-09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-08
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	8e-11
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-10
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	1e-09
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	9e-05
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	7e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	1e-09
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	5e-08
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	6e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	8e-05
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	3e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-09
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	4e-06
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-09
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	7e-06
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	3e-09
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	7e-08
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	8e-08
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	7e-09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-08
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-07
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	2e-07
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	3e-08
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-07
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	4e-07
3m19_A	251	Variable lymphocyte receptor A diversity region; a	3e-08
3m19_A	251	Variable lymphocyte receptor A diversity region; a	1e-05
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	6e-08
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	8e-06
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	2e-07
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	3e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	4e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-05
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	2e-07
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	3e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	6e-07
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	4e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	4e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-06
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-06
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	6e-06
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-04
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	1e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	2e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	3e-05
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	8e-05
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	4e-04
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	7e-04

>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 =  307 bits (789), Expect = 2e-95
 Identities = 125/460 (27%), Positives = 197/460 (42%), Gaps = 66/460 (14%)

Query: 34  SCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALS 93
             L  E   L++FK  L D   +L  W       N C + GV C +    V  +DL   S
Sbjct: 8   QSLYREIHQLISFKDVLPD-KNLLPDWSSNK---NPCTFDGVTCRD--DKVTSIDL---S 58

Query: 94  DSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPI 153
             P++     ++ SLL L  L  L LS ++ +GS +  F    + L+ L LS   L+GP+
Sbjct: 59  SKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGS-VSGF-KCSASLTSLDLSRNSLSGPV 116

Query: 154 P--HQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLS-KFSNWFQVLSN 210
                LG+ S L+ L++  N L   G +     L+SL  LDL    +S      + +   
Sbjct: 117 TTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDG 176

Query: 211 LRSLTTLYLGHCDL-PPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDH 269
              L  L +    +   +            +LE +D+S+N  +  I P+L +  S L  H
Sbjct: 177 CGELKHLAISGNKISGDVDVSRC------VNLEFLDVSSNNFSTGI-PFLGD-CSALQ-H 227

Query: 270 IDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGEL 328
           +D+  N+L G    A      L+ L + SN+    +P     + SL+ L L+ N+  GE+
Sbjct: 228 LDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAENKFTGEI 285

Query: 329 SEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQY 387
            +F+           +L  L L+ N   G +P   G                        
Sbjct: 286 PDFLSG------ACDTLTGLDLSGNHFYGAVPPFFGS----------------------- 316

Query: 388 EYKSILGLIKIIDLSSNKLGGEVPEE-IMDLVGLVALNLSNNNLTGQITPRIGQLK-SLD 445
                  L++ + LSSN   GE+P + ++ + GL  L+LS N  +G++   +  L  SL 
Sbjct: 317 -----CSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLL 371

Query: 446 FLDLSINHFFGGIPSSLSRLRL--LSVMDLSYNNFSGKIP 483
            LDLS N+F G I  +L +     L  + L  N F+GKIP
Sbjct: 372 TLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIP 411

>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 =  291 bits (748), Expect = 2e-89
 Identities = 124/429 (28%), Positives = 184/429 (42%), Gaps = 54/429 (12%)

Query: 100 LKGTINPSL--LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQL 157
             G I P+L       L  L L  N F+G  IP  + + S+L  L LS   L+G IP  L
Sbjct: 380 FSGPILPNLCQNPKNTLQELYLQNNGFTGK-IPPTLSNCSELVSLHLSFNYLSGTIPSSL 438

Query: 158 GNLSRLQVLDLRFNNLFSSGNL-DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
           G+LS+L+ L L  N L   G +   L Y+ +L  L L    L+                 
Sbjct: 439 GSLSKLRDLKLWLNML--EGEIPQELMYVKTLETLILDFNDLT----------------- 479

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNR 276
              G   +P         L+   +L  I LSNN LT  I  W+     NL   + L +N 
Sbjct: 480 ---GE--IPS-------GLSNCTNLNWISLSNNRLTGEIPKWIGR-LENLA-ILKLSNNS 525

Query: 277 LHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYNELRGELSEFIQNV 335
             G+IP   G   SL +L L +N     +P  +   S      ++ N + G+   +I+N 
Sbjct: 526 FSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGK----IAANFIAGKRYVYIKN- 580

Query: 336 SSGSTKNSSLEWLYLASN--EITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSIL 393
                 +   +  + A N  E  G           L      +  +  + G         
Sbjct: 581 ------DGMKKECHGAGNLLEFQGIRSEQLN---RLSTRNPCNITSRVYGGHTSPTFDNN 631

Query: 394 GLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINH 453
           G +  +D+S N L G +P+EI  +  L  LNL +N+++G I   +G L+ L+ LDLS N 
Sbjct: 632 GSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNK 691

Query: 454 FFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLD 513
             G IP ++S L +L+ +DLS NN SG IP+  Q + F  + +  NP LCG PLP     
Sbjct: 692 LDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPRCDPS 751

Query: 514 EESAPSPSR 522
                +  +
Sbjct: 752 NADGYAHHQ 760

>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 =  264 bits (678), Expect = 3e-79
 Identities = 117/403 (29%), Positives = 177/403 (43%), Gaps = 56/403 (13%)

Query: 100 LKGTIN-PSLLKLQHLTYLDLSWNNFSGSPIPEF--IGSLSKLSELALSSAQLAGPIPHQ 156
           L         LKL  L  LDLS N+ SG+ +  +       +L  LA+S  +++G +   
Sbjct: 138 LDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD-- 195

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLS-KFSNWFQVLSNLRSLT 215
           +     L+ LD+  NN   S  + +L   S+L++LD+   KLS  FS     +S    L 
Sbjct: 196 VSRCVNLEFLDVSSNNF--STGIPFLGDCSALQHLDISGNKLSGDFSRA---ISTCTELK 250

Query: 216 TLYLGHCDLP-PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS 274
            L +       PI    L      KSL+ + L+ N  T  I  +L      L   +DL  
Sbjct: 251 LLNISSNQFVGPIPPLPL------KSLQYLSLAENKFTGEIPDFLSGACDTLT-GLDLSG 303

Query: 275 NRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPK-FLGNMSSLKMLVLSYNELRGELSEFI 332
           N  +G++P  FG  + L  L L SN    E+P   L  M  LK+L LS+NE  GEL E +
Sbjct: 304 NHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESL 363

Query: 333 QNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSI 392
            N+S+      SL  L L+SN  +G I                              ++ 
Sbjct: 364 TNLSA------SLLTLDLSSNNFSGPILPNLC-------------------------QNP 392

Query: 393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
              ++ + L +N   G++P  + +   LV+L+LS N L+G I   +G L  L  L L +N
Sbjct: 393 KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLN 452

Query: 453 HFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG----TQLQRF 491
              G IP  L  ++ L  + L +N+ +G+IP G    T L   
Sbjct: 453 MLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWI 495

>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 = 66.1 bits (162), Expect = 2e-11
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 4/72 (5%)

Query: 420 LVALNLSNNNLT---GQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYN 476
           + +++LS+  L      ++  +  L  L+ L LS +H  G +         L+ +DLS N
Sbjct: 52  VTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSG-FKCSASLTSLDLSRN 110

Query: 477 NFSGKIPKGTQL 488
           + SG +   T L
Sbjct: 111 SLSGPVTTLTSL 122

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 44.5 bits (106), Expect = 9e-05
 Identities = 12/52 (23%), Positives = 22/52 (42%)

Query: 439 GQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQR 490
            ++ S+D     +N  F  + SSL  L  L  + LS ++ +G +        
Sbjct: 50  DKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSAS 101

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score =  192 bits (490), Expect = 1e-56
 Identities = 74/308 (24%), Positives = 128/308 (41%), Gaps = 48/308 (15%)

Query: 208 LSNLRSLTTLYLGHCDL---PPISTPSLLHLNYSKSLEVIDLSN-NYLTNSIYPWLLNVS 263
            +    +  L L   +L    PI   SL +L     L  + +   N L   I P +  ++
Sbjct: 46  DTQTYRVNNLDLSGLNLPKPYPIP-SSLANL---PYLNFLYIGGINNLVGPIPPAIAKLT 101

Query: 264 SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR-EVPKFLGNMSSLKMLVLSYN 322
             L  ++ +    + G+IP     + +L  L    N L   +P  + ++ +L  +    N
Sbjct: 102 -QLH-YLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGN 159

Query: 323 ELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTW 382
            + G + +   + S           + ++ N +TG IP                      
Sbjct: 160 RISGAIPDSYGSFSK------LFTSMTISRNRLTGKIP---------------------- 191

Query: 383 KGGQYEYKSILGL-IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQL 441
                   +   L +  +DLS N L G+             ++L+ N+L   +  ++G  
Sbjct: 192 -------PTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDL-GKVGLS 243

Query: 442 KSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPE 501
           K+L+ LDL  N  +G +P  L++L+ L  +++S+NN  G+IP+G  LQRF  S YA N  
Sbjct: 244 KNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKC 303

Query: 502 LCGLPLPN 509
           LCG PLP 
Sbjct: 304 LCGSPLPA 311

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score =  191 bits (488), Expect = 2e-56
 Identities = 99/433 (22%), Positives = 155/433 (35%), Gaps = 135/433 (31%)

Query: 35  CLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCC--KWRGVRCSNKT--GHVLGLDLR 90
           C  ++K+ALL  K+ L + +  LSSW       +CC   W GV C   T    V  LDL 
Sbjct: 3   CNPQDKQALLQIKKDLGNPT-TLSSW---LPTTDCCNRTWLGVLCDTDTQTYRVNNLDLS 58

Query: 91  ALSDSPVDALKGT--INPSLLKLQHLTYLDLS-WNNFSGSPIPEFIGSLSKLSELALSSA 147
            L+      L     I  SL  L +L +L +   NN  G PIP  I  L++L  L ++  
Sbjct: 59  GLN------LPKPYPIPSSLANLPYLNFLYIGGINNLVG-PIPPAIAKLTQLHYLYITHT 111

Query: 148 QLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL-DWLSYLSSLRYLDLGDCKLSKFSNWFQ 206
            ++G IP  L  +  L  LD  +N L  SG L   +S L +L  +               
Sbjct: 112 NVSGAIPDFLSQIKTLVTLDFSYNAL--SGTLPPSISSLPNLVGI--------------- 154

Query: 207 VLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL 266
                                                     N ++ +I     + S  L
Sbjct: 155 --------------------------------------TFDGNRISGAIPDSYGSFSK-L 175

Query: 267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG 326
              + +  NRL G IP  F ++                        +L  + LS N L G
Sbjct: 176 FTSMTISRNRLTGKIPPTFANL------------------------NLAFVDLSRNMLEG 211

Query: 327 ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQ 386
           + S    +       + + + ++LA N +   +  +G                       
Sbjct: 212 DASVLFGS-------DKNTQKIHLAKNSLAFDLGKVGLSKN------------------- 245

Query: 387 YEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDF 446
                    +  +DL +N++ G +P+ +  L  L +LN+S NNL G+I P+ G L+  D 
Sbjct: 246 ---------LNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEI-PQGGNLQRFDV 295

Query: 447 LDLSINHFFGGIP 459
              + N    G P
Sbjct: 296 SAYANNKCLCGSP 308

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 96.1 bits (240), Expect = 6e-22
 Identities = 34/152 (22%), Positives = 54/152 (35%), Gaps = 32/152 (21%)

Query: 337 SGSTKNSSLEWLYLASNEITGTI---PNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSIL 393
              T+   +  L L+   +        +L   P +                         
Sbjct: 44  DTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYL------------------------- 78

Query: 394 GLIKIIDLSS-NKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
                + +   N L G +P  I  L  L  L +++ N++G I   + Q+K+L  LD S N
Sbjct: 79  ---NFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYN 135

Query: 453 HFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
              G +P S+S L  L  +    N  SG IP 
Sbjct: 136 ALSGTLPPSISSLPNLVGITFDGNRISGAIPD 167

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 77.2 bits (191), Expect = 1e-15
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ--ITPRIGQLKSLDFLDLS-INHFF 455
            D  +    G + +       +  L+LS  NL     I   +  L  L+FL +  IN+  
Sbjct: 31  TDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLV 90

Query: 456 GGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
           G IP ++++L  L  + +++ N SG IP
Sbjct: 91  GPIPPAIAKLTQLHYLYITHTNVSGAIP 118

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 68.7 bits (169), Expect = 8e-13
 Identities = 24/80 (30%), Positives = 33/80 (41%), Gaps = 3/80 (3%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L   +   +   ++L  LDL  N   G+ +P+ +  L  L  L +S   L G IP Q GN
Sbjct: 233 LAFDL-GKVGLSKNLNGLDLRNNRIYGT-LPQGLTQLKFLHSLNVSFNNLCGEIP-QGGN 289

Query: 160 LSRLQVLDLRFNNLFSSGNL 179
           L R  V     N       L
Sbjct: 290 LQRFDVSAYANNKCLCGSPL 309

>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 =  200 bits (510), Expect = 4e-56
 Identities = 81/392 (20%), Positives = 146/392 (37%), Gaps = 19/392 (4%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L    + +     +LT L L  N+               L  L LS   L+         
Sbjct: 85  LSQLSDKTFAFCTNLTELHLMSNSIQKIK-NNPFVKQKNLITLDLSHNGLSSTKLGTQVQ 143

Query: 160 LSRLQVLDLRFNNL--FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTL 217
           L  LQ L L  N +    S  LD  +  SSL+ L+L   ++ +FS        +  L  L
Sbjct: 144 LENLQELLLSNNKIQALKSEELDIFA-NSSLKKLELSSNQIKEFSP--GCFHAIGRLFGL 200

Query: 218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL 277
           +L +  L P  T  L     + S+  + LSN+ L+ +     L +    +  +DL  N L
Sbjct: 201 FLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNL 260

Query: 278 HGSIPVAFGHMASLRYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGELSE-FIQNV 335
           +     +F  +  L Y  L  N ++ +    L  + +++ L L  +  +  +S   +  +
Sbjct: 261 NVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKI 320

Query: 336 SSGSTKN-SSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFD----KITVTWKGGQYEY 389
              S +    LE L +  N+I G   N   G       L Y        ++     +   
Sbjct: 321 DDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLIN----LKYLSLSNSFTSLRTLTNETFV 376

Query: 390 KSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPR-IGQLKSLDFLD 448
                 + I++L+ NK+     +    L  L  L+L  N +  ++T +    L+++  + 
Sbjct: 377 SLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIY 436

Query: 449 LSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG 480
           LS N +     +S + +  L  + L       
Sbjct: 437 LSYNKYLQLTRNSFALVPSLQRLMLRRVALKN 468

>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 =  188 bits (480), Expect = 5e-52
 Identities = 90/427 (21%), Positives = 141/427 (33%), Gaps = 52/427 (12%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELAL---------SSAQLA 150
           L    N S   L  L Y  L +NN         +  L  +  L L         S A L 
Sbjct: 260 LNVVGNDSFAWLPQLEYFFLEYNNIQHLF-SHSLHGLFNVRYLNLKRSFTKQSISLASLP 318

Query: 151 GPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN 210
                    L  L+ L++  N++      +  + L +L+YL L +   S  +   +   +
Sbjct: 319 KIDDFSFQWLKCLEHLNMEDNDI-PGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVS 377

Query: 211 L--RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD 268
           L    L  L L    +  I + +   L     LEV+DL  N +   +         N+  
Sbjct: 378 LAHSPLHILNLTKNKISKIESDAFSWLG---HLEVLDLGLNEIGQELTGQEWRGLENIF- 433

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV---PKFLGNMSSLKMLVLSYNELR 325
            I L  N+       +F  + SL+ L L    L+ V   P     + +L +L LS N + 
Sbjct: 434 EIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIA 493

Query: 326 GELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGG 385
               + ++ +         LE L L  N +     +                      GG
Sbjct: 494 NINDDMLEGLEK-------LEILDLQHNNLARLWKH-------------------ANPGG 527

Query: 386 QYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLD 445
              +   L  + I++L SN       E   DL  L  ++L  NNL            SL 
Sbjct: 528 PIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLK 587

Query: 446 FLDLSINHFFGGIPSSLSR-LRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPEL-- 502
            L+L  N              R L+ +D+ +N F            +   T+   PEL  
Sbjct: 588 SLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIPELSS 647

Query: 503 ---CGLP 506
              C  P
Sbjct: 648 HYLCNTP 654

>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 =  181 bits (461), Expect = 2e-49
 Identities = 83/403 (20%), Positives = 145/403 (35%), Gaps = 30/403 (7%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L+     +  +   LT LD+ +N  S    PE    L  L  L L   +L+         
Sbjct: 37  LRRLPAANFTRYSQLTSLDVGFNTISKLE-PELCQKLPMLKVLNLQHNELSQLSDKTFAF 95

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
            + L  L L  N++    N +      +L  LDL    LS           L +L  L L
Sbjct: 96  CTNLTELHLMSNSIQKIKN-NPFVKQKNLITLDLSHNGLSSTKL--GTQVQLENLQELLL 152

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
            +  +  + +  L     S SL+ ++LS+N +          +    +  + L + +L  
Sbjct: 153 SNNKIQALKSEELDIFANS-SLKKLELSSNQIKEFSPGCFHAIGR--LFGLFLNNVQLGP 209

Query: 280 SIPVAFG---HMASLRYLGLLSNRLREVPK--FLG-NMSSLKMLVLSYNELRGELSEFIQ 333
           S+           S+R L L +++L       FLG   ++L ML LSYN L    ++   
Sbjct: 210 SLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFA 269

Query: 334 NVSSGSTKNSSLEWLYLASNEITGTIP----NLGGFPGMLMPLIYFDKITVTWKGGQYEY 389
            +         LE+ +L  N I          L     + +   +  +        + + 
Sbjct: 270 WL-------PQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDD 322

Query: 390 KSILGL--IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQI----TPRIGQLKS 443
            S   L  ++ +++  N + G        L+ L  L+LSN+  + +     T        
Sbjct: 323 FSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSP 382

Query: 444 LDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
           L  L+L+ N        + S L  L V+DL  N    ++    
Sbjct: 383 LHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQE 425

>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 =  175 bits (445), Expect = 3e-47
 Identities = 73/395 (18%), Positives = 142/395 (35%), Gaps = 58/395 (14%)

Query: 109 LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDL 168
           LK  +LT LDLS+NN +     +    L +L    L    +     H L  L  ++ L+L
Sbjct: 245 LKWTNLTMLDLSYNNLNVVG-NDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNL 303

Query: 169 RFN--------NLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
           + +              +     +L  L +L++ D  +    +   + + L +L  L L 
Sbjct: 304 KRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKS--NMFTGLINLKYLSLS 361

Query: 221 HCDL--PPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           +       ++  + + L +S  L +++L+ N ++  I     +   +L   +DLG N + 
Sbjct: 362 NSFTSLRTLTNETFVSLAHS-PLHILNLTKNKIS-KIESDAFSWLGHLE-VLDLGLNEIG 418

Query: 279 GSIPV-AFGHMASLRYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGELSEFIQNVS 336
             +    +  + ++  + L  N+  ++       + SL+ L+L    L+      + +  
Sbjct: 419 QELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKN-----VDSSP 473

Query: 337 SGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLI 396
           S      +L  L L++N I     ++    G                         L  +
Sbjct: 474 SPFQPLRNLTILDLSNNNIANINDDM--LEG-------------------------LEKL 506

Query: 397 KIIDLSSNKL--------GGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLD 448
           +I+DL  N L         G     +  L  L  LNL +N            L  L  +D
Sbjct: 507 EILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIID 566

Query: 449 LSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
           L +N+      S  +    L  ++L  N  +    
Sbjct: 567 LGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEK 601

>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 =  175 bits (445), Expect = 3e-47
 Identities = 76/392 (19%), Positives = 140/392 (35%), Gaps = 52/392 (13%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
             ++T L+L+ N     P   F    S+L+ L +    ++   P     L  L+VL+L+ 
Sbjct: 24  PTNITVLNLTHNQLRRLPAANF-TRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQH 82

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
           N L S  +    ++ ++L  L L    + K  N        ++L TL L H  L      
Sbjct: 83  NEL-SQLSDKTFAFCTNLTELHLMSNSIQKIKN--NPFVKQKNLITLDLSHNGLSSTKLG 139

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS 290
           + + L   ++L+ + LSNN +       L   +++ +  ++L SN++    P  F  +  
Sbjct: 140 TQVQL---ENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGR 196

Query: 291 LRYLGLLSNRLREVP----KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE 346
           L  L L + +L              +S++ L LS ++L         N +    K ++L 
Sbjct: 197 LFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLST-----TSNTTFLGLKWTNLT 251

Query: 347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKL 406
            L L+ N +     +   F                           L  ++   L  N +
Sbjct: 252 MLDLSYNNLNVVGNDS--FAW-------------------------LPQLEYFFLEYNNI 284

Query: 407 GGEVPEEIMDLVGLVALNLSNNNLTGQITPR---------IGQLKSLDFLDLSINHFFGG 457
                  +  L  +  LNL  +     I+              LK L+ L++  N   G 
Sbjct: 285 QHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGI 344

Query: 458 IPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQ 489
             +  + L  L  + LS +  S +        
Sbjct: 345 KSNMFTGLINLKYLSLSNSFTSLRTLTNETFV 376

>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 =  171 bits (435), Expect = 7e-46
 Identities = 75/382 (19%), Positives = 148/382 (38%), Gaps = 53/382 (13%)

Query: 114 LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL 173
               D S    +   +P+ +   + ++ L L+  QL           S+L  LD+ FN +
Sbjct: 6   HEVADCSHLKLTQ--VPDDL--PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTI 61

Query: 174 FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLL 233
            S    +    L  L+ L+L   +LS+ S+  +  +   +LT L+L    +  I     +
Sbjct: 62  -SKLEPELCQKLPMLKVLNLQHNELSQLSD--KTFAFCTNLTELHLMSNSIQKIKNNPFV 118

Query: 234 HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFG--HMASL 291
                K+L  +DLS+N L+++     + + +  +  + L +N++             +SL
Sbjct: 119 KQ---KNLITLDLSHNGLSSTKLGTQVQLEN--LQELLLSNNKIQALKSEELDIFANSSL 173

Query: 292 RYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL 350
           + L L SN+++E  P     +  L  L L+  +L   L+E +         N+S+  L L
Sbjct: 174 KKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCL----ELANTSIRNLSL 229

Query: 351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEV 410
           ++++++ T      F G+                           + ++DLS N L    
Sbjct: 230 SNSQLSTTSNTT--FLGLKWT-----------------------NLTMLDLSYNNLNVVG 264

Query: 411 PEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDL---------SINHFFGGIPSS 461
            +    L  L    L  NN+    +  +  L ++ +L+L         S+         S
Sbjct: 265 NDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFS 324

Query: 462 LSRLRLLSVMDLSYNNFSGKIP 483
              L+ L  +++  N+  G   
Sbjct: 325 FQWLKCLEHLNMEDNDIPGIKS 346

>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 =  108 bits (272), Expect = 7e-25
 Identities = 54/255 (21%), Positives = 86/255 (33%), Gaps = 46/255 (18%)

Query: 240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN 299
           S EV D S+  LT  +   L    +N+   ++L  N+L       F   + L  L +  N
Sbjct: 5   SHEVADCSHLKLT-QVPDDLP---TNIT-VLNLTHNQLRRLPAANFTRYSQLTSLDVGFN 59

Query: 300 RLREV-PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGT 358
            + ++ P+    +  LK+L L +NEL     +            ++L  L+L SN I   
Sbjct: 60  TISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAF-------CTNLTELHLMSNSIQKI 112

Query: 359 IPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGL--IKIIDLSSNKLGGEVPEEIMD 416
             N                               +    +  +DLS N L        + 
Sbjct: 113 KNN-----------------------------PFVKQKNLITLDLSHNGLSSTKLGTQVQ 143

Query: 417 LVGLVALNLSNNNLTGQI--TPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLS 474
           L  L  L LSNN +         I    SL  L+LS N      P     +  L  + L+
Sbjct: 144 LENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLN 203

Query: 475 YNNFSGKIPKGTQLQ 489
                  + +   L+
Sbjct: 204 NVQLGPSLTEKLCLE 218

>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 =  186 bits (474), Expect = 2e-51
 Identities = 67/397 (16%), Positives = 124/397 (31%), Gaps = 58/397 (14%)

Query: 102 GTINPSLLKLQHLTYLDLSWNNFSGSP-------IPEFIGSLSKLSELALSSAQLA-GPI 153
             +   L  L  +  ++++ N                      K+  + +    L   P+
Sbjct: 263 TKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPV 322

Query: 154 PHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRS 213
              L  + +L +L+  +N L   G L        L  L+L   ++++             
Sbjct: 323 ETSLQKMKKLGMLECLYNQL--EGKLPAFGSEIKLASLNLAYNQITEIPA--NFCGFTEQ 378

Query: 214 LTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL-----VD 268
           +  L   H  L  I  P++        +  ID S N + +        +         V 
Sbjct: 379 VENLSFAHNKLKYI--PNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVS 436

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF--------LGNMSSLKMLVLS 320
            I+L +N++       F   + L  + L+ N L E+PK           N   L  + L 
Sbjct: 437 SINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLR 496

Query: 321 YNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITV 380
           +N+L     +F       +T    L  + L+ N  +   P     P     L  F     
Sbjct: 497 FNKLTKLSDDF------RATTLPYLVGIDLSYNSFSK-FPT---QPLNSSTLKGFG---- 542

Query: 381 TWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQ 440
                         +    D   N+   E PE I     L  L + +N++   +  +I  
Sbjct: 543 --------------IRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRK-VNEKI-- 585

Query: 441 LKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNN 477
             ++  LD+  N       S +       +  L Y+ 
Sbjct: 586 TPNISVLDIKDNPNISIDLSYVCPYIEAGMYMLFYDK 622

>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 =  180 bits (458), Expect = 3e-49
 Identities = 73/504 (14%), Positives = 135/504 (26%), Gaps = 107/504 (21%)

Query: 37  DEEKEALLAFKQGLIDESGILSSWGREDEKRNC----------CKWR------------G 74
           D      L+     I +   L         +N             W             G
Sbjct: 15  DAIVPIKLSRTAEYIKDYLALKEIWDALNGKNWSQQGFGTQPGANWNFNKELDMWGAQPG 74

Query: 75  VRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSP---IPE 131
           V  ++  G V GL L            G +  ++ +L  L  L L  +    +     P+
Sbjct: 75  VSLNS-NGRVTGLSLEGFG------ASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPK 127

Query: 132 FIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL-DWLSYLSSLRY 190
            I +     +                       ++    N+     ++            
Sbjct: 128 GISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQ 187

Query: 191 LDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDL---PPISTPSLLHLNYSKSLEVIDLS 247
           +      ++  S        L  L   Y+G+               +  Y++  +  DL 
Sbjct: 188 IGQLSNNITFVSKAV---MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLK 244

Query: 248 NNYLTNSIYPWLLNVS------------SNLVDHIDLGSNRLH--------GSIPVAFGH 287
            + L +     + N                +   I++  NR                   
Sbjct: 245 WDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQ-LINVACNRGISGEQLKDDWQALADAPV 303

Query: 288 MASLRYLGLLSNRLREV--PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL 345
              ++ + +  N L+       L  M  L ML   YN+L G+L  F             L
Sbjct: 304 GEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAF--------GSEIKL 355

Query: 346 EWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNK 405
             L LA N+IT    N  GF   +                           + +  + NK
Sbjct: 356 ASLNLAYNQITEIPANFCGFTEQV---------------------------ENLSFAHNK 388

Query: 406 LGGEVPE--EIMDLVGLVALNLSNNNLTG-------QITPRIGQLKSLDFLDLSINHFFG 456
           L   +P   +   +  + A++ S N +          + P   +  ++  ++LS N    
Sbjct: 389 LK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISK 447

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSG 480
                 S    LS ++L  N  + 
Sbjct: 448 FPKELFSTGSPLSSINLMGNMLTE 471

>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 =  152 bits (386), Expect = 1e-39
 Identities = 48/373 (12%), Positives = 107/373 (28%), Gaps = 44/373 (11%)

Query: 123 NFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL 182
           +  G+     + S  +++ L+L     +G +P  +G L+ L+VL L  +    +  L   
Sbjct: 67  DMWGAQPGVSLNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGP 126

Query: 183 SYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDL--PPISTPSLLHLNYSKS 240
             +S+    +        +      +          L    +   P           +  
Sbjct: 127 KGISANMSDEQKQKMRMHYQK--TFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLK 184

Query: 241 LEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNR 300
              I   +N +T  +   ++   + L     +G++              +  Y       
Sbjct: 185 DTQIGQLSNNIT-FVSKAVMR-LTKLR-QFYMGNSPFVAENICEAWENENSEYAQQYKT- 240

Query: 301 LREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITG--T 358
                    N+  L  + +       +L  F++ +         ++ + +A N       
Sbjct: 241 ---EDLKWDNLKDLTDVEVYNCPNLTKLPTFLKAL-------PEMQLINVACNRGISGEQ 290

Query: 359 IPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKL-GGEVPEEIMDL 417
           + +                              +   I+II +  N L    V   +  +
Sbjct: 291 LKDDWQALADA---------------------PVGEKIQIIYIGYNNLKTFPVETSLQKM 329

Query: 418 VGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNN 477
             L  L    N L G++ P  G    L  L+L+ N       +       +  +  ++N 
Sbjct: 330 KKLGMLECLYNQLEGKL-PAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNK 388

Query: 478 FSGKIPKGTQLQR 490
               IP     + 
Sbjct: 389 LKY-IPNIFDAKS 400

>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 = 60.1 bits (146), Expect = 1e-09
 Identities = 14/94 (14%), Positives = 28/94 (29%), Gaps = 7/94 (7%)

Query: 420 LVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGG----IPSSLSRLRLLSVMDLSY 475
           +  L+L     +G++   IGQL  L+ L L  +          P  +S            
Sbjct: 83  VTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMR 142

Query: 476 NNFSGKIPKGTQLQRFGASTY---AGNPELCGLP 506
            ++          + F          +P+   + 
Sbjct: 143 MHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIK 176

>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 = 47.3 bits (113), Expect = 1e-05
 Identities = 12/88 (13%), Positives = 25/88 (28%), Gaps = 4/88 (4%)

Query: 86  GLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALS 145
           G  +R   D+  +         +     LT L +  N+     + E I     +S L + 
Sbjct: 540 GFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRK--VNEKI--TPNISVLDIK 595

Query: 146 SAQLAGPIPHQLGNLSRLQVLDLRFNNL 173
                      +       +  L ++  
Sbjct: 596 DNPNISIDLSYVCPYIEAGMYMLFYDKT 623

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

 Score =  176 bits (447), Expect = 6e-47
 Identities = 70/471 (14%), Positives = 145/471 (30%), Gaps = 91/471 (19%)

Query: 87  LDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSP------------------ 128
           + L+      +      I+ ++ +L  L  +  + + F+                     
Sbjct: 423 ISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYEN 482

Query: 129 IPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL--------D 180
                 +L  L+++ L +      +P  L +L  LQ L++  N   S+  L        D
Sbjct: 483 EELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLAD 542

Query: 181 WLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKS 240
                  ++   +G   L +F      L  +  L  L   H  +  +   +         
Sbjct: 543 DEDTGPKIQIFYMGYNNLEEFPAS-ASLQKMVKLGLLDCVHNKVRHL--EAFGTN---VK 596

Query: 241 LEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP--VAFGHMASLRYLGLLS 298
           L  + L  N +   I       +  +   +    N+L   IP       +  +  +    
Sbjct: 597 LTDLKLDYNQIE-EIPEDFCAFTDQVE-GLGFSHNKLK-YIPNIFNAKSVYVMGSVDFSY 653

Query: 299 NRLREVPKFLG------NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLAS 352
           N++    + +          +   + LSYNE++   +E            S +  + L++
Sbjct: 654 NKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFAT-------GSPISTIILSN 706

Query: 353 NEITGTIPN--LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEV 410
           N +T +IP   L    G                           L+  IDL  NKL   +
Sbjct: 707 NLMT-SIPENSLKPKDGNY---------------------KNTYLLTTIDLRFNKLT-SL 743

Query: 411 PEEIM--DLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDL------SINHFFGGIPSSL 462
            ++     L  L  +++S N  +     +      L    +        N      P+ +
Sbjct: 744 SDDFRATTLPYLSNMDVSYNCFSS-FPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGI 802

Query: 463 SRLRLLSVMDLSYNNFSGKIPKG--TQLQRFGASTYAGNPELCGLPLPNKC 511
           +    L  + +  N+   K+ +    QL     +    NP    + + + C
Sbjct: 803 TTCPSLIQLQIGSNDIR-KVDEKLTPQLYILDIA---DNP-NISIDVTSVC 848

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

 Score =  176 bits (447), Expect = 6e-47
 Identities = 59/398 (14%), Positives = 126/398 (31%), Gaps = 58/398 (14%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSP--------IPEFIGSLSKLSELALSSAQLAG 151
               +   L  L  L  L+++ N    +         + +   +  K+    +    L  
Sbjct: 503 NMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEE 562

Query: 152 -PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN 210
            P    L  + +L +LD   N +    +L+       L  L L   ++ +        + 
Sbjct: 563 FPASASLQKMVKLGLLDCVHNKV---RHLEAFGTNVKLTDLKLDYNQIEEIPE--DFCAF 617

Query: 211 LRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLT---NSIYPWLLNVSSNLV 267
              +  L   H  L  I  P++ +      +  +D S N +     +I   + +      
Sbjct: 618 TDQVEGLGFSHNKLKYI--PNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINA 675

Query: 268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK--------FLGNMSSLKMLVL 319
             + L  N +       F   + +  + L +N +  +P+           N   L  + L
Sbjct: 676 STVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDL 735

Query: 320 SYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKIT 379
            +N+L     +F       +T    L  + ++ N  + + P     P     L       
Sbjct: 736 RFNKLTSLSDDF------RATTLPYLSNMDVSYNCFS-SFPT---QPLNSSQLKA----- 780

Query: 380 VTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIG 439
                         G+    D   N++  + P  I     L+ L + +N++   +  ++ 
Sbjct: 781 -------------FGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRK-VDEKL- 825

Query: 440 QLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNN 477
               L  LD++ N       +S+       +  L Y+ 
Sbjct: 826 -TPQLYILDIADNPNISIDVTSVCPYIEAGMYVLLYDK 862

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

 Score =  167 bits (424), Expect = 5e-44
 Identities = 72/472 (15%), Positives = 138/472 (29%), Gaps = 87/472 (18%)

Query: 46  FKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTIN 105
           +  G I+ +    +W    E        GV   N  G V GL L           KG + 
Sbjct: 288 YYSGTINNTIHSLNWNFNKELDMWGDQPGVDLDNN-GRVTGLSLAGFG------AKGRVP 340

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            ++ +L  L  L    ++ + S        L+                   L    RL +
Sbjct: 341 DAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNL 400

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVL----SNLRSLTTLYLGH 221
            DL  + +  +  +     +     + L D ++   +N    +      L  L  +Y  +
Sbjct: 401 SDLLQDAINRNPEM---KPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFAN 457

Query: 222 CDL---PPISTPSLLHLNYS-------------KSLEVIDLSNNYLTNSIYPWLLNVSSN 265
                          + +Y+             K L  ++L N      +  +L ++   
Sbjct: 458 SPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLP-E 516

Query: 266 LVDHIDLGSNRLHG---------SIPVAFGHMASLRYLGLLSNRLREVPK--FLGNMSSL 314
           L   +++  NR             +         ++   +  N L E P    L  M  L
Sbjct: 517 LQ-SLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKL 575

Query: 315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIY 374
            +L   +N++R  L  F          N  L  L L  N+I     +   F   +     
Sbjct: 576 GLLDCVHNKVR-HLEAF--------GTNVKLTDLKLDYNQIEEIPEDFCAFTDQV----- 621

Query: 375 FDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPE--EIMDLVGLVALNLSNNNLTG 432
                                 + +  S NKL   +P       +  + +++ S N +  
Sbjct: 622 ----------------------EGLGFSHNKLK-YIPNIFNAKSVYVMGSVDFSYNKIGS 658

Query: 433 Q-----ITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
           +      +    +  +   + LS N          +    +S + LS N  +
Sbjct: 659 EGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMT 710

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

 Score =  103 bits (259), Expect = 3e-23
 Identities = 50/364 (13%), Positives = 111/364 (30%), Gaps = 54/364 (14%)

Query: 135 SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG 194
            L+K + + +   + A  I       +  + LD + N  + SG ++   +  +  +    
Sbjct: 250 KLTKDANVPIQLKETAEYIKDYKALKAIWEALDGK-NWRYYSGTINNTIHSLNWNF---- 304

Query: 195 DCKLSKFSNWFQV-LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
           + +L  + +   V L N   +T L L           ++  L     L+V+    +  T 
Sbjct: 305 NKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQL---TELKVLSFGTHSETV 361

Query: 254 SIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSS 313
           S   +     +  +        R+H    +   +   L    LL + +   P+ +  +  
Sbjct: 362 SGRLFGDEELTPDMSEERKHRIRMH-YKKMFLDYDQRLNLSDLLQDAINRNPE-MKPIKK 419

Query: 314 LKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLI 373
              + L   ++   L+  I  +S    + + L+ +Y A++  T     +           
Sbjct: 420 DSRISLKDTQIGN-LTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDW--------- 469

Query: 374 YFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ 433
                                  +  +    K          +L  L  + L N     Q
Sbjct: 470 -----------------------EDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQ 506

Query: 434 ITPRIGQLKSLDFLDLSINHF---------FGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
           +   +  L  L  L+++ N           +  +         + +  + YNN     P 
Sbjct: 507 LPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEE-FPA 565

Query: 485 GTQL 488
              L
Sbjct: 566 SASL 569

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

 Score = 90.3 bits (224), Expect = 5e-19
 Identities = 33/238 (13%), Positives = 68/238 (28%), Gaps = 16/238 (6%)

Query: 260 LNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMS-SLKMLV 318
           L+ +  +   + L      G +P A G +  L+ L   ++      +  G+   +  M  
Sbjct: 319 LDNNGRVT-GLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSE 377

Query: 319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKI 378
              + +R    +           +  L    L  + I    P +          +   +I
Sbjct: 378 ERKHRIRMHYKKMF------LDYDQRLNLSDLLQDAINR-NPEMKPIKKDSRISLKDTQI 430

Query: 379 TVTWKGGQYEYKSILGL--IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITP 436
                   +  K+I  L  ++II  +++    +        V     N            
Sbjct: 431 GNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIA-----VDWEDANSDYAKQYENEEL 485

Query: 437 RIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGAS 494
               LK L  ++L        +P  L  L  L  ++++ N             R    
Sbjct: 486 SWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADD 543

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

 Score = 80.7 bits (199), Expect = 6e-16
 Identities = 25/157 (15%), Positives = 47/157 (29%), Gaps = 14/157 (8%)

Query: 102 GTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS 161
              + +      LT +DL +N  +         +L  LS + +S    +   P Q  N S
Sbjct: 718 KPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSS-FPTQPLNSS 776

Query: 162 RLQVLDLRFNNLFSSGNL-----DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
           +L+   +R         +       ++   SL  L +G   + K             L  
Sbjct: 777 QLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL-----TPQLYI 831

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
           L +       I   S+          +  L  +   +
Sbjct: 832 LDIADNPNISIDVTSVCPY---IEAGMYVLLYDKTQD 865

>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 =  171 bits (435), Expect = 3e-46
 Identities = 71/398 (17%), Positives = 139/398 (34%), Gaps = 37/398 (9%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           ++   + +   L HL+ L L+ N             LS L +L      LA      +G+
Sbjct: 64  IQTIEDGAYQSLSHLSTLILTGNPIQSLA-LGAFSGLSSLQKLVAVETNLASLENFPIGH 122

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFS-NWFQVLSNLR-SLTTL 217
           L  L+ L++  N + S    ++ S L++L +LDL   K+        +VL  +     +L
Sbjct: 123 LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSL 182

Query: 218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL-VDHIDLGSNR 276
            L    +  I   +   +     L  + L NN+ + ++    +   + L V  + LG  R
Sbjct: 183 DLSLNPMNFIQPGAFKEIR----LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFR 238

Query: 277 LHGSIP-VAFGHMASLRYLGLLSNRLR-------EVPKFLGNMSSLKMLVLSYNELRGEL 328
             G++       +  L  L +   RL        ++      ++++    L    +    
Sbjct: 239 NEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVK 298

Query: 329 SEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYE 388
                      + N   + L L + +               +  + F          + +
Sbjct: 299 D---------FSYNFGWQHLELVNCKFGQ----FPTLKLKSLKRLTFTSNKGGNAFSEVD 345

Query: 389 YKSILGLIKIIDLSSNKLG--GEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDF 446
               L  ++ +DLS N L   G   +       L  L+LS N +   ++     L+ L+ 
Sbjct: 346 ----LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEH 400

Query: 447 LDLSINHFFGGIPSS-LSRLRLLSVMDLSYNNFSGKIP 483
           LD   ++       S    LR L  +D+S+ +      
Sbjct: 401 LDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN 438

>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 =  165 bits (420), Expect = 3e-44
 Identities = 71/393 (18%), Positives = 122/393 (31%), Gaps = 58/393 (14%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG------PIPHQ 156
            I P   K   L  L L  N  S + +   I  L+ L    L   +              
Sbjct: 191 FIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSA 250

Query: 157 LGNLSRLQVLDLRFNNLFSSGNL--DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL 214
           L  L  L + + R   L    +   D  + L+++    L    + +  +     S     
Sbjct: 251 LEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKD----FSYNFGW 306

Query: 215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS 274
             L L +C      T  L  L          L+            +++ S  ++ +DL  
Sbjct: 307 QHLELVNCKFGQFPTLKLKSLKR--------LTFTSNKGGNAFSEVDLPS--LEFLDLSR 356

Query: 275 NRLH--GSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFI 332
           N L   G    +     SL+YL L  N +  +      +  L+ L   ++ L+       
Sbjct: 357 NGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSE--- 413

Query: 333 QNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSI 392
               S      +L +L ++          +  F G                         
Sbjct: 414 ---FSVFLSLRNLIYLDISHTHTRVAFNGI--FNG------------------------- 443

Query: 393 LGLIKIIDLSSNKLGGEVPEEIM-DLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSI 451
           L  ++++ ++ N        +I  +L  L  L+LS   L          L SL  L++S 
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503

Query: 452 NHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
           N+FF         L  L V+D S N+      +
Sbjct: 504 NNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQ 536

>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 =  162 bits (412), Expect = 3e-43
 Identities = 75/415 (18%), Positives = 135/415 (32%), Gaps = 68/415 (16%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L    N  +  L+ L  L+++ N      +PE+  +L+ L  L LSS ++       L  
Sbjct: 112 LASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRV 171

Query: 160 LSRLQV----LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKF--SNWFQVLSNLRS 213
           L ++ +    LDL  N +  +           L  L L +   S        Q L+ L  
Sbjct: 172 LHQMPLLNLSLDLSLNPM--NFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEV 229

Query: 214 LTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS--IYPWLLNVSSNLVDHID 271
              +     +   +       L    +L + +    YL         L N  +N+     
Sbjct: 230 HRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVS-SFS 288

Query: 272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF--------------------LGNM 311
           L S  +      ++      ++L L++ +  + P                        ++
Sbjct: 289 LVSVTIERVKDFSY--NFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDL 346

Query: 312 SSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMP 371
            SL+ L LS N L      F    S      +SL++L L+ N +     N  G       
Sbjct: 347 PSLEFLDLSRNGLS-----FKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQ---- 397

Query: 372 LIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI-MDLVGLVALNLSNNNL 430
                                   ++ +D   + L       + + L  L+ L++S+ + 
Sbjct: 398 ------------------------LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT 433

Query: 431 TGQITPRIGQLKSLDFLDLSINHFFGGI-PSSLSRLRLLSVMDLSYNNFSGKIPK 484
                     L SL+ L ++ N F     P   + LR L+ +DLS        P 
Sbjct: 434 RVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT 488

>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 =  158 bits (401), Expect = 1e-41
 Identities = 69/394 (17%), Positives = 128/394 (32%), Gaps = 56/394 (14%)

Query: 87  LDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSS 146
           L +     + +D     I      L +++   L            +         L L +
Sbjct: 257 LTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSY---NFGWQHLELVN 313

Query: 147 AQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQ 206
            +       +L +L RL     +  N FS  +      L SL +LDL    LS      Q
Sbjct: 314 CKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVD------LPSLEFLDLSRNGLSFKGCCSQ 367

Query: 207 VLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL 266
                 SL  L L    +  +S  + L L     LE +D  ++ L       +     NL
Sbjct: 368 SDFGTTSLKYLDLSFNGVITMS-SNFLGLE---QLEHLDFQHSNLKQMSEFSVFLSLRNL 423

Query: 267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE--VPKFLGNMSSLKMLVLSYNEL 324
           + ++D+       +    F  ++SL  L +  N  +E  +P     + +L  L LS  +L
Sbjct: 424 I-YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 482

Query: 325 RGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWK 383
                    ++       SSL+ L ++ N                               
Sbjct: 483 EQLSPTAFNSL-------SSLQVLNMSHNNFFSLDTFPYKCLNS---------------- 519

Query: 384 GGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVG-LVALNLSNNNLTG--QITPRIGQ 440
                       ++++D S N +     +E+      L  LNL+ N+     +    +  
Sbjct: 520 ------------LQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQW 567

Query: 441 LKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLS 474
           +K    L + +       PS    + +LS+ +++
Sbjct: 568 IKDQRQLLVEVERMECATPSDKQGMPVLSL-NIT 600

>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 =  151 bits (384), Expect = 2e-39
 Identities = 76/384 (19%), Positives = 120/384 (31%), Gaps = 35/384 (9%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
           P +  + ++TY      NF    IP+ +        L LS   L     +   +   LQV
Sbjct: 2   PCVEVVPNITY-QCMELNFYK--IPDNL--PFSTKNLDLSFNPLRHLGSYSFFSFPELQV 56

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           LDL    +  +        LS L  L L    +   +      S L SL  L     +L 
Sbjct: 57  LDLSRCEI-QTIEDGAYQSLSHLSTLILTGNPIQSLAL--GAFSGLSSLQKLVAVETNLA 113

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            +    + HL   K+L+ +++++N + +   P   +  +NL  H+DL SN++        
Sbjct: 114 SLENFPIGHL---KTLKELNVAHNLIQSFKLPEYFSNLTNLE-HLDLSSNKIQSIYCTDL 169

Query: 286 GHMASLRY----LGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK 341
             +  +      L L  N +  +         L  L L  N     + +           
Sbjct: 170 RVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQ------G 223

Query: 342 NSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGL------ 395
            + LE   L   E              L  L              Y    I+ L      
Sbjct: 224 LAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTN 283

Query: 396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF 455
           +    L S  +     ++     G   L L N       T ++  LK L F         
Sbjct: 284 VSSFSLVSVTIER--VKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGG--- 338

Query: 456 GGIPSSLSRLRLLSVMDLSYNNFS 479
                S   L  L  +DLS N  S
Sbjct: 339 --NAFSEVDLPSLEFLDLSRNGLS 360

>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 =  132 bits (334), Expect = 6e-33
 Identities = 64/295 (21%), Positives = 102/295 (34%), Gaps = 20/295 (6%)

Query: 78  SNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGS-PIPEFIGSL 136
           + K G    L L++L      + KG    S + L  L +LDLS N  S      +     
Sbjct: 313 NCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGT 372

Query: 137 SKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDC 196
           + L  L LS   +   +      L +L+ LD + +NL           L +L YLD+   
Sbjct: 373 TSLKYLDLSFNGVIT-MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT 431

Query: 197 KLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIY 256
                 N   + + L SL  L +          P +      ++L  +DLS   L     
Sbjct: 432 HTRVAFN--GIFNGLSSLEVLKMAGNSFQENFLPDIFT--ELRNLTFLDLSQCQLEQLS- 486

Query: 257 PWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK--FLGNMSSL 314
           P   N  S+L   +++  N         +  + SL+ L    N +    K       SSL
Sbjct: 487 PTAFNSLSSLQ-VLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSL 545

Query: 315 KMLVLSYNELRG--ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP-NLGGFP 366
             L L+ N+     E   F+Q +         +         +    P +  G P
Sbjct: 546 AFLNLTQNDFACTCEHQSFLQWIKDQRQLLVEV-------ERMECATPSDKQGMP 593

>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 = 68.1 bits (167), Expect = 3e-12
 Identities = 19/88 (21%), Positives = 26/88 (29%)

Query: 396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF 455
            K +DLS N L             L  L+LS   +          L  L  L L+ N   
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 456 GGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
                + S L  L  +     N +    
Sbjct: 90  SLALGAFSGLSSLQKLVAVETNLASLEN 117

>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 = 65.4 bits (160), Expect = 2e-11
 Identities = 21/139 (15%), Positives = 40/139 (28%), Gaps = 29/139 (20%)

Query: 343 SSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDL 401
            S + L L+ N +          FP                             ++++DL
Sbjct: 28  FSTKNLDLSFNPLRHLGSYSFFSFPE----------------------------LQVLDL 59

Query: 402 SSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSS 461
           S  ++          L  L  L L+ N +          L SL  L     +        
Sbjct: 60  SRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP 119

Query: 462 LSRLRLLSVMDLSYNNFSG 480
           +  L+ L  +++++N    
Sbjct: 120 IGHLKTLKELNVAHNLIQS 138

>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 = 14/60 (23%), Positives = 17/60 (28%), Gaps = 3/60 (5%)

Query: 424 NLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
                N   +I   +    S   LDLS N        S      L V+DLS         
Sbjct: 13  QCMELNFY-KIPDNL--PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIED 69

>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 =  170 bits (432), Expect = 9e-46
 Identities = 72/412 (17%), Positives = 119/412 (28%), Gaps = 42/412 (10%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           +      +      L  L L+ N          +     L  L      ++      L N
Sbjct: 69  IYWIHEDTFQSQHRLDTLVLTANPLIFMA-ETALSGPKALKHLFFIQTGISSIDFIPLHN 127

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFS-NWFQVLSNLR------ 212
              L+ L L  N++ SS  L        L+ LD  +  +   S      L          
Sbjct: 128 QKTLESLYLGSNHI-SSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNL 186

Query: 213 ----------------SLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIY 256
                              +L  G      +    L +     SL +    +    +   
Sbjct: 187 NGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQ-SLWLGTFEDMDDEDISP 245

Query: 257 PWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKM 316
                +    V+ I+L  +         F   + L+ L L +  L E+P  L  +S+LK 
Sbjct: 246 AVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKK 305

Query: 317 LVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD 376
           LVLS N+          N         SL  L +  N     +   G    +   L   D
Sbjct: 306 LVLSANKFENLCQISASNF-------PSLTHLSIKGNTKRLELGT-GCLENLEN-LRELD 356

Query: 377 ----KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTG 432
                I  +           L  ++ ++LS N+      E   +   L  L+L+   L  
Sbjct: 357 LSHDDIETSDCCNLQLRN--LSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKV 414

Query: 433 QITPRI-GQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
           +        L  L  L+LS +            L  L  ++L  N+F     
Sbjct: 415 KDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNI 466

>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 =  160 bits (406), Expect = 3e-42
 Identities = 80/397 (20%), Positives = 147/397 (37%), Gaps = 28/397 (7%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           +       L   + L  L L  N+ S   +P+      KL  L   +  +       + +
Sbjct: 117 ISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFP-TEKLKVLDFQNNAIHYLSKEDMSS 175

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           L +   L L  N    +G        +  + L+ G  +           S ++SL     
Sbjct: 176 LQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTF 235

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
              D   IS P++       S+E I+L  +Y   +I     +  S L   +DL +  L  
Sbjct: 236 EDMDDEDIS-PAVFEGLCEMSVESINLQKHYFF-NISSNTFHCFSGLQ-ELDLTATHLS- 291

Query: 280 SIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGEL-SEFIQNVSS 337
            +P     +++L+ L L +N+   + +    N  SL  L +  N  R EL +  ++N+ +
Sbjct: 292 ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLEN 351

Query: 338 GSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD----KITVTWKGGQYEYKSIL 393
                  L  L L+ ++I  +         +   L   +    +                
Sbjct: 352 -------LRELDLSHDDIETSDCCNLQLRNLSH-LQSLNLSYNEPLSLKTEA----FKEC 399

Query: 394 GLIKIIDLSSNKLGGEVPEEIM-DLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
             ++++DL+  +L  +  +    +L  L  LNLS++ L          L +L  L+L  N
Sbjct: 400 PQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGN 459

Query: 453 HFFGGI---PSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
           HF  G     +SL  L  L ++ LS+ + S  I +  
Sbjct: 460 HFPKGNIQKTNSLQTLGRLEILVLSFCDLSS-IDQHA 495

>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 =  157 bits (400), Expect = 1e-41
 Identities = 79/379 (20%), Positives = 120/379 (31%), Gaps = 45/379 (11%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIG-SLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
               +Q L        +        F G     +  + L          +     S LQ 
Sbjct: 223 KNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQE 282

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           LDL   +L  S     L  LS+L+ L L   K           SN  SLT L +      
Sbjct: 283 LDLTATHL--SELPSGLVGLSTLKKLVLSANKFENLCQ--ISASNFPSLTHLSIKGNTK- 337

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNS-IYPWLLNVSSNLVDHIDLGSNRLHGSIPVA 284
                    L   ++L  +DLS++ +  S      L   S+L   ++L  N        A
Sbjct: 338 -RLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHL-QSLNLSYNEPLSLKTEA 395

Query: 285 FGHMASLRYLGLLSNRLREVPK--FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN 342
           F     L  L L   RL+         N+  LK+L LS++ L     +            
Sbjct: 396 FKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDG-------L 448

Query: 343 SSLEWLYLASNEITGTIP-NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDL 401
            +L+ L L  N                                        LG ++I+ L
Sbjct: 449 PALQHLNLQGNHFPKGNIQKTNSLQT-------------------------LGRLEILVL 483

Query: 402 SSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSS 461
           S   L          L  +  ++LS+N LT      +  LK + +L+L+ NH    +PS 
Sbjct: 484 SFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASNHISIILPSL 542

Query: 462 LSRLRLLSVMDLSYNNFSG 480
           L  L     ++L  N    
Sbjct: 543 LPILSQQRTINLRQNPLDC 561

>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 =  154 bits (391), Expect = 2e-40
 Identities = 71/379 (18%), Positives = 119/379 (31%), Gaps = 41/379 (10%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
               L+ S+N         F   L  L+ L L+  Q+         +  RL  L L  N 
Sbjct: 34  STECLEFSFNVLPTIQNTTF-SRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP 92

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSL 232
           L        LS   +L++L      +S        L N ++L +LYLG   +  I  P  
Sbjct: 93  L-IFMAETALSGPKALKHLFFIQTGISSIDF--IPLHNQKTLESLYLGSNHISSIKLPKG 149

Query: 233 LHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL-VDHIDLGSNRLHGSIPVAFGHMASL 291
                 + L+V+D  NN +   +    ++         ++L  N +   I       A  
Sbjct: 150 FPT---EKLKVLDFQNNAIH-YLSKEDMSSLQQATNLSLNLNGNDI-AGIEPGAFDSAVF 204

Query: 292 RYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLA 351
           + L     +   V      + +  +  L          E I           S+E + L 
Sbjct: 205 QSLNFGGTQNLLVI--FKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQ 262

Query: 352 SNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVP 411
            +       N   F                              ++ +DL++  L  E+P
Sbjct: 263 KHYFFNISSNT--FHC-------------------------FSGLQELDLTATHL-SELP 294

Query: 412 EEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS-SLSRLRLLSV 470
             ++ L  L  L LS N              SL  L +  N     + +  L  L  L  
Sbjct: 295 SGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRE 354

Query: 471 MDLSYNNFSGKIPKGTQLQ 489
           +DLS+++         QL+
Sbjct: 355 LDLSHDDIETSDCCNLQLR 373

>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 =  150 bits (380), Expect = 6e-39
 Identities = 68/382 (17%), Positives = 126/382 (32%), Gaps = 52/382 (13%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
                + +      L  LDL+  + S   +P  +  LS L +L LS+ +          N
Sbjct: 266 FFNISSNTFHCFSGLQELDLTATHLSE--LPSGLVGLSTLKKLVLSANKFENLCQISASN 323

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
              L  L ++ N          L  L +LR LDL    +         L NL  L +L L
Sbjct: 324 FPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNL 383

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
            + +   + T +         LE++DL+   L              L   ++L  + L  
Sbjct: 384 SYNEPLSLKTEAFKEC---PQLELLDLAFTRLKVKDAQSPFQNLHLLK-VLNLSHSLLDI 439

Query: 280 SIPVAFGHMASLRYLGLLSNRLREV----PKFLGNMSSLKMLVLSYNELRGELSEFIQNV 335
           S    F  + +L++L L  N   +        L  +  L++LVLS+ +L         ++
Sbjct: 440 SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSL 499

Query: 336 SSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGL 395
                    +  + L+ N +T +         +                           
Sbjct: 500 -------KMMNHVDLSHNRLTSSSIEA--LSHL--------------------------K 524

Query: 396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF 455
              ++L+SN +   +P  +  L     +NL  N L    T        L++   ++    
Sbjct: 525 GIYLNLASNHISIILPSLLPILSQQRTINLRQNPLDC--TCSNIYF--LEWYKENMQKLE 580

Query: 456 GGIP---SSLSRLRLLSVMDLS 474
                   +   LR + + D++
Sbjct: 581 DTEDTLCENPPLLRGVRLSDVT 602

>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 =  147 bits (374), Expect = 4e-38
 Identities = 60/372 (16%), Positives = 115/372 (30%), Gaps = 45/372 (12%)

Query: 117 LDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSS 176
            +      +   IP  +   +    L  S   L          L  L  LDL    ++  
Sbjct: 17  YNCENLGLNE--IPGTL--PNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWI 72

Query: 177 GNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLN 236
              D       L  L L    L   +     LS  ++L  L+     +  I    L +  
Sbjct: 73  HE-DTFQSQHRLDTLVLTANPLIFMAE--TALSGPKALKHLFFIQTGISSIDFIPLHNQ- 128

Query: 237 YSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLR--YL 294
             K+LE + L +N++++   P     +  L   +D  +N +H         +       L
Sbjct: 129 --KTLESLYLGSNHISSIKLPKGFP-TEKLK-VLDFQNNAIHYLSKEDMSSLQQATNLSL 184

Query: 295 GLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNE 354
            L  N +  +     + +  + L     +    + + ++N     +   SL        +
Sbjct: 185 NLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKN-----STIQSLWLGTFEDMD 239

Query: 355 ITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI 414
                P +  F G+    +                       + I+L  +          
Sbjct: 240 DEDISPAV--FEGLCEMSV-----------------------ESINLQKHYFFNISSNTF 274

Query: 415 MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLS 474
               GL  L+L+  +L+ ++   +  L +L  L LS N F      S S    L+ + + 
Sbjct: 275 HCFSGLQELDLTATHLS-ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIK 333

Query: 475 YNNFSGKIPKGT 486
            N    ++  G 
Sbjct: 334 GNTKRLELGTGC 345

>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 =  147 bits (374), Expect = 4e-38
 Identities = 76/396 (19%), Positives = 141/396 (35%), Gaps = 31/396 (7%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLS--ELALSSAQLAGPIPHQL 157
           +     P     + L  LD   N        E + SL + +   L L+   +AG I    
Sbjct: 141 ISSIKLPKGFPTEKLKVLDFQNNAIHYLS-KEDMSSLQQATNLSLNLNGNDIAG-IEPGA 198

Query: 158 GNLSRLQVLDLRFN-NLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
            + +  Q L+     NL         S + SL      D      S          S+ +
Sbjct: 199 FDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVES 258

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNR 276
           + L       IS+ +         L+ +DL+  +L+  +   L+ +S+  +  + L +N+
Sbjct: 259 INLQKHYFFNISSNTFHCF---SGLQELDLTATHLS-ELPSGLVGLST--LKKLVLSANK 312

Query: 277 LHGSIPVAFGHMASLRYLGLLSNRLR--EVPKFLGNMSSLKMLVLSYNELRGELSEFIQN 334
                 ++  +  SL +L +  N  R       L N+ +L+ L LS++++          
Sbjct: 313 FENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIE-----TSDC 367

Query: 335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD----KITVTWKGGQYEYK 390
            +      S L+ L L+ NE                 L   D    ++ V      +   
Sbjct: 368 CNLQLRNLSHLQSLNLSYNEPLSLKTEA---FKECPQLELLDLAFTRLKVKDAQSPF--- 421

Query: 391 SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIG---QLKSLDFL 447
             L L+K+++LS + L     +    L  L  LNL  N+       +      L  L+ L
Sbjct: 422 QNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEIL 481

Query: 448 DLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
            LS          + + L++++ +DLS+N  +    
Sbjct: 482 VLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSI 517

>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 =  147 bits (374), Expect = 5e-38
 Identities = 66/395 (16%), Positives = 122/395 (30%), Gaps = 52/395 (13%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L    N +  +L +LT+LDL+          +   S  +L  L L++  L       L  
Sbjct: 45  LPTIQNTTFSRLINLTFLDLTRCQIYWIH-EDTFQSQHRLDTLVLTANPLIFMAETALSG 103

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
              L+ L      + S      L    +L  L LG   +S              L  L  
Sbjct: 104 PKALKHLFFIQTGISSIDF-IPLHNQKTLESLYLGSNHISSIK--LPKGFPTEKLKVLDF 160

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
            +  +  +S   +  L  + +L  ++L+ N +   I P   + +      ++ G  +   
Sbjct: 161 QNNAIHYLSKEDMSSLQQATNLS-LNLNGNDIA-GIEPGAFDSAVFQ--SLNFGGTQNLL 216

Query: 280 SIP--VAFGHMASLRYLGLLSNRLREVPKFL---GNMSSLKMLVLSYNELRGELSEFIQN 334
            I   +    + SL           ++   +       S++ + L  +      S     
Sbjct: 217 VIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHC 276

Query: 335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG 394
                   S L+ L L +  ++     L G                              
Sbjct: 277 -------FSGLQELDLTATHLSELPSGLVGLST--------------------------- 302

Query: 395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPR-IGQLKSLDFLDLSINH 453
            +K + LS+NK          +   L  L++  N    ++    +  L++L  LDLS + 
Sbjct: 303 -LKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDD 361

Query: 454 --FFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
                     L  L  L  ++LSYN     +    
Sbjct: 362 IETSDCCNLQLRNLSHLQSLNLSYNEPLS-LKTEA 395

>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 = 87.8 bits (218), Expect = 2e-18
 Identities = 35/252 (13%), Positives = 70/252 (27%), Gaps = 41/252 (16%)

Query: 242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRL 301
           +  +  N  L   I P    + ++    ++   N L       F  + +L +L L   ++
Sbjct: 15  KTYNCENLGLN-EI-P--GTLPNSTE-CLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQI 69

Query: 302 REV-PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP 360
             +      +   L  LVL+ N L       +           +L+ L+     I+    
Sbjct: 70  YWIHEDTFQSQHRLDTLVLTANPLIFMAETALSG-------PKALKHLFFIQTGISSIDF 122

Query: 361 NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGL 420
                                              ++ + L SN +      +      L
Sbjct: 123 IP--LHN-------------------------QKTLESLYLGSNHISSIKLPKGFPTEKL 155

Query: 421 VALNLSNNNLTGQITPRIGQLKSLDFLDLSINH-FFGGIPSSLSRLRLLSVMDLSYNNFS 479
             L+  NN +       +  L+    L L++N     GI        +   ++       
Sbjct: 156 KVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNL 215

Query: 480 GKIPKGTQLQRF 491
             I KG +    
Sbjct: 216 LVIFKGLKNSTI 227

>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 =  159 bits (405), Expect = 3e-42
 Identities = 73/399 (18%), Positives = 131/399 (32%), Gaps = 57/399 (14%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG------PIPHQ 156
            I     +   L  L L  N  S + +   + +L+ L    L   +           P  
Sbjct: 195 FIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSI 254

Query: 157 LGNLSRLQVLDLRFN-NLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLT 215
           +  L  + + + R       S ++     L+++  + L    +    +  +     +SL+
Sbjct: 255 MEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPK-HFKWQSLS 313

Query: 216 TLYLGHCDLPPISTPSLLHLNYS-------------KSLEVIDLSNNYLTNSIYPWLLNV 262
            +       P +  P L  L  +              SL  +DLS N L+ S      ++
Sbjct: 314 IIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDL 373

Query: 263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF--LGNMSSLKMLVLS 320
            +N + H+DL  N     +   F  +  L++L    + L+ V +F    ++  L  L +S
Sbjct: 374 GTNSLRHLDLSFNGAI-IMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDIS 432

Query: 321 YNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITV 380
           Y   + +               +SL  L +A N       +          L        
Sbjct: 433 YTNTKIDFDGIFLG-------LTSLNTLKMAGNSFKDNTLS--NVFANTTNL-------- 475

Query: 381 TWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQ 440
                             +DLS  +L          L  L  LN+S+NNL    +    Q
Sbjct: 476 ----------------TFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQ 519

Query: 441 LKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
           L SL  LD S N             + L+  +L+ N+ +
Sbjct: 520 LYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTNNSVA 558

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score =  158 bits (402), Expect = 7e-42
 Identities = 69/434 (15%), Positives = 137/434 (31%), Gaps = 80/434 (18%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           ++   + +   L HL+ L L+ N       P     L+ L  L     +LA      +G 
Sbjct: 68  IETIEDKAWHGLHHLSNLILTGNPIQSFS-PGSFSGLTSLENLVAVETKLASLESFPIGQ 126

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFS-NWFQVLSNLR-SLTTL 217
           L  L+ L++  N + S     + S L++L ++DL    +   + N  Q L        +L
Sbjct: 127 LITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSL 186

Query: 218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL----------- 266
            +    +  I   +   +     L  + L  N+ +++I    L   + L           
Sbjct: 187 DMSLNPIDFIQDQAFQGIK----LHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFK 242

Query: 267 --------------------VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK 306
                               +D   L          V F  +A++  + L    ++ +  
Sbjct: 243 DERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLED 302

Query: 307 FLGNMSSLKMLVLSYNELRG------------ELSEFIQNVSSGSTKNSSLEWLYLASNE 354
                   + L +   +L+              L+    ++S       SL +L L+ N 
Sbjct: 303 VP-KHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNA 361

Query: 355 ITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI 414
           ++ +        G                            ++ +DLS N     +    
Sbjct: 362 LSFSGCCSYSDLGTN-------------------------SLRHLDLSFNGA-IIMSANF 395

Query: 415 MDLVGLVALNLSNNNLTGQITPR--IGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD 472
           M L  L  L+  ++ L   +T       L+ L +LD+S  +           L  L+ + 
Sbjct: 396 MGLEELQHLDFQHSTLKR-VTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLK 454

Query: 473 LSYNNFSGKIPKGT 486
           ++ N+F        
Sbjct: 455 MAGNSFKDNTLSNV 468

>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 =  142 bits (359), Expect = 4e-36
 Identities = 76/397 (19%), Positives = 133/397 (33%), Gaps = 33/397 (8%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
               +DLS+N         F  + S+L  L LS  ++          L  L  L L  N 
Sbjct: 33  STKNIDLSFNPLKILKSYSF-SNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP 91

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSL 232
           +  S +    S L+SL  L   + KL+   +    +  L +L  L + H  +     P+ 
Sbjct: 92  I-QSFSPGSFSGLTSLENLVAVETKLASLES--FPIGQLITLKKLNVAHNFIHSCKLPAY 148

Query: 233 LHLNYSKSLEVIDLSNNYLTNSIYPWL--LNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS 290
                  +L  +DLS NY+       L  L  +  +   +D+  N +      AF  +  
Sbjct: 149 FSN--LTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGI-K 205

Query: 291 LRYLGLLSNRL--REVPKFLGNMSSLKMLVLSYNELRGELS-EFIQNVSSGSTKNSSLEW 347
           L  L L  N      +   L N++ L +  L   E + E + E  +        + +++ 
Sbjct: 206 LHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDE 265

Query: 348 LYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGL----------- 395
             L                  +    +    I       ++     L +           
Sbjct: 266 FRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTL 325

Query: 396 ----IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT--GQITPRIGQLKSLDFLDL 449
               +K + L+ NK    +  + + L  L  L+LS N L+  G  +       SL  LDL
Sbjct: 326 DLPFLKSLTLTMNKG--SISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDL 383

Query: 450 SINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
           S N     + ++   L  L  +D  ++          
Sbjct: 384 SFNGAI-IMSANFMGLEELQHLDFQHSTLKRVTEFSA 419

>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 =  135 bits (342), Expect = 7e-34
 Identities = 71/387 (18%), Positives = 131/387 (33%), Gaps = 26/387 (6%)

Query: 102 GTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS 161
           G++NP +  + ++T         S   +P+ I S      + LS   L     +   N S
Sbjct: 2   GSLNPCIEVVPNIT-YQCMDQKLSK--VPDDIPS--STKNIDLSFNPLKILKSYSFSNFS 56

Query: 162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH 221
            LQ LDL    + +  +      L  L  L L    +  FS      S L SL  L    
Sbjct: 57  ELQWLDLSRCEIETIED-KAWHGLHHLSNLILTGNPIQSFSP--GSFSGLTSLENLVAVE 113

Query: 222 CDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSI 281
             L  + +  +  L    +L+ +++++N++ +   P   +  +NLV H+DL  N +    
Sbjct: 114 TKLASLESFPIGQL---ITLKKLNVAHNFIHSCKLPAYFSNLTNLV-HVDLSYNYIQTIT 169

Query: 282 PVAFGHMASLR----YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS 337
                 +         L +  N +  +         L  L L  N     + +      +
Sbjct: 170 VNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLA 229

Query: 338 GSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLI 396
           G   +  +   +     +    P+ + G   + +                  +   L  +
Sbjct: 230 GLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHC--LANV 287

Query: 397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG 456
             + L+   +  +  E++       +L++    L    T     L  L  L L++N   G
Sbjct: 288 SAMSLAGVSI--KYLEDVPKHFKWQSLSIIRCQLKQFPT---LDLPFLKSLTLTMNK--G 340

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSGKIP 483
            I      L  LS +DLS N  S    
Sbjct: 341 SISFKKVALPSLSYLDLSRNALSFSGC 367

>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 =  122 bits (309), Expect = 1e-29
 Identities = 51/227 (22%), Positives = 79/227 (34%), Gaps = 9/227 (3%)

Query: 101 KGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIG-SLSKLSELALSSAQLAGPIPHQLGN 159
           KG+I+   + L  L+YLDLS N  S S    +     + L  L LS       +      
Sbjct: 339 KGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAII-MSANFMG 397

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           L  LQ LD + + L           L  L YLD+         +   +   L SL TL +
Sbjct: 398 LEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFD--GIFLGLTSLNTLKM 455

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
                   +  ++       +L  +DLS   L   I   + +    L   +++  N L  
Sbjct: 456 AGNSFKDNTLSNVFANT--TNLTFLDLSKCQLE-QISWGVFDTLHRLQ-LLNMSHNNLLF 511

Query: 280 SIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELR 325
                +  + SL  L    NR+            SL    L+ N + 
Sbjct: 512 LDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTNNSVA 558

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 82.4 bits (204), Expect = 1e-16
 Identities = 29/122 (23%), Positives = 47/122 (38%), Gaps = 3/122 (2%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
            K   +   L L  L  L ++ N+F  + +     + + L+ L LS  QL          
Sbjct: 436 TKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDT 495

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           L RLQ+L++  NNL    +    + L SL  LD    ++             +SL    L
Sbjct: 496 LHRLQLLNMSHNNLLFLDS-SHYNQLYSLSTLDCSFNRIETSKGIL--QHFPKSLAFFNL 552

Query: 220 GH 221
            +
Sbjct: 553 TN 554

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 54.3 bits (131), Expect = 7e-08
 Identities = 15/83 (18%), Positives = 23/83 (27%), Gaps = 1/83 (1%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           L+         L  L  L++S NN            L  LS L  S  ++          
Sbjct: 485 LEQISWGVFDTLHRLQLLNMSHNNLLFLD-SSHYNQLYSLSTLDCSFNRIETSKGILQHF 543

Query: 160 LSRLQVLDLRFNNLFSSGNLDWL 182
              L   +L  N++         
Sbjct: 544 PKSLAFFNLTNNSVACICEHQKF 566

>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 =  145 bits (369), Expect = 4e-39
 Identities = 79/374 (21%), Positives = 146/374 (39%), Gaps = 65/374 (17%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            +  +L+ +T L ++    +     + I  L+ L  L L+  Q+    P  L NL +L  
Sbjct: 38  VTQEELESITKLVVAGEKVAS---IQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLTN 92

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           L +  N +    ++  L  L++LR L L +  +S  S     L+NL  + +L LG     
Sbjct: 93  LYIGTNKIT---DISALQNLTNLRELYLNEDNISDISP----LANLTKMYSLNLGANHN- 144

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            +S  S   L+    L  + ++ + + +      L   ++L   + L  N++    P   
Sbjct: 145 -LSDLS--PLSNMTGLNYLTVTESKVKDVTPIANL---TDLY-SLSLNYNQIEDISP--L 195

Query: 286 GHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL 345
             + SL Y     N++ ++   + NM+ L  L +  N++            S     S L
Sbjct: 196 ASLTSLHYFTAYVNQITDIT-PVANMTRLNSLKIGNNKITD---------LSPLANLSQL 245

Query: 346 EWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNK 405
            WL + +N+I+  I  +                              L  +K++++ SN+
Sbjct: 246 TWLEIGTNQIS-DINAVKD----------------------------LTKLKMLNVGSNQ 276

Query: 406 LGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRL 465
           +       + +L  L +L L+NN L  +    IG L +L  L LS NH        L+ L
Sbjct: 277 ISD--ISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITD--IRPLASL 332

Query: 466 RLLSVMDLSYNNFS 479
             +   D +     
Sbjct: 333 SKMDSADFANQVIK 346

>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 =  143 bits (363), Expect = 3e-38
 Identities = 74/372 (19%), Positives = 148/372 (39%), Gaps = 47/372 (12%)

Query: 114 LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL 173
              L       +          L++     L  A +   +      L  +  L +    +
Sbjct: 2   AATLATLPAPINQI---FPDADLAEGIRAVLQKASVTDVVT--QEELESITKLVVAGEKV 56

Query: 174 FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLL 233
            S   +  + YL++L YL+L   +++  S     LSNL  LT LY+G   +  IS    L
Sbjct: 57  AS---IQGIEYLTNLEYLNLNGNQITDISP----LSNLVKLTNLYIGTNKITDISALQNL 109

Query: 234 HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRY 293
                 +L  + L+ + +++      L   + +   ++LG+N     +     +M  L Y
Sbjct: 110 -----TNLRELYLNEDNISDISP---LANLTKMY-SLNLGANHNLSDLS-PLSNMTGLNY 159

Query: 294 LGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASN 353
           L +  +++++V   + N++ L  L L+YN++   +S             +SL +     N
Sbjct: 160 LTVTESKVKDVT-PIANLTDLYSLSLNYNQIED-ISPL--------ASLTSLHYFTAYVN 209

Query: 354 EITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK--IIDLSSNKLGGEVP 411
           +IT  I  +     +    I  +KIT        +   +  L +   +++ +N++     
Sbjct: 210 QITD-ITPVANMTRLNSLKIGNNKIT--------DLSPLANLSQLTWLEIGTNQI--SDI 258

Query: 412 EEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVM 471
             + DL  L  LN+ +N ++  I+  +  L  L+ L L+ N         +  L  L+ +
Sbjct: 259 NAVKDLTKLKMLNVGSNQISD-ISV-LNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTL 316

Query: 472 DLSYNNFSGKIP 483
            LS N+ +   P
Sbjct: 317 FLSQNHITDIRP 328

>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 =  104 bits (263), Expect = 8e-25
 Identities = 43/225 (19%), Positives = 97/225 (43%), Gaps = 26/225 (11%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
           +    L  +  L YL ++ +          I +L+ L  L+L+  Q+    P  L +L+ 
Sbjct: 146 SDLSPLSNMTGLNYLTVTESKVKDVT---PIANLTDLYSLSLNYNQIEDISP--LASLTS 200

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC 222
           L       N +    ++  ++ ++ L  L +G+ K++  S     L+NL  LT L +G  
Sbjct: 201 LHYFTAYVNQI---TDITPVANMTRLNSLKIGNNKITDLSP----LANLSQLTWLEIGTN 253

Query: 223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD--HIDLGSNRLHGS 280
            +  I+      +     L+++++ +N +++      ++V +NL     + L +N+L   
Sbjct: 254 QISDINA-----VKDLTKLKMLNVGSNQISD------ISVLNNLSQLNSLFLNNNQLGNE 302

Query: 281 IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELR 325
                G + +L  L L  N + ++   L ++S +     +   ++
Sbjct: 303 DMEVIGGLTNLTTLFLSQNHITDIR-PLASLSKMDSADFANQVIK 346

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

 Score = 63.3 bits (155), Expect = 6e-11
 Identities = 23/95 (24%), Positives = 43/95 (45%), Gaps = 6/95 (6%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            ++  L  L  L++  N  S       + +LS+L+ L L++ QL       +G L+ L  
Sbjct: 259 NAVKDLTKLKMLNVGSNQISD---ISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTT 315

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSK 200
           L L  N++    ++  L+ LS +   D  +  + K
Sbjct: 316 LFLSQNHI---TDIRPLASLSKMDSADFANQVIKK 347

>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 =  144 bits (366), Expect = 1e-37
 Identities = 84/396 (21%), Positives = 160/396 (40%), Gaps = 83/396 (20%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            S   L  +T L             + +  L+ L+++  S+ QL    P  L NL++L  
Sbjct: 40  VSQTDLDQVTTLQADRLGIK---SIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVD 94

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC--- 222
           + +  N +    ++  L+ L++L  L L + +++        L NL +L  L L      
Sbjct: 95  ILMNNNQI---ADITPLANLTNLTGLTLFNNQITDIDP----LKNLTNLNRLELSSNTIS 147

Query: 223 DLPPIST-PSLLHLNYS------------KSLEVIDLSNNYLTNSIYPWLLNVSSNLV-- 267
           D+  +S   SL  L++              +LE +D+S+N +++      ++V + L   
Sbjct: 148 DISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSD------ISVLAKLTNL 201

Query: 268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGE 327
           + +   +N++    P   G + +L  L L  N+L+++   L ++++L  L L+ N++   
Sbjct: 202 ESLIATNNQISDITP--LGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANNQISN- 257

Query: 328 LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQY 387
           L+          +  + L  L L +N+I+  I  L G                       
Sbjct: 258 LAPL--------SGLTKLTELKLGANQISN-ISPLAG----------------------- 285

Query: 388 EYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFL 447
                L  +  ++L+ N+L       I +L  L  L L  NN++  I+P +  L  L  L
Sbjct: 286 -----LTALTNLELNENQLED--ISPISNLKNLTYLTLYFNNISD-ISP-VSSLTKLQRL 336

Query: 448 DLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
               N       SSL+ L  ++ +   +N  S   P
Sbjct: 337 FFYNNKVSD--VSSLANLTNINWLSAGHNQISDLTP 370

>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 =  129 bits (326), Expect = 2e-32
 Identities = 72/376 (19%), Positives = 144/376 (38%), Gaps = 67/376 (17%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
             L  L +L  L+LS N  S       +  L+ L +L+  + Q+    P  L NL+ L+ 
Sbjct: 128 DPLKNLTNLNRLELSSNTISD---ISALSGLTSLQQLSFGN-QVTDLKP--LANLTTLER 181

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           LD+  N +    ++  L+ L++L  L   + ++S  +     L  L +L  L L    L 
Sbjct: 182 LDISSNKV---SDISVLAKLTNLESLIATNNQISDITP----LGILTNLDELSLNGNQLK 234

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            I T + L      +L  +DL+NN ++N      L   + L + + LG+N++    P   
Sbjct: 235 DIGTLASL-----TNLTDLDLANNQISNLAPLSGL---TKLTE-LKLGANQISNISP--L 283

Query: 286 GHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL 345
             + +L  L L  N+L ++   + N+ +L  L L +N +            S  +  + L
Sbjct: 284 AGLTALTNLELNENQLEDIS-PISNLKNLTYLTLYFNNISD---------ISPVSSLTKL 333

Query: 346 EWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNK 405
           + L+  +N+++  + +L                                 I  +    N+
Sbjct: 334 QRLFFYNNKVSD-VSSLANLTN----------------------------INWLSAGHNQ 364

Query: 406 LGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRL 465
           +       + +L  +  L L++   T         +   + +           P+++S  
Sbjct: 365 ISD--LTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALI--APATISDG 420

Query: 466 RLLSVMDLSYNNFSGK 481
              +  D+++N  S  
Sbjct: 421 GSYTEPDITWNLPSYT 436

>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 =  111 bits (279), Expect = 3e-26
 Identities = 67/349 (19%), Positives = 134/349 (38%), Gaps = 64/349 (18%)

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
              L+      L   N+  + +      L  +  L      +         +  L +LT 
Sbjct: 20  DTALAEKMKTVLGKTNVTDTVSQTD---LDQVTTLQADRLGIKSIDG----VEYLNNLTQ 72

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNR 276
           +   +  L  I+      L     L  I ++NN + +      L   +NL   + L +N+
Sbjct: 73  INFSNNQLTDIT-----PLKNLTKLVDILMNNNQIADITP---LANLTNLT-GLTLFNNQ 123

Query: 277 LHGSIPVAFGHMASLRYLGLLSNRLREVPKF--------------------LGNMSSLKM 316
           +    P    ++ +L  L L SN + ++                       L N+++L+ 
Sbjct: 124 ITDIDP--LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLER 181

Query: 317 LVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD 376
           L +S N++  ++S           K ++LE L   +N+I+  I  LG    +    +  +
Sbjct: 182 LDISSNKVS-DISVL--------AKLTNLESLIATNNQISD-ITPLGILTNLDELSLNGN 231

Query: 377 KITVTWKGGQYEYKSILGL--IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQI 434
           ++         +  ++  L  +  +DL++N++       +  L  L  L L  N ++  I
Sbjct: 232 QLK--------DIGTLASLTNLTDLDLANNQI--SNLAPLSGLTKLTELKLGANQISN-I 280

Query: 435 TPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
           +P +  L +L  L+L+ N       S +S L+ L+ + L +NN S   P
Sbjct: 281 SP-LAGLTALTNLELNENQLED--ISPISNLKNLTYLTLYFNNISDISP 326

>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 = 92.3 bits (230), Expect = 4e-20
 Identities = 54/240 (22%), Positives = 95/240 (39%), Gaps = 25/240 (10%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            +L  L +LT LDL+ N  S       +  L+KL+EL L + Q++   P  L  L+ L  
Sbjct: 237 GTLASLTNLTDLDLANNQISNLA---PLSGLTKLTELKLGANQISNISP--LAGLTALTN 291

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           L+L  N L    ++  +S L +L YL L    +S  S     +S+L  L  L+  +    
Sbjct: 292 LELNENQL---EDISPISNLKNLTYLTLYFNNISDISP----VSSLTKLQRLFFYNN--- 341

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            +S  S   L    ++  +   +N +++      L   + +   + L       + PV +
Sbjct: 342 KVSDVS--SLANLTNINWLSAGHNQISDLT---PLANLTRIT-QLGLNDQAWT-NAPVNY 394

Query: 286 GHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELR--GELS-EFIQNVSSGSTKN 342
               S+             P  + +  S     +++N      E+S  F Q V+ G    
Sbjct: 395 KANVSIPNTVKNVTGALIAPATISDGGSYTEPDITWNLPSYTNEVSYTFSQPVTIGKGTT 454

>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 =  132 bits (335), Expect = 3e-33
 Identities = 67/403 (16%), Positives = 137/403 (33%), Gaps = 46/403 (11%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQ-LGNLSRLQVLDL 168
            L  L YL+L  N +    +     +L+ L  L + + +    I       L+ L  L++
Sbjct: 96  PLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEI 155

Query: 169 RFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIS 228
           +  +L  +     L  +  + +L L   + +           L S+  L L   +L    
Sbjct: 156 KALSL-RNYQSQSLKSIRDIHHLTLHLSESAFLLE--IFADILSSVRYLELRDTNLARFQ 212

Query: 229 TPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDH-------------IDLGSN 275
              L     S  ++ +    + LT+  +  LL +   +++               D   +
Sbjct: 213 FSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPS 272

Query: 276 RLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQN 334
                  +      ++R L +    L          +  +K + +  ++        +  
Sbjct: 273 ESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSK--------VFL 324

Query: 335 VSSGSTKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD----KITVTWKGGQYEY 389
           V    +++  SLE+L L+ N +           G    L         +    K G+   
Sbjct: 325 VPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGE--- 381

Query: 390 KSILGL--IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFL 447
             +L L  +  +D+S N     +P+       +  LNLS+  +   +   I   ++L+ L
Sbjct: 382 -ILLTLKNLTSLDISRNTF-HPMPDSCQWPEKMRFLNLSSTGIR-VVKTCI--PQTLEVL 436

Query: 448 DLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQR 490
           D+S N+        L RL+ L    +S N     +P  +    
Sbjct: 437 DVSNNN-LDSFSLFLPRLQEL---YISRNKLK-TLPDASLFPV 474

>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 =  124 bits (313), Expect = 2e-30
 Identities = 68/390 (17%), Positives = 127/390 (32%), Gaps = 41/390 (10%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
               L  L  L++   +       + + S+  +  L L  ++ A  +      LS ++ L
Sbjct: 143 DFAGLTSLNELEIKALSLRNYQ-SQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYL 201

Query: 167 DLRFNNL-------FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           +LR  NL            +       + R   L D   ++     + +  L  +     
Sbjct: 202 ELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDC 261

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLT-NSIYPWLLNVSSNL--VDHIDLGSNR 276
               L   +      ++    +E + +   ++    ++  L  V S L  V  I + +++
Sbjct: 262 TLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSK 321

Query: 277 LHGSIPVAFGHMASLRYLGLLSNRLREV----PKFLGNMSSLKMLVLSYNELRGELSEFI 332
           +         H+ SL +L L  N + E         G   SL+ LVLS N L       +
Sbjct: 322 VFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHL-----RSM 376

Query: 333 QNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD----KITVTWKGGQYE 388
           Q          +L  L ++ N       +          + + +     I V        
Sbjct: 377 QKTGEILLTLKNLTSLDISRNTFHPMPDSCQW----PEKMRFLNLSSTGIRVVKTC---- 428

Query: 389 YKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLD 448
              I   ++++D+S+N L        + L  L  L +S N L     P       L  + 
Sbjct: 429 ---IPQTLEVLDVSNNNLD-SFS---LFLPRLQELYISRNKLK--TLPDASLFPVLLVMK 479

Query: 449 LSINHFFGGIPSSLSRLRLLSVMDLSYNNF 478
           +S N           RL  L  + L  N +
Sbjct: 480 ISRNQLKSVPDGIFDRLTSLQKIWLHTNPW 509

>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 =  118 bits (297), Expect = 3e-28
 Identities = 70/383 (18%), Positives = 136/383 (35%), Gaps = 32/383 (8%)

Query: 114 LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL 173
               D    +F+  P     G  + +  L LS  ++       L   + LQVL L+ + +
Sbjct: 7   SGVCDGRSRSFTSIPS----GLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRI 62

Query: 174 FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLL 233
            ++   D    L SL +LDL D  LS  S+       L SL  L L       +   SL 
Sbjct: 63  -NTIEGDAFYSLGSLEHLDLSDNHLSSLSS--SWFGPLSSLKYLNLMGNPYQTLGVTSLF 119

Query: 234 HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRY 293
                 +L+ + + N    + I        ++L   +++ +  L      +   +  + +
Sbjct: 120 P--NLTNLQTLRIGNVETFSEIRRIDFAGLTSLN-ELEIKALSLRNYQSQSLKSIRDIHH 176

Query: 294 LGLLSNRLREVPKFLGN-MSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLAS 352
           L L  +    + +   + +SS++ L L        L+ F  +       +S ++ L    
Sbjct: 177 LTLHLSESAFLLEIFADILSSVRYLELRDT----NLARFQFSPLPVDEVSSPMKKLAFRG 232

Query: 353 NEIT-GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLI-----------KIID 400
           + +T  +   L      ++ L   +    T  G      S   ++           + + 
Sbjct: 233 SVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLH 292

Query: 401 LSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQ-LKSLDFLDLSINHF---FG 456
           +    L  ++      L  +  + + N+ +   +     Q LKSL+FLDLS N     + 
Sbjct: 293 IPQFYLFYDLSTVYSLLEKVKRITVENSKVF-LVPCSFSQHLKSLEFLDLSENLMVEEYL 351

Query: 457 GIPSSLSRLRLLSVMDLSYNNFS 479
              +       L  + LS N+  
Sbjct: 352 KNSACKGAWPSLQTLVLSQNHLR 374

>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 =  104 bits (260), Expect = 1e-23
 Identities = 61/356 (17%), Positives = 120/356 (33%), Gaps = 56/356 (15%)

Query: 83  HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSEL 142
            +   +L     SP+   + +     L  +     D S+N      +  +I  LS++   
Sbjct: 202 ELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELL--KLLRYILELSEVEFD 259

Query: 143 ALSSAQL---AGPIPHQLGNLSRLQVLDLRFNNL----FSSGNLDWLSYLSSLRYLDLGD 195
             +   L          +  L +++ + +R  ++             S L  ++ + + +
Sbjct: 260 DCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVEN 319

Query: 196 CKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN-S 254
            K+           +L+SL  L L    +      +        SL+ + LS N+L +  
Sbjct: 320 SKVFLVPC--SFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQ 377

Query: 255 IYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSL 314
               +L    NL   +D+  N  H  +P +      +R+L L S  +R V        +L
Sbjct: 378 KTGEILLTLKNLT-SLDISRNTFH-PMPDSCQWPEKMRFLNLSSTGIRVVKT--CIPQTL 433

Query: 315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIY 374
           ++L +S N L            S S     L+ LY++ N++  T+P+      +L     
Sbjct: 434 EVLDVSNNNL-----------DSFSLFLPRLQELYISRNKLK-TLPD-ASLFPVL----- 475

Query: 375 FDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNL 430
                                  ++ +S N+L          L  L  + L  N  
Sbjct: 476 ----------------------LVMKISRNQLKSVPDGIFDRLTSLQKIWLHTNPW 509

>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 = 75.5 bits (186), Expect = 2e-14
 Identities = 59/366 (16%), Positives = 119/366 (32%), Gaps = 77/366 (21%)

Query: 159 NLSRLQVLDLRFNNLFSS-GNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTL 217
           +     V D R  +  S    L      ++++ LDL   K++   +    L    +L  L
Sbjct: 3   SCDASGVCDGRSRSFTSIPSGL-----TAAMKSLDLSFNKITYIGH--GDLRACANLQVL 55

Query: 218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL 277
            L    +  I   +   L    SLE +DLS+N+L+                         
Sbjct: 56  ILKSSRINTIEGDAFYSL---GSLEHLDLSDNHLS------------------------- 87

Query: 278 HGSIPV-AFGHMASLRYLGLLSNRLREVPK--FLGNMSSLKMLVLSYNELRGELSE---- 330
             S+    FG ++SL+YL L+ N  + +       N+++L+ L +   E   E+      
Sbjct: 88  --SLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFA 145

Query: 331 -------------FIQNVSSGSTKN-SSLEWLYLASNEIT----GTIPNLGGFPGMLMPL 372
                         ++N  S S K+   +  L L  +E           L     + +  
Sbjct: 146 GLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRD 205

Query: 373 IYFDKITVTWKGGQYEYKSILGL----IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNN 428
               +   +          +  L      + D S N+L  ++   I++L  +   + + N
Sbjct: 206 TNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNEL-LKLLRYILELSEVEFDDCTLN 264

Query: 429 NLTGQITPRIG--------QLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG 480
            L                 +  ++  L +   + F  + +  S L  +  + +  +    
Sbjct: 265 GLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVF- 323

Query: 481 KIPKGT 486
            +P   
Sbjct: 324 LVPCSF 329

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score =  128 bits (323), Expect = 2e-32
 Identities = 69/406 (16%), Positives = 129/406 (31%), Gaps = 61/406 (15%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
                 + L +   +    +     P    + S  ++  L L+  Q+     +       
Sbjct: 36  YFGFEDITLNNQKIVTFKNSTMRKLP-AALLDSFRQVELLNLNDLQIEEIDTYAFAYAHT 94

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC 222
           +Q L + FN +           +  L  L L    LS       +  N   LTTL + + 
Sbjct: 95  IQKLYMGFNAI-RYLPPHVFQNVPLLTVLVLERNDLSSLPR--GIFHNTPKLTTLSMSNN 151

Query: 223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP 282
           +L  I   +        SL+ + LS+N LT  +   L+    +L  H ++  N L     
Sbjct: 152 NLERIEDDTFQAT---TSLQNLQLSSNRLT-HVDLSLI---PSLF-HANVSYNLLS---- 199

Query: 283 VAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN 342
                  ++  L    N +  V         L +L L +N L  + +  +          
Sbjct: 200 -TLAIPIAVEELDASHNSINVVRG--PVNVELTILKLQHNNLT-DTAWLLN--------Y 247

Query: 343 SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLS 402
             L  + L+ NE+   I     F                           +  ++ + +S
Sbjct: 248 PGLVEVDLSYNELE-KIMY-HPFVK-------------------------MQRLERLYIS 280

Query: 403 SNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL 462
           +N+L   +      +  L  L+LS+N+L   +     Q   L+ L L  N       S+ 
Sbjct: 281 NNRL-VALNLYGQPIPTLKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIVTLKLSTH 338

Query: 463 SRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLP 508
             L+ L    LS+N++          +           + C +   
Sbjct: 339 HTLKNL---TLSHNDWDC-NSLRALFRNVARPAVDDADQHCKIDYQ 380

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 86.6 bits (215), Expect = 2e-18
 Identities = 55/291 (18%), Positives = 114/291 (39%), Gaps = 36/291 (12%)

Query: 207 VLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL 266
           + SNL+     Y  H D+               + +++   N+ +   +   LL+    +
Sbjct: 13  IDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR-KLPAALLDSFRQV 71

Query: 267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELR 325
              ++L   ++      AF +  +++ L +  N +R +P     N+  L +LVL  N+L 
Sbjct: 72  E-LLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS 130

Query: 326 ----------GELSEF------IQNVSSGSTKN-SSLEWLYLASNEITGTIPNLGGFPGM 368
                      +L+        ++ +   + +  +SL+ L L+SN +T  +  L   P +
Sbjct: 131 SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-HVD-LSLIPSL 188

Query: 369 LMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNN 428
               + ++ ++           +I   ++ +D S N +   V   +   V L  L L +N
Sbjct: 189 FHANVSYNLLSTL---------AIPIAVEELDASHNSI-NVVRGPV--NVELTILKLQHN 236

Query: 429 NLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
           NLT   T  +     L  +DLS N     +     +++ L  + +S N   
Sbjct: 237 NLTD--TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV 285

>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 =  129 bits (325), Expect = 9e-32
 Identities = 71/427 (16%), Positives = 139/427 (32%), Gaps = 79/427 (18%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
           +   L HL+ L L+ N             LS L +L      LA      +G+L  L+ L
Sbjct: 71  AYQSLSHLSTLILTGNPIQSLA-LGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKEL 129

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFS-NWFQVLSNLR-SLTTLYLGHCDL 224
           ++  N + S    ++ S L++L +LDL   K+        +VL  +     +L L    +
Sbjct: 130 NVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPM 189

Query: 225 PPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL------------------ 266
             I   +   +     L  + L NN+ + ++    +   + L                  
Sbjct: 190 NFIQPGAFKEIR----LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEK 245

Query: 267 -------------VDHIDLGSNRLHGS-IPVAFGHMASLRYLGLLSNRLREVPK--FLGN 310
                        ++   L     +   I   F  + ++    L+S  +  V    +   
Sbjct: 246 FDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFG 305

Query: 311 MSSLKMLVLSYNELRG---------ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN 361
              L+++   + +              +      +       SLE+L L+ N ++     
Sbjct: 306 WQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCC 365

Query: 362 LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLV 421
                G                            +K +DLS N +   +    + L  L 
Sbjct: 366 SQSDFG-------------------------TTSLKYLDLSFNGV-ITMSSNFLGLEQLE 399

Query: 422 ALNLSNNNLTGQITPRI--GQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
            L+  ++NL  Q++       L++L +LD+S  H         + L  L V+ ++ N+F 
Sbjct: 400 HLDFQHSNLK-QMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQ 458

Query: 480 GKIPKGT 486
                  
Sbjct: 459 ENFLPDI 465

>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 =  127 bits (320), Expect = 3e-31
 Identities = 71/401 (17%), Positives = 126/401 (31%), Gaps = 84/401 (20%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELAL------SSAQLAGPIPHQ 156
            I P   K   L  L L  N  S + +   I  L+ L    L      +   L       
Sbjct: 191 FIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSA 250

Query: 157 LGNLSRLQVLDLRFN--NLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL 214
           L  L  L + + R    + +    +D  + L+++    L    + +  + F      + L
Sbjct: 251 LEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKD-FSYNFGWQHL 309

Query: 215 TTLYLGHCDLPPISTPSLLHLNYS-------------KSLEVIDLSNNYLTNSIYPWLLN 261
             +       P +   SL  L ++              SLE +DLS N L+        +
Sbjct: 310 ELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSD 369

Query: 262 VSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK--FLGNMSSLKMLVL 319
             +  + ++DL  N +  ++   F  +  L +L    + L+++ +     ++ +L  L +
Sbjct: 370 FGTTSLKYLDLSFNGVI-TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI 428

Query: 320 SYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKIT 379
           S+   R   +             SSLE L +A N                          
Sbjct: 429 SHTHTRVAFNGIFNG-------LSSLEVLKMAGNSFQENFL------------------- 462

Query: 380 VTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI- 438
                                          P+   +L  L  L+LS   L  Q++P   
Sbjct: 463 -------------------------------PDIFTELRNLTFLDLSQCQLE-QLSPTAF 490

Query: 439 GQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
             L SL  L+++ N           RL  L  + L  N + 
Sbjct: 491 NSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTNPWD 531

>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 =  120 bits (303), Expect = 6e-29
 Identities = 84/390 (21%), Positives = 133/390 (34%), Gaps = 26/390 (6%)

Query: 105 NPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQ 164
           + S      L  LDLS              SLS LS L L+   +          LS LQ
Sbjct: 45  SYSFFSFPELQVLDLSRCEIQTIE-DGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 103

Query: 165 VLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDL 224
            L     NL S  N   + +L +L+ L++    +  F    +  SNL +L  L L    +
Sbjct: 104 KLVAVETNLASLEN-FPIGHLKTLKELNVAHNLIQSF-KLPEYFSNLTNLEHLDLSSNKI 161

Query: 225 PPISTPSLLHLNYSKSLEV-IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP- 282
             I    L  L+    L + +DLS N +   I P        L   + L +N    ++  
Sbjct: 162 QSIYCTDLRVLHQMPLLNLSLDLSLNPMN-FIQPGAFK-EIRLH-KLTLRNNFDSLNVMK 218

Query: 283 VAFGHMASLRYLGLLSNRLREVPKF----LGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
                +A L    L+    R            +  L  L +    L   L  ++ ++   
Sbjct: 219 TCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAY-LDYYLDDIIDL 277

Query: 339 STKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI 398
               +++    L S  I   + +     G          + +            L  +K 
Sbjct: 278 FNCLTNVSSFSLVSVTIE-RVKDFSYNFGW-------QHLELVNCKFGQFPTLKLKSLKR 329

Query: 399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPR--IGQLKSLDFLDLSINHFFG 456
           +  +SNK G    E  +DL  L  L+LS N L+ +           SL +LDLS N    
Sbjct: 330 LTFTSNKGGNAFSE--VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI- 386

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
            + S+   L  L  +D  ++N         
Sbjct: 387 TMSSNFLGLEQLEHLDFQHSNLKQMSEFSV 416

>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 =  109 bits (273), Expect = 3e-25
 Identities = 75/382 (19%), Positives = 125/382 (32%), Gaps = 31/382 (8%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
           P +  + ++TY      NF    IP+ +        L LS   L     +   +   LQV
Sbjct: 2   PCVEVVPNITY-QCMELNFYK--IPDNLPF--STKNLDLSFNPLRHLGSYSFFSFPELQV 56

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           LDL    +  +        LS L  L L    +   +      S L SL  L     +L 
Sbjct: 57  LDLSRCEI-QTIEDGAYQSLSHLSTLILTGNPIQSLAL--GAFSGLSSLQKLVAVETNLA 113

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            +    + HL   K+L+ +++++N + +   P   +  +NL  H+DL SN++        
Sbjct: 114 SLENFPIGHL---KTLKELNVAHNLIQSFKLPEYFSNLTNLE-HLDLSSNKIQSIYCTDL 169

Query: 286 GHMASLRY----LGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK 341
             +  +      L L  N +  +         L  L L  N     + +      +G   
Sbjct: 170 RVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEV 229

Query: 342 NSSLEWLYLASNEIT----GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK 397
           +  +   +     +       +  L         L Y D              + L  + 
Sbjct: 230 HRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIID----LFNCLTNVS 285

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGG 457
              L S  +   V +   +  G   L L N       T ++  LK L F      + F  
Sbjct: 286 SFSLVSVTI-ERVKDFSYNF-GWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAF-- 341

Query: 458 IPSSLSRLRLLSVMDLSYNNFS 479
              S   L  L  +DLS N  S
Sbjct: 342 ---SEVDLPSLEFLDLSRNGLS 360

>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 =  107 bits (270), Expect = 8e-25
 Identities = 59/278 (21%), Positives = 111/278 (39%), Gaps = 25/278 (8%)

Query: 89  LRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQ 148
           L  +S   + ++               +L+L    F   P       L  L  L  +S +
Sbjct: 281 LTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPT----LKLKSLKRLTFTSNK 336

Query: 149 LAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL-DWLSYLSSLRYLDLGDCKLSKFSNWFQV 207
                     +L  L+ LDL  N L   G         +SL+YLDL    +   S+ F  
Sbjct: 337 GGNAFS--EVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNF-- 392

Query: 208 LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV 267
              L  L  L   H +L  +S  S+      ++L  +D+S+ +     +  + N  S+L 
Sbjct: 393 -LGLEQLEHLDFQHSNLKQMSEFSVFLS--LRNLIYLDISHTHTR-VAFNGIFNGLSSL- 447

Query: 268 DHIDLGSNRLHGSI-PVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELR 325
           + + +  N    +  P  F  + +L +L L   +L ++      ++SSL++L ++ N+L+
Sbjct: 448 EVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLK 507

Query: 326 GELSEFIQNVSSGSTKN-SSLEWLYLASNEITGTIPNL 362
                   +V  G     +SL+ ++L +N    + P +
Sbjct: 508 --------SVPDGIFDRLTSLQKIWLHTNPWDCSCPRI 537

>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 =  106 bits (266), Expect = 2e-24
 Identities = 51/273 (18%), Positives = 92/273 (33%), Gaps = 25/273 (9%)

Query: 87  LDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSS 146
           L +     + +D     I      L +++   L            +      L  +    
Sbjct: 257 LTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKF 316

Query: 147 AQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQ 206
            Q           L  L+ L    N   ++ +   L    SL +LDL    LS      Q
Sbjct: 317 GQF------PTLKLKSLKRLTFTSNKGGNAFSEVDLP---SLEFLDLSRNGLSFKGCCSQ 367

Query: 207 VLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL 266
                 SL  L L    +  +S+    +    + LE +D  ++ L       +     NL
Sbjct: 368 SDFGTTSLKYLDLSFNGVITMSS----NFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNL 423

Query: 267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV--PKFLGNMSSLKMLVLSYNEL 324
           + ++D+       +    F  ++SL  L +  N  +E   P     + +L  L LS    
Sbjct: 424 I-YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-- 480

Query: 325 RGELSEFIQNVSSGS-TKNSSLEWLYLASNEIT 356
                  ++ +S  +    SSL+ L +ASN++ 
Sbjct: 481 ------QLEQLSPTAFNSLSSLQVLNMASNQLK 507

>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 = 84.8 bits (210), Expect = 2e-17
 Identities = 57/290 (19%), Positives = 94/290 (32%), Gaps = 46/290 (15%)

Query: 238 SKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLL 297
             S + +DLS N L   +  +       L   +DL    +      A+  ++ L  L L 
Sbjct: 27  PFSTKNLDLSFNPLR-HLGSYSFFSFPELQ-VLDLSRCEIQTIEDGAYQSLSHLSTLILT 84

Query: 298 SNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT 356
            N ++ +       +SSL+ LV     L    +  I ++        +L+ L +A N I 
Sbjct: 85  GNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHL-------KTLKELNVAHNLIQ 137

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD 416
            +      F                           L  ++ +DLSSNK+      ++  
Sbjct: 138 -SFKLPEYFSN-------------------------LTNLEHLDLSSNKIQSIYCTDLRV 171

Query: 417 LVGL----VALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS-SLSRLRLLSVM 471
           L  +    ++L+LS N +   I P   +   L  L L  N     +    +  L  L V 
Sbjct: 172 LHQMPLLNLSLDLSLNPMN-FIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVH 230

Query: 472 DLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPS 521
            L    F         L++F  S   G   L         LD        
Sbjct: 231 RLVLGEFRN----EGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIID 276

>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 = 65.1 bits (159), Expect = 3e-11
 Identities = 30/110 (27%), Positives = 45/110 (40%), Gaps = 9/110 (8%)

Query: 103 TINPSLL-KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS 161
                +   L  L  L ++ N+F  + +P+    L  L+ L LS  QL    P    +LS
Sbjct: 435 VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLS 494

Query: 162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG------DCK-LSKFSNW 204
            LQVL++  N L  S        L+SL+ + L        C  +   S W
Sbjct: 495 SLQVLNMASNQL-KSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSRW 543

>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 = 26/86 (30%), Positives = 38/86 (44%), Gaps = 3/86 (3%)

Query: 100 LKGTINPSLL-KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLG 158
            +    P +  +L++LT+LDLS         P    SLS L  L ++S QL         
Sbjct: 457 FQENFLPDIFTELRNLTFLDLSQCQLEQLS-PTAFNSLSSLQVLNMASNQLKSVPDGIFD 515

Query: 159 NLSRLQVLDLRFNNLF-SSGNLDWLS 183
            L+ LQ + L  N    S   +D+LS
Sbjct: 516 RLTSLQKIWLHTNPWDCSCPRIDYLS 541

>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 =  126 bits (319), Expect = 2e-31
 Identities = 52/385 (13%), Positives = 112/385 (29%), Gaps = 40/385 (10%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
                   ++ ++   +       S   + EL LS   L+      L   ++L++L+L  
Sbjct: 9   GNRYKIEKVTDSSLKQAL-ASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSS 67

Query: 171 NNLFS---------------SGN-LDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL 214
           N L+                + N +  L    S+  L   +  +S+ S      S  +  
Sbjct: 68  NVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS-----CSRGQGK 122

Query: 215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS 274
             +YL +  +  +             ++ +DL  N +    +  L   S  L  H++L  
Sbjct: 123 KNIYLANNKITMLRDLDEGCR---SRVQYLDLKLNEIDTVNFAELAASSDTLE-HLNLQY 178

Query: 275 NRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQN 334
           N ++  +       A L+ L L SN+L  +     + + +  + L  N+        +  
Sbjct: 179 NFIY-DVK-GQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNK--------LVL 228

Query: 335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG 394
           +      + +LE   L  N           F           +      G   E  ++  
Sbjct: 229 IEKALRFSQNLEHFDLRGNGFH-CGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPT 287

Query: 395 LIKIIDLSSNKLGGEVPEEI--MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
           L          L     + +  +       L+   +     +            +D    
Sbjct: 288 LGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETER-LECERENQARQREIDALKE 346

Query: 453 HFFGGIPSSLSRLRLLSVMDLSYNN 477
            +   I     R +    ++     
Sbjct: 347 QYRTVIDQVTLRKQAKITLEQKKKA 371

>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 =  120 bits (303), Expect = 2e-29
 Identities = 56/353 (15%), Positives = 117/353 (33%), Gaps = 59/353 (16%)

Query: 129 IPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSL 188
           I E   + ++     ++ + L   +     +   ++ LDL  N L S  +   L+  + L
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPL-SQISAADLAPFTKL 60

Query: 189 RYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSN 248
             L+L    L +  +    L +L +L TL L +  +  +            S+E +  +N
Sbjct: 61  ELLNLSSNVLYETLD----LESLSTLRTLDLNNNYVQELLVGP--------SIETLHAAN 108

Query: 249 NYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-- 306
           N ++  +             +I L +N++     +  G  + ++YL L  N +  V    
Sbjct: 109 NNIS-RVSCSRG---QGKK-NIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAE 163

Query: 307 FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
              +  +L+ L L YN +  ++   +          + L+ L L+SN++    P      
Sbjct: 164 LAASSDTLEHLNLQYNFIY-DVKGQVV--------FAKLKTLDLSSNKLAFMGPEFQSAA 214

Query: 367 GMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS 426
           G                            +  I L +NKL   + + +     L   +L 
Sbjct: 215 G----------------------------VTWISLRNNKL-VLIEKALRFSQNLEHFDLR 245

Query: 427 NNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
            N      T R    K+     ++          +     + ++         
Sbjct: 246 GNGFH-CGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCE 297

>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 =  116 bits (293), Expect = 5e-28
 Identities = 53/390 (13%), Positives = 120/390 (30%), Gaps = 35/390 (8%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
            L     L  L+LS N        +   SLS L  L L++  +      +L     ++ L
Sbjct: 53  DLAPFTKLELLNLSSNVLYE--TLDL-ESLSTLRTLDLNNNYV-----QELLVGPSIETL 104

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
               NN+     +   S     + + L + K++   +          +  L L   ++  
Sbjct: 105 HAANNNI---SRVS-CSRGQGKKNIYLANNKITMLRD--LDEGCRSRVQYLDLKLNEIDT 158

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD--HIDLGSNRLHGSIPVA 284
           ++   L     S +LE ++L  N++ +      +           +DL SN+L   +   
Sbjct: 159 VNFAELAAS--SDTLEHLNLQYNFIYD------VKGQVVFAKLKTLDLSSNKLA-FMGPE 209

Query: 285 FGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSS 344
           F   A + ++ L +N+L  + K L    +L+   L  N            +    +KN  
Sbjct: 210 FQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFH------CGTLRDFFSKNQR 263

Query: 345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSN 404
           ++ +   + +              L     +    +                 ++    +
Sbjct: 264 VQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGS 323

Query: 405 KLGGEVPEEIMDLVGLVALNLSNNNLT---GQITPRIGQLKSLDFLDLSINHFFGGIPSS 461
           +    +  E  +      ++           Q+T R     +L+    +++        +
Sbjct: 324 ET-ERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQKKKALDEQVSNGRRA 382

Query: 462 LSRLRLLSVMDLSYNNFSGKIPKGTQLQRF 491
            + L       +          + + LQ  
Sbjct: 383 HAELDGTLQQAVGQIELQHATEEQSPLQLL 412

>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 = 71.4 bits (175), Expect = 2e-13
 Identities = 36/216 (16%), Positives = 72/216 (33%), Gaps = 29/216 (13%)

Query: 280 SIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
           +I     +    +   +  + L++       +  ++K L LS N L    +  +      
Sbjct: 1   AIHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPF--- 57

Query: 339 STKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI 398
               + LE L L+SN +     +L     +    +  + +     G           I+ 
Sbjct: 58  ----TKLELLNLSSNVLY-ETLDLESLSTLRTLDLNNNYVQELLVGPS---------IET 103

Query: 399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHF---- 454
           +  ++N +   V        G   + L+NN +T       G    + +LDL +N      
Sbjct: 104 LHAANNNI-SRVSCSR--GQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVN 160

Query: 455 FGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQR 490
           F  + +S   L  L   +L YN     +       +
Sbjct: 161 FAELAASSDTLEHL---NLQYNFIY-DVKGQVVFAK 192

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 54.5 bits (131), Expect = 5e-08
 Identities = 26/254 (10%), Positives = 58/254 (22%), Gaps = 36/254 (14%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
            I  +L   Q+L + DL  N F    + +F     ++  +A     +           + 
Sbjct: 228 LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQ--TVKKLTGQNEEECTV 285

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC 222
             +                  +   L  L   +  L                        
Sbjct: 286 PTLGHYGAYCCEDLPA----PFADRLIALKRKEHALLSGQG------------------- 322

Query: 223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP 282
                      +         ID        ++   +       +  ++     L   + 
Sbjct: 323 SETERLECERENQA---RQREIDALKEQYR-TVIDQVTLRKQAKI-TLEQKKKALDEQVS 377

Query: 283 VAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN 342
                 A L      +    E+       S L++L            E        S +N
Sbjct: 378 NGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEMYVE------QQSVQN 431

Query: 343 SSLEWLYLASNEIT 356
           +++    +  ++ T
Sbjct: 432 NAIRDWDMYQHKET 445

>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 =  129 bits (325), Expect = 2e-31
 Identities = 77/390 (19%), Positives = 124/390 (31%), Gaps = 58/390 (14%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPI-PHQLGNLSRLQVLDLR 169
           L     L LS+N         F   L +L  L L S      I      NL  L++LDL 
Sbjct: 23  LNTTERLLLSFNYIRTVTASSFPF-LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLG 81

Query: 170 FNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIST 229
            + +    + D    L  L  L L  C LS          NL++LT L L    +  +  
Sbjct: 82  SSKI-YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYL 140

Query: 230 PSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMA 289
                     SL+ ID S+N +       L  +    +    L +N L+  + V +G   
Sbjct: 141 HPSFGKL--NSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCM 198

Query: 290 ------SLRYLGLLSNRLREVPKF-------------LGNMSSLKMLVLSYNELRGELSE 330
                  L  L +  N                     L     +      ++ +     +
Sbjct: 199 NPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNI-----K 253

Query: 331 FIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYK 390
                +      SS+  L L+   +  ++ +   F                         
Sbjct: 254 DPDQNTFAGLARSSVRHLDLSHGFVF-SLNS-RVFET----------------------- 288

Query: 391 SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDL 449
             L  +K+++L+ NK+     E    L  L  LNLS N L  ++       L  + ++DL
Sbjct: 289 --LKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLG-ELYSSNFYGLPKVAYIDL 345

Query: 450 SINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
             NH       +   L  L  +DL  N  +
Sbjct: 346 QKNHIAIIQDQTFKFLEKLQTLDLRDNALT 375

>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 =  127 bits (320), Expect = 9e-31
 Identities = 75/400 (18%), Positives = 136/400 (34%), Gaps = 66/400 (16%)

Query: 103 TINPSLLK-LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS 161
           T+  S    L+ L  L+L       +   E   +L  L  L L S+++    P     L 
Sbjct: 38  TVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLF 97

Query: 162 RLQVLDLRFNNLFSSG-NLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
            L  L L F  L  +     +   L +L  LDL   ++            L SL ++   
Sbjct: 98  HLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLH-PSFGKLNSLKSIDFS 156

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD----HIDLGSNR 276
              +  +    L  L   K+L    L+ N L + +        +   +     +D+  N 
Sbjct: 157 SNQIFLVCEHELEPLQ-GKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNG 215

Query: 277 LHGSIPVAFGH------------MASLRYLGLLSNRLREVPK--FLG-NMSSLKMLVLSY 321
               I   F +               +   G   + +++  +  F G   SS++ L LS+
Sbjct: 216 WTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSH 275

Query: 322 NELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITV 380
                     + +++S   +    L+ L LA N+I   I +   F G             
Sbjct: 276 GF--------VFSLNSRVFETLKDLKVLNLAYNKIN-KIAD-EAFYG------------- 312

Query: 381 TWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-G 439
                       L  +++++LS N LG         L  +  ++L  N++   I  +   
Sbjct: 313 ------------LDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIA-IIQDQTFK 359

Query: 440 QLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
            L+ L  LDL  N       +++  +  +  + LS N   
Sbjct: 360 FLEKLQTLDLRDNAL-----TTIHFIPSIPDIFLSGNKLV 394

>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 =  126 bits (318), Expect = 1e-30
 Identities = 97/510 (19%), Positives = 178/510 (34%), Gaps = 57/510 (11%)

Query: 83  HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSEL 142
            +    L A S     ++      +  +   L  LD+S N ++      F  ++SK    
Sbjct: 175 TLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAF 234

Query: 143 ALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL--FSSGNLDWLSYLSSLRYLDLGDCKLSK 200
           +L                  +      F+N+          L+  SS+R+LDL    +  
Sbjct: 235 SLI-------------LAHHIMGAGFGFHNIKDPDQNTFAGLA-RSSVRHLDLSHGFVFS 280

Query: 201 FSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLL 260
            ++  +V   L+ L  L L +  +  I+  +   L    +L+V++LS N L   +Y    
Sbjct: 281 LNS--RVFETLKDLKVLNLAYNKINKIADEAFYGL---DNLQVLNLSYNLLG-ELYSSNF 334

Query: 261 NVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLS 320
                +  +IDL  N +       F  +  L+ L L  N L  +      + S+  + LS
Sbjct: 335 YGLPKVA-YIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIH----FIPSIPDIFLS 389

Query: 321 YNELRG-----------ELSEF-IQNVSSGS--TKNSSLEWLYLASNEITGTIPNLGGFP 366
            N+L              LSE  ++N+       +   L+ L L  N  +    +    P
Sbjct: 390 GNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGD--QTP 447

Query: 367 GMLMPLIYFD----KITVTWKGGQYEYK-SILGLIKIIDLSSNKLGGEVPEEIMDLVGLV 421
                L         + + W+          L  ++++ L+ N L    P     L  L 
Sbjct: 448 SENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALR 507

Query: 422 ALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGK 481
            L+L++N LT           +L+ LD+S N      P     L    V+D+++N F  +
Sbjct: 508 GLSLNSNRLTV--LSHNDLPANLEILDISRNQLLAPNPDVFVSLS---VLDITHNKFICE 562

Query: 482 IPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFITLGF 541
                +L  F       N  + G P    C+  +S    S         D+ +   +L F
Sbjct: 563 C----ELSTFINWLNHTNVTIAGPPADIYCVYPDSFSGVSLFSLSTEGCDEEEVLKSLKF 618

Query: 542 YMSMILGFFVGFWGVCGTLLVKSSWRCGYY 571
            + ++    +  + +    + K    C   
Sbjct: 619 SLFIVCTVTLTLFLMTILTVTKFRGFCFIC 648

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

 Score = 49.0 bits (117), Expect = 4e-06
 Identities = 19/95 (20%), Positives = 31/95 (32%), Gaps = 1/95 (1%)

Query: 396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHF 454
            + + LS N +          L  L  L L +      I       L +L  LDL  +  
Sbjct: 26  TERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKI 85

Query: 455 FGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQ 489
           +   P +   L  L  + L +   S  + K    +
Sbjct: 86  YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFR 120

>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 =  126 bits (319), Expect = 4e-31
 Identities = 69/408 (16%), Positives = 130/408 (31%), Gaps = 61/408 (14%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
                 + L +   +    +     P    + S  ++  L L+  Q+     +       
Sbjct: 42  YFGFEDITLNNQKIVTFKNSTMRKLP-AALLDSFRQVELLNLNDLQIEEIDTYAFAYAHT 100

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC 222
           +Q L + FN +           +  L  L L    LS       +  N   LTTL + + 
Sbjct: 101 IQKLYMGFNAI-RYLPPHVFQNVPLLTVLVLERNDLSSLPR--GIFHNTPKLTTLSMSNN 157

Query: 223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP 282
           +L  I   +        SL+ + LS+N LT  +   L+    +L  H ++  N L     
Sbjct: 158 NLERIEDDTFQAT---TSLQNLQLSSNRLT-HVDLSLI---PSLF-HANVSYNLLS---- 205

Query: 283 VAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN 342
                  ++  L    N +  V         L +L L +N L  + +  +          
Sbjct: 206 -TLAIPIAVEELDASHNSINVVRG--PVNVELTILKLQHNNLT-DTAWLLN--------Y 253

Query: 343 SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLS 402
             L  + L+ NE+   I     F                           +  ++ + +S
Sbjct: 254 PGLVEVDLSYNELE-KIMY-HPFVK-------------------------MQRLERLYIS 286

Query: 403 SNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL 462
           +N+L   +      +  L  L+LS+N+L   +     Q   L+ L L  N       S+ 
Sbjct: 287 NNRL-VALNLYGQPIPTLKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIVTLKLSTH 344

Query: 463 SRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNK 510
             L+ L    LS+N++          +           + C +    +
Sbjct: 345 HTLKNL---TLSHNDWDC-NSLRALFRNVARPAVDDADQHCKIDYQLE 388

>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 = 86.5 bits (214), Expect = 5e-18
 Identities = 55/291 (18%), Positives = 114/291 (39%), Gaps = 36/291 (12%)

Query: 207 VLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL 266
           + SNL+     Y  H D+               + +++   N+ +   +   LL+    +
Sbjct: 19  IDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR-KLPAALLDSFRQV 77

Query: 267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELR 325
              ++L   ++      AF +  +++ L +  N +R +P     N+  L +LVL  N+L 
Sbjct: 78  E-LLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS 136

Query: 326 ----------GELSEF------IQNVSSGSTKN-SSLEWLYLASNEITGTIPNLGGFPGM 368
                      +L+        ++ +   + +  +SL+ L L+SN +T  +  L   P +
Sbjct: 137 SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-HVD-LSLIPSL 194

Query: 369 LMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNN 428
               + ++ ++           +I   ++ +D S N +   V   +   V L  L L +N
Sbjct: 195 FHANVSYNLLSTL---------AIPIAVEELDASHNSI-NVVRGPV--NVELTILKLQHN 242

Query: 429 NLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
           NLT   T  +     L  +DLS N     +     +++ L  + +S N   
Sbjct: 243 NLTD--TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV 291

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score =  120 bits (302), Expect = 3e-30
 Identities = 56/328 (17%), Positives = 114/328 (34%), Gaps = 59/328 (17%)

Query: 129 IPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSL 188
           I E   + ++     ++ + L   +     +   ++ LDL  N L S  +   L+  + L
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPL-SQISAADLAPFTKL 60

Query: 189 RYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSN 248
             L+L    L +  +    L +L +L TL L +  +  +            S+E +  +N
Sbjct: 61  ELLNLSSNVLYETLD----LESLSTLRTLDLNNNYVQELLVGP--------SIETLHAAN 108

Query: 249 NYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-- 306
           N ++  +     +       +I L +N++     +  G  + ++YL L  N +  V    
Sbjct: 109 NNIS-RVSC---SRGQGKK-NIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAE 163

Query: 307 FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
              +  +L+ L L YN +  ++   +          + L+ L L+SN++    P      
Sbjct: 164 LAASSDTLEHLNLQYNFIY-DVKGQVV--------FAKLKTLDLSSNKLAFMGPEFQSAA 214

Query: 367 GMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS 426
           G                            +  I L +NKL   + + +     L   +L 
Sbjct: 215 G----------------------------VTWISLRNNKL-VLIEKALRFSQNLEHFDLR 245

Query: 427 NNNLTGQITPRIGQLKSLDFLDLSINHF 454
            N      T R    K+     ++    
Sbjct: 246 GNGFH-CGTLRDFFSKNQRVQTVAKQTV 272

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score =  114 bits (288), Expect = 2e-28
 Identities = 53/273 (19%), Positives = 96/273 (35%), Gaps = 36/273 (13%)

Query: 84  VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELA 143
           +  +   +L  +     +           ++  LDLS N  S       +   +KL  L 
Sbjct: 14  IEKVTDSSLKQALASLRQS--------AWNVKELDLSGNPLSQIS-AADLAPFTKLELLN 64

Query: 144 LSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSN 203
           LSS  L   +   L +LS L+ LDL  N +        L    S+  L   +  +S+ S 
Sbjct: 65  LSSNVLYETLD--LESLSTLRTLDLNNNYVQE------LLVGPSIETLHAANNNISRVS- 115

Query: 204 WFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVS 263
                S  +    +YL +  +  +             ++ +DL  N +    +  L   S
Sbjct: 116 ----CSRGQGKKNIYLANNKITMLRDLDEGCR---SRVQYLDLKLNEIDTVNFAELAASS 168

Query: 264 SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNE 323
             L  H++L  N ++  +       A L+ L L SN+L  +     + + +  + L  N+
Sbjct: 169 DTLE-HLNLQYNFIY-DVK-GQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNK 225

Query: 324 LRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT 356
           L          +      + +LE   L  N   
Sbjct: 226 LV--------LIEKALRFSQNLEHFDLRGNGFH 250

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 85.4 bits (212), Expect = 2e-18
 Identities = 34/219 (15%), Positives = 62/219 (28%), Gaps = 39/219 (17%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
            LL    +  L  + NN S                + L++ ++        G  SR+Q L
Sbjct: 94  ELLVGPSIETLHAANNNISRVSC----SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYL 149

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
           DL+ N + +    +  +   +L +L+L    +               L TL L    L  
Sbjct: 150 DLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG----QVVFAKLKTLDLSSNKLAF 205

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFG 286
           +  P          +  I L NN L                             I  A  
Sbjct: 206 MG-PEFQSA---AGVTWISLRNNKLV---------------------------LIEKALR 234

Query: 287 HMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELR 325
              +L +  L  N             + ++  ++   ++
Sbjct: 235 FSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVK 273

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 84.3 bits (209), Expect = 5e-18
 Identities = 45/243 (18%), Positives = 82/243 (33%), Gaps = 50/243 (20%)

Query: 239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLS 298
              ++  ++++ L       L   + N+   +DL  N L             L  L L S
Sbjct: 10  NRYKIEKVTDSSLK-QALASLRQSAWNVK-ELDLSGNPLSQISAADLAPFTKLELLNLSS 67

Query: 299 NRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGT 358
           N L E      ++S+L+ L L+ N ++ EL               S+E L+ A+N I+  
Sbjct: 68  NVLYETLDL-ESLSTLRTLDLNNNYVQ-ELLV-----------GPSIETLHAANNNIS-R 113

Query: 359 IPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLV 418
           +                               S     K I L++NK+      +     
Sbjct: 114 VS-----------------------------CSRGQGKKNIYLANNKITMLRDLDEGCRS 144

Query: 419 GLVALNLSNNNLTGQITPR--IGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYN 476
            +  L+L  N +   +          +L+ L+L  N  +  +   +     L  +DLS N
Sbjct: 145 RVQYLDLKLNEID-TVNFAELAASSDTLEHLNLQYNFIY-DVKGQVV-FAKLKTLDLSSN 201

Query: 477 NFS 479
             +
Sbjct: 202 KLA 204

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 73.1 bits (180), Expect = 3e-14
 Identities = 36/216 (16%), Positives = 72/216 (33%), Gaps = 29/216 (13%)

Query: 280 SIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
           +I     +    +   +  + L++       +  ++K L LS N L    +  +      
Sbjct: 1   AIHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAP---- 56

Query: 339 STKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI 398
               + LE L L+SN +     +L     +    +  + +     G           I+ 
Sbjct: 57  ---FTKLELLNLSSNVLY-ETLDLESLSTLRTLDLNNNYVQELLVGPS---------IET 103

Query: 399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHF---- 454
           +  ++N +   V        G   + L+NN +T       G    + +LDL +N      
Sbjct: 104 LHAANNNI-SRVSCSR--GQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVN 160

Query: 455 FGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQR 490
           F  + +S   L  L   +L YN     +       +
Sbjct: 161 FAELAASSDTLEHL---NLQYNFIY-DVKGQVVFAK 192

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 59.2 bits (144), Expect = 9e-10
 Identities = 25/149 (16%), Positives = 49/149 (32%), Gaps = 21/149 (14%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
              +    L  LDLS N  +   +     S + ++ ++L + +L   I   L     L+ 
Sbjct: 185 KGQVVFAKLKTLDLSSNKLAF--MGPEFQSAAGVTWISLRNNKLVL-IEKALRFSQNLEH 241

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
            DLR N        D+ S    ++ +                   ++ LT      C +P
Sbjct: 242 FDLRGNGFHCGTLRDFFSKNQRVQTVA---------------KQTVKKLTGQNEEECTVP 286

Query: 226 PISTPSLL---HLNYSKSLEVIDLSNNYL 251
            +          L    +  +I L +++ 
Sbjct: 287 TLGHYGAYCCEDLPAPFADRLIALGHHHH 315

>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 =  123 bits (310), Expect = 7e-30
 Identities = 76/385 (19%), Positives = 124/385 (32%), Gaps = 85/385 (22%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
             H+T L +  NN +   +P     L  L    +S  QL   +P     L  L +     
Sbjct: 60  PAHITTLVIPDNNLTS--LPALPPELRTLE---VSGNQLTS-LPVLPPGLLELSIFSNPL 113

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
            +L +          S L  L +   +L+              L  L +    L   S P
Sbjct: 114 THLPAL--------PSGLCKLWIFGNQLTSLPV------LPPGLQELSVSDNQL--ASLP 157

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS 290
           +L        L  +   NN LT+     L  + S L   + +  N+L  S+P        
Sbjct: 158 ALPS-----ELCKLWAYNNQLTS-----LPMLPSGLQ-ELSVSDNQLA-SLPTLPS---E 202

Query: 291 LRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL 350
           L  L   +NRL  +P        LK L++S N L   L              S L+ L +
Sbjct: 203 LYKLWAYNNRLTSLPALPSG---LKELIVSGNRLT-SLPVLP----------SELKELMV 248

Query: 351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEV 410
           + N +T ++P L                                 +  + +  N+L   +
Sbjct: 249 SGNRLT-SLPML------------------------------PSGLLSLSVYRNQLT-RL 276

Query: 411 PEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS--SLSRLRLL 468
           PE ++ L     +NL  N L+ +    + ++ S       I  F     S    +R   L
Sbjct: 277 PESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIRFDMAGASAPRETRALHL 336

Query: 469 SVMDLSYNNFSGKIPKGTQLQRFGA 493
           +  D       G+     +   FG 
Sbjct: 337 AAADWLVPAREGEPAPADRWHMFGQ 361

>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 = 90.3 bits (224), Expect = 3e-19
 Identities = 49/247 (19%), Positives = 88/247 (35%), Gaps = 44/247 (17%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSP------------IPEFIGSLSKLSELALSSAQLA 150
           ++      L  L+       +    P            +         L EL++S  QLA
Sbjct: 95  SLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQLA 154

Query: 151 GPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN 210
             +P     L +L   + +  +L            S L+ L + D +L+         S 
Sbjct: 155 S-LPALPSELCKLWAYNNQLTSLPML--------PSGLQELSVSDNQLASLPTL---PSE 202

Query: 211 LRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHI 270
           L  L         LP + +           L+ + +S N LT+     L  + S L   +
Sbjct: 203 LYKLWAYNNRLTSLPALPS----------GLKELIVSGNRLTS-----LPVLPSELK-EL 246

Query: 271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSE 330
            +  NRL  S+P+       L  L +  N+L  +P+ L ++SS   + L  N L     +
Sbjct: 247 MVSGNRL-TSLPMLPS---GLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQ 302

Query: 331 FIQNVSS 337
            ++ ++S
Sbjct: 303 ALREITS 309

>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 = 87.3 bits (216), Expect = 3e-18
 Identities = 44/253 (17%), Positives = 88/253 (34%), Gaps = 48/253 (18%)

Query: 228 STPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGH 287
           +    +    +    V+++  + LT      L +     +  + +  N L  S+P     
Sbjct: 29  AVVQKMRACLNNGNAVLNVGESGLTT-----LPDCLPAHITTLVIPDNNLT-SLPALPPE 82

Query: 288 MASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEW 347
              LR L +  N+L  +P     +  L +       L                  S L  
Sbjct: 83  ---LRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALP--------------SGLCK 125

Query: 348 LYLASNEITGTIPNLGGFPGMLMPLIYFD-KITVTWKGGQYEYKSILGLIKIIDLSSNKL 406
           L++  N++T ++P L   P  L  L   D ++            ++   +  +   +N+L
Sbjct: 126 LWIFGNQLT-SLPVL---PPGLQELSVSDNQLA--------SLPALPSELCKLWAYNNQL 173

Query: 407 GGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR 466
              +P       GL  L++S+N L   +     +L  L   +  +      +P+  S L+
Sbjct: 174 -TSLPMLP---SGLQELSVSDNQLA-SLPTLPSELYKLWAYNNRLTS----LPALPSGLK 224

Query: 467 LLSVMDLSYNNFS 479
            L    +S N  +
Sbjct: 225 EL---IVSGNRLT 234

>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 =  121 bits (306), Expect = 1e-29
 Identities = 70/327 (21%), Positives = 119/327 (36%), Gaps = 48/327 (14%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
                 HL  L+L+ N  S      F   L  L  L L S +L          LS L  L
Sbjct: 51  EFASFPHLEELELNENIVSAVEPGAFNN-LFNLRTLGLRSNRLKLIPLGVFTGLSNLTKL 109

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
           D+  N +    +      L +L+ L++GD  L   S+  +  S L SL  L L  C+L  
Sbjct: 110 DISENKIVILLD-YMFQDLYNLKSLEVGDNDLVYISH--RAFSGLNSLEQLTLEKCNLTS 166

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFG 286
           I T +L HL     L V+ L +  +  +I  +       L   +++       ++     
Sbjct: 167 IPTEALSHL---HGLIVLRLRHLNIN-AIRDYSFKRLYRL-KVLEISHWPYLDTMTPNCL 221

Query: 287 HMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSS 344
           +  +L  L +    L  VP   + ++  L+ L LSYN         I  +      +   
Sbjct: 222 YGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNP--------ISTIEGSMLHELLR 273

Query: 345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSN 404
           L+ + L   ++   +     F G                         L  ++++++S N
Sbjct: 274 LQEIQLVGGQLA-VVEP-YAFRG-------------------------LNYLRVLNVSGN 306

Query: 405 KLGGEVPEEIMD-LVGLVALNLSNNNL 430
           +L   + E +   +  L  L L +N L
Sbjct: 307 QL-TTLEESVFHSVGNLETLILDSNPL 332

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

 Score =  115 bits (290), Expect = 1e-27
 Identities = 78/346 (22%), Positives = 123/346 (35%), Gaps = 50/346 (14%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
               LDL  N        EF      L EL L+   ++   P    NL  L+ L LR N 
Sbjct: 33  ETRLLDLGKNRIKTLNQDEFAS-FPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNR 91

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSL 232
           L     L   + LS+L  LD+ + K+    +   +  +L +L +L +G  DL  IS  + 
Sbjct: 92  L-KLIPLGVFTGLSNLTKLDISENKIVILLD--YMFQDLYNLKSLEVGDNDLVYISHRAF 148

Query: 233 LHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLR 292
             LN   SLE + L    LT SI    L+    L+  + L    ++     +F  +  L+
Sbjct: 149 SGLN---SLEQLTLEKCNLT-SIPTEALSHLHGLI-VLRLRHLNINAIRDYSFKRLYRLK 203

Query: 293 YLGLLS-NRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLYL 350
            L +     L  +        +L  L +++          +  V   +      L +L L
Sbjct: 204 VLEISHWPYLDTMTPNCLYGLNLTSLSITHCN--------LTAVPYLAVRHLVYLRFLNL 255

Query: 351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEV 410
           + N I+ TI                                 L  ++ I L   +L   V
Sbjct: 256 SYNPIS-TIEG-SMLHE-------------------------LLRLQEIQLVGGQLA-VV 287

Query: 411 PEEIM-DLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHF 454
                  L  L  LN+S N LT  +   +   + +L+ L L  N  
Sbjct: 288 EPYAFRGLNYLRVLNVSGNQLT-TLEESVFHSVGNLETLILDSNPL 332

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

 Score =  112 bits (282), Expect = 1e-26
 Identities = 62/373 (16%), Positives = 127/373 (34%), Gaps = 76/373 (20%)

Query: 117 LDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSS 176
           +      F    +PE I   ++   L L   ++      +  +   L+ L+L  N + S+
Sbjct: 16  VLCHRKRFVA--VPEGI--PTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIV-SA 70

Query: 177 GNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLN 236
                 + L +LR L L   +L        V + L +LT L +    +  +       L 
Sbjct: 71  VEPGAFNNLFNLRTLGLRSNRLKLIPL--GVFTGLSNLTKLDISENKIVILLDYMFQDL- 127

Query: 237 YSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLG 295
              +L+ +++ +N L   I     +  ++L   + L    L  SIP  A  H+  L  L 
Sbjct: 128 --YNLKSLEVGDNDLV-YISHRAFSGLNSLE-QLTLEKCNLT-SIPTEALSHLHGLIVLR 182

Query: 296 LLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNE 354
           L    +  +       +  LK+L +S+         ++  ++       +L  L +    
Sbjct: 183 LRHLNINAIRDYSFKRLYRLKVLEISHWP-------YLDTMTPNCLYGLNLTSLSITHCN 235

Query: 355 ITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI 414
           +T  +P        +  L+Y                     ++ ++LS N +   +   +
Sbjct: 236 LT-AVP-----YLAVRHLVY---------------------LRFLNLSYNPIS-TIEGSM 267

Query: 415 -MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL 473
             +L+ L  + L    L                  +    F       L+ LR+L   ++
Sbjct: 268 LHELLRLQEIQLVGGQLA----------------VVEPYAF-----RGLNYLRVL---NV 303

Query: 474 SYNNFSGKIPKGT 486
           S N  +  + +  
Sbjct: 304 SGNQLT-TLEESV 315

>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 =  109 bits (275), Expect = 8e-26
 Identities = 53/256 (20%), Positives = 95/256 (37%), Gaps = 20/256 (7%)

Query: 103 TINPSLLK-LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS 161
            I   +   L +LT LD+S N         F   L  L  L +    L          L+
Sbjct: 94  LIPLGVFTGLSNLTKLDISENKIVILLDYMFQD-LYNLKSLEVGDNDLVYISHRAFSGLN 152

Query: 162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH 221
            L+ L L   NL +S   + LS+L  L  L L    ++   +       L  L  L + H
Sbjct: 153 SLEQLTLEKCNL-TSIPTEALSHLHGLIVLRLRHLNINAIRD--YSFKRLYRLKVLEISH 209

Query: 222 CDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSI 281
                  TP+ L+     +L  + +++  LT ++    +     L   ++L  N +    
Sbjct: 210 WPYLDTMTPNCLYG---LNLTSLSITHCNLT-AVPYLAVRHLVYLR-FLNLSYNPISTIE 264

Query: 282 PVAFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGELSEFIQNVSSGS- 339
                 +  L+ + L+  +L  V  +    ++ L++L +S N+        +  +     
Sbjct: 265 GSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQ--------LTTLEESVF 316

Query: 340 TKNSSLEWLYLASNEI 355
               +LE L L SN +
Sbjct: 317 HSVGNLETLILDSNPL 332

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

 Score = 87.9 bits (218), Expect = 1e-18
 Identities = 43/193 (22%), Positives = 70/193 (36%), Gaps = 11/193 (5%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
           L  L  L L   N +  P       L  L  L L    +     +    L RL+VL++  
Sbjct: 151 LNSLEQLTLEKCNLTSIPTEALSH-LHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISH 209

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
                +   + L  L+ L  L +  C L+        + +L  L  L L +  +  I   
Sbjct: 210 WPYLDTMTPNCLYGLN-LTSLSITHCNLTAVPY--LAVRHLVYLRFLNLSYNPISTIEGS 266

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMA 289
            L  L     L+ I L    L   + P+     + L   +++  N+L  ++    F  + 
Sbjct: 267 MLHEL---LRLQEIQLVGGQLA-VVEPYAFRGLNYLR-VLNVSGNQLT-TLEESVFHSVG 320

Query: 290 SLRYLGLLSNRLR 302
           +L  L L SN L 
Sbjct: 321 NLETLILDSNPLA 333

>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 =  117 bits (295), Expect = 3e-29
 Identities = 55/359 (15%), Positives = 94/359 (26%), Gaps = 72/359 (20%)

Query: 130 PEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLR 189
                  S    L    +    P    L    R    D    +          +  ++ +
Sbjct: 5   HHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWR-----QANSNNPQ 59

Query: 190 YLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNN 249
                   L   ++  +  +       L L    LP         L     L+ + +   
Sbjct: 60  IETRTGRALKATADLLEDAT-QPGRVALELRSVPLPQFP-DQAFRL---SHLQHMTIDAA 114

Query: 250 YLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLG 309
            L                             +P      A L  L L  N LR +P  + 
Sbjct: 115 GLM---------------------------ELPDTMQQFAGLETLTLARNPLRALPASIA 147

Query: 310 NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN--SSLEWLYLASNEITGTIPNLGGFPG 367
           +++ L+ L +       EL E + +  +        +L+ L L    I  ++P       
Sbjct: 148 SLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPA------ 200

Query: 368 MLMPLIYFDKITVTWKGGQYEYKSILGLI--KIIDLSSNKLGGEVPEEIMDLVGLVALNL 425
                                  SI  L   K + + ++ L   +   I  L  L  L+L
Sbjct: 201 -----------------------SIANLQNLKSLKIRNSPLS-ALGPAIHHLPKLEELDL 236

Query: 426 SNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
                     P  G    L  L L        +P  + RL  L  +DL       ++P 
Sbjct: 237 RGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPS 295

>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 =  113 bits (285), Expect = 6e-28
 Identities = 54/327 (16%), Positives = 101/327 (30%), Gaps = 46/327 (14%)

Query: 184 YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEV 243
           + S    L       +    +  VLS  +                     + N   + ++
Sbjct: 10  HSSGRENLYFQGS--TALRPYHDVLSQWQRHYNADRNRWHSAW----RQANSN---NPQI 60

Query: 244 IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE 303
              +   L  +            V  ++L S  L    P     ++ L+++ + +  L E
Sbjct: 61  ETRTGRALKATADLLEDATQPGRV-ALELRSVPLP-QFPDQAFRLSHLQHMTIDAAGLME 118

Query: 304 VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLG 363
           +P  +   + L+ L L+ N LR  L   I ++       + L  L + +      +P   
Sbjct: 119 LPDTMQQFAGLETLTLARNPLR-ALPASIASL-------NRLRELSIRACPELTELPEPL 170

Query: 364 GFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL 423
                                        L  ++ + L    +   +P  I +L  L +L
Sbjct: 171 ASTDASGEH------------------QGLVNLQSLRLEWTGI-RSLPASIANLQNLKSL 211

Query: 424 NLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP 483
            + N+ L+  + P I  L  L+ LDL         P        L  + L   +    +P
Sbjct: 212 KIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLP 270

Query: 484 KG----TQLQRFGASTYAGNPELCGLP 506
                 TQL++       G   L  LP
Sbjct: 271 LDIHRLTQLEKLDLR---GCVNLSRLP 294

>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 =  112 bits (283), Expect = 1e-27
 Identities = 54/395 (13%), Positives = 120/395 (30%), Gaps = 90/395 (22%)

Query: 102 GTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS 161
           G+ +           L    +      +  +   LS+      +          +  N +
Sbjct: 2   GSSHHHHHHSSGRENLYFQGST----ALRPYHDVLSQWQRHYNADRNRWHS-AWRQANSN 56

Query: 162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH 221
             Q+       L ++ +L   +       L+L    L +F +       L  L  + +  
Sbjct: 57  NPQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPD---QAFRLSHLQHMTIDA 113

Query: 222 CDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSI 281
             L  +   ++        LE + L+ N L                            ++
Sbjct: 114 AGLMELP-DTMQQF---AGLETLTLARNPLR---------------------------AL 142

Query: 282 PVAFGHMASLRYLGLLS-NRLREVPKFLGN---------MSSLKMLVLSYNELRGELSEF 331
           P +   +  LR L + +   L E+P+ L +         + +L+ L L +  +R  L   
Sbjct: 143 PASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPAS 201

Query: 332 IQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKS 391
           I N+        +L+ L + ++ ++  +                               +
Sbjct: 202 IANL-------QNLKSLKIRNSPLS-ALGP-----------------------------A 224

Query: 392 ILGLI--KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDL 449
           I  L   + +DL         P        L  L L + +    +   I +L  L+ LDL
Sbjct: 225 IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDL 284

Query: 450 SINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
                   +PS +++L    ++ +   +   ++ +
Sbjct: 285 RGCVNLSRLPSLIAQLPANCIILVP-PHLQAQLDQ 318

>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 =  106 bits (266), Expect = 2e-25
 Identities = 45/266 (16%), Positives = 88/266 (33%), Gaps = 52/266 (19%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
               +L HL ++ +         +P+ +   + L  L L+   L   +P  + +L+RL+ 
Sbjct: 98  DQAFRLSHLQHMTIDAAGLME--LPDTMQQFAGLETLTLARNPLRA-LPASIASLNRLRE 154

Query: 166 LDLRFNNLFSS--------GNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTL 217
           L +R     +                 L +L+ L L    +          +NL++L +L
Sbjct: 155 LSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASI---ANLQNLKSL 211

Query: 218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL 277
            + +  L  +  P++ HL     LE +DL                              L
Sbjct: 212 KIRNSPLSALG-PAIHHL---PKLEELDLRGC-------------------------TAL 242

Query: 278 HGSIPVAFGHMASLRYLGLLS-NRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVS 336
             + P  FG  A L+ L L   + L  +P  +  ++ L+ L L        L   I  + 
Sbjct: 243 -RNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL- 300

Query: 337 SGSTKNSSLEWLYLASNEITGTIPNL 362
                  +   + +  +       + 
Sbjct: 301 ------PANCIILVPPHLQAQLDQHR 320

>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 = 99.6 bits (249), Expect = 5e-23
 Identities = 48/345 (13%), Positives = 91/345 (26%), Gaps = 81/345 (23%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
                 +      +      +       +      L L S  L    P Q   LS LQ +
Sbjct: 51  RQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQ-FPDQAFRLSHLQHM 109

Query: 167 DLRFNNLFSSGNL-DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC--- 222
            +    L     L D +   + L  L L    L         +++L  L  L +  C   
Sbjct: 110 TIDAAGLME---LPDTMQQFAGLETLTLARNPLRALPAS---IASLNRLRELSIRACPEL 163

Query: 223 -DLPPI--STPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
            +LP    ST +        +L+ + L    +                            
Sbjct: 164 TELPEPLASTDASGEHQGLVNLQSLRLEWTGIR--------------------------- 196

Query: 280 SIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS 339
           S+P +  ++ +L+ L + ++ L  +   + ++  L+ L L                +   
Sbjct: 197 SLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP-- 254

Query: 340 TKNSSLEWLYLAS-NEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK- 397
                L+ L L   + +  T+P                               I  L + 
Sbjct: 255 -----LKRLILKDCSNLL-TLPL-----------------------------DIHRLTQL 279

Query: 398 -IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQL 441
             +DL        +P  I  L     + +  +        R    
Sbjct: 280 EKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHRPVAR 324

>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 =  112 bits (283), Expect = 7e-28
 Identities = 51/220 (23%), Positives = 76/220 (34%), Gaps = 12/220 (5%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGS-LSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
              KL  LT L LS N  S            + L  L LS   +   +      L +L+ 
Sbjct: 47  VFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEH 105

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC-DL 224
           LD + +NL           L +L YLD+         N   + + L SL  L +      
Sbjct: 106 LDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN--GIFNGLSSLEVLKMAGNSFQ 163

Query: 225 PPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVA 284
                     L   ++L  +DLS   L   + P   N  S+L   +++  N         
Sbjct: 164 ENFLPDIFTEL---RNLTFLDLSQCQLE-QLSPTAFNSLSSL-QVLNMSHNNFFSLDTFP 218

Query: 285 FGHMASLRYLGLLSNRLREVPK--FLGNMSSLKMLVLSYN 322
           +  + SL+ L    N +    K       SSL  L L+ N
Sbjct: 219 YKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQN 258

>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 = 90.8 bits (226), Expect = 2e-20
 Identities = 55/296 (18%), Positives = 104/296 (35%), Gaps = 50/296 (16%)

Query: 140 SELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLS 199
           +E+  +S  L   +P  +   S    L+L  N L  S        L+ L  L L    LS
Sbjct: 10  TEIRCNSKGLTS-VPTGI--PSSATRLELESNKL-QSLPHGVFDKLTQLTKLSLSSNGLS 65

Query: 200 KFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWL 259
                 Q      SL  L L    +  +S+    +    + LE +D  ++ L       +
Sbjct: 66  FKGCCSQSDFGTTSLKYLDLSFNGVITMSS----NFLGLEQLEHLDFQHSNLKQMSEFSV 121

Query: 260 LNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV--PKFLGNMSSLKML 317
                NL+ ++D+       +    F  ++SL  L +  N  +E   P     + +L  L
Sbjct: 122 FLSLRNLI-YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL 180

Query: 318 VLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD 376
            LS  +        ++ +S  +  + SSL+ L ++ N    ++     +           
Sbjct: 181 DLSQCQ--------LEQLSPTAFNSLSSLQVLNMSHNNFF-SLDT-FPYKC--------- 221

Query: 377 KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD--LVGLVALNLSNNNL 430
                           L  ++++D S N +     ++ +      L  LNL+ N+ 
Sbjct: 222 ----------------LNSLQVLDYSLNHI-MTSKKQELQHFPSSLAFLNLTQNDF 260

>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 = 90.5 bits (225), Expect = 4e-20
 Identities = 46/176 (26%), Positives = 75/176 (42%), Gaps = 6/176 (3%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
           T++ + L L+ L +LD   +N           SL  L  L +S              LS 
Sbjct: 92  TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSS 151

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC 222
           L+VL +  N+   +   D  + L +L +LDL  C+L + S      ++L SL  L + H 
Sbjct: 152 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP--TAFNSLSSLQVLNMSHN 209

Query: 223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           +   + T     L    SL+V+D S N++  S    L +  S+L   ++L  N   
Sbjct: 210 NFFSLDTFPYKCL---NSLQVLDYSLNHIMTSKKQELQHFPSSLA-FLNLTQNDFA 261

>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 = 88.1 bits (219), Expect = 2e-19
 Identities = 55/274 (20%), Positives = 90/274 (32%), Gaps = 46/274 (16%)

Query: 186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVID 245
           SS   L+L   KL    +   V   L  LT L L    L      S      + SL+ +D
Sbjct: 28  SSATRLELESNKLQSLPH--GVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTT-SLKYLD 84

Query: 246 LSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGLLSNRLREV 304
           LS N +              L  H+D   + L        F  + +L YL +     R  
Sbjct: 85  LSFNGVI--TMSSNFLGLEQLE-HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 141

Query: 305 PK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEITGTIPNL 362
                  +SSL++L ++ N        F +N          +L +L L+  ++   +   
Sbjct: 142 FNGIFNGLSSLEVLKMAGNS-------FQENFLPDIFTELRNLTFLDLSQCQLE-QLSP- 192

Query: 363 GGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVA 422
             F                           L  ++++++S N            L  L  
Sbjct: 193 TAFNS-------------------------LSSLQVLNMSHNNFFSLDTFPYKCLNSLQV 227

Query: 423 LNLSNNNLTGQITPRI--GQLKSLDFLDLSINHF 454
           L+ S N++      +       SL FL+L+ N F
Sbjct: 228 LDYSLNHIM-TSKKQELQHFPSSLAFLNLTQNDF 260

>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 = 77.0 bits (190), Expect = 1e-15
 Identities = 57/280 (20%), Positives = 100/280 (35%), Gaps = 51/280 (18%)

Query: 213 SLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL 272
           S T +      L  +  P+ +      S   ++L +N L  S+   + +  + L   + L
Sbjct: 8   SGTEIRCNSKGLTSV--PTGI----PSSATRLELESNKLQ-SLPHGVFDKLTQLT-KLSL 59

Query: 273 GSNRLH--GSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSE 330
            SN L   G    +     SL+YL L  N +  +      +  L+ L   ++        
Sbjct: 60  SSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSN------- 112

Query: 331 FIQNVSSGST--KNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYE 388
            ++ +S  S      +L +L ++         N G F G                     
Sbjct: 113 -LKQMSEFSVFLSLRNLIYLDISHTHTR-VAFN-GIFNG--------------------- 148

Query: 389 YKSILGLIKIIDLSSNKLGGEVPEEI-MDLVGLVALNLSNNNLTGQITPRI-GQLKSLDF 446
               L  ++++ ++ N        +I  +L  L  L+LS   L  Q++P     L SL  
Sbjct: 149 ----LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQV 203

Query: 447 LDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
           L++S N+FF         L  L V+D S N+      K  
Sbjct: 204 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIM-TSKKQE 242

>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 =  112 bits (283), Expect = 8e-27
 Identities = 78/387 (20%), Positives = 130/387 (33%), Gaps = 93/387 (24%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
           P L     L  +D+  N+       +       L  +A  + QL      +L NL  L  
Sbjct: 147 PELQNSSFLKIIDVDNNSLK-----KLPDLPPSLEFIAAGNNQLE--ELPELQNLPFLTA 199

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           +    N+L    +L       SL  +  G+  L +       L NL  LTT+Y  +  L 
Sbjct: 200 IYADNNSLKKLPDL-----PLSLESIVAGNNILEELPE----LQNLPFLTTIYADNNLLK 250

Query: 226 --PISTPSLLHLNYS-----------KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL 272
             P   PSL  LN             +SL  +D+S N  +      L  +  NL  +++ 
Sbjct: 251 TLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSG-----LSELPPNLY-YLNA 304

Query: 273 GSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFI 332
            SN +  S+        SL  L + +N+L E+P        L+ L+ S+N L  E+ E  
Sbjct: 305 SSNEIR-SLC---DLPPSLEELNVSNNKLIELPALPPR---LERLIASFNHLA-EVPELP 356

Query: 333 QNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSI 392
           QN          L+ L++  N +    P++                              
Sbjct: 357 QN----------LKQLHVEYNPLR-EFPDI------------------------------ 375

Query: 393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
                + DL  N    EVPE       L  L++  N L  +       ++ L      + 
Sbjct: 376 --PESVEDLRMNSHLAEVPELPQ---NLKQLHVETNPLR-EFPDIPESVEDLRMNSERVV 429

Query: 453 HFFGGIPSSLSRLRLLSVMDLSYNNFS 479
             +     +  +L         +++  
Sbjct: 430 DPYEFAHETTDKLEDD---VFEHHHHH 453

>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 =  112 bits (281), Expect = 1e-26
 Identities = 77/384 (20%), Positives = 131/384 (34%), Gaps = 79/384 (20%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
             HL  L  S N+ +   +PE   SL  L     +   L+   P        L+ L +  
Sbjct: 90  PPHLESLVASCNSLT--ELPELPQSLKSLLVDNNNLKALSDLPPL-------LEYLGVSN 140

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
           N L     L  L   S L+ +D+ +  L K  +         SL  +  G+  L  +  P
Sbjct: 141 NQL---EKLPELQNSSFLKIIDVDNNSLKKLPDL------PPSLEFIAAGNNQLEEL--P 189

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS 290
            L +L     L  I   NN L   +    L++ S     I  G+N L         ++  
Sbjct: 190 ELQNL---PFLTAIYADNNSLK-KLPDLPLSLES-----IVAGNNIL--EELPELQNLPF 238

Query: 291 LRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL 350
           L  +   +N L+ +P    +   L+ L +  N L  +L E  Q+++        L+    
Sbjct: 239 LTTIYADNNLLKTLPDLPPS---LEALNVRDNYLT-DLPELPQSLTF-------LDVSEN 287

Query: 351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEV 410
             + ++   PNL             ++I             +   ++ +++S+NKL  E+
Sbjct: 288 IFSGLSELPPNLYYL------NASSNEIR--------SLCDLPPSLEELNVSNNKLI-EL 332

Query: 411 PEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLD---------------LSINHFF 455
           P        L  L  S N+L  ++      LK L                   L +N   
Sbjct: 333 PALP---PRLERLIASFNHLA-EVPELPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHL 388

Query: 456 GGIPSSLSRLRLLSVMDLSYNNFS 479
             +P     L+ L    +  N   
Sbjct: 389 AEVPELPQNLKQL---HVETNPLR 409

>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 =  109 bits (275), Expect = 9e-26
 Identities = 75/411 (18%), Positives = 125/411 (30%), Gaps = 99/411 (24%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFI----------------------------- 133
            +      ++  T    +W+ +  +  P                                
Sbjct: 25  EMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLS 84

Query: 134 ---GSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRY 190
                   L  L  S   L   +P    +L  L V +     L              L Y
Sbjct: 85  SLPELPPHLESLVASCNSLT-ELPELPQSLKSLLVDNNNLKALSDL--------PPLLEY 135

Query: 191 LDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNY 250
           L + + +L K       L N   L  + + +  L  +  P L       SLE I   NN 
Sbjct: 136 LGVSNNQLEKLPE----LQNSSFLKIIDVDNNSLKKL--PDLP-----PSLEFIAAGNNQ 184

Query: 251 LTNSIYPWLLNVSSNLVD--HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFL 308
           L        L    NL     I   +N L   +P       SL  +   +N L E+P+ L
Sbjct: 185 LEE------LPELQNLPFLTAIYADNNSLK-KLP---DLPLSLESIVAGNNILEELPE-L 233

Query: 309 GNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGM 368
            N+  L  +    N L+  L +   +          LE L +  N +T           +
Sbjct: 234 QNLPFLTTIYADNNLLK-TLPDLPPS----------LEALNVRDNYLTDLPELPQSLTFL 282

Query: 369 LMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNN 428
            +    F  ++            +   +  ++ SSN++   + +       L  LN+SNN
Sbjct: 283 DVSENIFSGLS-----------ELPPNLYYLNASSNEI-RSLCDL---PPSLEELNVSNN 327

Query: 429 NLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
            L  ++     +L+    L  S NH    +P     L+ L    + YN   
Sbjct: 328 KLI-ELPALPPRLER---LIASFNH-LAEVPELPQNLKQL---HVEYNPLR 370

>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 =  108 bits (272), Expect = 3e-26
 Identities = 68/327 (20%), Positives = 120/327 (36%), Gaps = 60/327 (18%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
               +LDL+ N + +         L +L  L L + K+SK S      + L  L  LYL 
Sbjct: 52  PDTALLDLQNNKI-TEIKDGDFKNLKNLHTLILINNKISKISP--GAFAPLVKLERLYLS 108

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
              L  +           K+L+ + +  N +T  +   + N  + ++  ++LG+N L  S
Sbjct: 109 KNQLKELPEKMP------KTLQELRVHENEIT-KVRKSVFNGLNQMI-VVELGTNPLKSS 160

Query: 281 I--PVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
                AF  M  L Y+ +    +  +P+  G   SL  L L  N+        I  V + 
Sbjct: 161 GIENGAFQGMKKLSYIRIADTNITTIPQ--GLPPSLTELHLDGNK--------ITKVDAA 210

Query: 339 STKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK 397
           S K  ++L  L L+ N I+  + N G                                ++
Sbjct: 211 SLKGLNNLAKLGLSFNSIS-AVDN-GSLAN-------------------------TPHLR 243

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTG------QITPRIGQLKSLDFLDLSI 451
            + L++NKL  +VP  + D   +  + L NNN++              +  S   + L  
Sbjct: 244 ELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFS 302

Query: 452 NHF-FGGIPSSL-SRLRLLSVMDLSYN 476
           N   +  I  S    + + + + L   
Sbjct: 303 NPVQYWEIQPSTFRCVYVRAAVQLGNY 329

>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 =  107 bits (268), Expect = 1e-25
 Identities = 53/252 (21%), Positives = 94/252 (37%), Gaps = 14/252 (5%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
               L++L  L L  N  S      F   L KL  L LS  QL   +P ++     LQ L
Sbjct: 71  DFKNLKNLHTLILINNKISKISPGAFAP-LVKLERLYLSKNQLKE-LPEKM--PKTLQEL 126

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
            +  N +         + L+ +  ++LG   L            ++ L+ + +   ++  
Sbjct: 127 RVHENEITKVRK-SVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITT 185

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFG 286
           I            SL  + L  N +T  +    L   +NL   + L  N +      +  
Sbjct: 186 IPQGLP------PSLTELHLDGNKIT-KVDAASLKGLNNL-AKLGLSFNSISAVDNGSLA 237

Query: 287 HMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE 346
           +   LR L L +N+L +VP  L +   ++++ L  N +   +          +TK +S  
Sbjct: 238 NTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNIS-AIGSNDFCPPGYNTKKASYS 296

Query: 347 WLYLASNEITGT 358
            + L SN +   
Sbjct: 297 GVSLFSNPVQYW 308

>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 = 83.9 bits (208), Expect = 9e-18
 Identities = 47/207 (22%), Positives = 79/207 (38%), Gaps = 20/207 (9%)

Query: 103 TINPSLLK-LQHLTYLDLSWNNFSGSPIPE--FIGSLSKLSELALSSAQLAGPIPHQLGN 159
            +  S+   L  +  ++L  N    S I    F G + KLS + ++   +   IP  L  
Sbjct: 135 KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQG-MKKLSYIRIADTNITT-IPQGL-- 190

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
              L  L L  N + +  +   L  L++L  L L    +S   N    L+N   L  L+L
Sbjct: 191 PPSLTELHLDGNKI-TKVDAASLKGLNNLAKLGLSFNSISAVDN--GSLANTPHLRELHL 247

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLT----NSIYPWLLNVSSNLVDHIDLGSN 275
            +  L  +    L      K ++V+ L NN ++    N   P   N        + L SN
Sbjct: 248 NNNKLVKVP-GGLADH---KYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSN 303

Query: 276 RL-HGSI-PVAFGHMASLRYLGLLSNR 300
            + +  I P  F  +     + L + +
Sbjct: 304 PVQYWEIQPSTFRCVYVRAAVQLGNYK 330

>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 =  107 bits (269), Expect = 7e-25
 Identities = 70/407 (17%), Positives = 140/407 (34%), Gaps = 52/407 (12%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLR 169
              +L +LDLS+N F   PI +  G++S+L  L LS+  L       + +L+  +VL + 
Sbjct: 88  PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVL 147

Query: 170 FNNLFSSGNLDWLSYLSSLR------------------------------YLDLGDCKLS 199
                   + + L   ++                                   L D K S
Sbjct: 148 GETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCS 207

Query: 200 KFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWL 259
            F +    L     L+ L L + +    S   +L L +  ++    +SN  L   +    
Sbjct: 208 YFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRD 267

Query: 260 LNVSSNLVDHI---DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLK 315
            + S   +  +    + S+         +   +++       +  R V       +S   
Sbjct: 268 FDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFL 327

Query: 316 MLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYF 375
            L  S N L   + E   ++       + LE L L  N++   +  +      +  L   
Sbjct: 328 HLDFSNNLLTDTVFENCGHL-------TELETLILQMNQLK-ELSKIAEMTTQMKSLQQL 379

Query: 376 D----KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT 431
           D     ++      +    S    +  +++SSN L   +   +     +  L+L +N + 
Sbjct: 380 DISQNSVS---YDEKKGDCSWTKSLLSLNMSSNILTDTIFRCL--PPRIKVLDLHSNKIK 434

Query: 432 GQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF 478
             I  ++ +L++L  L+++ N           RL  L  + L  N +
Sbjct: 435 -SIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHTNPW 480

>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 = 90.7 bits (225), Expect = 2e-19
 Identities = 76/386 (19%), Positives = 135/386 (34%), Gaps = 32/386 (8%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLR 169
            L  L  L +S N      I  F     +L  L LS  +L   I         L+ LDL 
Sbjct: 43  SLSKLRILIISHNRIQYLDISVF-KFNQELEYLDLSHNKLVK-IS--CHPTVNLKHLDLS 98

Query: 170 FNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIST 229
           FN   +         +S L++L L    L K S     +++L     L +          
Sbjct: 99  FNAFDALPICKEFGNMSQLKFLGLSTTHLEKSS--VLPIAHLNISKVLLVLGETYGEKED 156

Query: 230 PSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHI--DLGSNRLHGSIPVAFGH 287
           P  L    ++SL ++  +N      +   +  V++  + +I   L  N+    + +    
Sbjct: 157 PEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKL 216

Query: 288 MA-------SLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGST 340
                    +L  +    N    + + +   +++    +S  +L+G+L     + S  S 
Sbjct: 217 QTNPKLSNLTLNNIETTWNSFIRILQLV-WHTTVWYFSISNVKLQGQLDFRDFDYSGTSL 275

Query: 341 KNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQY---EYKSILGLIK 397
           K  +L    + S+      P    +          +    T  G +       S +    
Sbjct: 276 K--ALSIHQVVSDVF--GFPQSYIYEI----FSNMNIKNFTVSGTRMVHMLCPSKISPFL 327

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIG---QLKSLDFLDLSINHF 454
            +D S+N L   V E    L  L  L L  N L  +++       Q+KSL  LD+S N  
Sbjct: 328 HLDFSNNLLTDTVFENCGHLTELETLILQMNQLK-ELSKIAEMTTQMKSLQQLDISQNSV 386

Query: 455 -FGGIPSSLSRLRLLSVMDLSYNNFS 479
            +       S  + L  +++S N  +
Sbjct: 387 SYDEKKGDCSWTKSLLSLNMSSNILT 412

>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 = 85.3 bits (211), Expect = 1e-17
 Identities = 66/363 (18%), Positives = 131/363 (36%), Gaps = 56/363 (15%)

Query: 107 SLLKLQHLT-YLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            L      + ++    N      +   + +++ L    +          + L  L++LQ 
Sbjct: 159 GLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQT 218

Query: 166 LDLRFNNLFSSGNLDW--------LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTL 217
                N   ++    W        L + +++ Y  + + KL    ++     +  SL  L
Sbjct: 219 NPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKAL 278

Query: 218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD--HIDLGSN 275
            +          P         ++ + + + +          +   S +    H+D  +N
Sbjct: 279 SIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMV----HMLCPSKISPFLHLDFSNN 334

Query: 276 RLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLG---NMSSLKMLVLSYNELRGELSEFI 332
            L  ++    GH+  L  L L  N+L+E+ K       M SL+ L +S N +  +  +  
Sbjct: 335 LLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGD 394

Query: 333 QNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSI 392
                  +   SL  L ++SN +T TI               F  +              
Sbjct: 395 ------CSWTKSLLSLNMSSNILTDTI---------------FRCLPPR----------- 422

Query: 393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSI 451
              IK++DL SNK+   +P++++ L  L  LN+++N L   +   I  +L SL  + L  
Sbjct: 423 ---IKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLK-SVPDGIFDRLTSLQKIWLHT 477

Query: 452 NHF 454
           N +
Sbjct: 478 NPW 480

>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 = 83.4 bits (206), Expect = 4e-17
 Identities = 70/384 (18%), Positives = 134/384 (34%), Gaps = 21/384 (5%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
             T L++S N  S     +   SLSKL  L +S  ++             L+ LDL  N 
Sbjct: 22  KTTILNISQNYISELWTSDI-LSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK 80

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSL 232
           L    +        +L++LDL            +   N+  L  L L    L   S   +
Sbjct: 81  L-VKISCHP---TVNLKHLDLSFNAFDALPI-CKEFGNMSQLKFLGLSTTHLEKSSVLPI 135

Query: 233 LHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLR 292
            HLN SK L  + L   Y        L + ++  +  +   +   H  + V+   +A+L 
Sbjct: 136 AHLNISKVL--LVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLE 193

Query: 293 YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK---NSSLEWLY 349
              +          +  ++ +        + L     E   N      +   ++++ +  
Sbjct: 194 LSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFS 253

Query: 350 LASNEITGTIP-NLGGFPGMLMPLIYFDKITVTWKGGQYEY-KSILGLIKIIDLSSNKLG 407
           +++ ++ G +      + G  +  +   ++     G    Y   I   + I + + +   
Sbjct: 254 ISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTR 313

Query: 408 GEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHF-----FGGIPSSL 462
                    +   + L+ SNN LT  +    G L  L+ L L +N          + + +
Sbjct: 314 MVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQM 373

Query: 463 SRLRLLSVMDLSYNNFSGKIPKGT 486
             L+ L   D+S N+ S    KG 
Sbjct: 374 KSLQQL---DISQNSVSYDEKKGD 394

>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 = 80.7 bits (199), Expect = 4e-16
 Identities = 54/331 (16%), Positives = 103/331 (31%), Gaps = 26/331 (7%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
            +  +L++  N +      D +  LS LR L +   ++        V    + L  L L 
Sbjct: 21  QKTTILNISQNYISELWTSD-ILSLSKLRILIISHNRIQYLDI--SVFKFNQELEYLDLS 77

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
           H  L  IS           +L+ +DLS N              S L   + L +  L  S
Sbjct: 78  HNKLVKISCHPT------VNLKHLDLSFNAFDALPICKEFGNMSQL-KFLGLSTTHLEKS 130

Query: 281 IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGST 340
             +   H+   + L +L     E       +       L       +   FI +VS  + 
Sbjct: 131 SVLPIAHLNISKVLLVLGETYGEKEDP-EGLQDFNTESLHIVFPTNKEFHFILDVSVKTV 189

Query: 341 KNSSLEWLYLASNEITGTIPN---LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGL-I 396
            N  L  +     +   +              +  +  + I  TW       + +    +
Sbjct: 190 ANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTV 249

Query: 397 KIIDLSSNKLGGEVPEEIMDLVG-----LVALNLSNNNLTGQITPRIGQLKSLDFLDLSI 451
               +S+ KL G++     D  G     L    + ++      +       +++  + ++
Sbjct: 250 WYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTV 309

Query: 452 NH---FFGGIPSSLSRLRLLSVMDLSYNNFS 479
           +         PS +S    L   D S N  +
Sbjct: 310 SGTRMVHMLCPSKISPFLHL---DFSNNLLT 337

>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 = 70.3 bits (172), Expect = 6e-13
 Identities = 42/225 (18%), Positives = 75/225 (33%), Gaps = 60/225 (26%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
            +        K+    +LD S N  + +                              G+
Sbjct: 312 TRMVHMLCPSKISPFLHLDFSNNLLTDTVFENC-------------------------GH 346

Query: 160 LSRLQVLDLRFNNLFS-SGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
           L+ L+ L L+ N L   S   +  + + SL+ LD+    +S         S  +SL +L 
Sbjct: 347 LTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKK-GDCSWTKSLLSLN 405

Query: 219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           +    L       L        ++V+DL +N +                           
Sbjct: 406 MSSNILTDTIFRCLPP-----RIKVLDLHSNKIK-------------------------- 434

Query: 279 GSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYN 322
            SIP     + +L+ L + SN+L+ VP      ++SL+ + L  N
Sbjct: 435 -SIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHTN 478

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 54.5 bits (131), Expect = 6e-08
 Identities = 45/271 (16%), Positives = 85/271 (31%), Gaps = 29/271 (10%)

Query: 238 SKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLL 297
           S+   ++++S NY++  ++   +   S L   + +  NR+       F     L YL L 
Sbjct: 20  SQKTTILNISQNYIS-ELWTSDILSLSKLR-ILIISHNRIQYLDISVFKFNQELEYLDLS 77

Query: 298 SNRLREVP-----------------------KFLGNMSSLKMLVLSYNELRGELSEFIQN 334
            N+L ++                        K  GNMS LK L LS   L       I +
Sbjct: 78  HNKLVKISCHPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAH 137

Query: 335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG 394
           ++         E      +       N      +      F  I +           +  
Sbjct: 138 LNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFI-LDVSVKTVANLELSN 196

Query: 395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQL---KSLDFLDLSI 451
           +  +++ +       +  ++     L  L L+N   T     RI QL    ++ +  +S 
Sbjct: 197 IKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISN 256

Query: 452 NHFFGGIPSSLSRLRLLSVMDLSYNNFSGKI 482
               G +          S+  LS +     +
Sbjct: 257 VKLQGQLDFRDFDYSGTSLKALSIHQVVSDV 287

>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 =  105 bits (264), Expect = 2e-24
 Identities = 53/244 (21%), Positives = 96/244 (39%), Gaps = 22/244 (9%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
           +  YL+L  NN        F   L  L  L L    +          L+ L  L+L  N 
Sbjct: 76  NTRYLNLMENNIQMIQADTFRH-LHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNW 134

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC-DLPPISTPS 231
           L +        YLS LR L L +  +    +     + + SL  L LG    L  IS  +
Sbjct: 135 L-TVIPSGAFEYLSKLRELWLRNNPIESIPS--YAFNRVPSLMRLDLGELKKLEYISEGA 191

Query: 232 LLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASL 291
              L    +L+ ++L    + +   P L  +    ++ +++  N      P +F  ++SL
Sbjct: 192 FEGL---FNLKYLNLGMCNIKDM--PNLTPLVG--LEELEMSGNHFPEIRPGSFHGLSSL 244

Query: 292 RYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLY 349
           + L ++++++  + +     ++SL  L L++N L         ++     T    L  L+
Sbjct: 245 KKLWVMNSQVSLIERNAFDGLASLVELNLAHNNL--------SSLPHDLFTPLRYLVELH 296

Query: 350 LASN 353
           L  N
Sbjct: 297 LHHN 300

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

 Score = 92.5 bits (230), Expect = 4e-20
 Identities = 64/296 (21%), Positives = 106/296 (35%), Gaps = 74/296 (25%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
           S  + L+L  NN+          +L  L  L LG   + +        + L SL TL L 
Sbjct: 75  SNTRYLNLMENNIQMIQADT-FRHLHHLEVLQLGRNSIRQIEV--GAFNGLASLNTLELF 131

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS-NRLHG 279
              L  I + +  +L     L  + L NN +  SI  +  N   +L+  +DLG   +L  
Sbjct: 132 DNWLTVIPSGAFEYL---SKLRELWLRNNPIE-SIPSYAFNRVPSLM-RLDLGELKKLE- 185

Query: 280 SIPV-AFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
            I   AF  + +L+YL L    ++++P     +  L+ L +S N            +  G
Sbjct: 186 YISEGAFEGLFNLKYLNLGMCNIKDMPNLT-PLVGLEELEMSGNH--------FPEIRPG 236

Query: 339 STKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK 397
           S    SSL+ L++ +++++  I                                      
Sbjct: 237 SFHGLSSLKKLWVMNSQVS-LIE------------------------------------- 258

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSIN 452
                              L  LV LNL++NNL+  +   +   L+ L  L L  N
Sbjct: 259 -------------RNAFDGLASLVELNLAHNNLS-SLPHDLFTPLRYLVELHLHHN 300

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

 Score = 83.6 bits (207), Expect = 3e-17
 Identities = 50/193 (25%), Positives = 76/193 (39%), Gaps = 12/193 (6%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
           L  L  L+L  N  +  P   F   LSKL EL L +  +     +    +  L  LDL  
Sbjct: 122 LASLNTLELFDNWLTVIPSGAFEY-LSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGE 180

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
                  +      L +L+YL+LG C +    N    L+ L  L  L +     P I   
Sbjct: 181 LKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPN----LTPLVGLEELEMSGNHFPEIRPG 236

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMA 289
           S   L    SL+ + + N+ ++  I     +  ++LV  ++L  N L  S+P   F  + 
Sbjct: 237 SFHGL---SSLKKLWVMNSQVS-LIERNAFDGLASLV-ELNLAHNNLS-SLPHDLFTPLR 290

Query: 290 SLRYLGLLSNRLR 302
            L  L L  N   
Sbjct: 291 YLVELHLHHNPWN 303

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

 Score = 72.9 bits (179), Expect = 8e-14
 Identities = 58/254 (22%), Positives = 94/254 (37%), Gaps = 47/254 (18%)

Query: 238 SKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGL 296
             +   ++L  N +   I         +L   + LG N +   I V AF  +ASL  L L
Sbjct: 74  PSNTRYLNLMENNIQ-MIQADTFRHLHHLE-VLQLGRNSIR-QIEVGAFNGLASLNTLEL 130

Query: 297 LSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLAS-N 353
             N L  +P      +S L+ L L  N         I+++ S +     SL  L L    
Sbjct: 131 FDNWLTVIPSGAFEYLSKLRELWLRNNP--------IESIPSYAFNRVPSLMRLDLGELK 182

Query: 354 EITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEE 413
           ++   I   G F G                         L  +K ++L    +  ++P  
Sbjct: 183 KLE-YISE-GAFEG-------------------------LFNLKYLNLGMCNIK-DMPN- 213

Query: 414 IMDLVGLVALNLSNNNLTGQITPR-IGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD 472
           +  LVGL  L +S N+   +I P     L SL  L +  +       ++   L  L  ++
Sbjct: 214 LTPLVGLEELEMSGNHFP-EIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELN 272

Query: 473 LSYNNFSGKIPKGT 486
           L++NN S  +P   
Sbjct: 273 LAHNNLS-SLPHDL 285

>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 = 63.2 bits (154), Expect = 9e-11
 Identities = 44/222 (19%), Positives = 86/222 (38%), Gaps = 46/222 (20%)

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGE 327
            +      L   +P      ++ RYL L+ N ++ +      ++  L++L L  N     
Sbjct: 58  KVVCTRRGLS-EVPQGI--PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS---- 110

Query: 328 LSEFIQNVSSGSTKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQ 386
               I+ +  G+    +SL  L L  N +T  IP+ G F                     
Sbjct: 111 ----IRQIEVGAFNGLASLNTLELFDNWLT-VIPS-GAFEY------------------- 145

Query: 387 YEYKSILGLIKIIDLSSNKLGGEVPEEI-MDLVGLVALNLSNNNLTGQITPRI-GQLKSL 444
                 L  ++ + L +N +   +P      +  L+ L+L        I+      L +L
Sbjct: 146 ------LSKLRELWLRNNPIE-SIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNL 198

Query: 445 DFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
            +L+L + +    +P+ L+ L  L  +++S N+F  +I  G+
Sbjct: 199 KYLNLGMCNIKD-MPN-LTPLVGLEELEMSGNHFP-EIRPGS 237

>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 = 52.4 bits (126), Expect = 2e-07
 Identities = 45/197 (22%), Positives = 65/197 (32%), Gaps = 44/197 (22%)

Query: 298 SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEIT 356
              L EVP+ +   S+ + L L  N         IQ + + + ++   LE L L  N I 
Sbjct: 63  RRGLSEVPQGI--PSNTRYLNLMEN--------NIQMIQADTFRHLHHLEVLQLGRNSIR 112

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI-M 415
             I   G F G                         L  +  ++L  N L   +P     
Sbjct: 113 -QIEV-GAFNG-------------------------LASLNTLELFDNWLT-VIPSGAFE 144

Query: 416 DLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHFFGGIPS-SLSRLRLLSVMDL 473
            L  L  L L NN +   I      ++ SL  LDL        I   +   L  L  ++L
Sbjct: 145 YLSKLRELWLRNNPIE-SIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNL 203

Query: 474 SYNNFSGKIPKGTQLQR 490
              N    +P  T L  
Sbjct: 204 GMCNIK-DMPNLTPLVG 219

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

 Score =  102 bits (257), Expect = 4e-24
 Identities = 60/264 (22%), Positives = 103/264 (39%), Gaps = 31/264 (11%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
             T LDL  N+ S     +F G L  L  L L + +++         L +LQ L +  N+
Sbjct: 55  DTTLLDLQNNDISELRKDDFKG-LQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNH 113

Query: 173 LFS-SGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP- 230
           L     NL      SSL  L + D ++ K      V S LR++  + +G   L       
Sbjct: 114 LVEIPPNL-----PSSLVELRIHDNRIRKVPK--GVFSGLRNMNCIEMGGNPLENSGFEP 166

Query: 231 ------SLLHLNYSK------------SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL 272
                  L +L  S+            +L  + L +N +  +I    L   S L   + L
Sbjct: 167 GAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQ-AIELEDLLRYSKLY-RLGL 224

Query: 273 GSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFI 332
           G N++      +   + +LR L L +N+L  VP  L ++  L+++ L  N +  ++    
Sbjct: 225 GHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNIT-KVGVND 283

Query: 333 QNVSSGSTKNSSLEWLYLASNEIT 356
                   K +    + L +N + 
Sbjct: 284 FCPVGFGVKRAYYNGISLFNNPVP 307

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

 Score =  101 bits (253), Expect = 1e-23
 Identities = 71/327 (21%), Positives = 114/327 (34%), Gaps = 61/327 (18%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
               +LDL+ N++ S    D    L  L  L L + K+SK     +  S LR L  LY+ 
Sbjct: 54  PDTTLLDLQNNDI-SELRKDDFKGLQHLYALVLVNNKISKIHE--KAFSPLRKLQKLYIS 110

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
              L  I            SL  + + +N +   +   + +   N+   I++G N L  S
Sbjct: 111 KNHLVEIPPNLP------SSLVELRIHDNRIR-KVPKGVFSGLRNMN-CIEMGGNPLENS 162

Query: 281 I--PVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
              P AF  +  L YL +   +L  +PK      +L  L L +N+        IQ +   
Sbjct: 163 GFEPGAFDGL-KLNYLRISEAKLTGIPK--DLPETLNELHLDHNK--------IQAIELE 211

Query: 339 STKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK 397
                S L  L L  N+I   I N G                             L  ++
Sbjct: 212 DLLRYSKLYRLGLGHNQIR-MIEN-GSLSF-------------------------LPTLR 244

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTG------QITPRIGQLKSLDFLDLSI 451
            + L +NKL   VP  + DL  L  + L  NN+T              +    + + L  
Sbjct: 245 ELHLDNNKLS-RVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFN 303

Query: 452 NH--FFGGIPSSLSRLRLLSVMDLSYN 476
           N   ++   P++   +     +     
Sbjct: 304 NPVPYWEVQPATFRCVTDRLAIQFGNY 330

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

 Score = 80.4 bits (199), Expect = 1e-16
 Identities = 57/277 (20%), Positives = 97/277 (35%), Gaps = 51/277 (18%)

Query: 213 SLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL 272
             T L L + D+  +       L   + L  + L NN ++  I+    +    L   + +
Sbjct: 55  DTTLLDLQNNDISELRKDDFKGL---QHLYALVLVNNKIS-KIHEKAFSPLRKLQ-KLYI 109

Query: 273 GSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGELSEF 331
             N L   IP      +SL  L +  NR+R+VPK     + ++  + +  N L       
Sbjct: 110 SKNHLV-EIPP--NLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENS---- 162

Query: 332 IQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKS 391
                 G+     L +L ++  ++T  IP       +   L                   
Sbjct: 163 --GFEPGAFDGLKLNYLRISEAKLT-GIP-----KDLPETL------------------- 195

Query: 392 ILGLIKIIDLSSNKLGGEVPEEIMD-LVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDL 449
                  + L  NK+   +  E +     L  L L +N +   I       L +L  L L
Sbjct: 196 -----NELHLDHNKIQ-AIELEDLLRYSKLYRLGLGHNQIR-MIENGSLSFLPTLRELHL 248

Query: 450 SINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
             N     +P+ L  L+LL V+ L  NN + K+    
Sbjct: 249 DNNKL-SRVPAGLPDLKLLQVVYLHTNNIT-KVGVND 283

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

 Score = 79.7 bits (197), Expect = 2e-16
 Identities = 48/200 (24%), Positives = 78/200 (39%), Gaps = 16/200 (8%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
               L+++  +++  N    S          KL+ L +S A+L G IP  L     L  L
Sbjct: 142 VFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTG-IPKDL--PETLNEL 198

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
            L  N +  +  L+ L   S L  L LG  ++    N    LS L +L  L+L +  L  
Sbjct: 199 HLDHNKI-QAIELEDLLRYSKLYRLGLGHNQIRMIEN--GSLSFLPTLRELHLDNNKLSR 255

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLT----NSIYPWLLNVSSNLVDHIDLGSNRL-HGSI 281
           +    L  L   K L+V+ L  N +T    N   P    V     + I L +N + +  +
Sbjct: 256 VP-AGLPDL---KLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEV 311

Query: 282 -PVAFGHMASLRYLGLLSNR 300
            P  F  +     +   + +
Sbjct: 312 QPATFRCVTDRLAIQFGNYK 331

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

 Score =  103 bits (259), Expect = 7e-24
 Identities = 55/244 (22%), Positives = 95/244 (38%), Gaps = 22/244 (9%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
           +   L+L  N      +  F   L  L  L LS   +          L+ L  L+L  N 
Sbjct: 65  NTRLLNLHENQIQIIKVNSFKH-LRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNR 123

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC-DLPPISTPS 231
           L ++       YLS L+ L L +  +    +     + + SL  L LG    L  IS  +
Sbjct: 124 L-TTIPNGAFVYLSKLKELWLRNNPIESIPS--YAFNRIPSLRRLDLGELKRLSYISEGA 180

Query: 232 LLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASL 291
              L    +L  ++L+   L     P L  +    +D +DL  N L    P +F  +  L
Sbjct: 181 FEGL---SNLRYLNLAMCNLRE--IPNLTPLIK--LDELDLSGNHLSAIRPGSFQGLMHL 233

Query: 292 RYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLY 349
           + L ++ ++++ + +    N+ SL  + L++N L          +     T    LE ++
Sbjct: 234 QKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNL--------TLLPHDLFTPLHHLERIH 285

Query: 350 LASN 353
           L  N
Sbjct: 286 LHHN 289

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

 Score = 95.2 bits (237), Expect = 5e-21
 Identities = 64/296 (21%), Positives = 103/296 (34%), Gaps = 74/296 (25%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
           +  ++L+L  N +          +L  L  L L    +          + L +L TL L 
Sbjct: 64  TNTRLLNLHENQIQIIKVNS-FKHLRHLEILQLSRNHIRTIEI--GAFNGLANLNTLELF 120

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS-NRLHG 279
              L  I   + ++L     L+ + L NN +  SI  +  N   +L   +DLG   RL  
Sbjct: 121 DNRLTTIPNGAFVYL---SKLKELWLRNNPIE-SIPSYAFNRIPSLR-RLDLGELKRLS- 174

Query: 280 SIPV-AFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
            I   AF  +++LRYL L    LRE+P     +  L  L LS N         +  +  G
Sbjct: 175 YISEGAFEGLSNLRYLNLAMCNLREIPNLT-PLIKLDELDLSGNH--------LSAIRPG 225

Query: 339 STKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK 397
           S +    L+ L++  ++I   I                                      
Sbjct: 226 SFQGLMHLQKLWMIQSQIQ-VIE------------------------------------- 247

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSIN 452
                             +L  LV +NL++NNLT  +   +   L  L+ + L  N
Sbjct: 248 -------------RNAFDNLQSLVEINLAHNNLT-LLPHDLFTPLHHLERIHLHHN 289

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

 Score = 86.0 bits (213), Expect = 5e-18
 Identities = 51/193 (26%), Positives = 76/193 (39%), Gaps = 12/193 (6%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
           L +L  L+L  N  +  P   F+  LSKL EL L +  +     +    +  L+ LDL  
Sbjct: 111 LANLNTLELFDNRLTTIPNGAFVY-LSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGE 169

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
               S  +      LS+LRYL+L  C L +  N    L+ L  L  L L    L  I   
Sbjct: 170 LKRLSYISEGAFEGLSNLRYLNLAMCNLREIPN----LTPLIKLDELDLSGNHLSAIRPG 225

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMA 289
           S   L     L+ + +  + +   I     +   +LV  I+L  N L   +P   F  + 
Sbjct: 226 SFQGL---MHLQKLWMIQSQIQ-VIERNAFDNLQSLV-EINLAHNNLT-LLPHDLFTPLH 279

Query: 290 SLRYLGLLSNRLR 302
            L  + L  N   
Sbjct: 280 HLERIHLHHNPWN 292

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

 Score = 71.3 bits (175), Expect = 2e-13
 Identities = 55/251 (21%), Positives = 95/251 (37%), Gaps = 45/251 (17%)

Query: 240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN 299
           +  +++L  N +   I         +L   + L  N +      AF  +A+L  L L  N
Sbjct: 65  NTRLLNLHENQIQ-IIKVNSFKHLRHLE-ILQLSRNHIRTIEIGAFNGLANLNTLELFDN 122

Query: 300 RLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLAS-NEIT 356
           RL  +P      +S LK L L  N         I+++ S +     SL  L L     ++
Sbjct: 123 RLTTIPNGAFVYLSKLKELWLRNNP--------IESIPSYAFNRIPSLRRLDLGELKRLS 174

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD 416
             I   G F G                         L  ++ ++L+   L  E+P  +  
Sbjct: 175 -YISE-GAFEG-------------------------LSNLRYLNLAMCNLR-EIPN-LTP 205

Query: 417 LVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSY 475
           L+ L  L+LS N+L+  I P     L  L  L +  +       ++   L+ L  ++L++
Sbjct: 206 LIKLDELDLSGNHLS-AIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAH 264

Query: 476 NNFSGKIPKGT 486
           NN +  +P   
Sbjct: 265 NNLT-LLPHDL 274

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

 Score = 62.8 bits (153), Expect = 1e-10
 Identities = 49/222 (22%), Positives = 85/222 (38%), Gaps = 46/222 (20%)

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGE 327
            +      L   +P       + R L L  N+++ +      ++  L++L LS N     
Sbjct: 47  KVICVRKNLR-EVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH---- 99

Query: 328 LSEFIQNVSSGSTKN-SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQ 386
               I+ +  G+    ++L  L L  N +T TIPN G F                     
Sbjct: 100 ----IRTIEIGAFNGLANLNTLELFDNRLT-TIPN-GAFVY------------------- 134

Query: 387 YEYKSILGLIKIIDLSSNKLGGEVPEEI-MDLVGLVALNLSNNNLTGQITPRI-GQLKSL 444
                 L  +K + L +N +   +P      +  L  L+L        I+      L +L
Sbjct: 135 ------LSKLKELWLRNNPIE-SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNL 187

Query: 445 DFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
            +L+L++ +    IP+ L+ L  L  +DLS N+ S  I  G+
Sbjct: 188 RYLNLAMCNL-REIPN-LTPLIKLDELDLSGNHLS-AIRPGS 226

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

 Score = 52.8 bits (127), Expect = 2e-07
 Identities = 49/197 (24%), Positives = 71/197 (36%), Gaps = 44/197 (22%)

Query: 298 SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEIT 356
              LREVP  +   ++ ++L L  N         IQ +   S K+   LE L L+ N I 
Sbjct: 52  RKNLREVPDGIS--TNTRLLNLHEN--------QIQIIKVNSFKHLRHLEILQLSRNHIR 101

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIM- 415
            TI   G F G                         L  +  ++L  N+L   +P     
Sbjct: 102 -TIEI-GAFNG-------------------------LANLNTLELFDNRLT-TIPNGAFV 133

Query: 416 DLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHFFGGIPS-SLSRLRLLSVMDL 473
            L  L  L L NN +   I      ++ SL  LDL        I   +   L  L  ++L
Sbjct: 134 YLSKLKELWLRNNPIE-SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNL 192

Query: 474 SYNNFSGKIPKGTQLQR 490
           +  N   +IP  T L +
Sbjct: 193 AMCNLR-EIPNLTPLIK 208

>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 =  100 bits (250), Expect = 1e-23
 Identities = 53/210 (25%), Positives = 78/210 (37%), Gaps = 9/210 (4%)

Query: 114 LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL 173
              + L  N  S  P   F      L+ L L S  LA         L+ L+ LDL  N  
Sbjct: 34  SQRIFLHGNRISHVPAASFRA-CRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ 92

Query: 174 FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLL 233
             S +      L  L  L L  C L +      +   L +L  LYL    L  +   +  
Sbjct: 93  LRSVDPATFHGLGRLHTLHLDRCGLQELGP--GLFRGLAALQYLYLQDNALQALPDDTFR 150

Query: 234 HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRY 293
            L    +L  + L  N ++ S+         +L   + L  NR+    P AF  +  L  
Sbjct: 151 DL---GNLTHLFLHGNRIS-SVPERAFRGLHSLD-RLLLHQNRVAHVHPHAFRDLGRLMT 205

Query: 294 LGLLSNRLREVPK-FLGNMSSLKMLVLSYN 322
           L L +N L  +P   L  + +L+ L L+ N
Sbjct: 206 LYLFANNLSALPTEALAPLRALQYLRLNDN 235

>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 = 75.0 bits (185), Expect = 4e-15
 Identities = 54/270 (20%), Positives = 92/270 (34%), Gaps = 69/270 (25%)

Query: 186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVID 245
           ++ + + L   ++S            R+LT L+L    L  I   +   L     LE +D
Sbjct: 32  AASQRIFLHGNRISHVPA--ASFRACRNLTILWLHSNVLARIDAAAFTGL---ALLEQLD 86

Query: 246 LSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP 305
           LS+N    S+ P                           F  +  L  L L    L+E+ 
Sbjct: 87  LSDNAQLRSVDP-------------------------ATFHGLGRLHTLHLDRCGLQELG 121

Query: 306 K-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLYLASNEITGTIPNLG 363
                 +++L+ L L  N         +Q +   +     +L  L+L  N I+ ++P   
Sbjct: 122 PGLFRGLAALQYLYLQDNA--------LQALPDDTFRDLGNLTHLFLHGNRIS-SVPE-R 171

Query: 364 GFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL 423
            F G                         L  +  + L  N++    P    DL  L+ L
Sbjct: 172 AFRG-------------------------LHSLDRLLLHQNRVAHVHPHAFRDLGRLMTL 206

Query: 424 NLSNNNLTGQITPRI-GQLKSLDFLDLSIN 452
            L  NNL+  +       L++L +L L+ N
Sbjct: 207 YLFANNLS-ALPTEALAPLRALQYLRLNDN 235

>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 = 55.4 bits (134), Expect = 1e-08
 Identities = 40/126 (31%), Positives = 52/126 (41%), Gaps = 13/126 (10%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
           +   L +LT+L L  N  S  P   F G L  L  L L   ++A   PH   +L RL  L
Sbjct: 148 TFRDLGNLTHLFLHGNRISSVPERAFRG-LHSLDRLLLHQNRVAHVHPHAFRDLGRLMTL 206

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLG------DCKLSKFSNWFQVLSNLRSLTTLYLG 220
            L  NNL S+   + L+ L +L+YL L       DC+      W Q      S       
Sbjct: 207 YLFANNL-SALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEVP---- 261

Query: 221 HCDLPP 226
            C LP 
Sbjct: 262 -CSLPQ 266

>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 = 50.4 bits (121), Expect = 6e-07
 Identities = 41/193 (21%), Positives = 68/193 (35%), Gaps = 44/193 (22%)

Query: 298 SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEIT 356
              L+ VP  +   ++ + + L  N         I +V + S +   +L  L+L SN + 
Sbjct: 20  QQGLQAVPVGI--PAASQRIFLHGNR--------ISHVPAASFRACRNLTILWLHSNVLA 69

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI-M 415
             I     F G                         L L++ +DLS N     V      
Sbjct: 70  -RIDA-AAFTG-------------------------LALLEQLDLSDNAQLRSVDPATFH 102

Query: 416 DLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHFFGGIPS-SLSRLRLLSVMDL 473
            L  L  L+L    L  ++ P +   L +L +L L  N     +P  +   L  L+ + L
Sbjct: 103 GLGRLHTLHLDRCGLQ-ELGPGLFRGLAALQYLYLQDNAL-QALPDDTFRDLGNLTHLFL 160

Query: 474 SYNNFSGKIPKGT 486
             N  S  +P+  
Sbjct: 161 HGNRIS-SVPERA 172

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

 Score = 99.2 bits (247), Expect = 5e-23
 Identities = 54/263 (20%), Positives = 91/263 (34%), Gaps = 25/263 (9%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEF--IGSLSKLSELALSSAQLAGPIPHQLGNLSRL 163
             ++K   L  L +         +     +  +S L EL L + ++ G  P  L   +  
Sbjct: 62  TDIIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGP 121

Query: 164 QVLDLRFNNLFSSGNLDWLSYLS-----SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
            +  L   N+  +    WL+ L       L+ L +       FS   + +    +L+TL 
Sbjct: 122 DLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFS--CEQVRVFPALSTLD 179

Query: 219 LGHCDL-PPISTPSLLHLNYSKSLEVIDLSNNYLT--NSIYPWLLNVSSNLVDHIDLGSN 275
           L            S L      +L+V+ L N  +   + +   L      L   +DL  N
Sbjct: 180 LSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQ-GLDLSHN 238

Query: 276 RLHGSIPV-AFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQN 334
            L  +    +    + L  L L    L++VPK L   + L +L LSYN L          
Sbjct: 239 SLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLP--AKLSVLDLSYNRLDR-------- 288

Query: 335 VSSGSTKNSSLEWLYLASNEITG 357
            +    +   +  L L  N    
Sbjct: 289 -NPSPDELPQVGNLSLKGNPFLD 310

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

 Score = 83.4 bits (206), Expect = 9e-18
 Identities = 48/246 (19%), Positives = 76/246 (30%), Gaps = 14/246 (5%)

Query: 87  LDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSS 146
           L +RA                +  LQ LT  +L       +P P    +   L+ L L +
Sbjct: 73  LTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGT--APPPLLEATGPDLNILNLRN 130

Query: 147 AQLAGPIPH----QLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFS 202
              A         Q      L+VL +       + + + +    +L  LDL D       
Sbjct: 131 VSWATRDAWLAELQQWLKPGLKVLSIA-QAHSLNFSCEQVRVFPALSTLDLSDNPELGER 189

Query: 203 N--WFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLL 260
                       +L  L L +  +   S            L+ +DLS+N L ++      
Sbjct: 190 GLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSC 249

Query: 261 NVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLS 320
           +  S L   ++L    L   +P        L  L L  NRL   P     +  +  L L 
Sbjct: 250 DWPSQLN-SLNLSFTGLK-QVPKGLPA--KLSVLDLSYNRLDRNPSPDE-LPQVGNLSLK 304

Query: 321 YNELRG 326
            N    
Sbjct: 305 GNPFLD 310

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

 Score = 82.3 bits (203), Expect = 3e-17
 Identities = 51/329 (15%), Positives = 94/329 (28%), Gaps = 45/329 (13%)

Query: 135 SLSKLSELALSSAQLAGPIPHQL-GNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDL 193
           + S       S+    G    +L G    L+ L  R +     G    +    SL+ L +
Sbjct: 16  NFSDPKPDWSSAFNCLGAADVELYGGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRLTV 75

Query: 194 GDCKLS-KFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLT 252
              ++  +       +  +  L  L L + ++   + P LL       L +++L N    
Sbjct: 76  RAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEAT-GPDLNILNLRNVSWA 134

Query: 253 N--SIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF--- 307
              +    L       +  + +                 +L  L L  N           
Sbjct: 135 TRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISA 194

Query: 308 --LGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGF 365
                  +L++L L        +       S+ +     L+ L L+ N +          
Sbjct: 195 LCPLKFPTLQVLALRNA----GMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSC- 249

Query: 366 PGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNL 425
                                         +  ++LS   L  +VP+ +     L  L+L
Sbjct: 250 -------------------------DWPSQLNSLNLSFTGL-KQVPKGL--PAKLSVLDL 281

Query: 426 SNNNLTGQITPRIGQLKSLDFLDLSINHF 454
           S N L     P   +L  +  L L  N F
Sbjct: 282 SYNRLDR--NPSPDELPQVGNLSLKGNPF 308

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

 Score = 76.9 bits (189), Expect = 2e-15
 Identities = 56/319 (17%), Positives = 99/319 (31%), Gaps = 40/319 (12%)

Query: 170 FNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT--LYLGHCDLPPI 227
           +++ F+      +      R L+    ++   ++  Q    ++SL+   L +    +P  
Sbjct: 24  WSSAFNCLGAADVELYGGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRLTVRAARIPSR 83

Query: 228 STPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP----V 283
                L +     L+ + L N  +T +  P LL  +   ++ ++L +            +
Sbjct: 84  ILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAEL 143

Query: 284 AFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN 342
                  L+ L +          + +    +L  L LS N   GE             K 
Sbjct: 144 QQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPL---KF 200

Query: 343 SSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLS 402
            +L+ L L +  +              + L                          +DLS
Sbjct: 201 PTLQVLALRNAGMETPSGVCSALAAARVQLQG------------------------LDLS 236

Query: 403 SNKLGGEVPEEIMDLVG-LVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSS 461
            N L         D    L +LNLS   L  Q+   +     L  LDLS N      PS 
Sbjct: 237 HNSLRDAAGAPSCDWPSQLNSLNLSFTGLK-QVPKGLPA--KLSVLDLSYNR-LDRNPSP 292

Query: 462 LSRLRLLSVMDLSYNNFSG 480
              L  +  + L  N F  
Sbjct: 293 D-ELPQVGNLSLKGNPFLD 310

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

 Score = 72.6 bits (178), Expect = 4e-14
 Identities = 35/155 (22%), Positives = 52/155 (33%), Gaps = 16/155 (10%)

Query: 106 PSLLKLQHLTYLDLSWNNFSG-SPIPEFI--GSLSKLSELALSSAQLA---GPIPHQLGN 159
             +     L+ LDLS N   G   +   +       L  LAL +A +    G        
Sbjct: 167 EQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAA 226

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
             +LQ LDL  N+L  +       + S L  L+L    L +             L+ L L
Sbjct: 227 RVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPK-----GLPAKLSVLDL 281

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS 254
            +  L     PS   L     +  + L  N   +S
Sbjct: 282 SYNRL--DRNPSPDEL---PQVGNLSLKGNPFLDS 311

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

 Score = 60.7 bits (147), Expect = 3e-10
 Identities = 37/212 (17%), Positives = 68/212 (32%), Gaps = 13/212 (6%)

Query: 289 ASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG-ELSEFIQNVSSGSTKNSSLEW 347
              R L  L  R+            +K L L    +R   +   I   +      S L+ 
Sbjct: 40  GGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQE 99

Query: 348 LYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGL----IKIIDLSS 403
           L L + E+TGT P           L   +   V+W         +       +K++ ++ 
Sbjct: 100 LTLENLEVTGTAP-PPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQ 158

Query: 404 NKLGGEVPEEIMDLVGLVALNLSNNNLTGQIT-------PRIGQLKSLDFLDLSINHFFG 456
                   E++     L  L+LS+N   G+          +   L+ L   +  +    G
Sbjct: 159 AHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSG 218

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQL 488
              +  +    L  +DLS+N+        +  
Sbjct: 219 VCSALAAARVQLQGLDLSHNSLRDAAGAPSCD 250

>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 =  101 bits (253), Expect = 1e-22
 Identities = 75/402 (18%), Positives = 141/402 (35%), Gaps = 44/402 (10%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQL---------AGPIPHQLGNL 160
            +  L +LDLS+N+F   P+ +  G+L+KL+ L LS+A+             +   L +L
Sbjct: 119 PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDL 178

Query: 161 SRLQV-----------------LDLRFNNLFSSGNLDWLSYLSSL--RYLDLGDCKLSKF 201
               +                 L    N+LFS      ++ L  L    + L D    + 
Sbjct: 179 VSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRL 238

Query: 202 SNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLN 261
             +   L+   +L  + L H +     +  L    + + +E +++ N  +T  I      
Sbjct: 239 MTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFT 298

Query: 262 VSSNLVDHI---DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKML 317
            S   +  +    + +     S    +   A +    L  +    +      + SS   L
Sbjct: 299 YSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFL 358

Query: 318 VLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDK 377
             + N           +V  G +    L+ L L  N +      +      +  L   D 
Sbjct: 359 NFTQNVF-------TDSVFQGCSTLKRLQTLILQRNGLK-NFFKVALMTKNMSSLETLDV 410

Query: 378 ITVTWKGGQYEYK-SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITP 436
              +     Y+   +    I +++LSSN L G V   +     +  L+L NN +   I  
Sbjct: 411 SLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCL--PPKVKVLDLHNNRIM-SIPK 467

Query: 437 RIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF 478
            +  L++L  L+++ N           RL  L  + L  N +
Sbjct: 468 DVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHDNPW 509

>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 = 87.2 bits (216), Expect = 3e-18
 Identities = 62/382 (16%), Positives = 123/382 (32%), Gaps = 26/382 (6%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLR 169
            L  L  L LS N         F+     L  L +S  +L   I      ++ L+ LDL 
Sbjct: 74  FLSELRVLRLSHNRIRSLDFHVFL-FNQDLEYLDVSHNRLQN-IS--CCPMASLRHLDLS 129

Query: 170 FNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLR-SLTTLYLGHCDLPPIS 228
           FN+            L+ L +L L   K  +       +++L  S   L L    +    
Sbjct: 130 FNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLD--LLPVAHLHLSCILLDLVSYHIKGGE 187

Query: 229 TPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHM 288
           T SL   N +  L ++   N+  +  +   +  +    + +I L        +       
Sbjct: 188 TESLQIPN-TTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELT 246

Query: 289 A-------SLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK 341
                   +L+++        ++ +F      ++ L +    +   +    +  +   T 
Sbjct: 247 RGPTLLNVTLQHIETTWKCSVKLFQFF-WPRPVEYLNIYNLTITERIDR--EEFTYSETA 303

Query: 342 NSSLEWLYLASNEITGTIPNLG-GFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIID 400
             SL   ++ +     +   L   F  M + ++                         ++
Sbjct: 304 LKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCP----PSPSSFTFLN 359

Query: 401 LSSNKLGGEVPEEIMDLVGLVALNLSNNNLT--GQITPRIGQLKSLDFLDLSINHFFGGI 458
            + N     V +    L  L  L L  N L    ++      + SL+ LD+S+N      
Sbjct: 360 FTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHA 419

Query: 459 PSSL-SRLRLLSVMDLSYNNFS 479
                +    + V++LS N  +
Sbjct: 420 YDRTCAWAESILVLNLSSNMLT 441

>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 = 74.1 bits (182), Expect = 4e-14
 Identities = 55/306 (17%), Positives = 109/306 (35%), Gaps = 31/306 (10%)

Query: 186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVID 245
              + L L    +S+       +S L  L  L L H  +  +     L     + LE +D
Sbjct: 52  PRTKALSLSQNSISELRM--PDISFLSELRVLRLSHNRIRSLDFHVFLFN---QDLEYLD 106

Query: 246 LSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVA--FGHMASLRYLGLLSNRLRE 303
           +S+N L  +I    +   ++L  H+DL  N     +PV   FG++  L +LGL + + R+
Sbjct: 107 VSHNRLQ-NISCCPM---ASLR-HLDLSFNDFD-VLPVCKEFGNLTKLTFLGLSAAKFRQ 160

Query: 304 VP--KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN 361
           +          S  +L L    ++G  +E +Q        N+++  L    N +     N
Sbjct: 161 LDLLPVAHLHLSCILLDLVSYHIKGGETESLQIP------NTTVLHLVFHPNSLFSVQVN 214

Query: 362 LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDL---- 417
           +       + L          +        +     +++++   +       +       
Sbjct: 215 MSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFW 274

Query: 418 -VGLVALNLSNNNLTGQITPRIGQ-----LKSLDFLDLSINHFFGGIPSSLSRLRLLSVM 471
              +  LN+ N  +T +I           LKSL    +    F     +  S    +++ 
Sbjct: 275 PRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIK 334

Query: 472 DLSYNN 477
            LS ++
Sbjct: 335 MLSISD 340

>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 = 54.1 bits (130), Expect = 8e-08
 Identities = 26/115 (22%), Positives = 47/115 (40%), Gaps = 10/115 (8%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLD 167
              +  L  LD+S N+ +             +  L LSS  L G +   L    +++VLD
Sbjct: 399 TKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCL--PPKVKVLD 456

Query: 168 LRFNNL--FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
           L  N +          +++L +L+ L++   +L    +   V   L SL  ++L 
Sbjct: 457 LHNNRIMSIPKD----VTHLQALQELNVASNQLKSVPD--GVFDRLTSLQYIWLH 505

>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 = 44.1 bits (104), Expect = 1e-04
 Identities = 39/216 (18%), Positives = 75/216 (34%), Gaps = 46/216 (21%)

Query: 271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP----KFLGNMSSLKMLVLSYNELRG 326
            L  N +          ++ LR L L  NR+R +      F  +   L+ L +S+N L  
Sbjct: 58  SLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQD---LEYLDVSHNRL-- 112

Query: 327 ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQ 386
                 QN+S     +  L  L L+ N+    +P    F                     
Sbjct: 113 ------QNISCCPMAS--LRHLDLSFNDFD-VLPVCKEFGN------------------- 144

Query: 387 YEYKSILGLIKIIDLSSNKLGGEVPEEIMDL-VGLVALNLSNNNLTGQITPRIGQLKS-- 443
                 L  +  + LS+ K        +  L +  + L+L + ++ G  T  +    +  
Sbjct: 145 ------LTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSYHIKGGETESLQIPNTTV 198

Query: 444 LDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS 479
           L  +    + F   +  S++ L  L + ++  N+ +
Sbjct: 199 LHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDEN 234

>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 = 99.4 bits (248), Expect = 2e-22
 Identities = 72/430 (16%), Positives = 138/430 (32%), Gaps = 59/430 (13%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
             + KL  LT L  + NN +       +   + L+ LA  S +L   +   +  L++L  
Sbjct: 58  TGIEKLTGLTKLICTSNNITTLD----LSQNTNLTYLACDSNKLTN-LD--VTPLTKLTY 110

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           L+   N L     LD +S    L YL+     L++       +S+   LT L        
Sbjct: 111 LNCDTNKL---TKLD-VSQNPLLTYLNCARNTLTEID-----VSHNTQLTELDCHLNKK- 160

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSN-LVDHIDLGSNRLHGSIPVA 284
            I+   +        L  +D S N +T       L+VS N L++ ++  +N +   +   
Sbjct: 161 -ITKLDVTPQ---TQLTTLDCSFNKITE------LDVSQNKLLNRLNCDTNNIT-KLD-- 207

Query: 285 FGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSS 344
                 L +L   SN+L E+   +  ++ L     S N L               +  S 
Sbjct: 208 LNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSVNPLT----------ELDVSTLSK 255

Query: 345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSN 404
           L  L+    ++   I  L     ++       +        +    +    + ++D  + 
Sbjct: 256 LTTLHCIQTDLL-EID-LTHNTQLIYFQAEGCRKI------KELDVTHNTQLYLLDCQAA 307

Query: 405 KLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSR 464
            +      ++     LV L L+N  LT      +     L  L     H       S+ +
Sbjct: 308 GI---TELDLSQNPKLVYLYLNNTELT---ELDVSHNTKLKSLSCVNAH-IQDFS-SVGK 359

Query: 465 LRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEESAPSPSRDD 524
           +  L+    +         +         +      +  G P+  +  D       +   
Sbjct: 360 IPALNNNFEAEGQTITMPKETLTNNSLTIAVSPDLLDQFGNPMNIEPGDGGVYDQATNTI 419

Query: 525 AYNTPDDDGD 534
            +     D  
Sbjct: 420 TWENLSTDNP 429

>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 = 87.4 bits (217), Expect = 2e-18
 Identities = 55/370 (14%), Positives = 110/370 (29%), Gaps = 62/370 (16%)

Query: 137 SKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDC 196
              +    ++ ++          L+ L  LD   +++    ++  +  L+ L  L     
Sbjct: 18  DNFASEVAAAFEMQATDTISEEQLATLTSLDCHNSSI---TDMTGIEKLTGLTKLICTSN 74

Query: 197 KLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN--- 253
            ++        LS   +LT L      L      + L +     L  ++   N LT    
Sbjct: 75  NITTLD-----LSQNTNLTYLACDSNKL------TNLDVTPLTKLTYLNCDTNKLTKLDV 123

Query: 254 SIYPWL--LNVSSNLVDHIDLGSN---------RLHGSIPVAFGHMASLRYLGLLSNRLR 302
           S  P L  LN + N +  ID+  N                +       L  L    N++ 
Sbjct: 124 SQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKIT 183

Query: 303 EVPKFLGNMSSLKMLVLSYNELRG-ELSEFIQ----NVSSGS------TKNSSLEWLYLA 351
           E+   +     L  L    N +   +L++ IQ    + SS        T  + L +   +
Sbjct: 184 ELD--VSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCS 241

Query: 352 SNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVP 411
            N +T  +  +     +          T+           +    ++I   +        
Sbjct: 242 VNPLT-ELD-VSTLSKL---------TTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKE 290

Query: 412 EEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL--SRLRLLS 469
            ++     L  L+     +T      + Q   L +L L+         + L  S    L 
Sbjct: 291 LDVTHNTQLYLLDCQAAGIT---ELDLSQNPKLVYLYLNNTEL-----TELDVSHNTKLK 342

Query: 470 VMDLSYNNFS 479
            +     +  
Sbjct: 343 SLSCVNAHIQ 352

>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 = 82.8 bits (205), Expect = 6e-17
 Identities = 49/280 (17%), Positives = 96/280 (34%), Gaps = 45/280 (16%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
                +     LT LD S+N  +   +         L+ L   +  +   +   L    +
Sbjct: 161 ITKLDVTPQTQLTTLDCSFNKITELDV----SQNKLLNRLNCDTNNITK-LD--LNQNIQ 213

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC 222
           L  LD   N L     +D ++ L+ L Y D     L++       +S L  LTTL+    
Sbjct: 214 LTFLDCSSNKLTE---ID-VTPLTQLTYFDCSVNPLTELD-----VSTLSKLTTLHCIQT 264

Query: 223 ---DLPPISTPSLLHLNYS-------------KSLEVIDLSNNYLTNSIYPWLLNVSSNL 266
              ++       L++                   L ++D     +T       L++S N 
Sbjct: 265 DLLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITE------LDLSQNP 318

Query: 267 -VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELR 325
            + ++ L +  L   + V   H   L+ L  ++  +++    +G + +L     +  +  
Sbjct: 319 KLVYLYLNNTELT-ELDV--SHNTKLKSLSCVNAHIQDFS-SVGKIPALNNNFEAEGQTI 374

Query: 326 GELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGF 365
               E + N S   T   S + L    N +     + G +
Sbjct: 375 TMPKETLTNNS--LTIAVSPDLLDQFGNPMNIEPGDGGVY 412

>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 = 99.0 bits (247), Expect = 3e-22
 Identities = 75/388 (19%), Positives = 124/388 (31%), Gaps = 45/388 (11%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
           S  +LQ L +L +                LS L  L L   Q           L+ L+VL
Sbjct: 49  SFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVL 108

Query: 167 DLRFNNLFSSG-NLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
            L   NL  +  + ++   L+SL  L L D  + K         N+R    L L    + 
Sbjct: 109 TLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQP-ASFFLNMRRFHVLDLTFNKVK 167

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            I    LL+    K   ++ LS+  L                   D+    L        
Sbjct: 168 SICEEDLLNFQ-GKHFTLLRLSSITLQ------------------DMNEYWLGWEKCGNP 208

Query: 286 GHMASLRYLGLLSNRLREVP--KFLGNMSSLKMLVLSYNELRGELSEFIQNV-------S 336
               S+  L L  N  +E    +F   ++  K+  L  +      S F           +
Sbjct: 209 FKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFT 268

Query: 337 SGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD----KITVTWKGGQYEYKSI 392
               + S ++   L+ ++I   +            L        +I        +     
Sbjct: 269 FKGLEASGVKTCDLSKSKIF-ALLK--SVFSHFTDLEQLTLAQNEINKIDDNAFWG---- 321

Query: 393 LGLIKIIDLSSNKLGGEVPEEIMD-LVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLS 450
           L  +  ++LS N L G +   + + L  L  L+LS N++   +  +    L +L  L L 
Sbjct: 322 LTHLLKLNLSQNFL-GSIDSRMFENLDKLEVLDLSYNHIR-ALGDQSFLGLPNLKELALD 379

Query: 451 INHFFGGIPSSLSRLRLLSVMDLSYNNF 478
            N           RL  L  + L  N +
Sbjct: 380 TNQLKSVPDGIFDRLTSLQKIWLHTNPW 407

>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 = 93.7 bits (233), Expect = 2e-20
 Identities = 75/389 (19%), Positives = 136/389 (34%), Gaps = 68/389 (17%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
           H+ Y+DLS N+            +++L+E + S              L  LQ L +    
Sbjct: 31  HVNYVDLSLNS------------IAELNETSFS-------------RLQDLQFLKVEQQT 65

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDL--PPISTP 230
                  +    LSSL  L L   +  +        + L +L  L L  C+L    +S  
Sbjct: 66  PGLVIRNNTFRGLSSLIILKLDYNQFLQLET--GAFNGLANLEVLTLTQCNLDGAVLSGN 123

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS 290
               L    SLE++ L +N +   I P    ++      +DL  N++         +   
Sbjct: 124 FFKPL---TSLEMLVLRDNNIK-KIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQG 179

Query: 291 --LRYLGLLSNRLREVPKFLG---------NMSSLKMLVLSYNELRGELSEFIQNVSSGS 339
                L L S  L+++ ++             +S+  L LS N  +  +++        +
Sbjct: 180 KHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRF----FDA 235

Query: 340 TKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKII 399
              + ++ L L+++   G+      F         F  +  +              +K  
Sbjct: 236 IAGTKIQSLILSNSYNMGSSFGHTNFKD--PDNFTFKGLEASG-------------VKTC 280

Query: 400 DLSSNKLGGEVPEEIMD-LVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHFFGG 457
           DLS +K+   + + +      L  L L+ N +  +I       L  L  L+LS N     
Sbjct: 281 DLSKSKI-FALLKSVFSHFTDLEQLTLAQNEIN-KIDDNAFWGLTHLLKLNLSQNFLGSI 338

Query: 458 IPSSLSRLRLLSVMDLSYNNFSGKIPKGT 486
                  L  L V+DLSYN+    +   +
Sbjct: 339 DSRMFENLDKLEVLDLSYNHIRA-LGDQS 366

>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 = 97.9 bits (244), Expect = 3e-22
 Identities = 53/255 (20%), Positives = 100/255 (39%), Gaps = 28/255 (10%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQL-GNLSRLQVLDL 168
           +  +L  L L+ N  +      F   L  L  L LS   L+  +       LS L  L+L
Sbjct: 74  RCVNLQALVLTSNGINTIEEDSFSS-LGSLEHLDLSYNYLSN-LSSSWFKPLSSLTFLNL 131

Query: 169 RFNNLFSSGNLDWLSYLSSLRYLDLGDC-KLSKFSNWFQVLSNLRSLTTLYLGHCDLPPI 227
             N   + G     S+L+ L+ L +G+    +K     +  + L  L  L +   DL   
Sbjct: 132 LGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQR--KDFAGLTFLEELEIDASDLQSY 189

Query: 228 STPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG----SIPV 283
              SL  +   +++  + L        +    ++V+S++ + ++L    L       +  
Sbjct: 190 EPKSLKSI---QNVSHLILHMKQHI-LLLEIFVDVTSSV-ECLELRDTDLDTFHFSELST 244

Query: 284 ----AFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS 339
               +     + R + +    L +V K L  +S L  L  S N+L+        +V  G 
Sbjct: 245 GETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLK--------SVPDGI 296

Query: 340 -TKNSSLEWLYLASN 353
             + +SL+ ++L +N
Sbjct: 297 FDRLTSLQKIWLHTN 311

>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 = 96.3 bits (240), Expect = 8e-22
 Identities = 52/298 (17%), Positives = 103/298 (34%), Gaps = 40/298 (13%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
             ++ LDL  N + +  +   L    +L+ L L    ++         S+L SL  L L 
Sbjct: 52  EAVKSLDLSNNRI-TYISNSDLQRCVNLQALVLTSNGINTIEE--DSFSSLGSLEHLDLS 108

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
           +  L  +S+     L    SL  ++L  N    ++    L      +  + +G+      
Sbjct: 109 YNYLSNLSSSWFKPL---SSLTFLNLLGNPYK-TLGETSLFSHLTKLQILRVGNMDTFTK 164

Query: 281 IPV-AFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELRGELSEFIQNVSSG 338
           I    F  +  L  L + ++ L+      L ++ ++  L+L   +           +   
Sbjct: 165 IQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQ--------HILLLEI 216

Query: 339 S-TKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK 397
                SS+E L L          +L  F    +     + +                  +
Sbjct: 217 FVDVTSSVECLELRDT-------DLDTFHFSELSTGETNSLI------------KKFTFR 257

Query: 398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHF 454
            + ++   L  +V + +  + GL+ L  S N L   +   I  +L SL  + L  N +
Sbjct: 258 NVKITDESLF-QVMKLLNQISGLLELEFSRNQLKS-VPDGIFDRLTSLQKIWLHTNPW 313

>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 = 90.2 bits (224), Expect = 8e-20
 Identities = 63/336 (18%), Positives = 116/336 (34%), Gaps = 42/336 (12%)

Query: 99  ALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLG 158
           + + + N + L          S  + +   IP  +     +  L LS+ ++       L 
Sbjct: 18  SKEESSNQASLSCDRNGICKGSSGSLNS--IPSGL--TEAVKSLDLSNNRITYISNSDLQ 73

Query: 159 NLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
               LQ L L  N + ++   D  S L SL +LDL    LS  S+       L SLT L 
Sbjct: 74  RCVNLQALVLTSNGI-NTIEEDSFSSLGSLEHLDLSYNYLSNLSS--SWFKPLSSLTFLN 130

Query: 219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           L       +   SL        L+++ + N      I        + L + +++ ++ L 
Sbjct: 131 LLGNPYKTLGETSLFSHL--TKLQILRVGNMDTFTKIQRKDFAGLTFL-EELEIDASDLQ 187

Query: 279 GSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRG-ELSEFIQNVS 336
              P +   + ++ +L L   +   + + F+   SS++ L L   +L     SE     +
Sbjct: 188 SYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGET 247

Query: 337 SGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLI 396
           +   K  +   + +    +   +  L    G+                            
Sbjct: 248 NSLIKKFTFRNVKITDESLFQVMKLLNQISGL---------------------------- 279

Query: 397 KIIDLSSNKLGGEVPEEIMD-LVGLVALNLSNNNLT 431
             ++ S N+L   VP+ I D L  L  + L  N   
Sbjct: 280 LELEFSRNQLKS-VPDGIFDRLTSLQKIWLHTNPWD 314

>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 = 61.3 bits (149), Expect = 3e-10
 Identities = 42/227 (18%), Positives = 79/227 (34%), Gaps = 35/227 (15%)

Query: 271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELS 329
           DL +NR+            +L+ L L SN +  +      ++ SL+ L LSYN L     
Sbjct: 58  DLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL----- 112

Query: 330 EFIQNVSSGS-TKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYE 388
               N+SS      SSL +L L  N    T+     F  +        K+ +   G    
Sbjct: 113 ---SNLSSSWFKPLSSLTFLNLLGNPYK-TLGETSLFSHLT-------KLQILRVGNMDT 161

Query: 389 YKSI-------LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQ 440
           +  I       L  ++ +++ ++ L    P+ +  +  +  L L        +       
Sbjct: 162 FTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHI-LLLEIFVDV 220

Query: 441 LKSLDFLDLSINH--------FFGGIPSSLSRLRLLSVMDLSYNNFS 479
             S++ L+L               G  +SL +      + ++  +  
Sbjct: 221 TSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLF 267

>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 = 42.4 bits (100), Expect = 3e-04
 Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 5/103 (4%)

Query: 83  HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSEL 142
             L L    L       L      SL+K      + ++  +     + + +  +S L EL
Sbjct: 225 ECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLF--QVMKLLNQISGLLEL 282

Query: 143 ALSSAQLAGPIPHQ-LGNLSRLQVLDLRFNNLFSS-GNLDWLS 183
             S  QL   +P      L+ LQ + L  N    S   +D+LS
Sbjct: 283 EFSRNQLKS-VPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLS 324

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 95.0 bits (236), Expect = 1e-20
 Identities = 54/360 (15%), Positives = 119/360 (33%), Gaps = 44/360 (12%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
                +   + L L+  N S   +P+ +    +++ L ++   L   +P    +L  L  
Sbjct: 53  LKECLINQFSELQLNRLNLSS--LPDNLPP--QITVLEITQNAL-ISLPELPASLEYLDA 107

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
            D R + L            +SL++LD+ + +L+              L  +   +  L 
Sbjct: 108 CDNRLSTLPEL--------PASLKHLDVDNNQLTMLP------ELPALLEYINADNNQL- 152

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
               P L       SLEV+ + NN LT      L  +  +L   +D+ +N L  S+P   
Sbjct: 153 -TMLPELP-----TSLEVLSVRNNQLTF-----LPELPESLE-ALDVSTNLLE-SLPAVP 199

Query: 286 GHMASLR----YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK 341
                      +     NR+  +P+ + ++     ++L  N L   + E +   ++    
Sbjct: 200 VRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNPLSSRIRESLSQQTAQPDY 259

Query: 342 NSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSI--LGLIKII 399
           +    +  ++  +       L        P      ++  W   ++E  +      +  +
Sbjct: 260 HGPRIYFSMSDGQQNTLHRPLADAVTAWFPENKQSDVSQIWHAFEHEEHANTFSAFLDRL 319

Query: 400 DLSSN-----KLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHF 454
             + +         +V   +  L     L   +  +    T       +L + +L     
Sbjct: 320 SDTVSARNTSGFREQVAAWLEKLSASAELRQQSFAVAADATESCEDRVALTWNNLRKTLL 379

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 90.0 bits (223), Expect = 4e-19
 Identities = 61/330 (18%), Positives = 109/330 (33%), Gaps = 59/330 (17%)

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           + L  NN FS     + + +S              ++++F                 +  
Sbjct: 3   IMLPINNNFSLSQNSFYNTISGT------------YADYFSAWDKWEKQALPGENRNEAV 50

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            +    L+          + L+   L+ S+   L      +   +++  N L  S+P   
Sbjct: 51  SLLKECLI-----NQFSELQLNRLNLS-SLPDNLP---PQIT-VLEITQNALI-SLPELP 99

Query: 286 GHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL 345
               SL YL    NRL  +P+   +   LK L +  N+L   L E              L
Sbjct: 100 A---SLEYLDACDNRLSTLPELPAS---LKHLDVDNNQLT-MLPELPAL----------L 142

Query: 346 EWLYLASNEITGTIPNLGGFPGMLMPL-IYFDKITVTWKGGQYEYKSILGLIKIIDLSSN 404
           E++   +N++T  +P L   P  L  L +  +++T            +   ++ +D+S+N
Sbjct: 143 EYINADNNQLT-MLPEL---PTSLEVLSVRNNQLT--------FLPELPESLEALDVSTN 190

Query: 405 KLGGEVPEEIMDLVGL----VALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS 460
            L   +P   +         +      N +T  I   I  L     + L  N     I  
Sbjct: 191 LLE-SLPAVPVRNHHSEETEIFFRCRENRIT-HIPENILSLDPTCTIILEDNPLSSRIRE 248

Query: 461 SLSRLRLLSVMDLSYNNFSGKIPKGTQLQR 490
           SLS+             FS    +   L R
Sbjct: 249 SLSQQTAQPDYHGPRIYFSMSDGQQNTLHR 278

>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 = 91.7 bits (228), Expect = 1e-20
 Identities = 42/234 (17%), Positives = 101/234 (43%), Gaps = 35/234 (14%)

Query: 135 SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG 194
           +L+   ++A   + +   +     +L  +  L      +     ++ + YL++L  L+L 
Sbjct: 17  ALANAIKIAAGKSNVTDTVT--QADLDGITTLSAFGTGV---TTIEGVQYLNNLIGLELK 71

Query: 195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS 254
           D +++  +     L NL  +T L L    L  +S  + L     +S++ +DL++  +T+ 
Sbjct: 72  DNQITDLAP----LKNLTKITELELSGNPLKNVSAIAGL-----QSIKTLDLTSTQITD- 121

Query: 255 IYPWLLNVSSNLVD--HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMS 312
                +   + L +   + L  N++  +I      + +L+YL + + ++ ++   L N+S
Sbjct: 122 -----VTPLAGLSNLQVLYLDLNQIT-NIS-PLAGLTNLQYLSIGNAQVSDLT-PLANLS 173

Query: 313 SLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
            L  L    N++  ++S              +L  ++L +N+I+  +  L    
Sbjct: 174 KLTTLKADDNKIS-DISPL--------ASLPNLIEVHLKNNQIS-DVSPLANTS 217

>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 = 86.3 bits (214), Expect = 1e-18
 Identities = 50/232 (21%), Positives = 98/232 (42%), Gaps = 24/232 (10%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            +   L  +T L       +     E +  L+ L  L L   Q+    P  L NL+++  
Sbjct: 35  VTQADLDGITTLSAFGTGVTTI---EGVQYLNNLIGLELKDNQITDLAP--LKNLTKITE 89

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           L+L  N L    N+  ++ L S++ LDL   +++  +     L+ L +L  LYL    + 
Sbjct: 90  LELSGNPL---KNVSAIAGLQSIKTLDLTSTQITDVTP----LAGLSNLQVLYLDLNQIT 142

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF 285
            IS      L    +L+ + + N  +++ + P  L   S L   +    N++   I    
Sbjct: 143 NISP-----LAGLTNLQYLSIGNAQVSD-LTP--LANLSKL-TTLKADDNKIS-DIS-PL 191

Query: 286 GHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS 337
             + +L  + L +N++ +V   L N S+L ++ L+   +  +   +  N+  
Sbjct: 192 ASLPNLIEVHLKNNQISDVS-PLANTSNLFIVTLTNQTITNQPVFYNNNLVV 242

>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 = 81.7 bits (202), Expect = 3e-17
 Identities = 49/327 (14%), Positives = 110/327 (33%), Gaps = 65/327 (19%)

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
              L+    +    +N+    +    + L  +  L      ++        +  L +L  
Sbjct: 15  DPALANAIKIAAGKSNV---TDTVTQADLDGITTLSAFGTGVTTIEG----VQYLNNLIG 67

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD--HIDLGS 274
           L L    +  ++   L +L     +  ++LS N L N      ++  + L     +DL S
Sbjct: 68  LELKDNQITDLA--PLKNL---TKITELELSGNPLKN------VSAIAGLQSIKTLDLTS 116

Query: 275 NRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQN 334
            ++    P     +++L+ L L  N++  +   L  +++L+ L +   ++  +L+     
Sbjct: 117 TQITDVTP--LAGLSNLQVLYLDLNQITNIS-PLAGLTNLQYLSIGNAQVS-DLTPL--- 169

Query: 335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG 394
                   S L  L    N+I+  I  L   P                            
Sbjct: 170 -----ANLSKLTTLKADDNKIS-DISPLASLPN--------------------------- 196

Query: 395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHF 454
            +  + L +N++       + +   L  + L+N  +T Q       L   + +       
Sbjct: 197 -LIEVHLKNNQI--SDVSPLANTSNLFIVTLTNQTITNQPVFYNNNLVVPNVVKGPSGAP 253

Query: 455 FGGIPSSLSRLRLLSVMDLSYNNFSGK 481
               P+++S     +  +L++N  S  
Sbjct: 254 I--APATISDNGTYASPNLTWNLTSFI 278

>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 = 92.5 bits (229), Expect = 8e-20
 Identities = 44/242 (18%), Positives = 94/242 (38%), Gaps = 30/242 (12%)

Query: 135 SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG 194
           + ++  +  L    +   +      L+ +  +    +++    ++  + YL ++  L L 
Sbjct: 19  AFAETIKDNLKKKSVTDAVT--QNELNSIDQIIANNSDI---KSVQGIQYLPNVTKLFLN 73

Query: 195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS 254
             KL+        L+NL++L  L+L    +  +S+     L   K L+ + L +N +++ 
Sbjct: 74  GNKLTDIKP----LTNLKNLGWLFLDENKIKDLSS-----LKDLKKLKSLSLEHNGISD- 123

Query: 255 IYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSL 314
           I    L     L   + LG+N++  +       +  L  L L  N++ ++   L  ++ L
Sbjct: 124 ING--LVHLPQLE-SLYLGNNKI--TDITVLSRLTKLDTLSLEDNQISDIV-PLAGLTKL 177

Query: 315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIY 374
           + L LS N +  +L               +L+ L L S E      N      +   +  
Sbjct: 178 QNLYLSKNHIS-DLRAL--------AGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKN 228

Query: 375 FD 376
            D
Sbjct: 229 TD 230

>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 = 90.9 bits (225), Expect = 3e-19
 Identities = 47/294 (15%), Positives = 102/294 (34%), Gaps = 63/294 (21%)

Query: 139 LSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKL 198
           + E    S  +    P      +     +L+  ++    +    + L+S+  +   +  +
Sbjct: 1   MGETITVSTPIKQIFP--DDAFAETIKDNLKKKSV---TDAVTQNELNSIDQIIANNSDI 55

Query: 199 SKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPW 258
                    +  L ++T L+L    L  I    L +L   K+L  + L  N + +     
Sbjct: 56  KSVQG----IQYLPNVTKLFLNGNKLTDIK--PLTNL---KNLGWLFLDENKIKD----- 101

Query: 259 LLNVSSNLV--DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKM 316
            L+   +L     + L  N +   I     H+  L  L L +N++ ++   L  ++ L  
Sbjct: 102 -LSSLKDLKKLKSLSLEHNGIS-DIN-GLVHLPQLESLYLGNNKITDIT-VLSRLTKLDT 157

Query: 317 LVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD 376
           L L  N++  ++              + L+ LYL+ N I+  +  L G            
Sbjct: 158 LSLEDNQIS-DIVPL--------AGLTKLQNLYLSKNHIS-DLRALAG------------ 195

Query: 377 KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNL 430
                           L  + +++L S +   +      +LV    +  ++ +L
Sbjct: 196 ----------------LKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSL 233

>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 = 82.1 bits (202), Expect = 1e-16
 Identities = 43/233 (18%), Positives = 86/233 (36%), Gaps = 50/233 (21%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            +  +L  +  +  + ++            +  +  +                 L  +  
Sbjct: 37  VTQNELNSIDQIIANNSD------------IKSVQGIQ---------------YLPNVTK 69

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           L L  N L    ++  L+ L +L +L L + K+   S+    L +L+ L +L L H  + 
Sbjct: 70  LFLNGNKL---TDIKPLTNLKNLGWLFLDENKIKDLSS----LKDLKKLKSLSLEHNGIS 122

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD--HIDLGSNRLHGSIPV 283
            I+      L +   LE + L NN +T+      + V S L     + L  N++   I  
Sbjct: 123 DIN-----GLVHLPQLESLYLGNNKITD------ITVLSRLTKLDTLSLEDNQIS-DIV- 169

Query: 284 AFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVS 336
               +  L+ L L  N + ++ + L  + +L +L L   E   +      N+ 
Sbjct: 170 PLAGLTKLQNLYLSKNHISDL-RALAGLKNLDVLELFSQECLNKPINHQSNLV 221

>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 = 67.1 bits (163), Expect = 8e-12
 Identities = 35/172 (20%), Positives = 66/172 (38%), Gaps = 15/172 (8%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            SL  L+ L  L L  N  S       +  L +L  L L + ++       L  L++L  
Sbjct: 103 SSLKDLKKLKSLSLEHNGIS---DINGLVHLPQLESLYLGNNKITDITV--LSRLTKLDT 157

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           L L  N +    ++  L+ L+ L+ L L    +S        L+ L++L  L L   +  
Sbjct: 158 LSLEDNQI---SDIVPLAGLTKLQNLYLSKNHISDLRA----LAGLKNLDVLELFSQECL 210

Query: 226 PISTPSLLHLNYSKSLEVID---LSNNYLTNSIYPWLLNVSSNLVDHIDLGS 274
                   +L    +++  D   ++   +++       NV  +L +  +  S
Sbjct: 211 NKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPNVKWHLPEFTNEVS 262

>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 = 53.2 bits (127), Expect = 2e-07
 Identities = 33/192 (17%), Positives = 66/192 (34%), Gaps = 45/192 (23%)

Query: 288 MASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEW 347
            A      L    + +       ++S+  ++ + +++     + +Q +        ++  
Sbjct: 20  FAETIKDNLKKKSVTDAV-TQNELNSIDQIIANNSDI-----KSVQGIQY----LPNVTK 69

Query: 348 LYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLG 407
           L+L  N++T  I  L     +                              + L  NK+ 
Sbjct: 70  LFLNGNKLT-DIKPLTNLKNL----------------------------GWLFLDENKI- 99

Query: 408 GEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRL 467
            +    + DL  L +L+L +N ++  I   +  L  L+ L L  N       + LSRL  
Sbjct: 100 -KDLSSLKDLKKLKSLSLEHNGIS-DING-LVHLPQLESLYLGNNKIT--DITVLSRLTK 154

Query: 468 LSVMDLSYNNFS 479
           L  + L  N  S
Sbjct: 155 LDTLSLEDNQIS 166

>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 = 84.7 bits (210), Expect = 3e-18
 Identities = 44/222 (19%), Positives = 91/222 (40%), Gaps = 30/222 (13%)

Query: 135 SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG 194
           + ++  +  L    +   +      L+ +  +    +++    ++  + YL ++  L L 
Sbjct: 22  AFAETIKDNLKKKSVTDAVT--QNELNSIDQIIANNSDI---KSVQGIQYLPNVTKLFLN 76

Query: 195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS 254
             KL+        L+NL++L  L+L    +  +S  SL  L   K L+ + L +N +++ 
Sbjct: 77  GNKLTDIKP----LANLKNLGWLFLDENKVKDLS--SLKDL---KKLKSLSLEHNGISD- 126

Query: 255 IYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSL 314
           I    L     L   + LG+N++  +       +  L  L L  N++ ++   L  ++ L
Sbjct: 127 ING--LVHLPQLE-SLYLGNNKI--TDITVLSRLTKLDTLSLEDNQISDIV-PLAGLTKL 180

Query: 315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT 356
           + L LS N +  +L               +L+ L L S E  
Sbjct: 181 QNLYLSKNHIS-DLRAL--------AGLKNLDVLELFSQECL 213

>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 = 78.6 bits (194), Expect = 3e-16
 Identities = 47/277 (16%), Positives = 99/277 (35%), Gaps = 39/277 (14%)

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
               +     +L+  ++    +    + L+S+  +   +  +         +  L ++T 
Sbjct: 20  DDAFAETIKDNLKKKSV---TDAVTQNELNSIDQIIANNSDIKSVQG----IQYLPNVTK 72

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV--DHIDLGS 274
           L+L    L  I    L +L   K+L  + L  N + +      L+   +L     + L  
Sbjct: 73  LFLNGNKLTDIK--PLANL---KNLGWLFLDENKVKD------LSSLKDLKKLKSLSLEH 121

Query: 275 NRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQN 334
           N +   I     H+  L  L L +N++ ++   L  ++ L  L L  N++  ++      
Sbjct: 122 NGIS-DIN-GLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQIS-DIVPL--- 174

Query: 335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG 394
                   + L+ LYL+ N I+  +  L G   + +  +         K     ++S L 
Sbjct: 175 -----AGLTKLQNLYLSKNHIS-DLRALAGLKNLDV--LELFSQECLNK--PINHQSNLV 224

Query: 395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT 431
           +   +  +   L    PE I D       N+  +   
Sbjct: 225 VPNTVKNTDGSL--VTPEIISDDGDYEKPNVKWHLPE 259

>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 = 75.1 bits (185), Expect = 5e-15
 Identities = 45/296 (15%), Positives = 98/296 (33%), Gaps = 58/296 (19%)

Query: 182 LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSL 241
               +     +L    ++         + L S+  +   + D+  +       + Y  ++
Sbjct: 20  DDAFAETIKDNLKKKSVTDAVT----QNELNSIDQIIANNSDIKSVQ-----GIQYLPNV 70

Query: 242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRL 301
             + L+ N LT+ I P  L    NL   + L  N++   +  +   +  L+ L L  N +
Sbjct: 71  TKLFLNGNKLTD-IKP--LANLKNLG-WLFLDENKVK-DL-SSLKDLKKLKSLSLEHNGI 124

Query: 302 REVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN 361
            ++   L ++  L+ L L  N+        I +++  S + + L+ L L  N+I+  I  
Sbjct: 125 SDIN-GLVHLPQLESLYLGNNK--------ITDITVLS-RLTKLDTLSLEDNQIS-DIVP 173

Query: 362 LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLV 421
           L G                               ++ + LS N +       +  L  L 
Sbjct: 174 LAGLTK----------------------------LQNLYLSKNHI--SDLRALAGLKNLD 203

Query: 422 ALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNN 477
            L L +     +       L   + +  +        P  +S        ++ ++ 
Sbjct: 204 VLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVT--PEIISDDGDYEKPNVKWHL 257

>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 = 65.5 bits (160), Expect = 6e-12
 Identities = 36/170 (21%), Positives = 62/170 (36%), Gaps = 21/170 (12%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
           SL  L+ L  L L  N  S       +  L +L  L L + ++       L  L++L  L
Sbjct: 107 SLKDLKKLKSLSLEHNGIS---DINGLVHLPQLESLYLGNNKITDITV--LSRLTKLDTL 161

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
            L  N +     +  L+ L+ L+ L L    +S        L+ L++L  L L   +   
Sbjct: 162 SLEDNQISD---IVPLAGLTKLQNLYLSKNHISDLRA----LAGLKNLDVLELFSQECLN 214

Query: 227 ISTPSLLHLNYSKSLEVID--------LSNNY-LTNSIYPWLLNVSSNLV 267
                  +L    +++  D        +S++         W L   +N V
Sbjct: 215 KPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPNVKWHLPEFTNEV 264

>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 = 45.4 bits (108), Expect = 3e-05
 Identities = 33/193 (17%), Positives = 66/193 (34%), Gaps = 45/193 (23%)

Query: 287 HMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE 346
             A      L    + +       ++S+  ++ + +++     + +Q +        ++ 
Sbjct: 22  AFAETIKDNLKKKSVTDAV-TQNELNSIDQIIANNSDI-----KSVQGIQY----LPNVT 71

Query: 347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKL 406
            L+L  N++T  I  L                                 +  + L  NK+
Sbjct: 72  KLFLNGNKLT-DIKPLANLKN----------------------------LGWLFLDENKV 102

Query: 407 GGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR 466
             +    + DL  L +L+L +N ++  I   +  L  L+ L L  N       + LSRL 
Sbjct: 103 --KDLSSLKDLKKLKSLSLEHNGIS-DING-LVHLPQLESLYLGNNKIT--DITVLSRLT 156

Query: 467 LLSVMDLSYNNFS 479
            L  + L  N  S
Sbjct: 157 KLDTLSLEDNQIS 169

>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 Length = 461

 Score = 86.2 bits (214), Expect = 4e-18
 Identities = 77/416 (18%), Positives = 137/416 (32%), Gaps = 83/416 (19%)

Query: 112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQL----AGPIPHQLGNLSRLQVLD 167
             +  LD+     S +   E +  L +   + L    L       I   L     L  L+
Sbjct: 3   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 62

Query: 168 LRFNNLFSSGNLDWLSYLSS----LRYLDLGDCKLSKFSNW--FQVLSNLRSLTTLYLGH 221
           LR N L   G    L  L +    ++ L L +C L+          L  L +L  L+L  
Sbjct: 63  LRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSD 122

Query: 222 CDLPPISTPSLLH--LNYSKSLEVIDLSNNYLTNSIYPWL---LNVSSNLVDHIDLGSNR 276
             L       L    L+    LE + L    L+ +    L   L    +    + + +N 
Sbjct: 123 NLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFK-ELTVSNND 181

Query: 277 LHGS----IPVAFGH-MASLRYLGLLSNRL-----REVPKFLGNMSSLKMLVLSYNELRG 326
           ++ +    +          L  L L S  +     R++   + + +SL+ L L  N+L  
Sbjct: 182 INEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGD 241

Query: 327 E----LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTW 382
                L   + +       +S L  L++    IT                          
Sbjct: 242 VGMAELCPGLLHP------SSRLRTLWIWECGITA------------------------- 270

Query: 383 KGGQYEYKSILGL--IKIIDLSSNKLGGEVPEEIMDLVG-----LVALNLSNNNLTGQ-- 433
           KG     + +     +K + L+ N+LG E    + + +      L +L + + + T    
Sbjct: 271 KGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACC 330

Query: 434 --ITPRIGQLKSLDFLDLSIN--------HFFGGIPSSLSRLRLLSVMDLSYNNFS 479
              +  + Q + L  L +S N            G+    S LR+L    L+  + S
Sbjct: 331 SHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVL---WLADCDVS 383

>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 Length = 461

 Score = 78.5 bits (194), Expect = 1e-15
 Identities = 87/444 (19%), Positives = 141/444 (31%), Gaps = 77/444 (17%)

Query: 79  NKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSG---SPIPEFIGS 135
           +     L +    LSD+    L       L  LQ    + L     +      I   +  
Sbjct: 2   SLDIQSLDIQCEELSDARWAEL-------LPLLQQCQVVRLDDCGLTEARCKDISSALRV 54

Query: 136 LSKLSELALSSAQL----AGPIPHQLGNLS-RLQVLDLRFNNLFSSGNLD---WLSYLSS 187
              L+EL L S +L       +   L   S ++Q L L+   L  +G       L  L +
Sbjct: 55  NPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPT 114

Query: 188 LRYLDLGDCKLS-----KFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLH-LNYSKSL 241
           L+ L L D  L             +L     L  L L +C L   S   L   L      
Sbjct: 115 LQELHLSDNLLGDAGLQLLCE--GLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDF 172

Query: 242 EVIDLSNNYLTNSIYPWL---LNVSSNLVDHIDLGSNRLH----GSIPVAFGHMASLRYL 294
           + + +SNN +  +    L   L  S   ++ + L S  +       +       ASLR L
Sbjct: 173 KELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLREL 232

Query: 295 GLLSNRLRE------VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWL 348
            L SN+L +       P  L   S L+ L +    +    ++   ++        SL+ L
Sbjct: 233 ALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGIT---AKGCGDLCRVLRAKESLKEL 289

Query: 349 YLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGG 408
            LA NE+        G   +   L+                      ++ + + S     
Sbjct: 290 SLAGNELGDE-----GARLLCETLLEPGC-----------------QLESLWVKSCSFTA 327

Query: 409 EVPEEIMDLVG----LVALNLSNNNLTGQITPRIGQL-----KSLDFLDLSINHF----F 455
                   ++     L+ L +SNN L       + Q        L  L L+         
Sbjct: 328 ACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSC 387

Query: 456 GGIPSSLSRLRLLSVMDLSYNNFS 479
             + ++L     L  +DLS N   
Sbjct: 388 SSLAATLLANHSLRELDLSNNCLG 411

>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 Length = 461

 Score = 74.6 bits (184), Expect = 2e-14
 Identities = 86/424 (20%), Positives = 135/424 (31%), Gaps = 87/424 (20%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLS----KLSELALSSAQL----AGPIPHQLGN 159
           L     L  L+L  N      +   +  L     K+ +L+L +  L     G +   L  
Sbjct: 52  LRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRT 111

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYL----SSLRYLDLGDCKLSKFSNW--FQVLSNLRS 213
           L  LQ L L  N L  +G       L      L  L L  C LS  S      VL     
Sbjct: 112 LPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPD 171

Query: 214 LTTLYLGHCDLPPISTPSLLH-LNYSK-SLEVIDLSNNYLTNSIYPWL---LNVSSNLVD 268
              L + + D+       L   L  S   LE + L +  +T+     L   +   ++L  
Sbjct: 172 FKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLR- 230

Query: 269 HIDLGSNRLHGS----IPVAFGHM-ASLRYLGLLSNRLRE-----VPKFLGNMSSLKMLV 318
            + LGSN+L       +     H  + LR L +    +       + + L    SLK L 
Sbjct: 231 ELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELS 290

Query: 319 LSYNELRGE----LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIY 374
           L+ NEL  E    L E +            LE L++ S   T                  
Sbjct: 291 LAGNELGDEGARLLCETLLEP------GCQLESLWVKSCSFTA----------------- 327

Query: 375 FDKITVTWKGGQYEYKSILGL--IKIIDLSSNKLGGEVPEEIMDLVG-----LVALNLSN 427
                       +    +     +  + +S+N+L      E+   +G     L  L L++
Sbjct: 328 --------ACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLAD 379

Query: 428 NNLTGQ----ITPRIGQLKSLDFLDLSINH--------FFGGIPSSLSRLRLLSVMDLSY 475
            +++      +   +    SL  LDLS N             +      L  L    L  
Sbjct: 380 CDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQL---VLYD 436

Query: 476 NNFS 479
             +S
Sbjct: 437 IYWS 440

>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 Length = 461

 Score = 50.7 bits (122), Expect = 8e-07
 Identities = 36/163 (22%), Positives = 50/163 (30%), Gaps = 16/163 (9%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSL----SKLSELALSSAQL----AGPIPHQLG 158
            L   + L  L L+ N            +L     +L  L + S              L 
Sbjct: 279 VLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLA 338

Query: 159 NLSRLQVLDLRFNNLFSSGNLDWLSYL----SSLRYLDLGDCKLSKFSNWF--QVLSNLR 212
               L  L +  N L  +G  +    L    S LR L L DC +S  S       L    
Sbjct: 339 QNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANH 398

Query: 213 SLTTLYLGHCDLPPISTPSLLHL--NYSKSLEVIDLSNNYLTN 253
           SL  L L +  L       L+         LE + L + Y + 
Sbjct: 399 SLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIYWSE 441

>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 = 78.1 bits (193), Expect = 1e-16
 Identities = 33/200 (16%), Positives = 67/200 (33%), Gaps = 45/200 (22%)

Query: 158 GNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTL 217
             ++ L  + L   N+    +L  + Y  +++ L + +   + ++     +S L +L  L
Sbjct: 41  AQMNSLTYITLANINV---TDLTGIEYAHNIKDLTINNIHATNYNP----ISGLSNLERL 93

Query: 218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL 277
            +   D+     P+L  L    SL ++D+S++   +SI                      
Sbjct: 94  RIMGKDVTSDKIPNLSGL---TSLTLLDISHSAHDDSILT-------------------- 130

Query: 278 HGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS 337
                     +  +  + L  N        L  +  LK L + ++         + +   
Sbjct: 131 ------KINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDG--------VHDY-R 175

Query: 338 GSTKNSSLEWLYLASNEITG 357
           G      L  LY  S  I G
Sbjct: 176 GIEDFPKLNQLYAFSQTIGG 195

>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 = 74.2 bits (183), Expect = 2e-15
 Identities = 21/114 (18%), Positives = 47/114 (41%), Gaps = 7/114 (6%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLD 167
           +  L +L  L +   + +   IP  +  L+ L+ L +S +     I  ++  L ++  +D
Sbjct: 84  ISGLSNLERLRIMGKDVTSDKIPN-LSGLTSLTLLDISHSAHDDSILTKINTLPKVNSID 142

Query: 168 LRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH 221
           L +N   +  ++  L  L  L+ L++    +  +      + +   L  LY   
Sbjct: 143 LSYNGAIT--DIMPLKTLPELKSLNIQFDGVHDYRG----IEDFPKLNQLYAFS 190

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

 Score = 72.7 bits (179), Expect = 6e-15
 Identities = 25/147 (17%), Positives = 59/147 (40%), Gaps = 12/147 (8%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
           +  ++  LTY+ L+  N +       I     + +L +++       P  +  LS L+ L
Sbjct: 39  TEAQMNSLTYITLANINVTDL---TGIEYAHNIKDLTINNIHATNYNP--ISGLSNLERL 93

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
            +   ++ +S  +  LS L+SL  LD+              ++ L  + ++ L +     
Sbjct: 94  RIMGKDV-TSDKIPNLSGLTSLTLLDISHSAHDDSI--LTKINTLPKVNSIDLSYNGA-- 148

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLTN 253
           I+      L     L+ +++  + + +
Sbjct: 149 ITDIM--PLKTLPELKSLNIQFDGVHD 173

>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 = 62.7 bits (153), Expect = 2e-11
 Identities = 31/200 (15%), Positives = 66/200 (33%), Gaps = 42/200 (21%)

Query: 282 PVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK 341
            +    M SL Y+ L +  + ++   +    ++K L ++        +          + 
Sbjct: 37  NITEAQMNSLTYITLANINVTDL-TGIEYAHNIKDLTINNIHAT-NYNPI--------SG 86

Query: 342 NSSLEWLYLASNEITGT-IPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIID 400
            S+LE L +   ++T   IPNL G                               + ++D
Sbjct: 87  LSNLERLRIMGKDVTSDKIPNLSGLTS----------------------------LTLLD 118

Query: 401 LSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS 460
           +S +     +  +I  L  + +++LS N     I P +  L  L  L++  +        
Sbjct: 119 ISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP-LKTLPELKSLNIQFDG-VHDY-R 175

Query: 461 SLSRLRLLSVMDLSYNNFSG 480
            +     L+ +        G
Sbjct: 176 GIEDFPKLNQLYAFSQTIGG 195

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

 Score = 55.4 bits (134), Expect = 5e-09
 Identities = 23/177 (12%), Positives = 55/177 (31%), Gaps = 34/177 (19%)

Query: 209 SNLRSLTTLYLGHCDLPPIST---PSLLHLNYS-------------KSLEVIDLSNNYLT 252
           S  ++     LG      I+     SL ++  +              +++ + ++N + T
Sbjct: 20  STFKAYLNGLLGQSSTANITEAQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHAT 79

Query: 253 NSIYPWLLNVSSNLVD--HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV-PKFLG 309
           N       N  S L +   + +    +          + SL  L +  +   +     + 
Sbjct: 80  N------YNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKIN 133

Query: 310 NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
            +  +  + LSYN    ++                L+ L +  + +      +  FP
Sbjct: 134 TLPKVNSIDLSYNGAITDIMPL--------KTLPELKSLNIQFDGVH-DYRGIEDFP 181

>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 = 47.6 bits (114), Expect = 2e-06
 Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 2/86 (2%)

Query: 397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG 456
           K + +++          I  L  L  L +   ++T    P +  L SL  LD+S +    
Sbjct: 69  KDLTINNIHA--TNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDD 126

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSGKI 482
            I + ++ L  ++ +DLSYN     I
Sbjct: 127 SILTKINTLPKVNSIDLSYNGAITDI 152

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

 Score = 43.0 bits (102), Expect = 8e-05
 Identities = 18/90 (20%), Positives = 36/90 (40%), Gaps = 4/90 (4%)

Query: 396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF 455
           +  I L++  +       I     +  L ++N + T    P I  L +L+ L +      
Sbjct: 46  LTYITLANINV--TDLTGIEYAHNIKDLTINNIHATN-YNP-ISGLSNLERLRIMGKDVT 101

Query: 456 GGIPSSLSRLRLLSVMDLSYNNFSGKIPKG 485
                +LS L  L+++D+S++     I   
Sbjct: 102 SDKIPNLSGLTSLTLLDISHSAHDDSILTK 131

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 77.4 bits (191), Expect = 5e-16
 Identities = 38/226 (16%), Positives = 76/226 (33%), Gaps = 53/226 (23%)

Query: 131 EFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRY 190
                L+   +  L    +   +      LS +Q  +   +N+    +L  + + ++L+ 
Sbjct: 13  FPDPGLANAVKQNLGKQSVTDLVS--QKELSGVQNFNGDNSNI---QSLAGMQFFTNLKE 67

Query: 191 LDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNY 250
           L L   ++S  S     L +L  L  L +    L  ++            L  + L NN 
Sbjct: 68  LHLSHNQISDLSP----LKDLTKLEELSVNRNRLKNLNGIPSA------CLSRLFLDNNE 117

Query: 251 LTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGN 310
           L +                              +  H+ +L  L + +N+L+ +   LG 
Sbjct: 118 LRD----------------------------TDSLIHLKNLEILSIRNNKLKSIV-MLGF 148

Query: 311 MSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT 356
           +S L++L L  NE+               T+   + W+ L   +  
Sbjct: 149 LSKLEVLDLHGNEIT-NTGGL--------TRLKKVNWIDLTGQKCV 185

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 65.4 bits (160), Expect = 5e-12
 Identities = 38/210 (18%), Positives = 71/210 (33%), Gaps = 52/210 (24%)

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT 216
              L+     +L   ++    +L     LS ++  +  +  +   +     +    +L  
Sbjct: 15  DPGLANAVKQNLGKQSV---TDLVSQKELSGVQNFNGDNSNIQSLAG----MQFFTNLKE 67

Query: 217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNR 276
           L+L H  +  +S      L     LE + ++ N L N      LN   +           
Sbjct: 68  LHLSHNQISDLSP-----LKDLTKLEELSVNRNRLKN------LNGIPSA---------- 106

Query: 277 LHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVS 336
                         L  L L +N LR+    L ++ +L++L +  N+        ++++ 
Sbjct: 107 -------------CLSRLFLDNNELRDT-DSLIHLKNLEILSIRNNK--------LKSIV 144

Query: 337 SGSTKNSSLEWLYLASNEITGTIPNLGGFP 366
                 S LE L L  NEIT     L    
Sbjct: 145 MLG-FLSKLEVLDLHGNEIT-NTGGLTRLK 172

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 62.3 bits (152), Expect = 6e-11
 Identities = 39/168 (23%), Positives = 65/168 (38%), Gaps = 18/168 (10%)

Query: 108 LLKLQHLTYLDLSWNNFSG-SPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVL 166
           L  L  L  L ++ N     + I       + LS L L + +L       L +L  L++L
Sbjct: 81  LKDLTKLEELSVNRNRLKNLNGI-----PSACLSRLFLDNNELRDTDS--LIHLKNLEIL 133

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH---CD 223
            +R N L    ++  L +LS L  LDL   +++        L+ L+ +  + L      +
Sbjct: 134 SIRNNKL---KSIVMLGFLSKLEVLDLHGNEITNTGG----LTRLKKVNWIDLTGQKCVN 186

Query: 224 LPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID 271
            P    P L   N  K  +   +S  Y++N        V   L  + D
Sbjct: 187 EPVKYQPELYITNTVKDPDGRWISPYYISNGGSYVDGCVLWELPVYTD 234

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 61.6 bits (150), Expect = 1e-10
 Identities = 38/165 (23%), Positives = 59/165 (35%), Gaps = 19/165 (11%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLD 167
           +    +L  L LS N  S       +  L+KL EL+++  +L       + +   L  L 
Sbjct: 59  MQFFTNLKELHLSHNQISD---LSPLKDLTKLEELSVNRNRLKNLNG--IPSAC-LSRLF 112

Query: 168 LRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPI 227
           L  N L    + D L +L +L  L + + KL         L  L  L  L L   ++   
Sbjct: 113 LDNNELR---DTDSLIHLKNLEILSIRNNKLKSIVM----LGFLSKLEVLDLHGNEITNT 165

Query: 228 STPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLN-VSSNLVDHID 271
                  L   K +  IDL+     N    +      +N V   D
Sbjct: 166 G-----GLTRLKKVNWIDLTGQKCVNEPVKYQPELYITNTVKDPD 205

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 55.4 bits (134), Expect = 1e-08
 Identities = 34/266 (12%), Positives = 84/266 (31%), Gaps = 79/266 (29%)

Query: 182 LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSL 241
              L++    +LG   ++   +       L  +      + ++  ++      + +  +L
Sbjct: 15  DPGLANAVKQNLGKQSVTDLVS----QKELSGVQNFNGDNSNIQSLA-----GMQFFTNL 65

Query: 242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRL 301
           + + LS+N +++ + P                              +  L  L +  NRL
Sbjct: 66  KELHLSHNQISD-LSP---------------------------LKDLTKLEELSVNRNRL 97

Query: 302 REVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN 361
           + +       + L  L L  NELR        ++        +LE L + +N++  +I  
Sbjct: 98  KNLNGI--PSACLSRLFLDNNELRD-----TDSLI----HLKNLEILSIRNNKLK-SIVM 145

Query: 362 LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLV 421
           LG                                ++++DL  N++       +  L  + 
Sbjct: 146 LGFLSK----------------------------LEVLDLHGNEI--TNTGGLTRLKKVN 175

Query: 422 ALNLSNNNLTGQITPRIGQLKSLDFL 447
            ++L+      +      +L   + +
Sbjct: 176 WIDLTGQKCVNEPVKYQPELYITNTV 201

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 43.5 bits (103), Expect = 8e-05
 Identities = 30/195 (15%), Positives = 66/195 (33%), Gaps = 54/195 (27%)

Query: 287 HMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE 346
            +A+     L    + ++      +S ++      + ++      +  +       ++L+
Sbjct: 17  GLANAVKQNLGKQSVTDL-VSQKELSGVQNFNGDNSNIQS-----LAGMQ----FFTNLK 66

Query: 347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKL 406
            L+L+ N+I+  +  L                              L  ++ + ++ N+L
Sbjct: 67  ELHLSHNQIS-DLSPLKD----------------------------LTKLEELSVNRNRL 97

Query: 407 GGEVPEEI--MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIP--SSL 462
                + +  +    L  L L NN L       +  LK+L+ L +  N     +     L
Sbjct: 98  -----KNLNGIPSACLSRLFLDNNELR-DTDS-LIHLKNLEILSIRNN----KLKSIVML 146

Query: 463 SRLRLLSVMDLSYNN 477
             L  L V+DL  N 
Sbjct: 147 GFLSKLEVLDLHGNE 161

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 30/160 (18%), Positives = 50/160 (31%), Gaps = 34/160 (21%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            SL+ L++L  L +  N             L  +  L                 LS+L+V
Sbjct: 122 DSLIHLKNLEILSIRNNK------------LKSIVMLG---------------FLSKLEV 154

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           LDL  N +    N   L+ L  + ++DL   K       +     L    T+     D  
Sbjct: 155 LDLHGNEI---TNTGGLTRLKKVNWIDLTGQKCVNEPVKY--QPELYITNTVKDP--DGR 207

Query: 226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSN 265
            IS   + +        V+     Y     Y +   ++  
Sbjct: 208 WISPYYISNGGSYVDGCVLWELPVYTDEVSYKFSEYINVG 247

>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 = 75.6 bits (186), Expect = 5e-15
 Identities = 36/236 (15%), Positives = 70/236 (29%), Gaps = 36/236 (15%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIP-HQLGNLSRLQVLDLRFN 171
           +   L              F G    L ++ +S   +   I      NL +L  + +   
Sbjct: 31  NAIELRFVLTKLRVIQKGAFSG-FGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA 89

Query: 172 NLFSSGNLDWLSYLSSLRYLDLGDCKLSKF-SNWFQVLSNLRSL---------------- 214
           N     N +    L +L+YL + +  +                L                
Sbjct: 90  NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSF 149

Query: 215 -------TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV 267
                    L+L    +  I   +          E+    NN L   +   + + +S   
Sbjct: 150 VGLSFESVILWLNKNGIQEIHNSAFNGTQ---LDELNLSDNNNLE-ELPNDVFHGASGP- 204

Query: 268 DHIDLGSNRLHGSIPV-AFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYN 322
             +D+   R+H S+P     ++  LR        L+++P     + +L    L+Y 
Sbjct: 205 VILDISRTRIH-SLPSYGLENLKKLRARST--YNLKKLPTL-EKLVALMEASLTYP 256

>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 = 59.5 bits (144), Expect = 9e-10
 Identities = 37/252 (14%), Positives = 74/252 (29%), Gaps = 62/252 (24%)

Query: 238 SKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGL 296
            ++   +      L   I     +   +L   I++  N +   I    F ++  L  + +
Sbjct: 29  PRNAIELRFVLTKLR-VIQKGAFSGFGDLE-KIEISQNDVLEVIEADVFSNLPKLHEIRI 86

Query: 297 L-SNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNE 354
             +N L  +  +   N+ +L+ L++S   ++  L +           +     L +  N 
Sbjct: 87  EKANNLLYINPEAFQNLPNLQYLLISNTGIK-HLPDVH------KIHSLQKVLLDIQDNI 139

Query: 355 ITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI 414
              TI     F G+                             I+ L+ N +  E+    
Sbjct: 140 NIHTIER-NSFVGLSFES------------------------VILWLNKNGIQ-EIHNSA 173

Query: 415 MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLS 474
            +   L  LNLS+NN           L+ L                         ++D+S
Sbjct: 174 FNGTQLDELNLSDNN----------NLEELP-------------NDVFHGASGPVILDIS 210

Query: 475 YNNFSGKIPKGT 486
                  +P   
Sbjct: 211 RTRIH-SLPSYG 221

>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 = 55.6 bits (134), Expect = 2e-08
 Identities = 30/160 (18%), Positives = 53/160 (33%), Gaps = 13/160 (8%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSPIPE--FIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQ 164
             +       LD+  N    + I    F+G   +   L L+   +   I +   N ++L 
Sbjct: 123 HKIHSLQKVLLDIQDNINIHT-IERNSFVGLSFESVILWLNKNGIQE-IHNSAFNGTQLD 180

Query: 165 VLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDL 224
            L+L  NN       D     S    LD+   ++    ++   L NL+ L      +   
Sbjct: 181 ELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY--GLENLKKLRARSTYNL-- 236

Query: 225 PPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSS 264
                P+L  L    +L    L+      +   W   +S 
Sbjct: 237 --KKLPTLEKL---VALMEASLTYPSHCCAFANWRRQISE 271

>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 = 74.0 bits (182), Expect = 9e-15
 Identities = 50/212 (23%), Positives = 74/212 (34%), Gaps = 21/212 (9%)

Query: 114 LTYLDLSWNNFSGSP--IPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFN 171
              ++    N +  P  +P         + L LS   L       L   +RL  L+L   
Sbjct: 12  HLEVNCDKRNLTALPPDLP------KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA 65

Query: 172 NLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPS 231
            L     L     L  L  LDL   +L       Q    L +LT L +    L  +   +
Sbjct: 66  ELTK---LQVDGTLPVLGTLDLSHNQLQSLPLLGQ---TLPALTVLDVSFNRLTSLPLGA 119

Query: 232 LLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMAS 290
           L  L     L+ + L  N L  ++ P LL  +  L + + L +N L   +P      + +
Sbjct: 120 LRGL---GELQELYLKGNELK-TLPPGLLTPTPKL-EKLSLANNNLT-ELPAGLLNGLEN 173

Query: 291 LRYLGLLSNRLREVPKFLGNMSSLKMLVLSYN 322
           L  L L  N L  +PK       L    L  N
Sbjct: 174 LDTLLLQENSLYTIPKGFFGSHLLPFAFLHGN 205

>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 = 68.2 bits (167), Expect = 1e-12
 Identities = 47/215 (21%), Positives = 81/215 (37%), Gaps = 43/215 (20%)

Query: 240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN 299
              ++ LS N L  +     L   + L   ++L    L   + V  G +  L  L L  N
Sbjct: 32  DTTILHLSENLLY-TFSLATLMPYTRLT-QLNLDRAEL-TKLQV-DGTLPVLGTLDLSHN 87

Query: 300 RLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLYLASNEITGT 358
           +L+ +P     + +L +L +S+N         + ++  G+      L+ LYL  NE+  T
Sbjct: 88  QLQSLPLLGQTLPALTVLDVSFNR--------LTSLPLGALRGLGELQELYLKGNELK-T 138

Query: 359 IPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD-L 417
           +P     PG+                           ++ + L++N L  E+P  +++ L
Sbjct: 139 LP-----PGL------LTP---------------TPKLEKLSLANNNL-TELPAGLLNGL 171

Query: 418 VGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
             L  L L  N+L   I         L F  L  N
Sbjct: 172 ENLDTLLLQENSLYT-IPKGFFGSHLLPFAFLHGN 205

>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 = 40.9 bits (96), Expect = 6e-04
 Identities = 31/99 (31%), Positives = 41/99 (41%), Gaps = 9/99 (9%)

Query: 397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG 456
            I+ LS N L       +M    L  LNL    LT       G L  L  LDLS N    
Sbjct: 34  TILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT--KLQVDGTLPVLGTLDLSHNQ-LQ 90

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSGKIPKG-----TQLQR 490
            +P     L  L+V+D+S+N  +  +P G      +LQ 
Sbjct: 91  SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQE 128

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A Length = 386

 Score = 75.1 bits (185), Expect = 9e-15
 Identities = 60/323 (18%), Positives = 97/323 (30%), Gaps = 52/323 (16%)

Query: 78  SNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFS---GSPIPEFIG 134
           +  +     L L A++     ++       LL+   +  + LS N         + E I 
Sbjct: 2   ARFSIEGKSLKLDAITTEDEKSVFA----VLLEDDSVKEIVLSGNTIGTEAARWLSENIA 57

Query: 135 SLSKLSELALSSAQL----------AGPIPHQLGNLSRLQVLDLRFNNLFSSGNL---DW 181
           S   L     S                 +   L    +L  + L  N    +      D+
Sbjct: 58  SKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDF 117

Query: 182 LSYLSSLRYLDLGDCKLS-----------KFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
           LS  + L +L L +  L            +     +   N   L ++  G   L   S  
Sbjct: 118 LSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMK 177

Query: 231 SL-LHLNYSKSLEVIDLSNNYLTNS-IYPWL---LNVSSNLVDHIDLGSNRLH--GSIPV 283
                    + L  + +  N +    I   L   L     L   +DL  N     GS  +
Sbjct: 178 EWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELK-VLDLQDNTFTHLGSSAL 236

Query: 284 A--FGHMASLRYLGLLSNRLR--------EVPKFLGNMSSLKMLVLSYNELRGELSEFIQ 333
           A       +LR LGL    L         +    L N   L+ L L YNE+  +    + 
Sbjct: 237 AIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLEN-IGLQTLRLQYNEIELDAVRTL- 294

Query: 334 NVSSGSTKNSSLEWLYLASNEIT 356
             +    K   L +L L  N  +
Sbjct: 295 -KTVIDEKMPDLLFLELNGNRFS 316

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A Length = 386

 Score = 57.8 bits (140), Expect = 5e-09
 Identities = 50/356 (14%), Positives = 112/356 (31%), Gaps = 73/356 (20%)

Query: 157 LGNLSRLQVLDLRFNNLFSSGNLDWLSYL---SSLRYLDLGDCKLSK--FSNWFQVLSNL 211
           +   S ++   L+ + + +       + L    S++ + L    +         + +++ 
Sbjct: 1   MARFS-IEGKSLKLDAITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASK 59

Query: 212 RSLTTLYLGHC------DLPPISTPSLLH-LNYSKSLEVIDLSNNYLTN----SIYPWLL 260
           + L              D  P +   LL  L     L  + LS+N         +    L
Sbjct: 60  KDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLID-FL 118

Query: 261 NVSSNLVDHIDLGSNRL--HGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV 318
           +  + L  H+ L +N L       +A     +L+ L +             N   L+ ++
Sbjct: 119 SKHTPLE-HLYLHNNGLGPQAGAKIA----RALQELAVNKK--------AKNAPPLRSII 165

Query: 319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKI 378
              N L    +  ++  +     +  L  + +  N I        G   +L+  + + + 
Sbjct: 166 CGRNRLE---NGSMKEWAKTFQSHRLLHTVKMVQNGIRPE-----GIEHLLLEGLAYCQ- 216

Query: 379 TVTWKGGQYEYKSILGLIKIIDLSSNKLGGE----VPEEIMDLVGLVALNLSNNNLTGQI 434
                            +K++DL  N         +   +     L  L L++  L+ + 
Sbjct: 217 ----------------ELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARG 260

Query: 435 TPRIGQL------KSLDFLDLSINHF----FGGIPSSL-SRLRLLSVMDLSYNNFS 479
              +           L  L L  N         + + +  ++  L  ++L+ N FS
Sbjct: 261 AAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFS 316

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A Length = 386

 Score = 53.2 bits (128), Expect = 1e-07
 Identities = 37/175 (21%), Positives = 58/175 (33%), Gaps = 20/175 (11%)

Query: 98  DALKGTINPSLLKL-QHLTYLDLSWNNF---SGSPIPEFIGSLSKLSELALSSAQL---- 149
            AL+        K    L  +    N     S     +   S   L  + +    +    
Sbjct: 144 RALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEG 203

Query: 150 -AGPIPHQLGNLSRLQVLDLRFNNLFSSG--NL-DWLSYLSSLRYLDLGDCKLS-----K 200
               +   L     L+VLDL+ N     G   L   L    +LR L L DC LS      
Sbjct: 204 IEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAA 263

Query: 201 FSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHL--NYSKSLEVIDLSNNYLTN 253
             + F  L N   L TL L + ++   +  +L  +       L  ++L+ N  + 
Sbjct: 264 VVDAFSKLEN-IGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE 317

>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 = 73.5 bits (181), Expect = 1e-14
 Identities = 54/218 (24%), Positives = 85/218 (38%), Gaps = 38/218 (17%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLR 169
               L  LDLS               +  + + A               +LS L  L L 
Sbjct: 50  SFPELQVLDLSRCE------------IQTIEDGAYQ-------------SLSHLSTLILT 84

Query: 170 FNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIST 229
            N +  S  L   S LSSL+ L   +  L+   N    + +L++L  L + H  +     
Sbjct: 85  GNPI-QSLALGAFSGLSSLQKLVAVETNLASLEN--FPIGHLKTLKELNVAHNLIQSFKL 141

Query: 230 PSLL-HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL---VDHIDLGSNRLHGSIPVAF 285
           P    +L    +LE +DLS+N +  SIY   L V   +      +DL  N ++  I    
Sbjct: 142 PEYFSNLT---NLEHLDLSSNKIQ-SIYCTDLRVLHQMPLLNLSLDLSLNPMN-FIQPGA 196

Query: 286 GHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYN 322
                L+ L L +N+L+ VP      ++SL+ + L  N
Sbjct: 197 FKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTN 234

>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 = 71.5 bits (176), Expect = 6e-14
 Identities = 51/219 (23%), Positives = 88/219 (40%), Gaps = 22/219 (10%)

Query: 141 ELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSK 200
            L LS   L     +   +   LQVLDL    +  +        LS L  L L    +  
Sbjct: 32  NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEI-QTIEDGAYQSLSHLSTLILTGNPIQS 90

Query: 201 FSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLL 260
            +      S L SL  L     +L  +    + HL   K+L+ +++++N + +   P   
Sbjct: 91  LAL--GAFSGLSSLQKLVAVETNLASLENFPIGHL---KTLKELNVAHNLIQSFKLPEYF 145

Query: 261 NVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRY----LGLLSNRLREVPKFLGNMSSLK 315
           +  +NL +H+DL SN++  SI       +  +      L L  N +  +         LK
Sbjct: 146 SNLTNL-EHLDLSSNKIQ-SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLK 203

Query: 316 MLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLYLASN 353
            L L  N+L        ++V  G   + +SL+ ++L +N
Sbjct: 204 ELALDTNQL--------KSVPDGIFDRLTSLQKIWLHTN 234

>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 = 67.3 bits (165), Expect = 1e-12
 Identities = 51/252 (20%), Positives = 91/252 (36%), Gaps = 54/252 (21%)

Query: 186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVID 245
            S + LDL    L    +      +   L  L L  C++  I   +   L     L  + 
Sbjct: 28  FSTKNLDLSFNPLRHLGS--YSFFSFPELQVLDLSRCEIQTIEDGAYQSL---SHLSTLI 82

Query: 246 LSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP-VAFGHMASLRYLGLLSNRLREV 304
           L+ N +  S+     +  S+L   +      L  S+     GH+ +L+ L +  N ++  
Sbjct: 83  LTGNPIQ-SLALGAFSGLSSL-QKLVAVETNLA-SLENFPIGHLKTLKELNVAHNLIQSF 139

Query: 305 P--KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEW----LYLASNEITG 357
              ++  N+++L+ L LS N+        IQ++     +    +      L L+ N +  
Sbjct: 140 KLPEYFSNLTNLEHLDLSSNK--------IQSIYCTDLRVLHQMPLLNLSLDLSLNPMN- 190

Query: 358 TIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD- 416
            I      PG       F +I +                  + L +N+L   VP+ I D 
Sbjct: 191 FIQ-----PGA------FKEIRLKE----------------LALDTNQL-KSVPDGIFDR 222

Query: 417 LVGLVALNLSNN 428
           L  L  + L  N
Sbjct: 223 LTSLQKIWLHTN 234

>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 = 53.4 bits (129), Expect = 5e-08
 Identities = 46/254 (18%), Positives = 81/254 (31%), Gaps = 70/254 (27%)

Query: 240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGLLS 298
           S + +DLS N L   +  +       L   +DL    +  +I   A+  ++ L  L L  
Sbjct: 29  STKNLDLSFNPLR-HLGSYSFFSFPELQ-VLDLSRCEIQ-TIEDGAYQSLSHLSTLILTG 85

Query: 299 NRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEIT 356
           N ++ +       +SSL+ LV             + ++ +    +  +L+ L +A N I 
Sbjct: 86  NPIQSLALGAFSGLSSLQKLVAVETN--------LASLENFPIGHLKTLKELNVAHNLIQ 137

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD 416
            +      F                                                   
Sbjct: 138 -SFKLPEYFSN------------------------------------------------- 147

Query: 417 LVGLVALNLSNNNLT---GQITPRIGQLKSLDF-LDLSINHFFGGIPSSLSRLRLLSVMD 472
           L  L  L+LS+N +          + Q+  L+  LDLS+N      P +   +RL   + 
Sbjct: 148 LTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKE-LA 206

Query: 473 LSYNNFSGKIPKGT 486
           L  N     +P G 
Sbjct: 207 LDTNQLK-SVPDGI 219

>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 = 47.7 bits (114), Expect = 4e-06
 Identities = 28/124 (22%), Positives = 49/124 (39%), Gaps = 16/124 (12%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV---- 165
            L+ L  L+++ N      +PE+  +L+ L  L LSS ++       L  L ++ +    
Sbjct: 122 HLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS 181

Query: 166 LDLRFNNL--FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH-- 221
           LDL  N +     G    +     L+ L L   +L    +   +   L SL  ++L    
Sbjct: 182 LDLSLNPMNFIQPGAFKEI----RLKELALDTNQLKSVPD--GIFDRLTSLQKIWLHTNP 235

Query: 222 --CD 223
             C 
Sbjct: 236 WDCS 239

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 74.5 bits (183), Expect = 1e-14
 Identities = 42/169 (24%), Positives = 65/169 (38%), Gaps = 9/169 (5%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQ-LGNLSRLQVLDLRFN 171
           +   LDLS NN S          L+ L  L LS   L   I  +    +  L+ LDL  N
Sbjct: 40  YTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNF-ISSEAFVPVPNLRYLDLSSN 98

Query: 172 NLFSSGNLDW--LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIST 229
           +L +   LD    S L +L  L L +  +           ++  L  LYL    +     
Sbjct: 99  HLHT---LDEFLFSDLQALEVLLLYNNHIVVVDR--NAFEDMAQLQKLYLSQNQISRFPV 153

Query: 230 PSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
             +   N    L ++DLS+N L       L  + + + + + L +N L 
Sbjct: 154 ELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLE 202

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 71.4 bits (175), Expect = 1e-13
 Identities = 44/173 (25%), Positives = 75/173 (43%), Gaps = 17/173 (9%)

Query: 186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVID 245
           S    LDL    LS+    +   + L +L +L L H  L  IS+ + + +    +L  +D
Sbjct: 39  SYTALLDLSHNNLSRLRAEW-TPTRLTNLHSLLLSHNHLNFISSEAFVPV---PNLRYLD 94

Query: 246 LSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGLLSNRLREV 304
           LS+N+L  ++  +L +    L + + L +N +   +   AF  MA L+ L L  N++   
Sbjct: 95  LSSNHLH-TLDEFLFSDLQAL-EVLLLYNNHIV-VVDRNAFEDMAQLQKLYLSQNQISRF 151

Query: 305 P----KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASN 353
           P    K    +  L +L LS N+L+      +               LYL +N
Sbjct: 152 PVELIKDGNKLPKLMLLDLSSNKLK-----KLPLTDLQKLPAWVKNGLYLHNN 199

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 69.5 bits (170), Expect = 6e-13
 Identities = 42/221 (19%), Positives = 78/221 (35%), Gaps = 20/221 (9%)

Query: 105 NPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQ 164
             +  +L +L  L LS N+ +      F+  +  L  L LSS  L         +L  L+
Sbjct: 57  EWTPTRLTNLHSLLLSHNHLNFISSEAFVP-VPNLRYLDLSSNHLHTLDEFLFSDLQALE 115

Query: 165 VLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNW-FQVLSNLRSLTTLYLGHCD 223
           VL L  N++    + +    ++ L+ L L   ++S+F     +  + L  L  L L    
Sbjct: 116 VLLLYNNHI-VVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNK 174

Query: 224 LPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPW-----LLNVSSNLV----DHIDLGS 274
           L  +    L  L  +     + L NN       P      L  + S+        +    
Sbjct: 175 LKKLPLTDLQKLP-AWVKNGLYLHNN-------PLECDCKLYQLFSHWQYRQLSSVMDFQ 226

Query: 275 NRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLK 315
             L+        ++ SL +      +       LG+  +++
Sbjct: 227 EDLYCMHSKKLHNIFSLDFFNCSEYKESAWEAHLGDTLTIR 267

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 60.2 bits (146), Expect = 6e-10
 Identities = 50/199 (25%), Positives = 81/199 (40%), Gaps = 39/199 (19%)

Query: 238 SKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGL 296
                ++DLS+N L+     W     +NL   + L  N L+  I   AF  + +LRYL L
Sbjct: 38  PSYTALLDLSHNNLSRLRAEWTPTRLTNLH-SLLLSHNHLN-FISSEAFVPVPNLRYLDL 95

Query: 297 LSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNE 354
            SN L  + +    ++ +L++L+L  N         I  V   + ++ + L+ LYL+ N+
Sbjct: 96  SSNHLHTLDEFLFSDLQALEVLLLYNNH--------IVVVDRNAFEDMAQLQKLYLSQNQ 147

Query: 355 ITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI 414
           I+   P                              + L  + ++DLSSNKL      ++
Sbjct: 148 IS-RFPV-ELIKDG----------------------NKLPKLMLLDLSSNKLKKLPLTDL 183

Query: 415 MDLVGLVA--LNLSNNNLT 431
             L   V   L L NN L 
Sbjct: 184 QKLPAWVKNGLYLHNNPLE 202

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 59.5 bits (144), Expect = 1e-09
 Identities = 40/206 (19%), Positives = 71/206 (34%), Gaps = 48/206 (23%)

Query: 259 LLNVSSNL---VDHIDLGSNRLHGSIP--VAFGHMASLRYLGLLSNRLREVPK-FLGNMS 312
           L NV  +L      +DL  N L   +        + +L  L L  N L  +       + 
Sbjct: 30  LPNVPQSLPSYTALLDLSHNNLS-RLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVP 88

Query: 313 SLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLYLASNEITGTIPNLGGFPGMLMP 371
           +L+ L LS N L          +     +   +LE L L +N I   +     F      
Sbjct: 89  NLRYLDLSSNHL--------HTLDEFLFSDLQALEVLLLYNNHIV-VVDR-NAFED---- 134

Query: 372 LIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD----LVGLVALNLSN 427
                                +  ++ + LS N++    P E++     L  L+ L+LS+
Sbjct: 135 ---------------------MAQLQKLYLSQNQIS-RFPVELIKDGNKLPKLMLLDLSS 172

Query: 428 NNLTGQITPRIGQLKSLDFLDLSINH 453
           N L       + +L +     L +++
Sbjct: 173 NKLKKLPLTDLQKLPAWVKNGLYLHN 198

>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 = 70.8 bits (174), Expect = 6e-14
 Identities = 47/254 (18%), Positives = 86/254 (33%), Gaps = 34/254 (13%)

Query: 69  CCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSP 128
           C +    R + K       D++ +   P                    L L   +    P
Sbjct: 10  CHQEEDFRVTCK-------DIQRIPSLPPS---------------TQTLKLIETHLRTIP 47

Query: 129 IPEFIGSLSKLSELALSS-AQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS 187
              F   L  +S + +S    L     H   NLS++  +++R     +  + D L  L  
Sbjct: 48  SHAFSN-LPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPL 106

Query: 188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH-CDLPPISTPSLLHLNYSKSLEVIDL 246
           L++L + +  L  F +    + +      L +     +  I   +   L        + L
Sbjct: 107 LKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGL--CNETLTLKL 163

Query: 247 SNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMAS-LRYLGLLSNRLREV 304
            NN  T S+  +  N +   +D + L  N+    I   AFG + S    L +    +  +
Sbjct: 164 YNNGFT-SVQGYAFNGTK--LDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTAL 220

Query: 305 P-KFLGNMSSLKML 317
           P K L ++  L   
Sbjct: 221 PSKGLEHLKELIAR 234

>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 = 58.9 bits (143), Expect = 6e-10
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 17/158 (10%)

Query: 209 SNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD 268
           S   S  TL L    L  I + +  +L    ++  I +S +     +        S +  
Sbjct: 28  SLPPSTQTLKLIETHLRTIPSHAFSNL---PNISRIYVSIDVTLQQLESHSFYNLSKVT- 83

Query: 269 HIDLGSNRLHGSIPV-AFGHMASLRYLGLLSNRLREVP--KFLGNMSSLKMLVLSYNELR 325
           HI++ + R    I   A   +  L++LG+ +  L+  P    + +     +L ++ N   
Sbjct: 84  HIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPY- 142

Query: 326 GELSEFIQNVSSGSTKN--SSLEWLYLASNEITGTIPN 361
                 + ++   + +   +    L L +N  T ++  
Sbjct: 143 ------MTSIPVNAFQGLCNETLTLKLYNNGFT-SVQG 173

>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 = 58.9 bits (143), Expect = 6e-10
 Identities = 41/250 (16%), Positives = 77/250 (30%), Gaps = 49/250 (19%)

Query: 185 LSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCD-LPPISTPSLLHLNYSKSLEV 243
             S + L L +  L    +     SNL +++ +Y+     L  + + S  +L     +  
Sbjct: 30  PPSTQTLKLIETHLRTIPS--HAFSNLPNISRIYVSIDVTLQQLESHSFYNL---SKVTH 84

Query: 244 IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP--VAFGHMASLRYLGLLSN-R 300
           I++ N      I P  L     L   + + +  L    P             L +  N  
Sbjct: 85  IEIRNTRNLTYIDPDALKELPLLK-FLGIFNTGLK-MFPDLTKVYSTDIFFILEITDNPY 142

Query: 301 LREVPK--FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGT 358
           +  +P   F G  +    L L  N           +V   +   + L+ +YL  N+    
Sbjct: 143 MTSIPVNAFQGLCNETLTLKLYNNG--------FTSVQGYAFNGTKLDAVYLNKNKYLTV 194

Query: 359 IPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLV 418
           I     F G+                             ++D+S   +   +P + ++  
Sbjct: 195 IDK-DAFGGVYSGP------------------------SLLDVSQTSV-TALPSKGLE-- 226

Query: 419 GLVALNLSNN 428
            L  L   N 
Sbjct: 227 HLKELIARNT 236

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 23/194 (11%), Positives = 58/194 (29%), Gaps = 43/194 (22%)

Query: 298 SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEIT 356
              ++ +P       S + L L            ++ + S +  N  ++  +Y++ +   
Sbjct: 20  CKDIQRIPSLP---PSTQTLKLIETH--------LRTIPSHAFSNLPNISRIYVSIDVTL 68

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI-M 415
             + +   F                           L  +  I++ + +    +  +   
Sbjct: 69  QQLES-HSFYN-------------------------LSKVTHIEIRNTRNLTYIDPDALK 102

Query: 416 DLVGLVALNLSNNNLTG-QITPRIGQLKSLDFLDLSINHFFGGIPS-SLSRLR-LLSVMD 472
           +L  L  L + N  L       ++        L+++ N +   IP  +   L      + 
Sbjct: 103 ELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLK 162

Query: 473 LSYNNFSGKIPKGT 486
           L  N F+  +    
Sbjct: 163 LYNNGFT-SVQGYA 175

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 72.4 bits (178), Expect = 7e-14
 Identities = 55/280 (19%), Positives = 106/280 (37%), Gaps = 33/280 (11%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSL----SKLSELALSSAQL----AGPIPHQL-G 158
                 +T LDLS NN       E I +     + ++ L LS   L    +  +   L  
Sbjct: 18  TSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAA 77

Query: 159 NLSRLQVLDLRFNNLFSSGNLDWLSYL----SSLRYLDLGDCKLSKF--SNWFQVLSNL- 211
             + +  L+L  N L    + + +  L     ++  LDLG    S    S + Q  SNL 
Sbjct: 78  IPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLP 137

Query: 212 RSLTTLYLGHCDLPPISTPSLLHL--NYSKSLEVIDLSNNYLTNS----IYPWLLNVSSN 265
            S+T+L L   DL   S+  L+ +      ++  ++L  N L +     +  +L ++ ++
Sbjct: 138 ASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPAS 197

Query: 266 LVDHIDLGSNRLHGSIPVAFGHM-----ASLRYLGLLSNRL-----REVPKFLGNMSSLK 315
           +   +DL +N L         ++       +  L L  N L       +     ++  L+
Sbjct: 198 VT-SLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQ 256

Query: 316 MLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEI 355
            + L Y+ ++    E  + + +       +  +     EI
Sbjct: 257 TVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEI 296

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 64.7 bits (158), Expect = 2e-11
 Identities = 48/273 (17%), Positives = 101/273 (36%), Gaps = 54/273 (19%)

Query: 112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFN 171
            ++T L+LS N  S         S  +L +  L++                + VLDL +N
Sbjct: 80  ANVTSLNLSGNFLSYK-------SSDELVK-TLAAIP------------FTITVLDLGWN 119

Query: 172 NLFSSGNLDWLSYL----SSLRYLDLGDCKLSKFSNWF--QVLSNL-RSLTTLYLGHCDL 224
           +  S  + ++        +S+  L+L    L   S+    Q+L+ +  ++ +L L   +L
Sbjct: 120 DFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNL 179

Query: 225 PPISTPSLLHL--NYSKSLEVIDLSNNYLTNSIYPWL---LNVSSNLVDHIDLGSNRLHG 279
              +   L     +   S+  +DLS N L    Y  L    +   N V  ++L  N LHG
Sbjct: 180 ASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHG 239

Query: 280 S----IPVAFGHMASLRYLGLLSNRL--------REVPKFLGNMSSLKMLVLSYNELRGE 327
                + +    +  L+ + L  + +        + +     N+  + ++  +  E+   
Sbjct: 240 PSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEIHPS 299

Query: 328 ----LSEFIQNVSSGSTKNSSLEWLYLASNEIT 356
               +S  I+ +      +   +   L +  + 
Sbjct: 300 HSIPISNLIREL------SGKADVPSLLNQCLI 326

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 60.9 bits (148), Expect = 3e-10
 Identities = 53/314 (16%), Positives = 101/314 (32%), Gaps = 72/314 (22%)

Query: 206 QVLSNLRSLTTLYLGHCDLPPISTPSL--LHLNYSKSLEVIDLSNNYLTN----SIYPWL 259
           +  S    +T+L L   +L  IST  L     N   S+  ++LS N L       +   L
Sbjct: 16  EFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQIL 75

Query: 260 LNVSSNLVDHIDLGSNRLHGSIPVAFGHM-----ASLRYLGLLSNRLREV-PKFLGNM-- 311
             + +N+   ++L  N L                 ++  L L  N               
Sbjct: 76  AAIPANVT-SLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFS 134

Query: 312 ---SSLKMLVLSYNELRGE----LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGG 364
              +S+  L L  N+L  +    L + +  +       +++  L L  N +         
Sbjct: 135 NLPASITSLNLRGNDLGIKSSDELIQILAAI------PANVNSLNLRGNNLAS------- 181

Query: 365 FPGMLMPLIYFDKITVTWKGGQYEYKSILGL---IKIIDLSSNKLGGEVPEEIMDLV--- 418
                             K      K +  +   +  +DLS+N LG +   E+  +    
Sbjct: 182 ------------------KNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSI 223

Query: 419 --GLVALNLSNNNLTGQITPRIGQL----KSLDFLDLSINHF-------FGGIPSSLSRL 465
              +V+LNL  N L G     +  L    K L  + L  +            + ++   +
Sbjct: 224 PNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNI 283

Query: 466 RLLSVMDLSYNNFS 479
           + + ++D +     
Sbjct: 284 QKIILVDKNGKEIH 297

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 45.5 bits (108), Expect = 3e-05
 Identities = 29/188 (15%), Positives = 59/188 (31%), Gaps = 22/188 (11%)

Query: 112 QHLTYLDLSWNNFSGSPIPEFIGSL----SKLSELALSSAQL----AGPIPHQL-GNLSR 162
            ++  L+L  NN +     E    L    + ++ L LS+  L       + +      + 
Sbjct: 167 ANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNH 226

Query: 163 LQVLDLRFNNLFSSGNLD---WLSYLSSLRYLDLGDCKLSKFS-----NWFQVLSNLRSL 214
           +  L+L  N L      +       L  L+ + L    +   S            N++ +
Sbjct: 227 VVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKI 286

Query: 215 TTLYLGHCDLPPISTPSLLHL--NYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHI-- 270
             +     ++ P  +  + +L    S   +V  L N  L  +          N+ D +  
Sbjct: 287 ILVDKNGKEIHPSHSIPISNLIRELSGKADVPSLLNQCLIFAQKHQTNIEDLNIPDELRE 346

Query: 271 -DLGSNRL 277
                  L
Sbjct: 347 SIQTCKPL 354

>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 = 64.8 bits (157), Expect = 4e-11
 Identities = 31/154 (20%), Positives = 50/154 (32%), Gaps = 17/154 (11%)

Query: 107 SLLKLQHLTYLDLSWNNFSGSP-------IPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           +L     L  +D     +                   + +  L L+   L   + H L  
Sbjct: 404 TLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTV-LCH-LEQ 461

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           L  +  LDL  N L +      L+ L  L  L   D  L         ++NL  L  L L
Sbjct: 462 LLLVTHLDLSHNRLRAL--PPALAALRCLEVLQASDNALENVDG----VANLPRLQELLL 515

Query: 220 GHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
            +  L    + ++  L     L +++L  N L  
Sbjct: 516 CNNRLQ--QSAAIQPLVSCPRLVLLNLQGNSLCQ 547

>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 = 63.6 bits (154), Expect = 1e-10
 Identities = 58/338 (17%), Positives = 110/338 (32%), Gaps = 32/338 (9%)

Query: 36  LDEEKEALLAFKQGLID-----ESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLR 90
            D   ++   + + L+      +        RE+   + C  R +   ++ G +L +   
Sbjct: 221 TDPNDQSAWFYHRWLLGRAEPHDVLCCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDE 280

Query: 91  ALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLA 150
           A          G   PS + L  L    L+      +    + GS S   E  L   +  
Sbjct: 281 APLSVEWRTPDGRNRPSHVWLCDLPAASLNDQLPQHTFRVIWTGSDS-QKECVLLKDRPE 339

Query: 151 GPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN 210
                      +L   +L         +   L     L+ L+  +           ++  
Sbjct: 340 CW-CRDSATDEQLFRCELSVEKSTVLQSE--LESCKELQELEPENKWCLL-----TIILL 391

Query: 211 LRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHI 270
           +R+L  L      L   S  +L  ++  ++  + DL + +L  +    +L +    V  +
Sbjct: 392 MRALDPLLYEKETLQYFS--TLKAVDPMRAAYLDDLRSKFLLENS---VLKMEYADVRVL 446

Query: 271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSE 330
            L    L   +      +  + +L L  NRLR +P  L  +  L++L  S N L   +  
Sbjct: 447 HLAHKDLT-VLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALE-NVDG 503

Query: 331 FIQNVSSGSTKNSSLEWLYLASNEITG--TIPNLGGFP 366
                         L+ L L +N +     I  L   P
Sbjct: 504 V--------ANLPRLQELLLCNNRLQQSAAIQPLVSCP 533

>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 = 59.4 bits (143), Expect = 2e-09
 Identities = 32/115 (27%), Positives = 48/115 (41%), Gaps = 8/115 (6%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
             L +L  +T+LDLS N      +P  + +L  L  L  S   L   +   + NL RLQ 
Sbjct: 457 CHLEQLLLVTHLDLSHNRLRA--LPPALAALRCLEVLQASDNALEN-VDG-VANLPRLQE 512

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNW----FQVLSNLRSLTT 216
           L L  N L  S  +  L     L  L+L    L +         ++L ++ S+ T
Sbjct: 513 LLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSILT 567

>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 = 57.5 bits (138), Expect = 9e-09
 Identities = 41/230 (17%), Positives = 72/230 (31%), Gaps = 39/230 (16%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLD 167
               + L   +LS    +   +   + S  +L EL   +      I   +  L  L    
Sbjct: 345 SATDEQLFRCELSVEKST--VLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEK 402

Query: 168 LRFNNLFSSGNLDWL--------------------SYLSSLRYLDLGDCKLSKFSNWFQV 207
                  +   +D +                       + +R L L    L+   +    
Sbjct: 403 ETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCH---- 458

Query: 208 LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSS--N 265
           L  L  +T L L H  L  +       L   + LEV+  S+N L N     +  V++   
Sbjct: 459 LEQLLLVTHLDLSHNRLRALPP----ALAALRCLEVLQASDNALEN-----VDGVANLPR 509

Query: 266 LVDHIDLGSNRLHG-SIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSL 314
           L + + L +NRL   +          L  L L  N L +       ++ +
Sbjct: 510 LQE-LLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEM 558

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 54.8 bits (131), Expect = 6e-08
 Identities = 38/310 (12%), Positives = 81/310 (26%), Gaps = 26/310 (8%)

Query: 187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEV--- 243
              ++   +  LS   +    + +      L +    L             S        
Sbjct: 246 CCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNRPSHVWLCDLP 305

Query: 244 IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE 303
               N+ L    +  +   S +  + +                    L    L   +   
Sbjct: 306 AASLNDQLPQHTFRVIWTGSDSQKECVL--LKDRPECWCRDSATDEQLFRCELSVEKSTV 363

Query: 304 VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLG 363
           +   L +   L+ L          +   ++ +     +  +L++    S           
Sbjct: 364 LQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYF---STLKAVDPMRAA 420

Query: 364 GFPGMLMPLIYFDKITVTWKGGQY------------EYKSILGLIKIIDLSSNKLGGEVP 411
               +    +  + +                      +   L L+  +DLS N+L   +P
Sbjct: 421 YLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLR-ALP 479

Query: 412 EEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS--SLSRLRLLS 469
             +  L  L  L  S+N L   +   +  L  L  L L  N       +   L     L 
Sbjct: 480 PALAALRCLEVLQASDNALE-NVDG-VANLPRLQELLLCNNR-LQQSAAIQPLVSCPRLV 536

Query: 470 VMDLSYNNFS 479
           +++L  N+  
Sbjct: 537 LLNLQGNSLC 546

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 61.9 bits (151), Expect = 8e-11
 Identities = 51/217 (23%), Positives = 86/217 (39%), Gaps = 43/217 (19%)

Query: 240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGLLS 298
             + +DL +N L+ S+     +  + L   + L  N+L  ++P   F  + +L  L +  
Sbjct: 38  DTKKLDLQSNKLS-SLPSKAFHRLTKLR-LLYLNDNKLQ-TLPAGIFKELKNLETLWVTD 94

Query: 299 NRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLYLASNEIT 356
           N+L+ +P      + +L  L L  N+        ++++        + L +L L  NE+ 
Sbjct: 95  NKLQALPIGVFDQLVNLAELRLDRNQ--------LKSLPPRVFDSLTKLTYLSLGYNELQ 146

Query: 357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD 416
            ++P      G+      FDK               L  +K + L +N+L   VPE   D
Sbjct: 147 -SLP-----KGV------FDK---------------LTSLKELRLYNNQLK-RVPEGAFD 178

Query: 417 -LVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
            L  L  L L NN L          L+ L  L L  N
Sbjct: 179 KLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQEN 215

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 60.8 bits (148), Expect = 2e-10
 Identities = 57/214 (26%), Positives = 82/214 (38%), Gaps = 42/214 (19%)

Query: 114 LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQL-GNLSRLQVLDLRFNN 172
              LDL  N  S  P   F   L+KL  L L+  +L   +P  +   L  L+ L +  N 
Sbjct: 39  TKKLDLQSNKLSSLPSKAFHR-LTKLRLLYLNDNKLQT-LPAGIFKELKNLETLWVTDNK 96

Query: 173 LFS--SGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP 230
           L +   G  D    L +L  L L   +L        V  +L  LT L LG+ +L  +   
Sbjct: 97  LQALPIGVFD---QLVNLAELRLDRNQLKSLPPR--VFDSLTKLTYLSLGYNELQSLPKG 151

Query: 231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMA 289
               L    SL+ + L NN L                             +P  AF  + 
Sbjct: 152 VFDKL---TSLKELRLYNNQLK---------------------------RVPEGAFDKLT 181

Query: 290 SLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYN 322
            L+ L L +N+L+ VP+    ++  LKML L  N
Sbjct: 182 ELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQEN 215

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 54.2 bits (131), Expect = 3e-08
 Identities = 42/169 (24%), Positives = 59/169 (34%), Gaps = 15/169 (8%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQL-GNLSRLQVLDL 168
           +L  L  L L+ N     P   F   L  L  L ++  +L   +P  +   L  L  L L
Sbjct: 59  RLTKLRLLYLNDNKLQTLPAGIFKE-LKNLETLWVTDNKLQA-LPIGVFDQLVNLAELRL 116

Query: 169 RFNNL--FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
             N L        D    L+ L YL LG  +L        V   L SL  L L +  L  
Sbjct: 117 DRNQLKSLPPRVFD---SLTKLTYLSLGYNELQSLPK--GVFDKLTSLKELRLYNNQLKR 171

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSN 275
           +   +   L     L+ + L NN L   +     +    L   + L  N
Sbjct: 172 VPEGAFDKL---TELKTLKLDNNQLK-RVPEGAFDSLEKL-KMLQLQEN 215

>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 = 63.3 bits (153), Expect = 1e-10
 Identities = 68/467 (14%), Positives = 137/467 (29%), Gaps = 107/467 (22%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPE-FIGSLSKLSEL--ALSSAQLAGPIP-HQLG 158
              PS++   ++   D  +N+       +  +  L    +L  AL   + A  +    + 
Sbjct: 102 QRQPSMMTRMYIEQRDRLYND--NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL 159

Query: 159 N-----LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRS 213
                 ++    L  +         + WL+         L +C   +      VL  L+ 
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMD-FKIFWLN---------LKNCNSPE-----TVLEMLQK 204

Query: 214 L-TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPW-LL---NV-SSNLV 267
           L   +          S+   L ++      +       L +  Y   LL   NV ++   
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIH-----SIQAELRRLLKSKPYENCLLVLLNVQNAKAW 259

Query: 268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGE 327
           +  +L   ++                  LL+ R ++V  FL                   
Sbjct: 260 NAFNLSC-KI------------------LLTTRFKQVTDFLSA------------ATTTH 288

Query: 328 LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN--LGGFPGMLMPLI--YFDKITVTWK 383
           +S  + + S   T +     L    +     +P   L   P   + +I         TW 
Sbjct: 289 IS--LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP-RRLSIIAESIRDGLATWD 345

Query: 384 GGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKS 443
              +++ +   L  II+ S N L    P E   +   +++   + ++   +   I     
Sbjct: 346 --NWKHVNCDKLTTIIESSLNVLE---PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400

Query: 444 LDFLDLSINHFFGGIPSSL----SRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGN 499
              + + +N        SL     +   +S+  + Y     K+     L R     Y   
Sbjct: 401 KSDVMVVVNKLHK---YSLVEKQPKESTISIPSI-YLELKVKLENEYALHRSIVDHYN-- 454

Query: 500 PELCGLPLPNKCLDEESAPSPSRDDAYNTPDDDGDQFITLGFYMSMI 546
                     K  D +    P   D Y         +  +G ++  I
Sbjct: 455 --------IPKTFDSDD-LIPPYLDQY--------FYSHIGHHLKNI 484

>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 = 54.1 bits (129), Expect = 1e-07
 Identities = 84/596 (14%), Positives = 167/596 (28%), Gaps = 184/596 (30%)

Query: 19  LFQLEPTVANSNNIISCL-DEEKEALLAFKQGLI--DESGILSSWGREDEKRNCCKWRGV 75
           +   +  V+ +  +   L  +++E +  F + ++  +   ++S    E  + +      +
Sbjct: 54  IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113

Query: 76  RCSNKTGHVLGLDLRALSDSPVDALK--GTINPSLLKLQHLTYLDL-------------- 119
              ++  +    D +  +   V  L+    +  +LL+L+    + +              
Sbjct: 114 EQRDRLYN----DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD 169

Query: 120 ---------------SWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS-RL 163
                           W N      PE +  L  L +L                N+  R+
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETV--LEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227

Query: 164 QVLDLRFNNLFSSGN-------LDWLSYLSSLRYLDLGDCKL---SKFSNWFQVLSNLR- 212
             +      L  S         L  +    +    +L  CK+   ++F      LS    
Sbjct: 228 HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS-CKILLTTRFKQVTDFLSAATT 286

Query: 213 ----------SLTT--------LYLGHC--DLPP----ISTPSLL--------------- 233
                     +LT          YL     DLP      + P  L               
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN-PRRLSIIAESIRDGLATWD 345

Query: 234 ---HLNYSKSLEVIDLSNNYLTN----------SIYP-------------WLLNVSSNLV 267
              H+N  K   +I+ S N L            S++P             W  +V  + V
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW-FDVIKSDV 404

Query: 268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSL-KMLVLSYNELRG 326
             +    N+LH    +            + S  L    K L N  +L + +V  YN  + 
Sbjct: 405 MVVV---NKLHKY-SLVEKQPKESTI-SIPSIYLELKVK-LENEYALHRSIVDHYNIPKT 458

Query: 327 -ELSEFIQNVSSGSTKNSSLEWLY------LASNEITGTIPNLGGFPGMLMPLIYFDKIT 379
            +  + I              + Y      L + E    +         L  +++ D   
Sbjct: 459 FDSDDLIPPYLDQ--------YFYSHIGHHLKNIEHPERMT--------LFRMVFLD--- 499

Query: 380 VTWKGGQYEYKSILGLI--KII-DLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITP 436
                           +  KI  D ++    G +   +  L                I  
Sbjct: 500 -------------FRFLEQKIRHDSTAWNASGSILNTLQQL----------KFYKPYICD 536

Query: 437 RIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKI--PKGTQLQR 490
              + + L  ++ +I  F   I  +L   +   ++ ++       I      Q+QR
Sbjct: 537 NDPKYERL--VN-AILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 58.5 bits (142), Expect = 1e-09
 Identities = 49/213 (23%), Positives = 88/213 (41%), Gaps = 24/213 (11%)

Query: 115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLA--GPIPHQLGNLSRLQVLDLRFNN 172
              +L   + +          L+ + ++  +++ +     I +    L  ++ L L  N 
Sbjct: 22  IKANLKKKSVTD--AVTQNE-LNSIDQIIANNSDIKSVQGIQY----LPNVRYLALGGNK 74

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSL 232
           L     L     L++L YL L   +L    N   V   L +L  L L    L  +     
Sbjct: 75  LHDISALK---ELTNLTYLILTGNQLQSLPN--GVFDKLTNLKELVLVENQLQSLPDGVF 129

Query: 233 LHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASL 291
             L    +L  ++L++N L  S+   + +  +NL   +DL  N+L  S+P   F  +  L
Sbjct: 130 DKL---TNLTYLNLAHNQLQ-SLPKGVFDKLTNL-TELDLSYNQLQ-SLPEGVFDKLTQL 183

Query: 292 RYLGLLSNRLREVPK--FLGNMSSLKMLVLSYN 322
           + L L  N+L+ VP   F   ++SL+ + L  N
Sbjct: 184 KDLRLYQNQLKSVPDGVF-DRLTSLQYIWLHDN 215

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 43.5 bits (103), Expect = 9e-05
 Identities = 64/237 (27%), Positives = 105/237 (44%), Gaps = 53/237 (22%)

Query: 223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTN-SIYPWLLNVSSNLVDHIDLGSNRLHGSI 281
           +L   S    +  N   S++ I  +N+ + +     +L NV      ++ LG N+LH  I
Sbjct: 25  NLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNV-----RYLALGGNKLH-DI 78

Query: 282 PVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSG-S 339
                 + +L YL L  N+L+ +P      +++LK LVL  N+L        Q++  G  
Sbjct: 79  SA-LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQL--------QSLPDGVF 129

Query: 340 TKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKII 399
            K ++L +L LA N++  ++P      G+      FDK+T                +  +
Sbjct: 130 DKLTNLTYLNLAHNQLQ-SLP-----KGV------FDKLT---------------NLTEL 162

Query: 400 DLSSNKLGGEVPEEIMD-LVGLVALNLSNNNLTGQITPRIG---QLKSLDFLDLSIN 452
           DLS N+L   +PE + D L  L  L L  N L  +  P  G   +L SL ++ L  N
Sbjct: 163 DLSYNQL-QSLPEGVFDKLTQLKDLRLYQNQL--KSVPD-GVFDRLTSLQYIWLHDN 215

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 47/156 (30%), Positives = 58/156 (37%), Gaps = 28/156 (17%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLR 169
           +L +LTYL L+ N     P   F   L+ L EL L   QL          L+ L  L+L 
Sbjct: 83  ELTNLTYLILTGNQLQSLPNGVFDK-LTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLA 141

Query: 170 FNNLFS--SGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPI 227
            N L S   G  D    L++L  LDL   +L        V   L  L  L L    L   
Sbjct: 142 HNQLQSLPKGVFD---KLTNLTELDLSYNQLQSLPE--GVFDKLTQLKDLRLYQNQLK-- 194

Query: 228 STP-----SLLHLNYSKSLEVIDLSNNYLTNSIYPW 258
           S P      L       SL+ I L +N       PW
Sbjct: 195 SVPDGVFDRL------TSLQYIWLHDN-------PW 217

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

 Score = 59.1 bits (143), Expect = 1e-09
 Identities = 40/184 (21%), Positives = 67/184 (36%), Gaps = 8/184 (4%)

Query: 72  WRGVRCSNKTGHVLGLD----LRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGS 127
           W+ +  + K  H            ++     +              + ++DLS +    S
Sbjct: 49  WQTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS 108

Query: 128 PIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL-SYLS 186
            +   +   SKL  L+L   +L+ PI + L   S L  L+L   + FS   L  L S  S
Sbjct: 109 TLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCS 168

Query: 187 SLRYLDLGDC-KLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHL-NYSKSLEVI 244
            L  L+L  C   ++      V     ++T L L       +    L  L     +L  +
Sbjct: 169 RLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYR-KNLQKSDLSTLVRRCPNLVHL 227

Query: 245 DLSN 248
           DLS+
Sbjct: 228 DLSD 231

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

 Score = 42.6 bits (100), Expect = 3e-04
 Identities = 20/89 (22%), Positives = 31/89 (34%), Gaps = 3/89 (3%)

Query: 111 LQHLTYLDLS--WNNFSGSPIPEFIGSLSKLSELALSS-AQLAGPIPHQLGNLSRLQVLD 167
            + +T L+LS    N   S +   +     L  L LS    L      +   L+ LQ L 
Sbjct: 194 SETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLS 253

Query: 168 LRFNNLFSSGNLDWLSYLSSLRYLDLGDC 196
           L          L  L  + +L+ L +   
Sbjct: 254 LSRCYDIIPETLLELGEIPTLKTLQVFGI 282

>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 = 56.6 bits (137), Expect = 2e-09
 Identities = 27/116 (23%), Positives = 49/116 (42%), Gaps = 8/116 (6%)

Query: 104 INPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRL 163
           ++ +L  L+   +L LS NN     I   +  +  L  L+L    +   I +       L
Sbjct: 40  MDATLSTLKACKHLALSTNNI--EKI-SSLSGMENLRILSLGRNLIKK-IENLDAVADTL 95

Query: 164 QVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           + L + +N + S   L  +  L +LR L + + K++ +      L+ L  L  L L
Sbjct: 96  EELWISYNQIAS---LSGIEKLVNLRVLYMSNNKITNWGE-IDKLAALDKLEDLLL 147

>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 = 52.4 bits (126), Expect = 5e-08
 Identities = 25/101 (24%), Positives = 44/101 (43%), Gaps = 11/101 (10%)

Query: 153 IPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLR 212
           +   L  L   + L L  NN+     +  LS + +LR L LG   + K  N     +   
Sbjct: 40  MDATLSTLKACKHLALSTNNI---EKISSLSGMENLRILSLGRNLIKKIENLD---AVAD 93

Query: 213 SLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
           +L  L++ +  +  +S      +    +L V+ +SNN +TN
Sbjct: 94  TLEELWISYNQIASLS-----GIEKLVNLRVLYMSNNKITN 129

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 48.5 bits (116), Expect = 1e-06
 Identities = 29/115 (25%), Positives = 41/115 (35%), Gaps = 10/115 (8%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSS---AQLAGPIPHQLGNLSRLQ 164
           L  +++L  L L  N      I         L EL +S    A L+G     +  L  L+
Sbjct: 66  LSGMENLRILSLGRNLIKK--IENLDAVADTLEELWISYNQIASLSG-----IEKLVNLR 118

Query: 165 VLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
           VL +  N + + G +D L+ L  L  L L    L          S  R      L
Sbjct: 119 VLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRL 173

>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 = 46.2 bits (110), Expect = 6e-06
 Identities = 25/148 (16%), Positives = 55/148 (37%), Gaps = 27/148 (18%)

Query: 184 YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEV 243
             +    ++L    +         LS L++   L L   ++  IS      L+  ++L +
Sbjct: 21  VATEAEKVEL-HGMIPPIEKMDATLSTLKACKHLALSTNNIEKIS-----SLSGMENLRI 74

Query: 244 IDLSNNYLT-----NSIYPWL--LNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGL 296
           + L  N +      +++   L  L +S N +  +                 + +LR L +
Sbjct: 75  LSLGRNLIKKIENLDAVADTLEELWISYNQIASLS------------GIEKLVNLRVLYM 122

Query: 297 LSNRLREVP--KFLGNMSSLKMLVLSYN 322
            +N++        L  +  L+ L+L+ N
Sbjct: 123 SNNKITNWGEIDKLAALDKLEDLLLAGN 150

>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 = 43.1 bits (102), Expect = 8e-05
 Identities = 37/161 (22%), Positives = 58/161 (36%), Gaps = 42/161 (26%)

Query: 294 LGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASN 353
           L  +   + ++   L  + + K L LS N +     E I ++S       +L  L L  N
Sbjct: 30  LHGMIPPIEKMDATLSTLKACKHLALSTNNI-----EKISSLS----GMENLRILSLGRN 80

Query: 354 EITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEE 413
            I   I NL      L                           + + +S N++       
Sbjct: 81  LIK-KIENLDAVADTL---------------------------EELWISYNQI--ASLSG 110

Query: 414 IMDLVGLVALNLSNNNLT--GQITPRIGQLKSLDFLDLSIN 452
           I  LV L  L +SNN +T  G+I   +  L  L+ L L+ N
Sbjct: 111 IEKLVNLRVLYMSNNKITNWGEIDK-LAALDKLEDLLLAGN 150

>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 = 41.6 bits (98), Expect = 3e-04
 Identities = 27/124 (21%), Positives = 52/124 (41%), Gaps = 25/124 (20%)

Query: 233 LHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLR 292
           LH      +E +D + + L                 H+ L +N +   I  +   M +LR
Sbjct: 30  LHGMIPP-IEKMDATLSTLKA-------------CKHLALSTNNIE-KI-SSLSGMENLR 73

Query: 293 YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLAS 352
            L L  N ++++        +L+ L +SYN++       +  +     K  +L  LY+++
Sbjct: 74  ILSLGRNLIKKIENLDAVADTLEELWISYNQI-----ASLSGIE----KLVNLRVLYMSN 124

Query: 353 NEIT 356
           N+IT
Sbjct: 125 NKIT 128

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 55.1 bits (133), Expect = 3e-09
 Identities = 25/111 (22%), Positives = 48/111 (43%), Gaps = 4/111 (3%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLD 167
             + + L +L       +       +  L+KL +L LS  +++G +         L  L+
Sbjct: 38  TDEFEELEFLSTINVGLT---SIANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLN 94

Query: 168 LRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSN-WFQVLSNLRSLTTL 217
           L  N +     ++ L  L +L+ LDL +C+++  ++    V   L  LT L
Sbjct: 95  LSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYL 145

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 45.8 bits (109), Expect = 4e-06
 Identities = 17/95 (17%), Positives = 31/95 (32%), Gaps = 7/95 (7%)

Query: 159 NLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
             S ++ L L  +                L +L   +  L+  +N    L  L  L  L 
Sbjct: 15  TPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIAN----LPKLNKLKKLE 70

Query: 219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
           L       +S    +      +L  ++LS N + +
Sbjct: 71  LSDNR---VSGGLEVLAEKCPNLTHLNLSGNKIKD 102

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 25/118 (21%), Positives = 48/118 (40%), Gaps = 10/118 (8%)

Query: 210 NLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN-SIYPWLLNVSSNLVD 268
               +  L L +          L   +  + LE +   N  LT+ +  P L  +      
Sbjct: 15  TPSDVKELVLDNSRSNEGKLEGLT--DEFEELEFLSTINVGLTSIANLPKLNKLK----- 67

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP--KFLGNMSSLKMLVLSYNEL 324
            ++L  NR+ G + V      +L +L L  N+++++   + L  + +LK L L   E+
Sbjct: 68  KLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEV 125

>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 = 55.5 bits (134), Expect = 3e-09
 Identities = 31/118 (26%), Positives = 48/118 (40%), Gaps = 4/118 (3%)

Query: 101 KGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNL 160
            G I     +  +L +L L             +  L KL +L LS  ++ G +      L
Sbjct: 38  DGKIEGLTAEFVNLEFLSLINVGLI---SVSNLPKLPKLKKLELSENRIFGGLDMLAEKL 94

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSN-WFQVLSNLRSLTTL 217
             L  L+L  N L     L+ L  L  L+ LDL +C+++  ++    V   L  LT L
Sbjct: 95  PNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYL 152

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 45.5 bits (108), Expect = 7e-06
 Identities = 19/99 (19%), Positives = 32/99 (32%), Gaps = 7/99 (7%)

Query: 155 HQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL 214
            +    + ++ L L              +   +L +L L +  L   SN    L  L  L
Sbjct: 18  LRNRTPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSN----LPKLPKL 73

Query: 215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
             L L    +          L    +L  ++LS N L +
Sbjct: 74  KKLELSENRIFGGLDMLAEKL---PNLTHLNLSGNKLKD 109

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 58.2 bits (141), Expect = 3e-09
 Identities = 36/261 (13%), Positives = 74/261 (28%), Gaps = 29/261 (11%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQL----AGPIPHQL-GNLSRLQVLD 167
            L  ++L+      + +   +    +  +L L    L       +   L  +  ++  L 
Sbjct: 102 ALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLR 161

Query: 168 LRFNNLFSSGNLDWLSYLS-------SLRYLDLGDCKLSKFSNWF--QVLSNLRSLTTLY 218
           L  N L ++G    ++ L        S+ +L L    L           L   R L  L 
Sbjct: 162 LSNNPLTAAG----VAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELN 217

Query: 219 LGHCDLPPISTPSLLH-LNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL 277
           + +      +  +L        SLE++ L  N L++     L ++         +  +  
Sbjct: 218 VAYNGAGDTAALALARAAREHPSLELLHLYFNELSSEGRQVLRDLGGAAEGGARVVVSLT 277

Query: 278 HGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFI--QNV 335
            G+    +  +        LS   R            + L L   +L       +     
Sbjct: 278 EGTAVSEYWSVI-------LSEVQR-NLNSWDRARVQRHLELLLRDLEDSRGATLNPWRK 329

Query: 336 SSGSTKNSSLEWLYLASNEIT 356
           +        +  L        
Sbjct: 330 AQLLRVEGEVRALLEQLGSSG 350

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 54.0 bits (130), Expect = 7e-08
 Identities = 48/241 (19%), Positives = 85/241 (35%), Gaps = 27/241 (11%)

Query: 133 IGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLD 192
           I +L  L        +L          L   ++LD  F +            LSSLR L+
Sbjct: 22  IKNLDALENAQAIKKKLG---KLGRQVLPPSELLDHLFFHYEFQNQRFSAEVLSSLRQLN 78

Query: 193 LGDCKLSKFSNW----FQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSN 248
           L   +++           + S   +L  + L  C L P    +LL +        + L  
Sbjct: 79  LAGVRMTP-VKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVF--LRARKLGLQL 135

Query: 249 NYLTNS----IYPWLLNVSSNLVDHIDLGSNRLHGS----IPVAFGHMASLRYLGLLSNR 300
           N L       +   LL+    +   + L +N L  +    +        S+ +L LL   
Sbjct: 136 NSLGPEACKDLRDLLLHDQCQIT-TLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG 194

Query: 301 LREV-PKFLGNM----SSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEI 355
           L +   + L         L+ L ++YN            ++  + ++ SLE L+L  NE+
Sbjct: 195 LGDEGLELLAAQLDRNRQLQELNVAYNGAG---DTAALALARAAREHPSLELLHLYFNEL 251

Query: 356 T 356
           +
Sbjct: 252 S 252

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 53.6 bits (129), Expect = 8e-08
 Identities = 45/275 (16%), Positives = 85/275 (30%), Gaps = 52/275 (18%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
           L  L  L+L+    +           + ++   L S                L  ++L  
Sbjct: 71  LSSLRQLNLAGVRMTPV-------KCTVVAA-VLGS------------GRHALDEVNLAS 110

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLS-----NLRSLTTLYLGHCDLP 225
             L  +G    L      R L L    L   +   + L      +   +TTL L +  L 
Sbjct: 111 CQLDPAGLRTLLPVFLRARKLGLQLNSLGPEA--CKDLRDLLLHDQCQITTLRLSNNPLT 168

Query: 226 PISTPSLLH-LNYSKSLEVIDLSNNYLTNSIYPWL---LNVSSNLVDHIDLGSNRLHGSI 281
                 L+  L  + S+  + L +  L +     L   L+ +  L   +++  N    + 
Sbjct: 169 AAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQ-ELNVAYNGAGDTA 227

Query: 282 PVAFGHM----ASLRYLGLLSNR--------LREVPKFLGNMSSLKMLVLSYNELRGE-- 327
            +A         SL  L L  N         LR++       + + + +     +     
Sbjct: 228 ALALARAAREHPSLELLHLYFNELSSEGRQVLRDLGGAAEGGARVVVSLTEGTAVSEYWS 287

Query: 328 --LSEFIQNVSS----GSTKNSSLEWLYLASNEIT 356
             LSE  +N++S       ++  L    L  +   
Sbjct: 288 VILSEVQRNLNSWDRARVQRHLELLLRDLEDSRGA 322

>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 = 54.7 bits (132), Expect = 7e-09
 Identities = 24/108 (22%), Positives = 43/108 (39%), Gaps = 4/108 (3%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
           L     +D S N      + +    L +L  L +++ ++          L  L  L L  
Sbjct: 41  LDQFDAIDFSDNEIR--KL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTN 97

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSN-WFQVLSNLRSLTTL 217
           N+L   G+LD L+ L SL YL +    ++   +    V+  +  +  L
Sbjct: 98  NSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVL 145

>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 = 53.5 bits (129), Expect = 1e-08
 Identities = 25/98 (25%), Positives = 36/98 (36%), Gaps = 9/98 (9%)

Query: 156 QLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLT 215
           Q  N  R + LDLR   +    NL   + L     +D  D ++ K          LR L 
Sbjct: 14  QYTNAVRDRELDLRGYKIPVIENLG--ATLDQFDAIDFSDNEIRKLDG----FPLLRRLK 67

Query: 216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
           TL + +  +  I       L     L  + L+NN L  
Sbjct: 68  TLLVNNNRICRIGEGLDQAL---PDLTELILTNNSLVE 102

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 51.2 bits (123), Expect = 1e-07
 Identities = 26/119 (21%), Positives = 45/119 (37%), Gaps = 8/119 (6%)

Query: 135 SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG 194
           +  +  EL L   ++   I +    L +   +D   N +     LD    L  L+ L + 
Sbjct: 17  NAVRDRELDLRGYKIP-VIENLGATLDQFDAIDFSDNEIRK---LDGFPLLRRLKTLLVN 72

Query: 195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN 253
           + ++ +          L  LT L L +  L  +    L  L   KSL  + +  N +TN
Sbjct: 73  NNRICRIGEGL--DQALPDLTELILTNNSLVELGD--LDPLASLKSLTYLCILRNPVTN 127

>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 = 50.4 bits (121), Expect = 2e-07
 Identities = 24/158 (15%), Positives = 52/158 (32%), Gaps = 18/158 (11%)

Query: 165 VLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDL 224
           ++ L    +  +            R LDL   K+    N   + + L     +     ++
Sbjct: 1   MVKLTAELIEQAAQYT---NAVRDRELDLRGYKIPVIEN---LGATLDQFDAIDFSDNEI 54

Query: 225 PPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG-SIPV 283
             +           + L+ + ++NN +   I   L     +L   + L +N L       
Sbjct: 55  RKLDG-----FPLLRRLKTLLVNNNRIC-RIGEGLDQALPDLT-ELILTNNSLVELGDLD 107

Query: 284 AFGHMASLRYLGLLSNRLREVP----KFLGNMSSLKML 317
               + SL YL +L N +          +  +  +++L
Sbjct: 108 PLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVL 145

>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 = 53.5 bits (129), Expect = 3e-08
 Identities = 34/192 (17%), Positives = 59/192 (30%), Gaps = 40/192 (20%)

Query: 70  CKWRGVRCSNKTGHVLGLDLRAL-SDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSP 128
           C+   V CSN+        L  +    P                    L L+ N F+   
Sbjct: 11  CEGTTVDCSNQ-------KLNKIPEHIPQYT---------------AELRLNNNEFTVLE 48

Query: 129 IPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL--FSSGNLDWLSYLS 186
                  L +L ++  S+ ++           S +  + L  N L             L 
Sbjct: 49  ATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFK---GLE 105

Query: 187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDL 246
           SL+ L L   +++   N       L S+  L L    +  ++  +   L    SL  ++L
Sbjct: 106 SLKTLMLRSNRITCVGN--DSFIGLSSVRLLSLYDNQITTVAPGAFDTL---HSLSTLNL 160

Query: 247 SNNYLTNSIYPW 258
             N       P+
Sbjct: 161 LAN-------PF 165

>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 = 51.2 bits (123), Expect = 2e-07
 Identities = 26/137 (18%), Positives = 48/137 (35%), Gaps = 9/137 (6%)

Query: 164 QVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCD 223
             L L  N             L  LR ++  + K++              +  + L    
Sbjct: 35  AELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEG--AFEGASGVNEILLTSNR 92

Query: 224 LPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV 283
           L  +       L    SL+ + L +N +T  +        S++   + L  N++  ++  
Sbjct: 93  LENVQHKMFKGLE---SLKTLMLRSNRIT-CVGNDSFIGLSSV-RLLSLYDNQIT-TVAP 146

Query: 284 -AFGHMASLRYLGLLSN 299
            AF  + SL  L LL+N
Sbjct: 147 GAFDTLHSLSTLNLLAN 163

>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 = 32/125 (25%), Positives = 51/125 (40%), Gaps = 14/125 (11%)

Query: 240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGLLS 298
               + L+NN  T  +    +      +  I+  +N++   I   AF   + +  + L S
Sbjct: 33  YTAELRLNNNEFT-VLEATGIFKKLPQLRKINFSNNKIT-DIEEGAFEGASGVNEILLTS 90

Query: 299 NRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS-TKNSSLEWLYLASNEIT 356
           NRL  V  K    + SLK L+L  N +          V + S    SS+  L L  N+IT
Sbjct: 91  NRLENVQHKMFKGLESLKTLMLRSNRI--------TCVGNDSFIGLSSVRLLSLYDNQIT 142

Query: 357 GTIPN 361
            T+  
Sbjct: 143 -TVAP 146

>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 = 53.9 bits (130), Expect = 3e-08
 Identities = 44/187 (23%), Positives = 74/187 (39%), Gaps = 39/187 (20%)

Query: 271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELS 329
           DL S  L       F  +  L +L L  N+L+ +      +++ L  L L+ N+L     
Sbjct: 41  DLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQL----- 95

Query: 330 EFIQNVSSGS-TKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYE 388
               ++  G     + L+ LYL  N++  ++P      G+      FD++T         
Sbjct: 96  ---ASLPLGVFDHLTQLDKLYLGGNQLK-SLP-----SGV------FDRLT--------- 131

Query: 389 YKSILGLIKIIDLSSNKLGGEVPEEIMD-LVGLVALNLSNNNLTGQITPRIGQLKSLDFL 447
                  +K + L++N+L   +P    D L  L  L+LS N L         +L  L  +
Sbjct: 132 ------KLKELRLNTNQL-QSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTI 184

Query: 448 DLSINHF 454
            L  N F
Sbjct: 185 TLFGNQF 191

>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 = 46.2 bits (110), Expect = 1e-05
 Identities = 47/197 (23%), Positives = 67/197 (34%), Gaps = 37/197 (18%)

Query: 75  VRCSNK-----------TGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNN 123
           V C  K               L L    L+       +G        L  LT+L+L +N 
Sbjct: 19  VDCQGKSLDSVPSGIPADTEKLDLQSTGLATLSDATFRG--------LTKLTWLNLDYNQ 70

Query: 124 FSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFS--SGNLDW 181
                   F   L++L  L L++ QLA        +L++L  L L  N L S  SG  D 
Sbjct: 71  LQTLSAGVFDD-LTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFD- 128

Query: 182 LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSL 241
              L+ L+ L L   +L            L +L TL L    L  +   +   L     L
Sbjct: 129 --RLTKLKELRLNTNQLQSIPA--GAFDKLTNLQTLSLSTNQLQSVPHGAFDRL---GKL 181

Query: 242 EVIDLSNNYLTNSIYPW 258
           + I L  N        +
Sbjct: 182 QTITLFGN-------QF 191

>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 = 52.7 bits (127), Expect = 6e-08
 Identities = 40/171 (23%), Positives = 56/171 (32%), Gaps = 31/171 (18%)

Query: 70  CKWRGVRCSNK-----------TGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLD 118
           C    V C  K           T   + L+   +   P  A            + L  +D
Sbjct: 11  CSNNIVDCRGKGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSP--------YKKLRRID 62

Query: 119 LSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFS--S 176
           LS N  S      F G L  L+ L L   ++          L  LQ+L L  N +     
Sbjct: 63  LSNNQISELAPDAFQG-LRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLRV 121

Query: 177 GNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG----HCD 223
                   L +L  L L D KL   +      S LR++ T++L      CD
Sbjct: 122 DAFQ---DLHNLNLLSLYDNKLQTIAK--GTFSPLRAIQTMHLAQNPFICD 167

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 46.2 bits (110), Expect = 8e-06
 Identities = 30/163 (18%), Positives = 58/163 (35%), Gaps = 39/163 (23%)

Query: 164 QVLDLRFNNL--FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH 221
             + L  N +     G          LR +DL + ++S+ +        LRSL +L L  
Sbjct: 35  TEIRLEQNTIKVIPPGAFS---PYKKLRRIDLSNNQISELAP--DAFQGLRSLNSLVLYG 89

Query: 222 CDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSI 281
             +  +       L    SL+++ L+ N +                             +
Sbjct: 90  NKITELPKSLFEGL---FSLQLLLLNANKIN---------------------------CL 119

Query: 282 PV-AFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYN 322
            V AF  + +L  L L  N+L+ + K     + +++ + L+ N
Sbjct: 120 RVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQN 162

>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 = 45.4 bits (108), Expect = 2e-05
 Identities = 35/165 (21%), Positives = 62/165 (37%), Gaps = 39/165 (23%)

Query: 267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK--FLGNMSSLKMLVLSYNEL 324
           +  I L  N +    P AF     LR + L +N++ E+    F G + SL  LVL  N  
Sbjct: 34  ITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQG-LRSLNSLVLYGN-- 90

Query: 325 RGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKG 384
             +++E  +++  G      L+ L L +N+I   +               F         
Sbjct: 91  --KITELPKSLFEGLFS---LQLLLLNANKIN-CLR-----VDA------FQD------- 126

Query: 385 GQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD-LVGLVALNLSNN 428
                   L  + ++ L  NKL   + +     L  +  ++L+ N
Sbjct: 127 --------LHNLNLLSLYDNKL-QTIAKGTFSPLRAIQTMHLAQN 162

>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 = 52.4 bits (125), Expect = 2e-07
 Identities = 31/145 (21%), Positives = 45/145 (31%), Gaps = 28/145 (19%)

Query: 69  CCKW-RGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGS 127
           C     G+RC+               DS            L   ++LT L +        
Sbjct: 6   CPHGSSGLRCTR----------DGALDSL---------HHLPGAENLTELYIENQQHLQH 46

Query: 128 PIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS 187
                +  L +L  L +  + L    P       RL  L+L FN L  S +   +  L S
Sbjct: 47  LELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNAL-ESLSWKTVQGL-S 104

Query: 188 LRYLDLG------DCKLSKFSNWFQ 206
           L+ L L        C L     W +
Sbjct: 105 LQELVLSGNPLHCSCALRWLQRWEE 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 = 48.6 bits (115), Expect = 3e-06
 Identities = 21/112 (18%), Positives = 40/112 (35%), Gaps = 7/112 (6%)

Query: 167 DLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP 226
            LR     +  +L  L    +L  L + + +  +     + L  L  L  L +    L  
Sbjct: 12  GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLEL-RDLRGLGELRNLTIVKSGLRF 70

Query: 227 ISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           ++  +         L  ++LS N L +  +  +  +S      + L  N LH
Sbjct: 71  VAPDAFHFT---PRLSRLNLSFNALESLSWKTVQGLSLQ---ELVLSGNPLH 116

>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 = 48.2 bits (114), Expect = 4e-06
 Identities = 25/106 (23%), Positives = 39/106 (36%), Gaps = 4/106 (3%)

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
            C     +  SL HL  +++L  + + N      +    L     L  ++ +  + L   
Sbjct: 14  RC-TRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELR-NLTIVKSGLR-F 70

Query: 281 IPV-AFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELR 325
           +   AF     L  L L  N L  +        SL+ LVLS N L 
Sbjct: 71  VAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLH 116

>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 = 46.7 bits (110), Expect = 1e-05
 Identities = 13/90 (14%), Positives = 30/90 (33%), Gaps = 12/90 (13%)

Query: 274 SNRLHGSIPVAFGHMASLRYLGLLSNR-LREVPKF-LGNMSSLKMLVLSYNELRGELSEF 331
           +               +L  L + + + L+ +    L  +  L+ L +  + LR      
Sbjct: 16  TRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLR------ 69

Query: 332 IQNVSSGS-TKNSSLEWLYLASNEITGTIP 360
              V+  +      L  L L+ N +  ++ 
Sbjct: 70  --FVAPDAFHFTPRLSRLNLSFNALE-SLS 96

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 52.6 bits (125), Expect = 2e-07
 Identities = 28/181 (15%), Positives = 56/181 (30%), Gaps = 14/181 (7%)

Query: 109 LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDL 168
            +      +D      S     +    L  +  L     +    +         L+ L++
Sbjct: 141 FEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGKKPRPNLKSLEI 200

Query: 169 RFNNLFSSGNLDWL--SYLSSLRYLDL--------GDCKLSKFSNWFQVLSNLRSLTTLY 218
                     ++ +  S L +L  L L         D  ++ F   F       +L  L 
Sbjct: 201 ISGG-LPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFS-KDRFPNLKWLG 258

Query: 219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL--VDHIDLGSNR 276
           +   +   +     L  +    LE +D+S   LT+     LL+    +  +  I++  N 
Sbjct: 259 IVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNY 318

Query: 277 L 277
           L
Sbjct: 319 L 319

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 48.8 bits (115), Expect = 3e-06
 Identities = 29/167 (17%), Positives = 61/167 (36%), Gaps = 20/167 (11%)

Query: 102 GTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLG--N 159
             ++P L  +  L  L +       + +         L  L + S  L   +   +   +
Sbjct: 162 VDLSPVLDAMPLLNNLKIKG----TNNLSIGKKPRPNLKSLEIISGGLPDSVVEDILGSD 217

Query: 160 LSRLQVLDLRF--NNLFSSGNLDWLS------YLSSLRYLDLGDCKLSKFSNWFQVLSN- 210
           L  L+ L L     +    G+++            +L++L + D +    +   ++    
Sbjct: 218 LPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQ--NVVVEMFLES 275

Query: 211 --LRSLTTLYLGHCDLPPISTPSLL-HLNYSKSLEVIDLSNNYLTNS 254
             L  L T+ +    L       LL H++  K L+ I++  NYL++ 
Sbjct: 276 DILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDE 322

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

 Score = 51.5 bits (123), Expect = 6e-07
 Identities = 41/265 (15%), Positives = 86/265 (32%), Gaps = 21/265 (7%)

Query: 107 SLLKLQHLTYLDLSW-NNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR--- 162
           +  +   L  L L   + F+   +   +    K+  L +  +  +      L  L++   
Sbjct: 133 AKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNT 192

Query: 163 -LQVLDLRFNNLFSSGNLD---WLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
            L+VL+            D         SL  + +GD ++ +   +F+  +NL       
Sbjct: 193 SLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGS 252

Query: 219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLH 278
           L      P       ++N     ++  L  +Y+  +  P L   ++ +   +DL    L 
Sbjct: 253 LNEDIGMP-----EKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIR-KLDLLYALLE 306

Query: 279 GSIPV-AFGHMASLRYLGLLSN-RLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVS 336
                       +L  L   +    R +         LK L +        + +    VS
Sbjct: 307 TEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVS 366

Query: 337 SG-----STKNSSLEWLYLASNEIT 356
                  +     LE++ +  ++IT
Sbjct: 367 QRGLIALAQGCQELEYMAVYVSDIT 391

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

 Score = 45.3 bits (107), Expect = 4e-05
 Identities = 24/154 (15%), Positives = 51/154 (33%), Gaps = 9/154 (5%)

Query: 103 TINPSLLKLQHLTYLDLSW-NNFSGSPIPEFIGSL----SKLSELALS--SAQLAGPIPH 155
           +I   L  L     + L      +  P+   + SL     KL   A       L      
Sbjct: 397 SIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLS 456

Query: 156 QLG-NLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL 214
            +G     ++ + L +      G +++     +L+ L++  C  S+ +     ++ L SL
Sbjct: 457 YIGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERA-IAAAVTKLPSL 515

Query: 215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSN 248
             L++            +       ++E+I    
Sbjct: 516 RYLWVQGYRASMTGQDLMQMARPYWNIELIPSRR 549

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

 Score = 42.2 bits (99), Expect = 4e-04
 Identities = 18/169 (10%), Positives = 54/169 (31%), Gaps = 9/169 (5%)

Query: 159 NLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
             +   ++   +    +    +  + L  L+ +      +S         +    L TL 
Sbjct: 85  RAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLK 144

Query: 219 LGHCDLPPISTPSLLHL-NYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV--DHIDLGSN 275
           L  C     +T  LL +  + + ++ + +  +  +     WL  ++ +    + ++    
Sbjct: 145 LDKCSG--FTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMT 202

Query: 276 RLHG----SIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLS 320
                    +     +  SL  + +    + E+  F    ++L+     
Sbjct: 203 EFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGG 251

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

 Score = 49.9 bits (119), Expect = 2e-06
 Identities = 37/256 (14%), Positives = 78/256 (30%), Gaps = 22/256 (8%)

Query: 108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLG-NLSRLQVL 166
           + +   +  ++L                 +  + +         P    +  + + L+ +
Sbjct: 62  IRRFPKVRSVELKGK-----------PHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEI 110

Query: 167 DLRFNNLFSSGNLDWLS-YLSSLRYLDLGDCKLSKFSN--WFQVLSNLRSLTTLYLGHCD 223
            L+   +     L+ ++    + + L L  C    FS      + +  R+L  L L   D
Sbjct: 111 RLKRMVVTDDC-LELIAKSFKNFKVLVLSSC--EGFSTDGLAAIAATCRNLKELDLRESD 167

Query: 224 LPPISTPSLLHL-NYSKSLEVIDLSN--NYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
           +  +S   L H  +   SL  +++S   + ++ S    L+    NL   + L        
Sbjct: 168 VDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLK-SLKLNRAVPLEK 226

Query: 281 IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGST 340
           +         L  LG         P     +S           L G        + +  +
Sbjct: 227 LATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYS 286

Query: 341 KNSSLEWLYLASNEIT 356
             S L  L L+   + 
Sbjct: 287 VCSRLTTLNLSYATVQ 302

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

 Score = 49.1 bits (117), Expect = 3e-06
 Identities = 30/232 (12%), Positives = 72/232 (31%), Gaps = 23/232 (9%)

Query: 110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLR 169
               LT L+LS+       + + +    KL  L +        +         L+ L + 
Sbjct: 287 VCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVF 346

Query: 170 FNNLFSSGNLDWLS---------YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
            +  F       L+             L  +     +++  +    +  N  ++T   L 
Sbjct: 347 PSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAAL-ITIARNRPNMTRFRLC 405

Query: 221 HCDLPPISTPSLLHLNYS--------KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL 272
             +       +L  L+          K L  + LS   LT+ ++ ++   +  + + + +
Sbjct: 406 IIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGL-LTDKVFEYIGTYAKKM-EMLSV 463

Query: 273 GSNRLHG-SIPVAFGHMASLRYLGLLSNRL--REVPKFLGNMSSLKMLVLSY 321
                    +        SLR L +       + +      + +++ L +S 
Sbjct: 464 AFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSS 515

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

 Score = 48.4 bits (115), Expect = 6e-06
 Identities = 29/230 (12%), Positives = 71/230 (30%), Gaps = 21/230 (9%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGP-----------IPHQLGN 159
              L  +       + + +     +   ++   L   +   P               + +
Sbjct: 371 CPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEH 430

Query: 160 LSRLQVLDLRFNNLFSSGNLDWLS-YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY 218
              L+ L L    L +    +++  Y   +  L +     S       VLS   SL  L 
Sbjct: 431 CKDLRRLSLS--GLLTDKVFEYIGTYAKKMEMLSVAFAGDSDLG-MHHVLSGCDSLRKLE 487

Query: 219 LGHCDLPPISTPSLL-HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL 277
           +  C   P    +LL + +  +++  + +S+  ++      L      L  ++++   R 
Sbjct: 488 IRDC---PFGDKALLANASKLETMRSLWMSSCSVSFGACKLLGQKMPKL--NVEVIDERG 542

Query: 278 HGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGE 327
                     +  +     ++    ++P F+ NM     +  S   +   
Sbjct: 543 APDSRPESCPVERVFIYRTVAGPRFDMPGFVWNMDQDSTMRFSRQIITTN 592

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

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 29/167 (17%), Positives = 48/167 (28%), Gaps = 12/167 (7%)

Query: 67  RNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSG 126
           RN       R                 D    A+       +   + L  L LS    + 
Sbjct: 394 RNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAI-------VEHCKDLRRLSLS-GLLTD 445

Query: 127 SPIPEFIGSLSKLSELALSSAQL--AGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSY 184
                      K+  L+++ A     G + H L     L+ L++R         L   S 
Sbjct: 446 KVFEYIGTYAKKMEMLSVAFAGDSDLG-MHHVLSGCDSLRKLEIRDCPFGDKALLANASK 504

Query: 185 LSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPS 231
           L ++R L +  C +S F     +   +  L    +     P     S
Sbjct: 505 LETMRSLWMSSCSVS-FGACKLLGQKMPKLNVEVIDERGAPDSRPES 550

>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 Length = 176

 Score = 45.2 bits (107), Expect = 1e-05
 Identities = 19/115 (16%), Positives = 44/115 (38%), Gaps = 9/115 (7%)

Query: 138 KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLS----SLRYLDL 193
           K+  +  + + +       +  L  ++ + L   +    G L+ LS L     S+  +++
Sbjct: 62  KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEI 121

Query: 194 GDC-KLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLS 247
             C  ++        L + R+L  L+L     P +     +   +  SL  ++L 
Sbjct: 122 ISCGNVTDKG--IIALHHFRNLKYLFLSDL--PGVKEKEKIVQAFKTSLPSLELK 172

>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 = 45.0 bits (107), Expect = 2e-05
 Identities = 41/149 (27%), Positives = 59/149 (39%), Gaps = 32/149 (21%)

Query: 75  VRCSNK-----------TGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNN 123
           VRCSNK               L LD    +  P           L   +HLT +DLS N 
Sbjct: 15  VRCSNKGLKVLPKGIPRDVTELYLDGNQFTLVP---------KELSNYKHLTLIDLSNNR 65

Query: 124 FSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFS--SGNLDW 181
            S      F  ++++L  L LS  +L    P     L  L++L L  N++     G  + 
Sbjct: 66  ISTLSNQSF-SNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFN- 123

Query: 182 LSYLSSLRYLDLG------DCKLSKFSNW 204
              LS+L +L +G      DC +   S+W
Sbjct: 124 --DLSALSHLAIGANPLYCDCNMQWLSDW 150

>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 = 44.2 bits (105), Expect = 3e-05
 Identities = 29/115 (25%), Positives = 51/115 (44%), Gaps = 13/115 (11%)

Query: 115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLF 174
           T L L  N F+   +P+ + +   L+ + LS+ +++        N+++L  L L +N L 
Sbjct: 34  TELYLDGNQFTL--VPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLR 91

Query: 175 S--SGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG----HCD 223
                  D    L SLR L L    +S         ++L +L+ L +G    +CD
Sbjct: 92  CIPPRTFD---GLKSLRLLSLHGNDISVVPE--GAFNDLSALSHLAIGANPLYCD 141

>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 Length = 192

 Score = 43.1 bits (102), Expect = 8e-05
 Identities = 33/116 (28%), Positives = 53/116 (45%), Gaps = 15/116 (12%)

Query: 242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPV-AFGHMASLRYLGLLSNR 300
             + L++N L       L     +L   ++L  N+L   I   AF   + ++ L L  N+
Sbjct: 32  TELLLNDNELGRISSDGLFGRLPHL-VKLELKRNQLT-GIEPNAFEGASHIQELQLGENK 89

Query: 301 LREVPK--FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASN 353
           ++E+    FLG +  LK L L  N++          V  GS ++ +SL  L LASN
Sbjct: 90  IKEISNKMFLG-LHQLKTLNLYDNQI--------SCVMPGSFEHLNSLTSLNLASN 136

>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 Length = 192

 Score = 40.8 bits (96), Expect = 4e-04
 Identities = 35/150 (23%), Positives = 59/150 (39%), Gaps = 32/150 (21%)

Query: 75  VRCSNK-----------TGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNN 123
           V C+ +               L L+   L     D L         +L HL  L+L  N 
Sbjct: 13  VDCTGRGLKEIPRDIPLHTTELLLNDNELGRISSDGL-------FGRLPHLVKLELKRNQ 65

Query: 124 FSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQL-GNLSRLQVLDLRFNNLFS--SGNLD 180
            +G   P      S + EL L   ++   I +++   L +L+ L+L  N +     G+ +
Sbjct: 66  LTGIE-PNAFEGASHIQELQLGENKIKE-ISNKMFLGLHQLKTLNLYDNQISCVMPGSFE 123

Query: 181 WLSYLSSLRYLDLG------DCKLSKFSNW 204
              +L+SL  L+L       +C L+ F+ W
Sbjct: 124 ---HLNSLTSLNLASNPFNCNCHLAWFAEW 150

>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 Length = 192

 Score = 40.0 bits (94), Expect = 7e-04
 Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 7/107 (6%)

Query: 115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLF 174
           T L L+ N           G L  L +L L   QL G  P+     S +Q L L  N + 
Sbjct: 32  TELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIK 91

Query: 175 S--SGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYL 219
              +        L  L+ L+L D ++S          +L SLT+L L
Sbjct: 92  EISNKMFL---GLHQLKTLNLYDNQISCVMP--GSFEHLNSLTSLNL 133

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	598
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	100.0
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	100.0
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	100.0
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	100.0
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	100.0
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	100.0
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	100.0
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	100.0
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	100.0
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	100.0
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	100.0
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	100.0
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	100.0
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	100.0
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	100.0
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	100.0
1o6v_A	466	Internalin A; bacterial infection, extracellular r	100.0
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	100.0
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	100.0
1o6v_A	466	Internalin A; bacterial infection, extracellular r	100.0
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	100.0
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	100.0
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	100.0
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	100.0
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	100.0
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	100.0
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	100.0
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	100.0
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	100.0
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.98
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.98
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.97
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.97
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.97
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.97
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.97
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.96
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.96
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.96
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.96
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.95
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.95
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.95
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.95
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.95
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.95
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.95
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.95
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.95
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.94
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.94
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.93
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.93
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.93
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.93
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.93
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.92
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.92
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.91
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.91
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.91
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.91
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.91
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.9
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.89
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.89
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.89
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.89
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.88
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.88
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.88
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.88
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.87
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.87
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.87
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.87
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.86
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.86
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.86
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.86
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.86
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.86
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.83
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.82
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.82
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.81
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.81
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.81
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.8
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.79
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.78
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.78
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.78
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.78
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.77
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.77
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.76
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.75
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.75
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.75
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.75
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.74
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.74
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.73
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.71
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.7
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.7
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.69
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.68
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.68
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.66
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.63
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.63
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.61
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.61
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.59
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.59
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.58
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.57
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.56
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.51
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.51
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.47
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.47
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.44
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.44
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.44
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.41
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.41
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.39
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.34
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	99.33
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.32
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.23
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	99.21
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.21
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	99.03
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.98
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.94
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.84
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.66
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.59
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.58
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.56
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.38
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.31
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.09
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.95
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.43
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	97.3
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.29
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	97.03

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

Probab=100.00  E-value=2.6e-58  Score=520.48  Aligned_cols=463  Identities=32%  Similarity=0.488  Sum_probs=291.8

Q ss_pred             CCcHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCcee---c------
Q 040109           34 SCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGT---I------  104 (598)
Q Consensus        34 ~~~~~~~~~l~~~k~~~~~~~~~l~~W~~~~~~~~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~---l------  104 (598)
                      .+.++|++||++||+++.||. .+++|.   .+.+||.|.||+|+  .++|++++|++      ..+.|.   +      
T Consensus         8 ~~~~~~~~all~~k~~~~~~~-~l~~W~---~~~~~C~w~gv~C~--~~~v~~L~L~~------~~l~g~~~~l~~~l~~   75 (768)
T 3rgz_A            8 QSLYREIHQLISFKDVLPDKN-LLPDWS---SNKNPCTFDGVTCR--DDKVTSIDLSS------KPLNVGFSAVSSSLLS   75 (768)
T ss_dssp             CCHHHHHHHHHHHHTTCSCTT-SSTTCC---TTSCGGGSTTEEEE--TTEEEEEECTT------SCCCEEHHHHHHHTTT
T ss_pred             cCCHHHHHHHHHHHhhCCCcc-cccCCC---CCCCCcCCcceEEC--CCcEEEEECCC------CCcCCccCccChhHhc
Confidence            347899999999999999888 899997   46789999999997  68999999987      344443   2      


Q ss_pred             -----------------CccccCCCCCCEEECcCCCCCCCCcch--hcCCCCCCCEEECCCCCCCCCCcccc-CCC----
Q 040109          105 -----------------NPSLLKLQHLTYLDLSWNNFSGSPIPE--FIGSLSKLSELALSSAQLAGPIPHQL-GNL----  160 (598)
Q Consensus       105 -----------------~~~l~~l~~L~~L~Ls~n~l~~~~~p~--~l~~l~~L~~L~Ls~n~l~~~~p~~l-~~l----  160 (598)
                                       |+.++++++|++|+|++|.+++. +|.  .++.+++|++|+|++|.+.+.+|..+ .++    
T Consensus        76 L~~L~~l~~~~~~~~~l~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~  154 (768)
T 3rgz_A           76 LTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGP-VTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLE  154 (768)
T ss_dssp             CTTCCEEECTTSCEEECCCCCCCCTTCCEEECCSSEEEEE-GGGGGGGGGCTTCCEEECCSSEEECCSSCCSCCCCTTCS
T ss_pred             cCcccccCCcCCCcCCCchhhccCCCCCEEECCCCcCCCc-CCChHHHhCCCCCCEEECcCCccCCcCCHHHhccCCCCC
Confidence                             24566666667777776666653 555  56566666666666555554444332 222    


Q ss_pred             ---------------------------------------------CCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCC
Q 040109          161 ---------------------------------------------SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGD  195 (598)
Q Consensus       161 ---------------------------------------------~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~  195 (598)
                                                                   ++|++|++++|.+..  ..+.+.++++|++|++++
T Consensus       155 ~L~Ls~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~--~~~~l~~l~~L~~L~Ls~  232 (768)
T 3rgz_A          155 VLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFST--GIPFLGDCSALQHLDISG  232 (768)
T ss_dssp             EEECCSSCCEEETHHHHHHTTCCTTCCEEECCSSEEESCCBCTTCTTCCEEECCSSCCCS--CCCBCTTCCSCCEEECCS
T ss_pred             EEECCCCccCCcCChhhhhhccCCCCCEEECCCCcccccCCcccCCcCCEEECcCCcCCC--CCcccccCCCCCEEECcC
Confidence                                                         333333333333211  112255555566666655


Q ss_pred             CcCCCCCchhHhhcCCCCCcEEeccCcCCCC-----------------------------------------------CC
Q 040109          196 CKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP-----------------------------------------------IS  228 (598)
Q Consensus       196 n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~-----------------------------------------------~~  228 (598)
                      |.+++.  ++..+..+++|++|++++|.+.+                                               ..
T Consensus       233 n~l~~~--~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~  310 (768)
T 3rgz_A          233 NKLSGD--FSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAV  310 (768)
T ss_dssp             SCCCSC--HHHHTTTCSSCCEEECCSSCCEESCCCCCCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECC
T ss_pred             CcCCCc--ccHHHhcCCCCCEEECCCCcccCccCccccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCcc
Confidence            555532  23334444433333333333221                                               11


Q ss_pred             CChhhh----------------------ccccC-----------------------------------------------
Q 040109          229 TPSLLH----------------------LNYSK-----------------------------------------------  239 (598)
Q Consensus       229 ~~~~~~----------------------~~~~~-----------------------------------------------  239 (598)
                      +..+..                      +..++                                               
T Consensus       311 p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~  390 (768)
T 3rgz_A          311 PPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ  390 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTC
T ss_pred             chHHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhh
Confidence            100000                      00001                                               


Q ss_pred             ----CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCC
Q 040109          240 ----SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSL  314 (598)
Q Consensus       240 ----~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L  314 (598)
                          +|++|++++|.+++.+|..+..++.  |++|++++|.+++.+|..+..+++|++|++++|.+.+ +|..+..+++|
T Consensus       391 ~~~~~L~~L~L~~n~l~~~~p~~l~~l~~--L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L  468 (768)
T 3rgz_A          391 NPKNTLQELYLQNNGFTGKIPPTLSNCSE--LVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTL  468 (768)
T ss_dssp             STTCCCCEEECCSSEEEEECCGGGGGCTT--CCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTC
T ss_pred             cccCCccEEECCCCccccccCHHHhcCCC--CCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCc
Confidence                2222222222222233444444445  6666666666666666666655555555555555554 45555555555


Q ss_pred             cEEEcccCcCccchhhhhhhcCC------------CC-----CCCCCCCEEEccCccccccCCC-CCCCCcCcccccccc
Q 040109          315 KMLVLSYNELRGELSEFIQNVSS------------GS-----TKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFD  376 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~------------g~-----~~~~~L~~L~Ls~N~l~~~~p~-l~~l~~l~~~~~~~~  376 (598)
                      ++|++++|++.+.+|..+..++.            +.     ..+++|+.|++++|+++|.+|. +.+++++.......+
T Consensus       469 ~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N  548 (768)
T 3rgz_A          469 ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTN  548 (768)
T ss_dssp             CEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSS
T ss_pred             eEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCC
Confidence            55555555555444444444431            00     0112555555555555555543 333333332211111


Q ss_pred             ceE------------------------------------------------------------------EEEcCCccccc
Q 040109          377 KIT------------------------------------------------------------------VTWKGGQYEYK  390 (598)
Q Consensus       377 ~~~------------------------------------------------------------------~~~~~~~~~~~  390 (598)
                      .+.                                                                  ....|..+..+
T Consensus       549 ~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~  628 (768)
T 3rgz_A          549 LFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTF  628 (768)
T ss_dssp             EEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSC
T ss_pred             ccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhh
Confidence            110                                                                  11123334455


Q ss_pred             ccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCE
Q 040109          391 SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSV  470 (598)
Q Consensus       391 ~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~  470 (598)
                      +.+++|+.|||++|+++|.+|..++++++|+.|+|++|+++|.+|..++++++|++|||++|+++|.+|+.+.++++|++
T Consensus       629 ~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~  708 (768)
T 3rgz_A          629 DNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTE  708 (768)
T ss_dssp             SSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSE
T ss_pred             hccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCE
Confidence            66789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeCCCCcceecCCCCCccCccCCCccCCCCCCCCCCCCCCCCCCCC
Q 040109          471 MDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEES  516 (598)
Q Consensus       471 L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~~~~~c~~~~~  516 (598)
                      ||+++|+++|.+|...++.++...++.|||.+||.|+. .|.....
T Consensus       709 L~ls~N~l~g~iP~~~~~~~~~~~~~~gN~~Lcg~~l~-~C~~~~~  753 (768)
T 3rgz_A          709 IDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLP-RCDPSNA  753 (768)
T ss_dssp             EECCSSEEEEECCSSSSGGGSCGGGGCSCTEEESTTSC-CCCSCC-
T ss_pred             EECcCCcccccCCCchhhccCCHHHhcCCchhcCCCCc-CCCCCcc
Confidence            99999999999999999999999999999999999987 8965444

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=100.00  E-value=1.2e-50  Score=447.86  Aligned_cols=448  Identities=18%  Similarity=0.240  Sum_probs=366.9

Q ss_pred             ccCCcHHHHHHHHHHHhcCCCCC--------CCCCCCCCCCCCCCCCCc---cCeeeCCCCCcEEEEEcCCCCCCCCCCC
Q 040109           32 IISCLDEEKEALLAFKQGLIDES--------GILSSWGREDEKRNCCKW---RGVRCSNKTGHVLGLDLRALSDSPVDAL  100 (598)
Q Consensus        32 ~~~~~~~~~~~l~~~k~~~~~~~--------~~l~~W~~~~~~~~~c~w---~gv~C~~~~~~v~~l~l~~~~~~~~~~l  100 (598)
                      ..+...+|+.||.++++++.++.        ....+|.   .+.+||.|   .||+|+. .++|++++|++      +.+
T Consensus        24 ~~~~~~~d~~aL~~~~~~~~~~~w~~~~~~~~~~~~W~---~~~~~c~w~~~~GV~C~~-~~~V~~L~L~~------~~l   93 (636)
T 4eco_A           24 RTAEYIKDYLALKEIWDALNGKNWSQQGFGTQPGANWN---FNKELDMWGAQPGVSLNS-NGRVTGLSLEG------FGA   93 (636)
T ss_dssp             CCCHHHHHHHHHHHHHHHTTGGGCCCCC------CCCC---CSSCGGGTTCCTTEEECT-TCCEEEEECTT------SCC
T ss_pred             hhhhHHHHHHHHHHHHHHcCCCCcccCCcCCccCCCCC---CCCCcccccCCCCeEEcC-CCCEEEEEecC------ccc
Confidence            34455689999999999987442        1234797   46889999   9999975 48999999999      899


Q ss_pred             ceecCccccCCCCCCEEECcCCCC------CC------------------------------------------------
Q 040109          101 KGTINPSLLKLQHLTYLDLSWNNF------SG------------------------------------------------  126 (598)
Q Consensus       101 ~g~l~~~l~~l~~L~~L~Ls~n~l------~~------------------------------------------------  126 (598)
                      .|.+|++++++++|++|+|++|.+      .+                                                
T Consensus        94 ~g~lp~~l~~L~~L~~L~Ls~N~~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~~~~~~~~l~~~~l~~~  173 (636)
T 4eco_A           94 SGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQK  173 (636)
T ss_dssp             EEEECGGGGGCTTCCEEESCCGGGGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGGSCHHHHHHHHHCTTSC
T ss_pred             CCcCChHHhcCccceEEECcCCccccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhhHHHHHHHHhhcCcccc
Confidence            999999999999999999999854      00                                                


Q ss_pred             ----------------------CCcchhcCCCCCCCEEECCCCCCCCC-----------------CccccC--CCCCCCE
Q 040109          127 ----------------------SPIPEFIGSLSKLSELALSSAQLAGP-----------------IPHQLG--NLSRLQV  165 (598)
Q Consensus       127 ----------------------~~~p~~l~~l~~L~~L~Ls~n~l~~~-----------------~p~~l~--~l~~L~~  165 (598)
                                            ..+|..++++++|++|+|++|.+++.                 +|..++  ++++|++
T Consensus       174 ~~~~~~~~~l~~l~l~~~~n~l~~ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~  253 (636)
T 4eco_A          174 SIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTD  253 (636)
T ss_dssp             CCCCCCCCCCCTTTTTCCSCEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCE
T ss_pred             ccccccccchhhhhhccccCCCccCCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCE
Confidence                                  01788899999999999999999986                 999999  9999999


Q ss_pred             EEccCCCCCCCCCcccccCCCCCCEEEcCCCc-CCCCCchhHhhcCC------CCCcEEeccCcCCCCCCC-Chhhhccc
Q 040109          166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCK-LSKFSNWFQVLSNL------RSLTTLYLGHCDLPPIST-PSLLHLNY  237 (598)
Q Consensus       166 L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~-l~~~~~~~~~l~~l------~~L~~L~l~~n~l~~~~~-~~~~~~~~  237 (598)
                      |++++|.+ ....+..+.++++|++|++++|+ +++. .+|..+..+      ++|++|++++|.++..+. ..+..+  
T Consensus       254 L~L~~n~l-~~~~p~~l~~l~~L~~L~Ls~n~~l~~~-~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l--  329 (636)
T 4eco_A          254 VEVYNCPN-LTKLPTFLKALPEMQLINVACNRGISGE-QLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKM--  329 (636)
T ss_dssp             EEEECCTT-CSSCCTTTTTCSSCCEEECTTCTTSCHH-HHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTC--
T ss_pred             EEecCCcC-CccChHHHhcCCCCCEEECcCCCCCccc-cchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccC--
Confidence            99999997 44556789999999999999998 7750 155666665      999999999999994432 023332  


Q ss_pred             cCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCC-ccEEeeccCCCCCcchhhcCCC--CC
Q 040109          238 SKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS-LRYLGLLSNRLREVPKFLGNMS--SL  314 (598)
Q Consensus       238 ~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~-L~~L~Ls~n~l~~lp~~l~~l~--~L  314 (598)
                       ++|++|++++|.++|.+| .+..+++  |++|++++|.++ .+|..+..+++ |++|++++|.++.+|..+...+  +|
T Consensus       330 -~~L~~L~L~~N~l~g~ip-~~~~l~~--L~~L~L~~N~l~-~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L  404 (636)
T 4eco_A          330 -KKLGMLECLYNQLEGKLP-AFGSEIK--LASLNLAYNQIT-EIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVM  404 (636)
T ss_dssp             -TTCCEEECCSCCCEEECC-CCEEEEE--ESEEECCSSEEE-ECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCE
T ss_pred             -CCCCEEeCcCCcCccchh-hhCCCCC--CCEEECCCCccc-cccHhhhhhcccCcEEEccCCcCcccchhhhhcccCcc
Confidence             899999999999998888 8888888  999999999999 88888999999 9999999999999998877655  89


Q ss_pred             cEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC--CCCCCcCccccccccceEEEEcCCccc----
Q 040109          315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN--LGGFPGMLMPLIYFDKITVTWKGGQYE----  388 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~--l~~l~~l~~~~~~~~~~~~~~~~~~~~----  388 (598)
                      +.|++++|.+.+..|..+.....+....++|+.|++++|.++ .+|.  +..++++.......+.+. ........    
T Consensus       405 ~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~~~~  482 (636)
T 4eco_A          405 SAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQIS-KFPKELFSTGSPLSSINLMGNMLT-EIPKNSLKDENE  482 (636)
T ss_dssp             EEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCC-SCCTHHHHTTCCCSEEECCSSCCS-BCCSSSSEETTE
T ss_pred             CEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccC-cCCHHHHccCCCCCEEECCCCCCC-CcCHHHhccccc
Confidence            999999999999999888733333334448999999999998 4554  334566655544444433 11111111    


Q ss_pred             ccccccccceEeccCCcCCCcCchhhh--cccCCcEEECcCCcCcccCCcccCCCCCCCeeeC------CCCccCCCCcc
Q 040109          389 YKSILGLIKIIDLSSNKLGGEVPEEIM--DLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDL------SINHFFGGIPS  460 (598)
Q Consensus       389 ~~~~l~~L~~L~Ls~n~l~~~~p~~l~--~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L------s~N~l~~~~p~  460 (598)
                      ....+++|+.|+|++|+++ .+|..+.  .+++|+.|+|++|++++ +|..+..+++|++|+|      ++|++.+.+|.
T Consensus       483 ~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~  560 (636)
T 4eco_A          483 NFKNTYLLTSIDLRFNKLT-KLSDDFRATTLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPE  560 (636)
T ss_dssp             ECTTGGGCCEEECCSSCCC-BCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCT
T ss_pred             cccccCCccEEECcCCcCC-ccChhhhhccCCCcCEEECCCCCCCC-cChhhhcCCCCCEEECCCCcccccCcccccChH
Confidence            1223448999999999999 7888887  99999999999999997 8999999999999999      56888999999


Q ss_pred             cccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCC
Q 040109          461 SLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCG  504 (598)
Q Consensus       461 ~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~  504 (598)
                      .+.++++|++|++++|++ +.+|.... +++..+++++||..|-
T Consensus       561 ~l~~l~~L~~L~Ls~N~l-~~ip~~~~-~~L~~L~Ls~N~l~~~  602 (636)
T 4eco_A          561 GITLCPSLTQLQIGSNDI-RKVNEKIT-PNISVLDIKDNPNISI  602 (636)
T ss_dssp             TGGGCSSCCEEECCSSCC-CBCCSCCC-TTCCEEECCSCTTCEE
T ss_pred             HHhcCCCCCEEECCCCcC-CccCHhHh-CcCCEEECcCCCCccc
Confidence            999999999999999999 68998643 8899999999999873

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

Probab=100.00  E-value=4.3e-49  Score=442.88  Aligned_cols=443  Identities=19%  Similarity=0.250  Sum_probs=350.9

Q ss_pred             CccCCcHHHHHHHHHHHhcCCCCCCCCCCCCCCC--CCCCC--CCc------------cCeeeCCCCCcEEEEEcCCCCC
Q 040109           31 NIISCLDEEKEALLAFKQGLIDESGILSSWGRED--EKRNC--CKW------------RGVRCSNKTGHVLGLDLRALSD   94 (598)
Q Consensus        31 ~~~~~~~~~~~~l~~~k~~~~~~~~~l~~W~~~~--~~~~~--c~w------------~gv~C~~~~~~v~~l~l~~~~~   94 (598)
                      ..+++..+|+.||++||+++.+|     +|+...  ...++  |.|            .||+|+. .++|+.|+|++   
T Consensus       262 ~~~~~~~~d~~ALl~~k~~l~~~-----~W~~~~~~~~~~~~~C~W~~~~~~~~w~~~~GV~C~~-~~~V~~L~Ls~---  332 (876)
T 4ecn_A          262 KETAEYIKDYKALKAIWEALDGK-----NWRYYSGTINNTIHSLNWNFNKELDMWGDQPGVDLDN-NGRVTGLSLAG---  332 (876)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTTGG-----GCCCCCSSCSSCCCCCSCCCSSCGGGTTCCTTEEECT-TSCEEEEECTT---
T ss_pred             cccccchHHHHHHHHHHHHcCCC-----CCCcCCCcccccCCccccccccccccccCcCceEecC-CCCEEEEECcc---
Confidence            34556788999999999999876     797522  01244  999            9999975 68999999999   


Q ss_pred             CCCCCCceecCccccCCCCCCEEEC-cCCCCCCC----------------------------------------------
Q 040109           95 SPVDALKGTINPSLLKLQHLTYLDL-SWNNFSGS----------------------------------------------  127 (598)
Q Consensus        95 ~~~~~l~g~l~~~l~~l~~L~~L~L-s~n~l~~~----------------------------------------------  127 (598)
                         +.+.|.+|++++++++|++|+| ++|.+.+.                                              
T Consensus       333 ---~~L~G~ip~~l~~L~~L~~LdLss~N~lsG~~~~~~~~~~~~l~~~~l~~lr~~~~~~~l~~~~~~~~s~l~~~~l~  409 (876)
T 4ecn_A          333 ---FGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAIN  409 (876)
T ss_dssp             ---TCCEEEECGGGGGCTTCCEEESCCTTHHHHTTCBTTBCCCSSCCHHHHHHHHTHHHHHHTCCCGGGGSCHHHHHHHH
T ss_pred             ---CCCCCcCchHHhccccceEeeecccccccccccccccccccccchhHHHHHHHhhhhhhhccCcchhhhHHHHHHhh
Confidence               8999999999999999999999 77743221                                              


Q ss_pred             -----------------------------CcchhcCCCCCCCEEECCCCCCCC-----------------CCccccC--C
Q 040109          128 -----------------------------PIPEFIGSLSKLSELALSSAQLAG-----------------PIPHQLG--N  159 (598)
Q Consensus       128 -----------------------------~~p~~l~~l~~L~~L~Ls~n~l~~-----------------~~p~~l~--~  159 (598)
                                                   .+|..++++++|++|+|++|.+++                 .+|..++  +
T Consensus       410 ~~~~~~~i~~~~~l~l~~l~l~~~~N~L~~IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~  489 (876)
T 4ecn_A          410 RNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSN  489 (876)
T ss_dssp             TCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGG
T ss_pred             hCccccccccccccchhhceeccccCcccchhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhcc
Confidence                                         078889999999999999999998                 3899888  9


Q ss_pred             CCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCc-CCCCCchhHhhcC-------CCCCcEEeccCcCCCCCCC-C
Q 040109          160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCK-LSKFSNWFQVLSN-------LRSLTTLYLGHCDLPPIST-P  230 (598)
Q Consensus       160 l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~-l~~~~~~~~~l~~-------l~~L~~L~l~~n~l~~~~~-~  230 (598)
                      +++|++|+|++|.+ ....+..+.++++|++|++++|+ +++. .+|..+..       +++|++|++++|.++..+. .
T Consensus       490 L~~L~~L~Ls~N~l-~~~iP~~l~~L~~L~~L~Ls~N~~lsg~-~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~  567 (876)
T 4ecn_A          490 LKDLTDVELYNCPN-MTQLPDFLYDLPELQSLNIACNRGISAA-QLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASA  567 (876)
T ss_dssp             CTTCCEEEEESCTT-CCSCCGGGGGCSSCCEEECTTCTTSCHH-HHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHH
T ss_pred             CCCCCEEECcCCCC-CccChHHHhCCCCCCEEECcCCCCcccc-cchHHHHhhhhcccccCCccEEEeeCCcCCccCChh
Confidence            99999999999987 44556779999999999999998 7750 14444444       4599999999999994332 0


Q ss_pred             hhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCC-ccEEeeccCCCCCcchhhc
Q 040109          231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS-LRYLGLLSNRLREVPKFLG  309 (598)
Q Consensus       231 ~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~-L~~L~Ls~n~l~~lp~~l~  309 (598)
                      .+..+   ++|+.|++++|.++ .+| .+..+++  |+.|++++|.++ .+|..+..+++ |++|++++|.++.+|..+.
T Consensus       568 ~l~~L---~~L~~L~Ls~N~l~-~lp-~~~~L~~--L~~L~Ls~N~l~-~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~  639 (876)
T 4ecn_A          568 SLQKM---VKLGLLDCVHNKVR-HLE-AFGTNVK--LTDLKLDYNQIE-EIPEDFCAFTDQVEGLGFSHNKLKYIPNIFN  639 (876)
T ss_dssp             HHTTC---TTCCEEECTTSCCC-BCC-CCCTTSE--ESEEECCSSCCS-CCCTTSCEECTTCCEEECCSSCCCSCCSCCC
T ss_pred             hhhcC---CCCCEEECCCCCcc-cch-hhcCCCc--ceEEECcCCccc-cchHHHhhccccCCEEECcCCCCCcCchhhh
Confidence            23332   89999999999999 777 8888888  999999999999 88888999998 9999999999999998777


Q ss_pred             CCCC--CcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC-C-CCCCcCccccccccceEEEEcCC
Q 040109          310 NMSS--LKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-L-GGFPGMLMPLIYFDKITVTWKGG  385 (598)
Q Consensus       310 ~l~~--L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~-l-~~l~~l~~~~~~~~~~~~~~~~~  385 (598)
                      .++.  |+.|++++|++.+.+|......  +....++|+.|++++|.++ .+|. + ..+++|..+....+.+. .....
T Consensus       640 ~~~~~~L~~L~Ls~N~l~g~ip~l~~~l--~~~~~~~L~~L~Ls~N~L~-~lp~~~~~~l~~L~~L~Ls~N~L~-~ip~~  715 (876)
T 4ecn_A          640 AKSVYVMGSVDFSYNKIGSEGRNISCSM--DDYKGINASTVTLSYNEIQ-KFPTELFATGSPISTIILSNNLMT-SIPEN  715 (876)
T ss_dssp             TTCSSCEEEEECCSSCTTTTSSSCSSCT--TTCCCCCEEEEECCSSCCC-SCCHHHHHTTCCCSEEECCSCCCS-CCCTT
T ss_pred             ccccCCCCEEECcCCcCCCccccchhhh--ccccCCCcCEEEccCCcCC-ccCHHHHccCCCCCEEECCCCcCC-ccChH
Confidence            6654  9999999999988766433111  1123347888999998888 4443 2 24555554443333332 11111


Q ss_pred             ccc----ccccccccceEeccCCcCCCcCchhhh--cccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCC------Cc
Q 040109          386 QYE----YKSILGLIKIIDLSSNKLGGEVPEEIM--DLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSI------NH  453 (598)
Q Consensus       386 ~~~----~~~~l~~L~~L~Ls~n~l~~~~p~~l~--~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~------N~  453 (598)
                      ...    ..+.+++|+.|+|++|+++ .+|..+.  .+++|+.|+|++|++++ +|..+..+++|+.|+|++      |+
T Consensus       716 ~~~~~~~~l~nl~~L~~L~Ls~N~L~-~lp~~l~~~~l~~L~~L~Ls~N~L~~-lp~~l~~L~~L~~L~Ls~N~~ls~N~  793 (876)
T 4ecn_A          716 SLKPKDGNYKNTYLLTTIDLRFNKLT-SLSDDFRATTLPYLSNMDVSYNCFSS-FPTQPLNSSQLKAFGIRHQRDAEGNR  793 (876)
T ss_dssp             SSSCTTSCCTTGGGCCEEECCSSCCC-CCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCTTCCEEECCCCBCTTCCB
T ss_pred             HhccccccccccCCccEEECCCCCCc-cchHHhhhccCCCcCEEEeCCCCCCc-cchhhhcCCCCCEEECCCCCCccccc
Confidence            111    1234458999999999999 7888887  99999999999999996 899999999999999976      88


Q ss_pred             cCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCC
Q 040109          454 FFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELC  503 (598)
Q Consensus       454 l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC  503 (598)
                      +.+.+|..+.++++|+.|+|++|++ +.+|... .+++..+++++||...
T Consensus       794 l~~~ip~~l~~L~~L~~L~Ls~N~L-~~Ip~~l-~~~L~~LdLs~N~l~~  841 (876)
T 4ecn_A          794 ILRQWPTGITTCPSLIQLQIGSNDI-RKVDEKL-TPQLYILDIADNPNIS  841 (876)
T ss_dssp             CCCCCCTTGGGCSSCCEEECCSSCC-CBCCSCC-CSSSCEEECCSCTTCE
T ss_pred             ccccChHHHhcCCCCCEEECCCCCC-CccCHhh-cCCCCEEECCCCCCCc
Confidence            8899999999999999999999999 7899873 3688889999998754

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

Probab=100.00  E-value=2.9e-46  Score=426.37  Aligned_cols=418  Identities=20%  Similarity=0.207  Sum_probs=273.6

Q ss_pred             CCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCc-chhcCCCCCCCEEECCCCC
Q 040109           70 CKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPI-PEFIGSLSKLSELALSSAQ  148 (598)
Q Consensus        70 c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~-p~~l~~l~~L~~L~Ls~n~  148 (598)
                      |.|..|.+  ....++.||+++      +.+++..|.+|.++++|++|+|++|...+. + |..|.++++|++|+|++|.
T Consensus        14 ~~L~~vP~--lp~~l~~LdLs~------N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~-i~~~~f~~L~~L~~L~Ls~N~   84 (844)
T 3j0a_A           14 CNLTQVPQ--VLNTTERLLLSF------NYIRTVTASSFPFLEQLQLLELGSQYTPLT-IDKEAFRNLPNLRILDLGSSK   84 (844)
T ss_dssp             CCSSCCCS--SCTTCCEEEEES------CCCCEECSSSCSSCCSCSEEEECTTCCCCE-ECTTTTSSCTTCCEEECTTCC
T ss_pred             CCCCCCCC--CCCCcCEEECCC------CcCCccChhHCcccccCeEEeCCCCCCccc-cCHHHhcCCCCCCEEECCCCc
Confidence            56777776  456789999998      788888888899999999999999866553 5 7788999999999999999


Q ss_pred             CCCCCccccCCCCCCCEEEccCCCCCCCCC-cccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCC
Q 040109          149 LAGPIPHQLGNLSRLQVLDLRFNNLFSSGN-LDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPI  227 (598)
Q Consensus       149 l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~-~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~  227 (598)
                      +++..|..|+++++|++|+|++|.+..... ...+.++++|++|++++|.+++.+ .+..+.++++|++|++++|.+++.
T Consensus        85 l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~-~~~~~~~L~~L~~L~Ls~N~i~~~  163 (844)
T 3j0a_A           85 IYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLY-LHPSFGKLNSLKSIDFSSNQIFLV  163 (844)
T ss_dssp             CCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCC-CCGGGGTCSSCCEEEEESSCCCCC
T ss_pred             CcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccc-cchhHhhCCCCCEEECCCCcCCee
Confidence            988888899999999999999998733222 234888999999999999888753 225688889999999998888776


Q ss_pred             CCChhhhccc-----------------------c------CCccEEEccCCCCCCCcchhhhhc----------------
Q 040109          228 STPSLLHLNY-----------------------S------KSLEVIDLSNNYLTNSIYPWLLNV----------------  262 (598)
Q Consensus       228 ~~~~~~~~~~-----------------------~------~~L~~L~Ls~n~l~~~~~~~l~~~----------------  262 (598)
                      .+..+.....                       +      ..|+.|++++|.+++..+..+...                
T Consensus       164 ~~~~l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~  243 (844)
T 3j0a_A          164 CEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIM  243 (844)
T ss_dssp             CSGGGHHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCC
T ss_pred             CHHHcccccCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccc
Confidence            5543322100                       0      126777777776655444333221                


Q ss_pred             --------------------CccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEccc
Q 040109          263 --------------------SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSY  321 (598)
Q Consensus       263 --------------------~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~  321 (598)
                                          ....++.|++++|.+.+..+..+..+++|++|++++|++++ .|..+.++++|++|++++
T Consensus       244 ~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~  323 (844)
T 3j0a_A          244 GAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSY  323 (844)
T ss_dssp             BCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEES
T ss_pred             cccccccccCCCChhhhhccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCC
Confidence                                00126677777777766666666677777777777777766 345666667777777777


Q ss_pred             CcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC-CCCCCcCccccccccce-------------------E--
Q 040109          322 NELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKI-------------------T--  379 (598)
Q Consensus       322 n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~-l~~l~~l~~~~~~~~~~-------------------~--  379 (598)
                      |.+.+..|..+..++       +|+.|++++|.+++..+. +.++++|.......+.+                   .  
T Consensus       324 N~l~~~~~~~~~~l~-------~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~L~~L~l~~N~l~~l  396 (844)
T 3j0a_A          324 NLLGELYSSNFYGLP-------KVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTL  396 (844)
T ss_dssp             CCCSCCCSCSCSSCT-------TCCEEECCSCCCCCCCSSCSCSCCCCCEEEEETCCSCCCSSCCSCSEEEEESCCCCCC
T ss_pred             CCCCccCHHHhcCCC-------CCCEEECCCCCCCccChhhhcCCCCCCEEECCCCCCCcccCCCCcchhccCCCCcccc
Confidence            776666666665555       455555555554433322 22333332211110000                   0  


Q ss_pred             ---------EEEcC------CcccccccccccceEeccCCcCCC------------------------------cCchhh
Q 040109          380 ---------VTWKG------GQYEYKSILGLIKIIDLSSNKLGG------------------------------EVPEEI  414 (598)
Q Consensus       380 ---------~~~~~------~~~~~~~~l~~L~~L~Ls~n~l~~------------------------------~~p~~l  414 (598)
                               .....      ........+++|+.|+|++|++++                              ..+..|
T Consensus       397 ~~~~~~l~~L~ls~N~l~~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~~~~  476 (844)
T 3j0a_A          397 PKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVF  476 (844)
T ss_dssp             CCCCTTCCEEECCSCCCCSSTTHHHHTTCTTCCEEEEESCCCCCCCSSSSSCSCTTCCBCEEESCCCSSSCCSCCCSSCS
T ss_pred             cccccccceeecccCccccCchhhhhhcCCccceeeCCCCcccccccccccccCCccccccCCCCccccccccccchhhh
Confidence                     00000      000011234444444444444442                              233446


Q ss_pred             hcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCC
Q 040109          415 MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGAS  494 (598)
Q Consensus       415 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~  494 (598)
                      ..+++|+.|+|++|++++..|..|..+++|++|+|++|++++..|..+.  ++|+.|++++|++++..|.  .+.++..+
T Consensus       477 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~--~~L~~L~Ls~N~l~~~~~~--~~~~L~~l  552 (844)
T 3j0a_A          477 EGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLP--ANLEILDISRNQLLAPNPD--VFVSLSVL  552 (844)
T ss_dssp             SCBCCEECCCCCHHHHTTCCTTSSSSCCSCSEEEEESCCCSSCCCCCCC--SCCCEEEEEEECCCCCCSC--CCSSCCEE
T ss_pred             cCcccccEEECCCCcccccChhHccchhhhheeECCCCCCCccChhhhh--ccccEEECCCCcCCCCChh--HhCCcCEE
Confidence            6677777777777777776777777777777777777777766555554  6777777777777776665  35678888


Q ss_pred             ccCCCCCCCCCCCC
Q 040109          495 TYAGNPELCGLPLP  508 (598)
Q Consensus       495 ~~~gnp~lC~~~~~  508 (598)
                      ++.|||+.|+|++.
T Consensus       553 ~l~~Np~~C~c~~~  566 (844)
T 3j0a_A          553 DITHNKFICECELS  566 (844)
T ss_dssp             EEEEECCCCSSSCC
T ss_pred             EecCCCcccccccH
Confidence            99999999988753

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

Probab=100.00  E-value=3.5e-43  Score=387.59  Aligned_cols=409  Identities=18%  Similarity=0.155  Sum_probs=287.4

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      .+++.+++++      +.+++..+..|.++++|++|++++|.+++. .|..|.++++|++|+|++|.+++..|..|++++
T Consensus        32 ~~l~~L~Ls~------n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i-~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~  104 (606)
T 3vq2_A           32 SSTKNIDLSF------NPLKILKSYSFSNFSELQWLDLSRCEIETI-EDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLT  104 (606)
T ss_dssp             TTCCEEECTT------SCCCEECTTTTTTCTTCCEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCT
T ss_pred             CCcCEEECCC------CCcCEeChhhccCCccCcEEeCCCCccccc-CHHHhhchhhcCEeECCCCcccccChhhcCCcc
Confidence            5688999998      888888888999999999999999999875 678899999999999999999988899999999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccC--
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSK--  239 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~--  239 (598)
                      +|++|++++|.+ ....+..+.++++|++|++++|.+.+.. ++..+.++++|++|++++|.+++..+..+.....++  
T Consensus       105 ~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~L~~n~l~~~~-lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~~  182 (606)
T 3vq2_A          105 SLENLVAVETKL-ASLESFPIGQLITLKKLNVAHNFIHSCK-LPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQV  182 (606)
T ss_dssp             TCCEEECTTSCC-CCSSSSCCTTCTTCCEEECCSSCCCCCC-CCGGGGTCTTCCEEECCSSCCCEECTTTTHHHHHCTTC
T ss_pred             cCCEEEccCCcc-ccccccccCCCCCCCEEeCCCCccccee-chHhHhhcCCCCEEEccCCcceecChhhhhhhhccccc
Confidence            999999999997 3344456899999999999999998642 457899999999999999999887665444332111  


Q ss_pred             ----------------------CccEEEccCCCCCC-Ccchh--------------------------------------
Q 040109          240 ----------------------SLEVIDLSNNYLTN-SIYPW--------------------------------------  258 (598)
Q Consensus       240 ----------------------~L~~L~Ls~n~l~~-~~~~~--------------------------------------  258 (598)
                                            +|+.|++++|.+++ ..|..                                      
T Consensus       183 l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~~~~l~~l~  262 (606)
T 3vq2_A          183 NLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVT  262 (606)
T ss_dssp             CCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGGGTTGGGSE
T ss_pred             cceeeccCCCcceeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccccccccCCcccccChHHhhhhhhcc
Confidence                                  34555555554321 00000                                      


Q ss_pred             ------------------hhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch--------------
Q 040109          259 ------------------LLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK--------------  306 (598)
Q Consensus       259 ------------------l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~--------------  306 (598)
                                        +..+++  |+.|++++|.+. .+| .+..+++|++|++++|.++.+|.              
T Consensus       263 l~~l~l~~~~~~~~~~~~~~~l~~--L~~L~l~~~~~~-~l~-~l~~~~~L~~L~l~~n~l~~lp~~~l~~L~~L~l~~n  338 (606)
T 3vq2_A          263 IDEFRLTYTNDFSDDIVKFHCLAN--VSAMSLAGVSIK-YLE-DVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMN  338 (606)
T ss_dssp             EEEEEECCCTTCCGGGGSCGGGTT--CSEEEEESCCCC-CCC-CCCTTCCCSEEEEESCCCSSCCCCCCSSCCEEEEESC
T ss_pred             HhheeccccccccccccccccCCC--CCEEEecCccch-hhh-hccccccCCEEEcccccCcccccCCCCccceeeccCC
Confidence                              111222  333333333332 112 23333333333333333322221              


Q ss_pred             ------hhcCCCCCcEEEcccCcCccch--hhhhhhcCC----------------CCCCCCCCCEEEccCccccccCC--
Q 040109          307 ------FLGNMSSLKMLVLSYNELRGEL--SEFIQNVSS----------------GSTKNSSLEWLYLASNEITGTIP--  360 (598)
Q Consensus       307 ------~l~~l~~L~~L~Ls~n~l~~~~--~~~l~~l~~----------------g~~~~~~L~~L~Ls~N~l~~~~p--  360 (598)
                            .+..+++|++|++++|.+++..  |..+..++.                ....+++|+.|++++|.+++..|  
T Consensus       339 ~~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  418 (606)
T 3vq2_A          339 KGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFS  418 (606)
T ss_dssp             SSCEECCCCCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTT
T ss_pred             cCccchhhccCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChh
Confidence                  2334566666666666666542  444544441                00112355556666655555444  


Q ss_pred             CCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCC-cCchhhhcccCCcEEECcCCcCcccCCcccC
Q 040109          361 NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGG-EVPEEIMDLVGLVALNLSNNNLTGQITPRIG  439 (598)
Q Consensus       361 ~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~-~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~  439 (598)
                      .+.+++++.......+.+.    +..+..+..+++|++|++++|.+++ .+|..+..+++|++|++++|++++..|..+.
T Consensus       419 ~~~~l~~L~~L~l~~n~l~----~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~  494 (606)
T 3vq2_A          419 AFLSLEKLLYLDISYTNTK----IDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFD  494 (606)
T ss_dssp             TTTTCTTCCEEECTTSCCE----ECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTT
T ss_pred             hhhccccCCEEECcCCCCC----ccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChhhhc
Confidence            3445555544433333332    2234456778899999999999987 4788899999999999999999988899999


Q ss_pred             CCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC-CccC-ccCCCccCCCCCCCCCCCC
Q 040109          440 QLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQLQ-RFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       440 ~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~~~-~l~~~~~~gnp~lC~~~~~  508 (598)
                      .+++|++|++++|++++..|..+.++++|++|++++|+++ .+|.. ..++ ++..+++.+||+.|+|++.
T Consensus       495 ~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~l~-~~p~~~~~l~~~L~~l~l~~N~~~c~c~~~  564 (606)
T 3vq2_A          495 TLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIE-TSKGILQHFPKSLAFFNLTNNSVACICEHQ  564 (606)
T ss_dssp             TCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTSCCC-CEESCGGGSCTTCCEEECCSCCCCCSSTTH
T ss_pred             ccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCCcCc-ccCHhHhhhcccCcEEEccCCCcccCCccH
Confidence            9999999999999999988999999999999999999998 56665 3444 5888999999999999864

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

Probab=100.00  E-value=6.2e-42  Score=377.63  Aligned_cols=413  Identities=22%  Similarity=0.217  Sum_probs=234.5

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCC
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR  162 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~  162 (598)
                      .++.+++++      +.+++..|.+|.++++|++|+|++|.+.+. .|..|..+++|++|+|++|.+++..|..|+++++
T Consensus        34 ~l~~L~Ls~------n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  106 (606)
T 3t6q_A           34 STECLEFSF------NVLPTIQNTTFSRLINLTFLDLTRCQIYWI-HEDTFQSQHRLDTLVLTANPLIFMAETALSGPKA  106 (606)
T ss_dssp             TCCEEECTT------CCCSEECTTTSTTCTTCSEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTT
T ss_pred             cCcEEEccC------CccCcCChhHhccCccceEEECCCCcccee-ChhhccCccccCeeeCCCCcccccChhhhccccc
Confidence            466777776      566655566666666666666666666653 4556666666666666666666555556666666


Q ss_pred             CCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCc----------------------hhHhhcCCCCCc--EEe
Q 040109          163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSN----------------------WFQVLSNLRSLT--TLY  218 (598)
Q Consensus       163 L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~----------------------~~~~l~~l~~L~--~L~  218 (598)
                      |++|++++|.+ ....+..+.++++|++|++++|.+.+++.                      .+..+..+++|+  .|+
T Consensus       107 L~~L~L~~n~i-~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~l~L~  185 (606)
T 3t6q_A          107 LKHLFFIQTGI-SSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLN  185 (606)
T ss_dssp             CCEEECTTSCC-SCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEECHHHHHTTTTCCSEEEE
T ss_pred             ccEeeccccCc-ccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCcccccChhhhhhhcccceeEEe
Confidence            66666666655 21212234444555555555554443310                      134455555555  556


Q ss_pred             ccCcCCCCCCCChhhhcc-----------------------------------------------c-cCCccEEEccCCC
Q 040109          219 LGHCDLPPISTPSLLHLN-----------------------------------------------Y-SKSLEVIDLSNNY  250 (598)
Q Consensus       219 l~~n~l~~~~~~~~~~~~-----------------------------------------------~-~~~L~~L~Ls~n~  250 (598)
                      +++|.+.+..+..+....                                               . ..+|+.|++++|.
T Consensus       186 l~~n~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~  265 (606)
T 3t6q_A          186 LNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHY  265 (606)
T ss_dssp             CTTCCCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCC
T ss_pred             cCCCccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCc
Confidence            666655544432221100                                               0 0034445555555


Q ss_pred             CCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCc-chhhcCCCCCcEEEcccCcCccchh
Q 040109          251 LTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGELS  329 (598)
Q Consensus       251 l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~l-p~~l~~l~~L~~L~Ls~n~l~~~~~  329 (598)
                      +++..+..+..+++  |++|++++|.++ .+|..+..+++|++|++++|.++++ |..+..+++|++|++++|.+.+.+|
T Consensus       266 l~~~~~~~~~~l~~--L~~L~l~~n~l~-~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~  342 (606)
T 3t6q_A          266 FFNISSNTFHCFSG--LQELDLTATHLS-ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELG  342 (606)
T ss_dssp             CSSCCTTTTTTCTT--CSEEECTTSCCS-CCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCC
T ss_pred             cCccCHHHhccccC--CCEEeccCCccC-CCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccc
Confidence            54444444555555  555555555555 4444555555555555555555542 3344444444444444444443222


Q ss_pred             h-hhhhcCC-------------------CCCCCCCCCEEEccCccccccCCC-CCCCCcCccccccccceE---------
Q 040109          330 E-FIQNVSS-------------------GSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKIT---------  379 (598)
Q Consensus       330 ~-~l~~l~~-------------------g~~~~~~L~~L~Ls~N~l~~~~p~-l~~l~~l~~~~~~~~~~~---------  379 (598)
                      . .+..++.                   ....+++|++|++++|.+++..|. +.+++++.......+.+.         
T Consensus       343 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  422 (606)
T 3t6q_A          343 TGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQ  422 (606)
T ss_dssp             SSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTT
T ss_pred             hhhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhh
Confidence            2 1222220                   000122555555555555544332 333333333221111110         


Q ss_pred             -------EE-----EcCCcccccccccccceEeccCCcCCCc---CchhhhcccCCcEEECcCCcCcccCCcccCCCCCC
Q 040109          380 -------VT-----WKGGQYEYKSILGLIKIIDLSSNKLGGE---VPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSL  444 (598)
Q Consensus       380 -------~~-----~~~~~~~~~~~l~~L~~L~Ls~n~l~~~---~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L  444 (598)
                             ..     ..+..+..+..+++|++|++++|.+++.   .+..+..+++|++|++++|++++..|..+..+++|
T Consensus       423 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  502 (606)
T 3t6q_A          423 NLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMM  502 (606)
T ss_dssp             TCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTC
T ss_pred             CcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCC
Confidence                   00     0222334455677788888888887652   23567788888888888888887778888888888


Q ss_pred             CeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC-CccCccCCCccCCCCCCCCCCC
Q 040109          445 DFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLPL  507 (598)
Q Consensus       445 ~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~~  507 (598)
                      ++|+|++|++++..|+.+.+++.| +|++++|++++..|.. ..++++..+++.|||+.|+|+.
T Consensus       503 ~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~~  565 (606)
T 3t6q_A          503 NHVDLSHNRLTSSSIEALSHLKGI-YLNLASNHISIILPSLLPILSQQRTINLRQNPLDCTCSN  565 (606)
T ss_dssp             CEEECCSSCCCGGGGGGGTTCCSC-EEECCSSCCCCCCGGGHHHHHTSSEEECTTCCEECSGGG
T ss_pred             CEEECCCCccCcCChhHhCccccc-EEECcCCcccccCHhhcccCCCCCEEeCCCCCccccCCc
Confidence            888888888888888888888888 8888888888665553 4567888899999999998873

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=100.00  E-value=9.1e-43  Score=351.18  Aligned_cols=302  Identities=34%  Similarity=0.607  Sum_probs=214.5

Q ss_pred             CCcHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCCC--ccCeeeCCCC--CcEEEEEcCCCCCCCCCCCce--ecCcc
Q 040109           34 SCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCK--WRGVRCSNKT--GHVLGLDLRALSDSPVDALKG--TINPS  107 (598)
Q Consensus        34 ~~~~~~~~~l~~~k~~~~~~~~~l~~W~~~~~~~~~c~--w~gv~C~~~~--~~v~~l~l~~~~~~~~~~l~g--~l~~~  107 (598)
                      .|.++|++||++||+++.+|. .+.+|.   .+.+||.  |.||.|+...  ++|+.+++++      +.+.|  .+|+.
T Consensus         2 ~c~~~~~~aL~~~k~~~~~~~-~l~~W~---~~~~~C~~~w~gv~C~~~~~~~~l~~L~L~~------~~l~~~~~~~~~   71 (313)
T 1ogq_A            2 LCNPQDKQALLQIKKDLGNPT-TLSSWL---PTTDCCNRTWLGVLCDTDTQTYRVNNLDLSG------LNLPKPYPIPSS   71 (313)
T ss_dssp             CSCHHHHHHHHHHHHHTTCCG-GGTTCC---TTSCTTTTCSTTEEECCSSSCCCEEEEEEEC------CCCSSCEECCGG
T ss_pred             CCCHHHHHHHHHHHHhcCCcc-cccCCC---CCCCCCcCCCcceEeCCCCCCceEEEEECCC------CCccCCcccChh
Confidence            599999999999999998776 789997   3678998  9999997544  7888888887      67777  67777


Q ss_pred             ccCCCCCCEEECcC-CCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCC
Q 040109          108 LLKLQHLTYLDLSW-NNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLS  186 (598)
Q Consensus       108 l~~l~~L~~L~Ls~-n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~  186 (598)
                      +.++++|++|++++ |.+.+. +|..++.+++|++|++++|.+++.+|..|.++++|++|++++|.+             
T Consensus        72 l~~l~~L~~L~L~~~n~l~~~-~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l-------------  137 (313)
T 1ogq_A           72 LANLPYLNFLYIGGINNLVGP-IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNAL-------------  137 (313)
T ss_dssp             GGGCTTCSEEEEEEETTEESC-CCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEE-------------
T ss_pred             HhCCCCCCeeeCCCCCccccc-CChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCcc-------------
Confidence            77777777777774 666654 666666666666666666666555555554444444444444432             


Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccC
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL  266 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~  266 (598)
                                                                                                      
T Consensus       138 --------------------------------------------------------------------------------  137 (313)
T 1ogq_A          138 --------------------------------------------------------------------------------  137 (313)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCC-CCcEEEcccCcCccchhhhhhhcCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMS-SLKMLVLSYNELRGELSEFIQNVSSGSTKNSS  344 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~-~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~  344 (598)
                                 ++.+|..+..+++|++|++++|.+++ +|..+..++ +|++|++++|++.+..|..+..+         
T Consensus       138 -----------~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l---------  197 (313)
T 1ogq_A          138 -----------SGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL---------  197 (313)
T ss_dssp             -----------ESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGC---------
T ss_pred             -----------CCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCC---------
Confidence                       11122222223333333333333332 334444444 55555555555555555444332         


Q ss_pred             CCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEE
Q 040109          345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALN  424 (598)
Q Consensus       345 L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~  424 (598)
                                                                       . |+.|++++|.+++.+|..+..+++|+.|+
T Consensus       198 -------------------------------------------------~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  227 (313)
T 1ogq_A          198 -------------------------------------------------N-LAFVDLSRNMLEGDASVLFGSDKNTQKIH  227 (313)
T ss_dssp             -------------------------------------------------C-CSEEECCSSEEEECCGGGCCTTSCCSEEE
T ss_pred             -------------------------------------------------c-ccEEECcCCcccCcCCHHHhcCCCCCEEE
Confidence                                                             1 45555555555556677788888899999


Q ss_pred             CcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCC
Q 040109          425 LSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCG  504 (598)
Q Consensus       425 Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~  504 (598)
                      +++|++++.+|. +..+++|++|++++|++++.+|..+..+++|++|++++|+++|.+|....++++..+.+.+||++||
T Consensus       228 L~~N~l~~~~~~-~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~~~l~~L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          228 LAKNSLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             CCSSEECCBGGG-CCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCSSSEEES
T ss_pred             CCCCceeeecCc-ccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCCCccccccChHHhcCCCCccC
Confidence            999999866665 7888999999999999999999999999999999999999999999998899999999999999999


Q ss_pred             CCCCCCC
Q 040109          505 LPLPNKC  511 (598)
Q Consensus       505 ~~~~~~c  511 (598)
                      .|+. .|
T Consensus       307 ~p~~-~C  312 (313)
T 1ogq_A          307 SPLP-AC  312 (313)
T ss_dssp             TTSS-CC
T ss_pred             CCCC-CC
Confidence            8876 46

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

Probab=100.00  E-value=4.8e-41  Score=375.55  Aligned_cols=120  Identities=23%  Similarity=0.201  Sum_probs=72.3

Q ss_pred             cccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCccc-------------------------------CC-
Q 040109          388 EYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ-------------------------------IT-  435 (598)
Q Consensus       388 ~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~-------------------------------~p-  435 (598)
                      ..++.+++|+.|++++|++++..+..+..+++|++|++++|++++.                               +| 
T Consensus       474 ~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~i~~  553 (680)
T 1ziw_A          474 SPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPV  553 (680)
T ss_dssp             CTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCCEEECCSSCCCCCCT
T ss_pred             cccccCCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCCEEECCCCCCCCCCH
Confidence            3445566777777777777765555566666666666666665532                               22 


Q ss_pred             cccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCC--ccCccCCCccCCCCCCCCCCC
Q 040109          436 PRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT--QLQRFGASTYAGNPELCGLPL  507 (598)
Q Consensus       436 ~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~--~~~~l~~~~~~gnp~lC~~~~  507 (598)
                      ..|.++++|++|++++|++++..+..|.++++|+.|++++|++++..|...  .++++..+++.||||.|+|+.
T Consensus       554 ~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~l~l~~N~~~c~c~~  627 (680)
T 1ziw_A          554 EVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCES  627 (680)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCCCBCCHHHHHHHHTTCSEEECTTCCCCBCCCC
T ss_pred             HHcccccCcceeECCCCCCCcCCHhHhCCCCCCCEEECCCCcCCccChhHhcccccccCEEEccCCCcccCCcc
Confidence            234455555555555555554444445555555555555555554333211  456778888999999999985

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

Probab=100.00  E-value=1.2e-42  Score=392.67  Aligned_cols=371  Identities=32%  Similarity=0.426  Sum_probs=281.8

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCccccCC-CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccc-cCCC
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLLKL-QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQ-LGNL  160 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~~l-~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~-l~~l  160 (598)
                      .++.+++++      +.++|.+|..+... ++|++|++++|.+++. +|..++.+++|++|++++|.+++.+|.. +.++
T Consensus       270 ~L~~L~L~~------n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~-~p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l  342 (768)
T 3rgz_A          270 SLQYLSLAE------NKFTGEIPDFLSGACDTLTGLDLSGNHFYGA-VPPFFGSCSLLESLALSSNNFSGELPMDTLLKM  342 (768)
T ss_dssp             TCCEEECCS------SEEEESCCCCSCTTCTTCSEEECCSSEEEEC-CCGGGGGCTTCCEEECCSSEEEEECCHHHHTTC
T ss_pred             CCCEEECcC------CccCCccCHHHHhhcCcCCEEECcCCcCCCc-cchHHhcCCCccEEECCCCcccCcCCHHHHhcC
Confidence            455566655      45555555555443 5555555555555543 5555555555555555555555444443 5555


Q ss_pred             CCCCEEEccCCCCC------------------------CCCCcccccC--CCCCCEEEcCCCcCCCCCchhHhhcCCCCC
Q 040109          161 SRLQVLDLRFNNLF------------------------SSGNLDWLSY--LSSLRYLDLGDCKLSKFSNWFQVLSNLRSL  214 (598)
Q Consensus       161 ~~L~~L~Ls~n~l~------------------------~~~~~~~l~~--l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L  214 (598)
                      ++|++|++++|.+.                        ....+..+..  +++|++|++++|.+++.  ++..+..+++|
T Consensus       343 ~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~--~p~~l~~l~~L  420 (768)
T 3rgz_A          343 RGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGK--IPPTLSNCSEL  420 (768)
T ss_dssp             TTCCEEECCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEE--CCGGGGGCTTC
T ss_pred             CCCCEEeCcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccc--cCHHHhcCCCC
Confidence            55555555555441                        1111222222  56777777777777653  45788899999


Q ss_pred             cEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEE
Q 040109          215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYL  294 (598)
Q Consensus       215 ~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L  294 (598)
                      ++|++++|.+++..+..+...   ++|+.|++++|.+++.+|..+..++.  |++|++++|.+++.+|..+..+++|++|
T Consensus       421 ~~L~Ls~N~l~~~~p~~l~~l---~~L~~L~L~~n~l~~~~p~~~~~l~~--L~~L~L~~N~l~~~~p~~l~~l~~L~~L  495 (768)
T 3rgz_A          421 VSLHLSFNYLSGTIPSSLGSL---SKLRDLKLWLNMLEGEIPQELMYVKT--LETLILDFNDLTGEIPSGLSNCTNLNWI  495 (768)
T ss_dssp             CEEECCSSEEESCCCGGGGGC---TTCCEEECCSSCCCSCCCGGGGGCTT--CCEEECCSSCCCSCCCGGGGGCTTCCEE
T ss_pred             CEEECcCCcccCcccHHHhcC---CCCCEEECCCCcccCcCCHHHcCCCC--ceEEEecCCcccCcCCHHHhcCCCCCEE
Confidence            999999999998877544443   89999999999999999999999999  9999999999999999999999999999


Q ss_pred             eeccCCCCC-cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC-CCCCC------
Q 040109          295 GLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFP------  366 (598)
Q Consensus       295 ~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~-l~~l~------  366 (598)
                      ++++|++++ +|..+..+++|++|++++|++.+.+|..+..++       +|+.|++++|+++|.+|. +.+..      
T Consensus       496 ~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~-------~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~  568 (768)
T 3rgz_A          496 SLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCR-------SLIWLDLNTNLFNGTIPAAMFKQSGKIAAN  568 (768)
T ss_dssp             ECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCT-------TCCEEECCSSEEESBCCGGGGTTTTCBCCS
T ss_pred             EccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCC-------CCCEEECCCCccCCcCChHHhcccchhhhh
Confidence            999999996 899999999999999999999999999999988       999999999999998885 11110      


Q ss_pred             ----------------------------------------------------------------cCccccccccceEEEE
Q 040109          367 ----------------------------------------------------------------GMLMPLIYFDKITVTW  382 (598)
Q Consensus       367 ----------------------------------------------------------------~l~~~~~~~~~~~~~~  382 (598)
                                                                                      .+.......+    ..
T Consensus       569 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N----~l  644 (768)
T 3rgz_A          569 FIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYN----ML  644 (768)
T ss_dssp             TTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSS----CC
T ss_pred             ccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCC----cc
Confidence                                                                            0100001111    12


Q ss_pred             cCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccc
Q 040109          383 KGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL  462 (598)
Q Consensus       383 ~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l  462 (598)
                      .|.++..++.+++|+.|+|++|+++|.+|..++++++|+.|||++|+++|.+|..++.+++|++||+++|+++|.+|+. 
T Consensus       645 ~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~N~l~g~iP~~-  723 (768)
T 3rgz_A          645 SGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM-  723 (768)
T ss_dssp             BSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCSSEEEEECCSS-
T ss_pred             cccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcCCcccccCCCc-
Confidence            5677788899999999999999999999999999999999999999999999999999999999999999999999974 


Q ss_pred             cCCCCCCEEeCCCCcce
Q 040109          463 SRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       463 ~~l~~L~~L~ls~N~l~  479 (598)
                      ..+.++....+.+|+--
T Consensus       724 ~~~~~~~~~~~~gN~~L  740 (768)
T 3rgz_A          724 GQFETFPPAKFLNNPGL  740 (768)
T ss_dssp             SSGGGSCGGGGCSCTEE
T ss_pred             hhhccCCHHHhcCCchh
Confidence            34556666777888643

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

Probab=100.00  E-value=2.7e-41  Score=369.78  Aligned_cols=400  Identities=22%  Similarity=0.190  Sum_probs=295.3

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      ..++.+++++      +.+++..+.+|.++++|++|++++|.+++. .|..|..+++|++|++++|.+++..|..|++++
T Consensus        28 ~~l~~L~Ls~------n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  100 (570)
T 2z63_A           28 FSTKNLDLSF------NPLRHLGSYSFFSFPELQVLDLSRCEIQTI-EDGAYQSLSHLSTLILTGNPIQSLALGAFSGLS  100 (570)
T ss_dssp             SSCCEEECCS------CCCCEECTTTTTTCSSCCEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCCCCEECTTTTTTCT
T ss_pred             ccccEEEccC------CccCccChhHhhCCCCceEEECCCCcCCcc-CcccccCchhCCEEeCcCCcCCccCHhhhcCcc
Confidence            4678899988      788887778899999999999999998864 567788999999999999999877778899999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCc
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSL  241 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L  241 (598)
                      +|++|++++|.+. ......+.++++|++|++++|.+..++ +|..+.++++|++|++++|.+++..+..+...   ++|
T Consensus       101 ~L~~L~L~~n~l~-~l~~~~~~~l~~L~~L~L~~n~l~~~~-lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l---~~L  175 (570)
T 2z63_A          101 SLQKLVAVETNLA-SLENFPIGHLKTLKELNVAHNLIQSFK-LPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL---HQM  175 (570)
T ss_dssp             TCCEEECTTSCCC-CSTTCSCTTCTTCCEEECCSSCCCCCC-CCGGGGGCTTCCEEECTTSCCCEECGGGGHHH---HTC
T ss_pred             ccccccccccccc-cCCCccccccccccEEecCCCccceec-ChhhhcccCCCCEEeCcCCccceecHHHccch---hcc
Confidence            9999999999873 333334888999999999999888642 45678889999999999998887665434333   344


Q ss_pred             ----cEEEccCCCCCCCcc-------------------------------------------------------------
Q 040109          242 ----EVIDLSNNYLTNSIY-------------------------------------------------------------  256 (598)
Q Consensus       242 ----~~L~Ls~n~l~~~~~-------------------------------------------------------------  256 (598)
                          +.|++++|.+++..+                                                             
T Consensus       176 ~~~~~~L~l~~n~l~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l~  255 (570)
T 2z63_A          176 PLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLC  255 (570)
T ss_dssp             TTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCCCSSCEECCTTTTGGGG
T ss_pred             chhhhhcccCCCCceecCHHHhccCcceeEecccccccccchhhhhcCccccceeeeccccccCchhhhhcchhhhcccc
Confidence                566666666554333                                                             


Q ss_pred             --------------------hhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhh--------
Q 040109          257 --------------------PWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFL--------  308 (598)
Q Consensus       257 --------------------~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l--------  308 (598)
                                          ..+..++.  |+.|++++|.++ .+|..+..+ +|++|++++|.+..+|...        
T Consensus       256 ~l~l~~l~l~~~~~~~~~~~~~~~~l~~--L~~L~l~~~~l~-~l~~~~~~~-~L~~L~l~~n~~~~l~~~~l~~L~~L~  331 (570)
T 2z63_A          256 NLTIEEFRLAYLDYYLDDIIDLFNCLTN--VSSFSLVSVTIE-RVKDFSYNF-GWQHLELVNCKFGQFPTLKLKSLKRLT  331 (570)
T ss_dssp             GSEEEEEEEEETTEEESCSTTTTGGGTT--CSEEEEESCEEC-SCCBCCSCC-CCSEEEEESCBCSSCCBCBCSSCCEEE
T ss_pred             ccchhhhhhhcchhhhhhchhhhcCcCc--ccEEEecCccch-hhhhhhccC-CccEEeeccCcccccCcccccccCEEe
Confidence                                22333444  666666666665 355555555 5556666555555444310        


Q ss_pred             ------------cCCCCCcEEEcccCcCccch--hhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcccccc
Q 040109          309 ------------GNMSSLKMLVLSYNELRGEL--SEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIY  374 (598)
Q Consensus       309 ------------~~l~~L~~L~Ls~n~l~~~~--~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~  374 (598)
                                  ..+++|++|++++|.+++..  +..+..++       +|+.|++++|.+++..+.+.+++++......
T Consensus       332 l~~n~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~-------~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~  404 (570)
T 2z63_A          332 FTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTT-------SLKYLDLSFNGVITMSSNFLGLEQLEHLDFQ  404 (570)
T ss_dssp             EESCBSCCBCCCCBCTTCCEEECCSSCCBEEEEEEHHHHTCS-------CCCEEECCSCSEEEEEEEEETCTTCCEEECT
T ss_pred             CcCCccccccccccCCCCCEEeCcCCccCccccccccccccC-------ccCEEECCCCccccccccccccCCCCEEEcc
Confidence                        23455555555555555443  44455554       6666666666666554445555555544333


Q ss_pred             ccceEEEEcCCc-ccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCc-ccCCcccCCCCCCCeeeCCCC
Q 040109          375 FDKITVTWKGGQ-YEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT-GQITPRIGQLKSLDFLDLSIN  452 (598)
Q Consensus       375 ~~~~~~~~~~~~-~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~-~~~p~~l~~l~~L~~L~Ls~N  452 (598)
                      .+.+.    +.. ...+..+++|++|++++|.+.+..|..+..+++|++|++++|+++ +.+|..+..+++|++|++++|
T Consensus       405 ~n~l~----~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n  480 (570)
T 2z63_A          405 HSNLK----QMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC  480 (570)
T ss_dssp             TSEEE----SCTTSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS
T ss_pred             CCccc----cccchhhhhcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCC
Confidence            33221    111 134567899999999999999889999999999999999999998 578999999999999999999


Q ss_pred             ccCCCCcccccCCCCCCEEeCCCCcceecCCCC-CccCccCCCccCCCCCCCCCCCC
Q 040109          453 HFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       453 ~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~~~  508 (598)
                      ++++..|..+.++++|++|++++|++++..|.. ..+++++.+.+.+||+.|+|+..
T Consensus       481 ~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~~~  537 (570)
T 2z63_A          481 QLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRI  537 (570)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCTTTT
T ss_pred             ccccCChhhhhcccCCCEEeCCCCcCCCCCHHHhhcccCCcEEEecCCcccCCCcch
Confidence            999888999999999999999999999766653 56788899999999999998753

>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=100.00  E-value=2.1e-41  Score=368.86  Aligned_cols=401  Identities=22%  Similarity=0.215  Sum_probs=270.9

Q ss_pred             CCCccCeeeCCC-----------CCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCC
Q 040109           69 CCKWRGVRCSNK-----------TGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLS  137 (598)
Q Consensus        69 ~c~w~gv~C~~~-----------~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~  137 (598)
                      .|.|.|+ |+..           ...++.+++++      +.+++..|..|.++++|++|++++|.+++. .|..|..++
T Consensus         3 ~C~~~~~-c~~~~~~l~~ip~~~~~~L~~L~Ls~------n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~-~~~~~~~l~   74 (549)
T 2z81_A            3 SCDASGV-CDGRSRSFTSIPSGLTAAMKSLDLSF------NKITYIGHGDLRACANLQVLILKSSRINTI-EGDAFYSLG   74 (549)
T ss_dssp             EECTTSE-EECTTSCCSSCCSCCCTTCCEEECCS------SCCCEECSSTTSSCTTCCEEECTTSCCCEE-CTTTTTTCT
T ss_pred             cCCCCce-EECCCCccccccccCCCCccEEECcC------CccCccChhhhhcCCcccEEECCCCCcCcc-Chhhccccc
Confidence            4889888 7632           23688999998      789888888999999999999999999975 678899999


Q ss_pred             CCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCc-CCCCCchhHhhcCCCCCcE
Q 040109          138 KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCK-LSKFSNWFQVLSNLRSLTT  216 (598)
Q Consensus       138 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~-l~~~~~~~~~l~~l~~L~~  216 (598)
                      +|++|++++|.+++..|..|+++++|++|++++|.+.....+..+.++++|++|++++|. +..++.  ..+..+++|++
T Consensus        75 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~--~~~~~l~~L~~  152 (549)
T 2z81_A           75 SLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRR--IDFAGLTSLNE  152 (549)
T ss_dssp             TCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECT--TTTTTCCEEEE
T ss_pred             cCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCH--hhhhcccccCe
Confidence            999999999999988888899999999999999998544455679999999999999998 455432  57889999999


Q ss_pred             EeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhh-hhcCccCccEEEccCCccccc---------------
Q 040109          217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWL-LNVSSNLVDHIDLGSNRLHGS---------------  280 (598)
Q Consensus       217 L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l-~~~~~~~L~~L~L~~n~l~~~---------------  280 (598)
                      |++++|.+++..+..+...   ++|++|++++|.+. .++..+ ..+++  |++|++++|.+++.               
T Consensus       153 L~L~~n~l~~~~~~~l~~l---~~L~~L~l~~n~~~-~~~~~~~~~l~~--L~~L~L~~n~l~~~~~~~~~~~~~~~~L~  226 (549)
T 2z81_A          153 LEIKALSLRNYQSQSLKSI---RDIHHLTLHLSESA-FLLEIFADILSS--VRYLELRDTNLARFQFSPLPVDEVSSPMK  226 (549)
T ss_dssp             EEEEETTCCEECTTTTTTC---SEEEEEEEECSBST-THHHHHHHSTTT--BSEEEEESCBCTTCCCCCCSSCCCCCCCC
T ss_pred             eeccCCcccccChhhhhcc---ccCceEecccCccc-ccchhhHhhccc--ccEEEccCCccccccccccchhhhhhccc
Confidence            9999999988665433322   34444444444332 122211 12233  33333333333321               


Q ss_pred             ------------cch---------------------------------------------------------------hh
Q 040109          281 ------------IPV---------------------------------------------------------------AF  285 (598)
Q Consensus       281 ------------~p~---------------------------------------------------------------~l  285 (598)
                                  .+.                                                               .+
T Consensus       227 ~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~  306 (549)
T 2z81_A          227 KLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVY  306 (549)
T ss_dssp             EEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEESCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHH
T ss_pred             ceeccccccchhHHHHHHHHhhhhccccccccccccccccccccccchhhhhhhcccccccccccccchhhhcccchhhh
Confidence                        000                                                               01


Q ss_pred             cCCCCccEEeeccCCCCCcchhh-cCCCCCcEEEcccCcCccchhhh---hhhcCCCCCCCCCCCEEEccCccccccCC-
Q 040109          286 GHMASLRYLGLLSNRLREVPKFL-GNMSSLKMLVLSYNELRGELSEF---IQNVSSGSTKNSSLEWLYLASNEITGTIP-  360 (598)
Q Consensus       286 ~~l~~L~~L~Ls~n~l~~lp~~l-~~l~~L~~L~Ls~n~l~~~~~~~---l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p-  360 (598)
                      ...++|++|++++|.++.+|..+ ..+++|++|++++|++.+..|..   +..++       +|+.|++++|++++..+ 
T Consensus       307 ~~~~~L~~L~l~~n~l~~ip~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~-------~L~~L~Ls~N~l~~~~~~  379 (549)
T 2z81_A          307 SLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWP-------SLQTLVLSQNHLRSMQKT  379 (549)
T ss_dssp             HHSTTCCEEEEESSCCCCCCHHHHHHCTTCCEEECCSSCCCHHHHHHHTCTTSST-------TCCEEECTTSCCCCHHHH
T ss_pred             hhcccceEEEeccCccccCCHHHHhcCccccEEEccCCccccccccchhhhhccc-------cCcEEEccCCcccccccc
Confidence            11234555666666665565544 35666666666666666554432   33333       66666666666653211 


Q ss_pred             --CCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCccc
Q 040109          361 --NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI  438 (598)
Q Consensus       361 --~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l  438 (598)
                        .+..+++|.......+.+.     ..+..+..+++|++|++++|+++ .+|..+  .++|++|++++|++++.+    
T Consensus       380 ~~~~~~l~~L~~L~Ls~N~l~-----~lp~~~~~~~~L~~L~Ls~N~l~-~l~~~~--~~~L~~L~Ls~N~l~~~~----  447 (549)
T 2z81_A          380 GEILLTLKNLTSLDISRNTFH-----PMPDSCQWPEKMRFLNLSSTGIR-VVKTCI--PQTLEVLDVSNNNLDSFS----  447 (549)
T ss_dssp             HHHGGGCTTCCEEECTTCCCC-----CCCSCCCCCTTCCEEECTTSCCS-CCCTTS--CTTCSEEECCSSCCSCCC----
T ss_pred             hhhhhcCCCCCEEECCCCCCc-----cCChhhcccccccEEECCCCCcc-cccchh--cCCceEEECCCCChhhhc----
Confidence              1333344433332222221     12233344566777777777666 334333  246777777777776432    


Q ss_pred             CCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC-CccCccCCCccCCCCCCCCCC
Q 040109          439 GQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       439 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      ..+++|++|+|++|+++ .+|. ...+++|++|++++|++++..|.. ..++++..+++++||+.|+|+
T Consensus       448 ~~l~~L~~L~Ls~N~l~-~ip~-~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  514 (549)
T 2z81_A          448 LFLPRLQELYISRNKLK-TLPD-ASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  514 (549)
T ss_dssp             CCCTTCCEEECCSSCCS-SCCC-GGGCTTCCEEECCSSCCCCCCTTGGGGCTTCCEEECCSSCBCCCHH
T ss_pred             ccCChhcEEECCCCccC-cCCC-cccCccCCEEecCCCccCCcCHHHHhcCcccCEEEecCCCccCCCc
Confidence            47889999999999998 6776 567999999999999999776653 567888999999999999987

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

Probab=100.00  E-value=2.3e-40  Score=365.12  Aligned_cols=357  Identities=23%  Similarity=0.203  Sum_probs=246.5

Q ss_pred             ecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccc
Q 040109          103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL  182 (598)
Q Consensus       103 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l  182 (598)
                      .+|..+..  ++++|++++|.+++. .|..|+.+++|++|+|++|.+++..|..|+++++|++|++++|.+ ....+..+
T Consensus        26 ~iP~~l~~--~l~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~~~~  101 (606)
T 3t6q_A           26 EIPGTLPN--STECLEFSFNVLPTI-QNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPL-IFMAETAL  101 (606)
T ss_dssp             SCCTTSCT--TCCEEECTTCCCSEE-CTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC-SEECTTTT
T ss_pred             cCcCCCCC--cCcEEEccCCccCcC-ChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCCcc-cccChhhh
Confidence            45555543  789999999999975 688999999999999999999988899999999999999999997 44556679


Q ss_pred             cCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhc
Q 040109          183 SYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV  262 (598)
Q Consensus       183 ~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  262 (598)
                      .++++|++|++++|.+++++  +..+..+++|++|++++|.+.+.....+..  . ++|++|++++|.+++..+..+..+
T Consensus       102 ~~l~~L~~L~L~~n~i~~l~--~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~--l-~~L~~L~L~~n~l~~~~~~~~~~l  176 (606)
T 3t6q_A          102 SGPKALKHLFFIQTGISSID--FIPLHNQKTLESLYLGSNHISSIKLPKGFP--T-EKLKVLDFQNNAIHYLSKEDMSSL  176 (606)
T ss_dssp             SSCTTCCEEECTTSCCSCGG--GSCCTTCTTCCEEECCSSCCCCCCCCTTCC--C-TTCCEEECCSSCCCEECHHHHHTT
T ss_pred             cccccccEeeccccCcccCC--cchhccCCcccEEECCCCcccccCcccccC--C-cccCEEEcccCcccccChhhhhhh
Confidence            99999999999999999863  356899999999999999999865432333  2 788888888888886666666665


Q ss_pred             CccCcc--EEEccCC-----------------------------------------------------------------
Q 040109          263 SSNLVD--HIDLGSN-----------------------------------------------------------------  275 (598)
Q Consensus       263 ~~~~L~--~L~L~~n-----------------------------------------------------------------  275 (598)
                      +.  ++  .|++++|                                                                 
T Consensus       177 ~~--L~~l~L~l~~n~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~  254 (606)
T 3t6q_A          177 QQ--ATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEM  254 (606)
T ss_dssp             TT--CCSEEEECTTCCCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGS
T ss_pred             cc--cceeEEecCCCccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcC
Confidence            55  44  4444444                                                                 


Q ss_pred             ----------ccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCC
Q 040109          276 ----------RLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL  345 (598)
Q Consensus       276 ----------~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L  345 (598)
                                .+++..+..|..+++|++|++++|.++.+|..+..+++|++|++++|.+.+..|..+..++       +|
T Consensus       255 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~-------~L  327 (606)
T 3t6q_A          255 SVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFP-------SL  327 (606)
T ss_dssp             EEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCT-------TC
T ss_pred             ceeEEEeecCccCccCHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccC-------cC
Confidence                      4444444557778899999999999999998899999999999999999988888888877       78


Q ss_pred             CEEEccCccccccCCC--CCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEE
Q 040109          346 EWLYLASNEITGTIPN--LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL  423 (598)
Q Consensus       346 ~~L~Ls~N~l~~~~p~--l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L  423 (598)
                      +.|++++|.+.+.+|.  +.+++++.......+.+....  ..+..+..+++|++|++++|.+.+..|..+..+++|++|
T Consensus       328 ~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  405 (606)
T 3t6q_A          328 THLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSD--CCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELL  405 (606)
T ss_dssp             SEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEE--ESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEE
T ss_pred             CEEECCCCCcccccchhhhhccCcCCEEECCCCcccccc--CcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeE
Confidence            8888888877766654  556666655433333322111  001122334444455555544444444444444444444


Q ss_pred             ECcCCcCcccCCcc-cCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcce
Q 040109          424 NLSNNNLTGQITPR-IGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       424 ~Ls~N~l~~~~p~~-l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~  479 (598)
                      ++++|++++..|.. +..+++|++|++++|.+++..|..+.++++|++|++++|++.
T Consensus       406 ~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~  462 (606)
T 3t6q_A          406 DLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFP  462 (606)
T ss_dssp             ECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCG
T ss_pred             ECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCC
Confidence            44444444333322 444444444444444444444444444444444444444443

>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=100.00  E-value=1.1e-40  Score=354.63  Aligned_cols=375  Identities=24%  Similarity=0.233  Sum_probs=246.9

Q ss_pred             CCCCCccC--eeeCCCC--------CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCC
Q 040109           67 RNCCKWRG--VRCSNKT--------GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSL  136 (598)
Q Consensus        67 ~~~c~w~g--v~C~~~~--------~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l  136 (598)
                      ...|.|.+  +.|+...        .+++.|++++      +.+++..|..|.++++|++|++++|.+.+...+..|..+
T Consensus         5 ~~~c~~~~~~~~c~~~~l~~lp~l~~~l~~L~Ls~------n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l   78 (455)
T 3v47_A            5 TSECSVIGYNAICINRGLHQVPELPAHVNYVDLSL------NSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGL   78 (455)
T ss_dssp             --CCEEETTEEECCSSCCSSCCCCCTTCCEEECCS------SCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTC
T ss_pred             cceeEEEccccCcCCCCcccCCCCCCccCEEEecC------CccCcCChhHhccCccccEEECcCCcccceECccccccc
Confidence            34566665  7776422        3567777777      677776677777777777777777777643124567777


Q ss_pred             CCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCC-CCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCc
Q 040109          137 SKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSS-GNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLT  215 (598)
Q Consensus       137 ~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~-~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~  215 (598)
                      ++|++|+|++|.+++..|..|+++++|++|++++|.+... .....+.++++|++|++++|.+++... ...+..+++|+
T Consensus        79 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~~~~l~~L~  157 (455)
T 3v47_A           79 SSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQP-ASFFLNMRRFH  157 (455)
T ss_dssp             TTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCC-CGGGGGCTTCC
T ss_pred             ccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCc-ccccCCCCccc
Confidence            7777777777777766677777777777777777776211 111236777777777777777776521 02266777777


Q ss_pred             EEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhh--------hhcCccCccEEEccCCccccccchhhcC
Q 040109          216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWL--------LNVSSNLVDHIDLGSNRLHGSIPVAFGH  287 (598)
Q Consensus       216 ~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l--------~~~~~~~L~~L~L~~n~l~~~~p~~l~~  287 (598)
                      +|++++|.+.+..+..+..... .+|+.|++++|.+.+..+..+        ...++  |++|++++|.+++..|..+..
T Consensus       158 ~L~L~~n~l~~~~~~~l~~l~~-~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~--L~~L~Ls~n~l~~~~~~~~~~  234 (455)
T 3v47_A          158 VLDLTFNKVKSICEEDLLNFQG-KHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTS--ITTLDLSGNGFKESMAKRFFD  234 (455)
T ss_dssp             EEECTTCCBSCCCTTTSGGGTT-CEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCE--EEEEECTTSCCCHHHHHHHHH
T ss_pred             EEeCCCCcccccChhhhhcccc-ccccccccccCcccccchhhccccccccccccce--eeeEecCCCcccccchhhhhc
Confidence            7777777777766654544433 567777777777765443322        23345  777777777777766666544


Q ss_pred             C---CCccEEeeccCCCCCcc-----------hhhc--CCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEcc
Q 040109          288 M---ASLRYLGLLSNRLREVP-----------KFLG--NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLA  351 (598)
Q Consensus       288 l---~~L~~L~Ls~n~l~~lp-----------~~l~--~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls  351 (598)
                      .   ++|+.|++++|...+..           ..+.  ..++|+.|++++|.+.+..|..+..++       +|+.|+++
T Consensus       235 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~-------~L~~L~Ls  307 (455)
T 3v47_A          235 AIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFT-------DLEQLTLA  307 (455)
T ss_dssp             HTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCT-------TCCEEECT
T ss_pred             cccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCccccccchhhcccCC-------CCCEEECC
Confidence            3   67777777776543310           1111  125677777777777777777666666       67777777


Q ss_pred             CccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCc
Q 040109          352 SNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT  431 (598)
Q Consensus       352 ~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  431 (598)
                      +|.+++..|.                           .+..+++|++|+|++|.+++..|..+..+++|++|+|++|+++
T Consensus       308 ~n~l~~~~~~---------------------------~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~  360 (455)
T 3v47_A          308 QNEINKIDDN---------------------------AFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIR  360 (455)
T ss_dssp             TSCCCEECTT---------------------------TTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSCCC
T ss_pred             CCcccccChh---------------------------HhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCCccc
Confidence            7777654432                           2234556777777777777666777777777777777777777


Q ss_pred             ccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC
Q 040109          432 GQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG  485 (598)
Q Consensus       432 ~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~  485 (598)
                      +..|..+..+++|++|++++|++++..+..+..+++|++|++++|+++|.+|..
T Consensus       361 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~  414 (455)
T 3v47_A          361 ALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRI  414 (455)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCTTTT
T ss_pred             ccChhhccccccccEEECCCCccccCCHhHhccCCcccEEEccCCCcccCCCcc
Confidence            666777777777777777777777655556677777777777777777777654

>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=100.00  E-value=1.5e-39  Score=351.89  Aligned_cols=394  Identities=19%  Similarity=0.235  Sum_probs=250.5

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      .+++.+++++      +.+++..|..|.++++|++|++++|.+++. .|..|+.+++|++|+|++|.++ .+|..  .++
T Consensus        21 ~~L~~L~Ls~------n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~Ls~N~l~-~lp~~--~l~   90 (520)
T 2z7x_B           21 QKTTILNISQ------NYISELWTSDILSLSKLRILIISHNRIQYL-DISVFKFNQELEYLDLSHNKLV-KISCH--PTV   90 (520)
T ss_dssp             TTCSEEECCS------SCCCCCCHHHHTTCTTCCEEECCSSCCCEE-EGGGGTTCTTCCEEECCSSCCC-EEECC--CCC
T ss_pred             ccccEEECCC------CcccccChhhccccccccEEecCCCccCCc-ChHHhhcccCCCEEecCCCcee-ecCcc--ccC
Confidence            4566677766      566655556677777777777777777653 5666777777777777777776 45544  667


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCC--cEEeccCcCC--CCCCCChhhhcc-
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL--TTLYLGHCDL--PPISTPSLLHLN-  236 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L--~~L~l~~n~l--~~~~~~~~~~~~-  236 (598)
                      +|++|++++|.+.....+..++++++|++|++++|.+.+     ..+..+++|  ++|++++|.+  .+..+..+..+. 
T Consensus        91 ~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~-----~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~l~~l~~  165 (520)
T 2z7x_B           91 NLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK-----SSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNT  165 (520)
T ss_dssp             CCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG-----GGGGGGTTSCEEEEEEEECTTTTSSCCTTTTTTCCE
T ss_pred             CccEEeccCCccccccchhhhccCCcceEEEecCcccch-----hhccccccceeeEEEeeccccccccccccccccccc
Confidence            777777777766333344566777777777777776654     234555555  7777777766  443333222211 


Q ss_pred             ----------------------ccCCccEEEccCCC-------CCCCcchhhhhcCc-----------------------
Q 040109          237 ----------------------YSKSLEVIDLSNNY-------LTNSIYPWLLNVSS-----------------------  264 (598)
Q Consensus       237 ----------------------~~~~L~~L~Ls~n~-------l~~~~~~~l~~~~~-----------------------  264 (598)
                                            .+++|+.|++++|.       +.+.++ .+..++.                       
T Consensus       166 ~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~l~~~~~~~~~~~~  244 (520)
T 2z7x_B          166 ESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILA-KLQTNPKLSNLTLNNIETTWNSFIRILQLV  244 (520)
T ss_dssp             EEEEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHH-GGGGCTTCCEEEEEEEEEEHHHHHHHHHHH
T ss_pred             ceEEEEeccCcchhhhhhhhhhcccceeeccccccccccccceeecchh-hhccccchhhccccccccCHHHHHHHHHHh
Confidence                                  01333344433332       111111 1122221                       


Q ss_pred             --cCccEEEccCCccccccchhh-----cCCCCccEEeeccCCCCCcc-hhhcCC---CCCcEEEcccCcCccchhhhhh
Q 040109          265 --NLVDHIDLGSNRLHGSIPVAF-----GHMASLRYLGLLSNRLREVP-KFLGNM---SSLKMLVLSYNELRGELSEFIQ  333 (598)
Q Consensus       265 --~~L~~L~L~~n~l~~~~p~~l-----~~l~~L~~L~Ls~n~l~~lp-~~l~~l---~~L~~L~Ls~n~l~~~~~~~l~  333 (598)
                        ..|++|++++|.+++.+|..+     ..+++|+.+++++|.+ .+| ..+..+   ++|+.|++++|.+.....  ..
T Consensus       245 ~~~~L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~-~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~~--~~  321 (520)
T 2z7x_B          245 WHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVF-GFPQSYIYEIFSNMNIKNFTVSGTRMVHMLC--PS  321 (520)
T ss_dssp             HTSSCSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECCC-CSCTHHHHHHHHTCCCSEEEEESSCCCCCCC--CS
T ss_pred             hhCcccEEEeecccccCccccchhhcccccCceeEeccccccce-ecchhhhhcccccCceeEEEcCCCccccccc--hh
Confidence              016666666666666666655     5666666666666665 444 222222   344555555554432210  02


Q ss_pred             hcCCCCCCCCCCCEEEccCccccccCC-CCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCch
Q 040109          334 NVSSGSTKNSSLEWLYLASNEITGTIP-NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPE  412 (598)
Q Consensus       334 ~l~~g~~~~~~L~~L~Ls~N~l~~~~p-~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~  412 (598)
                      .       +++|++|++++|.+++.+| .+.+++++.......+.+..  -+..+..++.+++|++|++++|.+++.+|.
T Consensus       322 ~-------l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~--l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~  392 (520)
T 2z7x_B          322 K-------ISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKE--LSKIAEMTTQMKSLQQLDISQNSVSYDEKK  392 (520)
T ss_dssp             S-------CCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCB--HHHHHHHHTTCTTCCEEECCSSCCBCCGGG
T ss_pred             h-------CCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCc--cccchHHHhhCCCCCEEECCCCcCCccccc
Confidence            2       2367777777777776444 35566665554433333210  011223456788999999999999975776


Q ss_pred             h-hhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC--CccC
Q 040109          413 E-IMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG--TQLQ  489 (598)
Q Consensus       413 ~-l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~--~~~~  489 (598)
                      . +..+++|++|++++|++++.+|..+.  ++|++|++++|+++ .+|..+..+++|++|++++|+++ .+|..  ..++
T Consensus       393 ~~~~~l~~L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~l~-~ip~~~~~l~~L~~L~L~~N~l~-~l~~~~~~~l~  468 (520)
T 2z7x_B          393 GDCSWTKSLLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLK-SVPDGIFDRLT  468 (520)
T ss_dssp             CSCCCCTTCCEEECCSSCCCGGGGGSCC--TTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCC-CCCTTTTTTCT
T ss_pred             chhccCccCCEEECcCCCCCcchhhhhc--ccCCEEECCCCccc-ccchhhhcCCCCCEEECCCCcCC-ccCHHHhccCC
Confidence            4 78899999999999999988888775  79999999999998 88888889999999999999998 57764  4577


Q ss_pred             ccCCCccCCCCCCCCCCC
Q 040109          490 RFGASTYAGNPELCGLPL  507 (598)
Q Consensus       490 ~l~~~~~~gnp~lC~~~~  507 (598)
                      ++..+++.+||+.|+|++
T Consensus       469 ~L~~L~l~~N~~~c~c~~  486 (520)
T 2z7x_B          469 SLQKIWLHTNPWDCSCPR  486 (520)
T ss_dssp             TCCEEECCSSCBCCCHHH
T ss_pred             cccEEECcCCCCcccCCc
Confidence            888999999999999874

>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=100.00  E-value=5e-39  Score=356.19  Aligned_cols=404  Identities=22%  Similarity=0.184  Sum_probs=305.5

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      ..++.|||++      +.+++..+.+|.++++|++|+|++|.|++. .|..|.++++|++|+|++|++++..+..|.+++
T Consensus        52 ~~~~~LdLs~------N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i-~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~  124 (635)
T 4g8a_A           52 FSTKNLDLSF------NPLRHLGSYSFFSFPELQVLDLSRCEIQTI-EDGAYQSLSHLSTLILTGNPIQSLALGAFSGLS  124 (635)
T ss_dssp             TTCCEEECTT------SCCCEECTTTTTTCTTCCEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCCCCEECGGGGTTCT
T ss_pred             cCCCEEEeeC------CCCCCCCHHHHhCCCCCCEEECCCCcCCCc-ChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCC
Confidence            3588999998      899887778899999999999999999974 566899999999999999999977778899999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhcccc-C-
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYS-K-  239 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~-~-  239 (598)
                      +|++|++++|++ .......|+++++|++|++++|.++.++ .+..+..+++|++|++++|++++..+..+..+... . 
T Consensus       125 ~L~~L~Ls~N~l-~~l~~~~~~~L~~L~~L~Ls~N~l~~~~-~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~l~~~  202 (635)
T 4g8a_A          125 SLQKLVAVETNL-ASLENFPIGHLKTLKELNVAHNLIQSFK-LPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLL  202 (635)
T ss_dssp             TCCEEECTTSCC-CCSTTCCCTTCTTCCEEECCSSCCCCCC-CCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTC
T ss_pred             CCCEEECCCCcC-CCCChhhhhcCcccCeeccccCccccCC-CchhhccchhhhhhcccCccccccccccccchhhhhhh
Confidence            999999999998 4444556999999999999999998763 45778899999999999999987765433322110 0 


Q ss_pred             ----------------------CccEEEccCCCCCCCc------------------------------------------
Q 040109          240 ----------------------SLEVIDLSNNYLTNSI------------------------------------------  255 (598)
Q Consensus       240 ----------------------~L~~L~Ls~n~l~~~~------------------------------------------  255 (598)
                                            .++.+++.+|.....+                                          
T Consensus       203 ~~~~~ls~n~l~~i~~~~~~~~~~~~l~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~  282 (635)
T 4g8a_A          203 NLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLT  282 (635)
T ss_dssp             CCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSSHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCTTTTGGGGGSE
T ss_pred             hhhhhcccCcccccCcccccchhhhhhhhhcccccccccchhhcCCcccccccccccccccccccccccccccccccchh
Confidence                                  1122222222110000                                          


Q ss_pred             --------------------------------------chhhhhcCccCccEEEccCCccccccch--------------
Q 040109          256 --------------------------------------YPWLLNVSSNLVDHIDLGSNRLHGSIPV--------------  283 (598)
Q Consensus       256 --------------------------------------~~~l~~~~~~~L~~L~L~~n~l~~~~p~--------------  283 (598)
                                                            ...+.....  ++.|++.+|.+.+..+.              
T Consensus       283 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~--L~~L~l~~~~~~~~~~~~l~~L~~l~l~~n~  360 (635)
T 4g8a_A          283 IEEFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFG--WQHLELVNCKFGQFPTLKLKSLKRLTFTSNK  360 (635)
T ss_dssp             EEEEEEECCCSCEEECTTTTGGGTTCSEEEEESCEEEECGGGGSCCC--CSEEEEESCEESSCCCCBCTTCCEEEEESCC
T ss_pred             hhhhhhhhhcccccchhhhhhhhcccccccccccccccccccccchh--hhhhhcccccccCcCcccchhhhhccccccc
Confidence                                                  000111122  66777777765433221              


Q ss_pred             -----hhcCCCCccEEeeccCCCCC---cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccc
Q 040109          284 -----AFGHMASLRYLGLLSNRLRE---VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEI  355 (598)
Q Consensus       284 -----~l~~l~~L~~L~Ls~n~l~~---lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l  355 (598)
                           ....+++|+.|++++|.+..   .+..+..+.+|+.++++.|......+ .+..+.       +|+.+++++|..
T Consensus       361 ~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~-~~~~l~-------~L~~l~l~~~~~  432 (635)
T 4g8a_A          361 GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSS-NFLGLE-------QLEHLDFQHSNL  432 (635)
T ss_dssp             SCCBCCCCBCTTCCEEECCSSCCBEEEECCHHHHSCSCCCEEECCSCSEEEECS-CCTTCT-------TCCEEECTTSEE
T ss_pred             CCCCcccccccccccchhhccccccccccccchhhhhhhhhhhccccccccccc-cccccc-------cccchhhhhccc
Confidence                 23357889999999999875   55677788999999999988765433 344455       788888888877


Q ss_pred             cccCCC--CCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcC-CCcCchhhhcccCCcEEECcCCcCcc
Q 040109          356 TGTIPN--LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKL-GGEVPEEIMDLVGLVALNLSNNNLTG  432 (598)
Q Consensus       356 ~~~~p~--l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l-~~~~p~~l~~l~~L~~L~Ls~N~l~~  432 (598)
                      ....+.  +.+++.+.......+.+.    +........++.++.|++++|++ .+..|..|..+++|++|+|++|++++
T Consensus       433 ~~~~~~~~~~~l~~l~~l~ls~n~l~----~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~  508 (635)
T 4g8a_A          433 KQMSEFSVFLSLRNLIYLDISHTHTR----VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQ  508 (635)
T ss_dssp             ESTTSSCTTTTCTTCCEEECTTSCCE----ECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCE
T ss_pred             cccccccccccccccccccccccccc----cccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCC
Confidence            655432  344444443333333332    22234456688999999999975 44678889999999999999999999


Q ss_pred             cCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCC-cc-CccCCCccCCCCCCCCCCCC
Q 040109          433 QITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT-QL-QRFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       433 ~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~-~~-~~l~~~~~~gnp~lC~~~~~  508 (598)
                      ..|..|.++++|++|+|++|++++..|..|.++++|++|++++|++++..|... .+ .+++.+++++|||.|+|.+.
T Consensus       509 l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L~~Np~~C~C~~~  586 (635)
T 4g8a_A          509 LSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQ  586 (635)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEECTTCCBCCSGGGH
T ss_pred             cChHHHcCCCCCCEEECCCCcCCCCChhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEeeCCCCcccCCcH
Confidence            999999999999999999999999889999999999999999999998877653 33 67889999999999999753

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

Probab=100.00  E-value=4.9e-39  Score=354.46  Aligned_cols=380  Identities=20%  Similarity=0.143  Sum_probs=294.7

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      .+++.+++++      +.+++..|.+|.++++|++|+|++|.+++. .|..|+.+++|++|++++|.+++..+..+++++
T Consensus        56 ~~L~~L~Ls~------n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~-~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  128 (606)
T 3vq2_A           56 SELQWLDLSR------CEIETIEDKAWHGLHHLSNLILTGNPIQSF-SPGSFSGLTSLENLVAVETKLASLESFPIGQLI  128 (606)
T ss_dssp             TTCCEEECTT------CCCCEECTTTTTTCTTCCEEECTTCCCCCC-CTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCT
T ss_pred             ccCcEEeCCC------CcccccCHHHhhchhhcCEeECCCCccccc-ChhhcCCcccCCEEEccCCccccccccccCCCC
Confidence            5688999998      788888888999999999999999999975 789999999999999999999987778899999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCC---------------------------CC
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLR---------------------------SL  214 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~---------------------------~L  214 (598)
                      +|++|++++|.+.....+..+.++++|++|++++|.+++++.  ..+..++                           +|
T Consensus       129 ~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~--~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L  206 (606)
T 3vq2_A          129 TLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITV--NDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKL  206 (606)
T ss_dssp             TCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEECT--TTTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEE
T ss_pred             CCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecCh--hhhhhhhccccccceeeccCCCcceeCcccccCcee
Confidence            999999999998444557789999999999999999887532  2232222                           44


Q ss_pred             cEEeccCcCCCCC----------------------------------------------------------CCC------
Q 040109          215 TTLYLGHCDLPPI----------------------------------------------------------STP------  230 (598)
Q Consensus       215 ~~L~l~~n~l~~~----------------------------------------------------------~~~------  230 (598)
                      ++|++++|.+.+.                                                          .+.      
T Consensus       207 ~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~~~~~l~~  286 (606)
T 3vq2_A          207 HELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLAN  286 (606)
T ss_dssp             EEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGGGTTGGGSEEEEEEECCCTTCCGGGGSCGGGTT
T ss_pred             eeeeccCCccchhHHHHHhccccccccccccccccccCCcccccChHHhhhhhhccHhheeccccccccccccccccCCC
Confidence            5555555443200                                                          000      


Q ss_pred             ------------hhhhccccCCccEEEccCCCCCCCcch--------------------hhhhcCccCccEEEccCCccc
Q 040109          231 ------------SLLHLNYSKSLEVIDLSNNYLTNSIYP--------------------WLLNVSSNLVDHIDLGSNRLH  278 (598)
Q Consensus       231 ------------~~~~~~~~~~L~~L~Ls~n~l~~~~~~--------------------~l~~~~~~~L~~L~L~~n~l~  278 (598)
                                  .+......++|++|++++|.+ +.+|.                    .+..+++  |++|++++|.++
T Consensus       287 L~~L~l~~~~~~~l~~l~~~~~L~~L~l~~n~l-~~lp~~~l~~L~~L~l~~n~~~~~~~~~~l~~--L~~L~ls~n~l~  363 (606)
T 3vq2_A          287 VSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQL-KQFPTLDLPFLKSLTLTMNKGSISFKKVALPS--LSYLDLSRNALS  363 (606)
T ss_dssp             CSEEEEESCCCCCCCCCCTTCCCSEEEEESCCC-SSCCCCCCSSCCEEEEESCSSCEECCCCCCTT--CCEEECCSSCEE
T ss_pred             CCEEEecCccchhhhhccccccCCEEEcccccC-cccccCCCCccceeeccCCcCccchhhccCCC--CCEEECcCCccC
Confidence                        000000113555666666655 33432                    1223344  666777777766


Q ss_pred             cc--cchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchh-hhhhhcCCCCCCCCCCCEEEccCccc
Q 040109          279 GS--IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELS-EFIQNVSSGSTKNSSLEWLYLASNEI  355 (598)
Q Consensus       279 ~~--~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~-~~l~~l~~g~~~~~~L~~L~Ls~N~l  355 (598)
                      +.  .|..+..+++|++|++++|.++++|..+..+++|+.|++++|++.+..| ..+..++       +|+.|++++|.+
T Consensus       364 ~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~-------~L~~L~l~~n~l  436 (606)
T 3vq2_A          364 FSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLE-------KLLYLDISYTNT  436 (606)
T ss_dssp             EEEECCHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCT-------TCCEEECTTSCC
T ss_pred             CCcchhhhhccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhccc-------cCCEEECcCCCC
Confidence            54  3677778888888888888888777778888888888888888888776 5677766       999999999999


Q ss_pred             cccCCC-CCCCCcCccccccccceEEEEcC-CcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCccc
Q 040109          356 TGTIPN-LGGFPGMLMPLIYFDKITVTWKG-GQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ  433 (598)
Q Consensus       356 ~~~~p~-l~~l~~l~~~~~~~~~~~~~~~~-~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  433 (598)
                      ++..|. +.+++++.......+.+    .+ ..+..++.+++|+.|++++|++++..|..+.++++|++|++++|++++.
T Consensus       437 ~~~~~~~~~~l~~L~~L~l~~n~l----~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~  512 (606)
T 3vq2_A          437 KIDFDGIFLGLTSLNTLKMAGNSF----KDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFL  512 (606)
T ss_dssp             EECCTTTTTTCTTCCEEECTTCEE----GGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCE
T ss_pred             CccchhhhcCCCCCCEEECCCCcC----CCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCc
Confidence            987765 67777777655444433    22 2345667889999999999999999999999999999999999999998


Q ss_pred             CCcccCCCCCCCeeeCCCCccCCCCcccccCCC-CCCEEeCCCCcceecCCCC
Q 040109          434 ITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR-LLSVMDLSYNNFSGKIPKG  485 (598)
Q Consensus       434 ~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~-~L~~L~ls~N~l~~~~p~~  485 (598)
                      +|..+..+++|++|++++|+++ .+|..+..++ +|++|++++|++.+.++..
T Consensus       513 ~~~~~~~l~~L~~L~l~~N~l~-~~p~~~~~l~~~L~~l~l~~N~~~c~c~~~  564 (606)
T 3vq2_A          513 DSSHYNQLYSLSTLDCSFNRIE-TSKGILQHFPKSLAFFNLTNNSVACICEHQ  564 (606)
T ss_dssp             EGGGTTTCTTCCEEECTTSCCC-CEESCGGGSCTTCCEEECCSCCCCCSSTTH
T ss_pred             CHHHccCCCcCCEEECCCCcCc-ccCHhHhhhcccCcEEEccCCCcccCCccH
Confidence            9999999999999999999998 7888899997 5999999999999887764

>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=100.00  E-value=5.6e-39  Score=341.41  Aligned_cols=358  Identities=23%  Similarity=0.213  Sum_probs=299.8

Q ss_pred             CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCC-ccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCE
Q 040109          112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPI-PHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRY  190 (598)
Q Consensus       112 ~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~-p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~  190 (598)
                      ++|++|+|++|.+++. .|..|..+++|++|++++|.+.+.+ +..|.++++|++|++++|.+ ....+..+.++++|++
T Consensus        30 ~~l~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l-~~~~~~~~~~l~~L~~  107 (455)
T 3v47_A           30 AHVNYVDLSLNSIAEL-NETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQF-LQLETGAFNGLANLEV  107 (455)
T ss_dssp             TTCCEEECCSSCCCEE-CTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTT-CEECTTTTTTCTTCCE
T ss_pred             CccCEEEecCCccCcC-ChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCcc-CccChhhccCcccCCE
Confidence            7899999999999975 6889999999999999999998555 56799999999999999997 4445667999999999


Q ss_pred             EEcCCCcCCCCCchhHh--hcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCcc
Q 040109          191 LDLGDCKLSKFSNWFQV--LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD  268 (598)
Q Consensus       191 L~L~~n~l~~~~~~~~~--l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~  268 (598)
                      |++++|.+++.  .+..  +..+++|++|++++|.+++..+..  .+..+++|++|++++|.+++..+..+..+....++
T Consensus       108 L~L~~n~l~~~--~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~--~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~  183 (455)
T 3v47_A          108 LTLTQCNLDGA--VLSGNFFKPLTSLEMLVLRDNNIKKIQPAS--FFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFT  183 (455)
T ss_dssp             EECTTSCCBTH--HHHSSTTTTCTTCCEEECCSSBCCSCCCCG--GGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEE
T ss_pred             EeCCCCCCCcc--ccCcccccCcccCCEEECCCCccCccCccc--ccCCCCcccEEeCCCCcccccChhhhhcccccccc
Confidence            99999999873  2333  889999999999999999887643  12223899999999999999888888887444499


Q ss_pred             EEEccCCccccccchh--------hcCCCCccEEeeccCCCCC-cchhhcC---CCCCcEEEcccCcCccchh-------
Q 040109          269 HIDLGSNRLHGSIPVA--------FGHMASLRYLGLLSNRLRE-VPKFLGN---MSSLKMLVLSYNELRGELS-------  329 (598)
Q Consensus       269 ~L~L~~n~l~~~~p~~--------l~~l~~L~~L~Ls~n~l~~-lp~~l~~---l~~L~~L~Ls~n~l~~~~~-------  329 (598)
                      .|++++|.+.+..+..        +..+++|++|++++|.+++ .|..+..   .++|+.|++++|...+...       
T Consensus       184 ~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~  263 (455)
T 3v47_A          184 LLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKD  263 (455)
T ss_dssp             EEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCC
T ss_pred             ccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhcc
Confidence            9999999998655443        3366899999999999987 6665544   3899999999987654321       


Q ss_pred             ---hhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcC
Q 040109          330 ---EFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKL  406 (598)
Q Consensus       330 ---~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l  406 (598)
                         ..+..+     ..++|+.|++++|.+++.+|.                           .++.+++|++|++++|++
T Consensus       264 ~~~~~~~~~-----~~~~L~~L~l~~n~l~~~~~~---------------------------~~~~l~~L~~L~Ls~n~l  311 (455)
T 3v47_A          264 PDNFTFKGL-----EASGVKTCDLSKSKIFALLKS---------------------------VFSHFTDLEQLTLAQNEI  311 (455)
T ss_dssp             CCTTTTGGG-----TTSCCCEEECCSSCCCEECTT---------------------------TTTTCTTCCEEECTTSCC
T ss_pred             Ccccccccc-----cccCceEEEecCccccccchh---------------------------hcccCCCCCEEECCCCcc
Confidence               111111     225899999999999876553                           345577899999999999


Q ss_pred             CCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCC-
Q 040109          407 GGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-  485 (598)
Q Consensus       407 ~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-  485 (598)
                      ++..|..|..+++|++|++++|++++..|..+..+++|++|+|++|++++..|..+.++++|++|++++|++++..+.. 
T Consensus       312 ~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~  391 (455)
T 3v47_A          312 NKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKSVPDGIF  391 (455)
T ss_dssp             CEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTT
T ss_pred             cccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCCcccccChhhccccccccEEECCCCccccCCHhHh
Confidence            9888999999999999999999999888999999999999999999999888999999999999999999999644433 


Q ss_pred             CccCccCCCccCCCCCCCCCCC
Q 040109          486 TQLQRFGASTYAGNPELCGLPL  507 (598)
Q Consensus       486 ~~~~~l~~~~~~gnp~lC~~~~  507 (598)
                      ..+++++.+++++||+.|+||.
T Consensus       392 ~~l~~L~~L~l~~N~l~~~~~~  413 (455)
T 3v47_A          392 DRLTSLQKIWLHTNPWDCSCPR  413 (455)
T ss_dssp             TTCTTCCEEECCSSCBCCCTTT
T ss_pred             ccCCcccEEEccCCCcccCCCc
Confidence            4678899999999999999983

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=100.00  E-value=1.3e-39  Score=359.77  Aligned_cols=356  Identities=19%  Similarity=0.208  Sum_probs=284.8

Q ss_pred             CCCCceecCccccCCCCCCEEECcCCCCCCCC-----------------cchhcC--CCCCCCEEECCCCCCCCCCcccc
Q 040109           97 VDALKGTINPSLLKLQHLTYLDLSWNNFSGSP-----------------IPEFIG--SLSKLSELALSSAQLAGPIPHQL  157 (598)
Q Consensus        97 ~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~-----------------~p~~l~--~l~~L~~L~Ls~n~l~~~~p~~l  157 (598)
                      .+.++| +|+.++++++|++|+|++|.+++ .                 +|..++  ++++|++|+|++|.+.+.+|..|
T Consensus       192 ~n~l~~-ip~~l~~l~~L~~L~Ls~n~l~~-~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l  269 (636)
T 4eco_A          192 SNNITF-VSKAVMRLTKLRQFYMGNSPFVA-ENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFL  269 (636)
T ss_dssp             SCEEEE-ECGGGGGCTTCCEEEEESCCCCG-GGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTT
T ss_pred             cCCCcc-CCHHHhcccCCCEEECcCCcccc-ccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHH
Confidence            457778 99999999999999999999986 2                 788888  99999999999999999999999


Q ss_pred             CCCCCCCEEEccCCC-CCCC-CCcccccCC------CCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCC
Q 040109          158 GNLSRLQVLDLRFNN-LFSS-GNLDWLSYL------SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIST  229 (598)
Q Consensus       158 ~~l~~L~~L~Ls~n~-l~~~-~~~~~l~~l------~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~  229 (598)
                      +++++|++|++++|+ + .. ..+..+..+      ++|++|++++|.++.+|. ...+..+++|++|++++|.+++..+
T Consensus       270 ~~l~~L~~L~Ls~n~~l-~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~-~~~l~~l~~L~~L~L~~N~l~g~ip  347 (636)
T 4eco_A          270 KALPEMQLINVACNRGI-SGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPV-ETSLQKMKKLGMLECLYNQLEGKLP  347 (636)
T ss_dssp             TTCSSCCEEECTTCTTS-CHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCC-HHHHTTCTTCCEEECCSCCCEEECC
T ss_pred             hcCCCCCEEECcCCCCC-ccccchHHHHhhhccccCCCCCEEECCCCcCCccCc-hhhhccCCCCCEEeCcCCcCccchh
Confidence            999999999999998 5 32 344445554      899999999999986432 1278899999999999999985554


Q ss_pred             ChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCC--CccEEeeccCCCCC-cch
Q 040109          230 PSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMA--SLRYLGLLSNRLRE-VPK  306 (598)
Q Consensus       230 ~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~--~L~~L~Ls~n~l~~-lp~  306 (598)
                       .+...   ++|++|++++|.++ .+|..+..++.. |++|++++|.++ .+|..+..++  +|++|++++|.+++ +|.
T Consensus       348 -~~~~l---~~L~~L~L~~N~l~-~lp~~l~~l~~~-L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~  420 (636)
T 4eco_A          348 -AFGSE---IKLASLNLAYNQIT-EIPANFCGFTEQ-VENLSFAHNKLK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGK  420 (636)
T ss_dssp             -CCEEE---EEESEEECCSSEEE-ECCTTSEEECTT-CCEEECCSSCCS-SCCSCCCTTCSSCEEEEECCSSCTTTTTTC
T ss_pred             -hhCCC---CCCCEEECCCCccc-cccHhhhhhccc-CcEEEccCCcCc-ccchhhhhcccCccCEEECcCCcCCCcchh
Confidence             33333   78899999999888 777777766532 888999999888 7777776654  88999999998887 677


Q ss_pred             hhc-------CCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC-CC--------CCCcCcc
Q 040109          307 FLG-------NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LG--------GFPGMLM  370 (598)
Q Consensus       307 ~l~-------~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~-l~--------~l~~l~~  370 (598)
                      .+.       .+++|++|++++|.+++.++..+..++       +|+.|++++|.++ .+|. ..        +++++..
T Consensus       421 ~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~-------~L~~L~Ls~N~l~-~i~~~~~~~~~~~~~~l~~L~~  492 (636)
T 4eco_A          421 NFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGS-------PLSSINLMGNMLT-EIPKNSLKDENENFKNTYLLTS  492 (636)
T ss_dssp             SSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTC-------CCSEEECCSSCCS-BCCSSSSEETTEECTTGGGCCE
T ss_pred             hhcccccccccCCCCCEEECcCCccCcCCHHHHccCC-------CCCEEECCCCCCC-CcCHHHhccccccccccCCccE
Confidence            676       677889999999988866666666666       8889999998888 5553 11        1224444


Q ss_pred             ccccccceEEEEcCCcccccc--cccccceEeccCCcCCCcCchhhhcccCCcEEEC------cCCcCcccCCcccCCCC
Q 040109          371 PLIYFDKITVTWKGGQYEYKS--ILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNL------SNNNLTGQITPRIGQLK  442 (598)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~--~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~L------s~N~l~~~~p~~l~~l~  442 (598)
                      .....+.+.     .++..+.  .+++|+.|+|++|++++ +|..+.++++|+.|+|      ++|++.+.+|..+..++
T Consensus       493 L~Ls~N~l~-----~lp~~~~~~~l~~L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~  566 (636)
T 4eco_A          493 IDLRFNKLT-----KLSDDFRATTLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCP  566 (636)
T ss_dssp             EECCSSCCC-----BCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCS
T ss_pred             EECcCCcCC-----ccChhhhhccCCCcCEEECCCCCCCC-cChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCC
Confidence            443333332     2333343  78999999999999997 8999999999999999      56888999999999999


Q ss_pred             CCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCccee
Q 040109          443 SLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       443 ~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      +|++|+|++|++ +.+|..+.  ++|+.|++++|++..
T Consensus       567 ~L~~L~Ls~N~l-~~ip~~~~--~~L~~L~Ls~N~l~~  601 (636)
T 4eco_A          567 SLTQLQIGSNDI-RKVNEKIT--PNISVLDIKDNPNIS  601 (636)
T ss_dssp             SCCEEECCSSCC-CBCCSCCC--TTCCEEECCSCTTCE
T ss_pred             CCCEEECCCCcC-CccCHhHh--CcCCEEECcCCCCcc
Confidence            999999999999 68888766  899999999999874

>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=100.00  E-value=3.7e-38  Score=343.94  Aligned_cols=162  Identities=22%  Similarity=0.291  Sum_probs=120.6

Q ss_pred             CCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccc
Q 040109          310 NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEY  389 (598)
Q Consensus       310 ~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~  389 (598)
                      .+++|++|++++|.+++..|..+..++       +|+.|++++|++++.                         +..+..
T Consensus       351 ~l~~L~~L~l~~n~l~~~~~~~~~~l~-------~L~~L~L~~N~l~~~-------------------------~~~~~~  398 (562)
T 3a79_B          351 SPSSFTFLNFTQNVFTDSVFQGCSTLK-------RLQTLILQRNGLKNF-------------------------FKVALM  398 (562)
T ss_dssp             SCCCCCEEECCSSCCCTTTTTTCCSCS-------SCCEEECCSSCCCBT-------------------------THHHHT
T ss_pred             CCCCceEEECCCCccccchhhhhcccC-------CCCEEECCCCCcCCc-------------------------ccchhh
Confidence            445555555555555554454444444       555555555555421                         011233


Q ss_pred             cccccccceEeccCCcCCCcCch-hhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCC
Q 040109          390 KSILGLIKIIDLSSNKLGGEVPE-EIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLL  468 (598)
Q Consensus       390 ~~~l~~L~~L~Ls~n~l~~~~p~-~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L  468 (598)
                      +..+++|+.|++++|++++.+|. .+..+++|++|++++|++++.+|..+.  ++|++|++++|+++ .+|..+.++++|
T Consensus       399 ~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N~l~-~ip~~~~~l~~L  475 (562)
T 3a79_B          399 TKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNNRIM-SIPKDVTHLQAL  475 (562)
T ss_dssp             TTTCTTCCEEECTTSCCBSCCSSCCCCCCTTCCEEECCSSCCCGGGGSSCC--TTCSEEECCSSCCC-CCCTTTTSSCCC
T ss_pred             hcCCCCCCEEECCCCcCCCccChhhhcCcccCCEEECCCCCCCcchhhhhc--CcCCEEECCCCcCc-ccChhhcCCCCC
Confidence            56678999999999999975665 478899999999999999988877665  78999999999998 788777799999


Q ss_pred             CEEeCCCCcceecCCCC--CccCccCCCccCCCCCCCCCCC
Q 040109          469 SVMDLSYNNFSGKIPKG--TQLQRFGASTYAGNPELCGLPL  507 (598)
Q Consensus       469 ~~L~ls~N~l~~~~p~~--~~~~~l~~~~~~gnp~lC~~~~  507 (598)
                      ++|++++|+++ .+|..  ..++++..+.+++||+.|+|+.
T Consensus       476 ~~L~L~~N~l~-~l~~~~~~~l~~L~~L~l~~N~~~c~c~~  515 (562)
T 3a79_B          476 QELNVASNQLK-SVPDGVFDRLTSLQYIWLHDNPWDCTCPG  515 (562)
T ss_dssp             SEEECCSSCCC-CCCTTSTTTCTTCCCEECCSCCBCCCHHH
T ss_pred             CEEECCCCCCC-CCCHHHHhcCCCCCEEEecCCCcCCCcch
Confidence            99999999998 56764  5678888899999999998864

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

Probab=100.00  E-value=7.4e-39  Score=365.28  Aligned_cols=412  Identities=21%  Similarity=0.236  Sum_probs=291.4

Q ss_pred             CcEEEEEcCCCCCCCCCCCceec-CccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccc--cC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTI-NPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQ--LG  158 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l-~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~--l~  158 (598)
                      ..++.|++++      +...+.+ |.+|.++++|++|+|++|.+++. .|..|+.+++|++|+|++|.+++.+|..  |+
T Consensus        48 ~~L~~LdLs~------n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~-~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~  120 (844)
T 3j0a_A           48 EQLQLLELGS------QYTPLTIDKEAFRNLPNLRILDLGSSKIYFL-HPDAFQGLFHLFELRLYFCGLSDAVLKDGYFR  120 (844)
T ss_dssp             CSCSEEEECT------TCCCCEECTTTTSSCTTCCEEECTTCCCCEE-CTTSSCSCSSCCCEECTTCCCSSCCSTTCCCS
T ss_pred             ccCeEEeCCC------CCCccccCHHHhcCCCCCCEEECCCCcCccc-CHhHccCCcccCEeeCcCCCCCcccccCcccc
Confidence            4578888887      5566667 66789999999999999999875 7888999999999999999998766655  88


Q ss_pred             CCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCC--C------------------------
Q 040109          159 NLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNL--R------------------------  212 (598)
Q Consensus       159 ~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l--~------------------------  212 (598)
                      ++++|++|++++|.+........++++++|++|++++|.+++...  ..+..+  +                        
T Consensus       121 ~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~--~~l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~  198 (844)
T 3j0a_A          121 NLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCE--HELEPLQGKTLSFFSLAANSLYSRVSVDWGKCM  198 (844)
T ss_dssp             SCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCS--GGGHHHHHCSSCCCEECCSBSCCCCCCCCCSSS
T ss_pred             ccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCH--HHcccccCCccceEECCCCccccccccchhhcC
Confidence            999999999999988544444578899999999999998876421  222211  2                        


Q ss_pred             ------CCcEEeccCcCCCCCCCChhhhc----------------------------------c-ccCCccEEEccCCCC
Q 040109          213 ------SLTTLYLGHCDLPPISTPSLLHL----------------------------------N-YSKSLEVIDLSNNYL  251 (598)
Q Consensus       213 ------~L~~L~l~~n~l~~~~~~~~~~~----------------------------------~-~~~~L~~L~Ls~n~l  251 (598)
                            +|+.|++++|.+.+..+..+...                                  . ..++|+.|++++|.+
T Consensus       199 ~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l  278 (844)
T 3j0a_A          199 NPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFV  278 (844)
T ss_dssp             CTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCC
T ss_pred             CccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCChhhhhccccCCccEEECCCCcc
Confidence                  26667777665544333211100                                  0 015678888888888


Q ss_pred             CCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcCccchhh
Q 040109          252 TNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSE  330 (598)
Q Consensus       252 ~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~~  330 (598)
                      .+..+..+..++.  |+.|++++|.+++..|..|..+++|++|++++|.+++ .|..+..+++|+.|++++|.+.+..+.
T Consensus       279 ~~~~~~~~~~l~~--L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~  356 (844)
T 3j0a_A          279 FSLNSRVFETLKD--LKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQ  356 (844)
T ss_dssp             CEECSCCSSSCCC--CCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCCCSCSCSSCTTCCEEECCSCCCCCCCSS
T ss_pred             cccChhhhhcCCC--CCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCccCHHHhcCCCCCCEEECCCCCCCccChh
Confidence            7766777777777  8888888888877777777778888888888888777 356777777777888877777776666


Q ss_pred             hhhhcCCCCCCCCCCCEEEccCcccccc------------------CCC-----------------------CCCCCcCc
Q 040109          331 FIQNVSSGSTKNSSLEWLYLASNEITGT------------------IPN-----------------------LGGFPGML  369 (598)
Q Consensus       331 ~l~~l~~g~~~~~~L~~L~Ls~N~l~~~------------------~p~-----------------------l~~l~~l~  369 (598)
                      .+..++       +|+.|++++|.+++.                  +|.                       +.+++++.
T Consensus       357 ~~~~l~-------~L~~L~Ls~N~l~~i~~~~~L~~L~l~~N~l~~l~~~~~~l~~L~ls~N~l~~l~~~~~~~~l~~L~  429 (844)
T 3j0a_A          357 TFKFLE-------KLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQ  429 (844)
T ss_dssp             CSCSCC-------CCCEEEEETCCSCCCSSCCSCSEEEEESCCCCCCCCCCTTCCEEECCSCCCCSSTTHHHHTTCTTCC
T ss_pred             hhcCCC-------CCCEEECCCCCCCcccCCCCcchhccCCCCcccccccccccceeecccCccccCchhhhhhcCCccc
Confidence            665555       444444444443321                  111                       01233333


Q ss_pred             ccc-------------------------ccccceEEEE-cCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEE
Q 040109          370 MPL-------------------------IYFDKITVTW-KGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL  423 (598)
Q Consensus       370 ~~~-------------------------~~~~~~~~~~-~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L  423 (598)
                      ...                         ...+.+...+ .+..+..+..+++|+.|+|++|++++..|..|..+++|+.|
T Consensus       430 ~L~Ls~N~l~~~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L  509 (844)
T 3j0a_A          430 ILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGL  509 (844)
T ss_dssp             EEEEESCCCCCCCSSSSSCSCTTCCBCEEESCCCSSSCCSCCCSSCSSCBCCEECCCCCHHHHTTCCTTSSSSCCSCSEE
T ss_pred             eeeCCCCcccccccccccccCCccccccCCCCccccccccccchhhhcCcccccEEECCCCcccccChhHccchhhhhee
Confidence            221                         1111111000 12223446678999999999999999889899999999999


Q ss_pred             ECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCC
Q 040109          424 NLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELC  503 (598)
Q Consensus       424 ~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC  503 (598)
                      +|++|++++..|..+.  ++|+.|+|++|++++..|+.+   ++|+.|++++|++.|.++.......+    ..++..+|
T Consensus       510 ~Ls~N~l~~l~~~~~~--~~L~~L~Ls~N~l~~~~~~~~---~~L~~l~l~~Np~~C~c~~~~f~~~~----~~~~~~~~  580 (844)
T 3j0a_A          510 SLNSNRLTVLSHNDLP--ANLEILDISRNQLLAPNPDVF---VSLSVLDITHNKFICECELSTFINWL----NHTNVTIA  580 (844)
T ss_dssp             EEESCCCSSCCCCCCC--SCCCEEEEEEECCCCCCSCCC---SSCCEEEEEEECCCCSSSCCSHHHHH----HHTTTTTC
T ss_pred             ECCCCCCCccChhhhh--ccccEEECCCCcCCCCChhHh---CCcCEEEecCCCcccccccHHHHHHH----HhcCcccc
Confidence            9999999977666665  899999999999999998775   47999999999999888754332222    23466778


Q ss_pred             CCCCCCCCCCCCCCCCC
Q 040109          504 GLPLPNKCLDEESAPSP  520 (598)
Q Consensus       504 ~~~~~~~c~~~~~~~~~  520 (598)
                      +.+....|..|....+.
T Consensus       581 ~~~~~~~C~~p~~~~g~  597 (844)
T 3j0a_A          581 GPPADIYCVYPDSFSGV  597 (844)
T ss_dssp             CCGGGCCCSSCSSSCSC
T ss_pred             cccccCccCCchhhCCC
Confidence            87777889887776544

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

Probab=100.00  E-value=1.7e-38  Score=347.66  Aligned_cols=381  Identities=20%  Similarity=0.217  Sum_probs=310.7

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      ..++.|++++      +.+++..+..|.++++|++|++++|.++.. .|..|+.+++|++|++++|.+++..+..+++++
T Consensus        52 ~~L~~L~Ls~------n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~  124 (570)
T 2z63_A           52 PELQVLDLSR------CEIQTIEDGAYQSLSHLSTLILTGNPIQSL-ALGAFSGLSSLQKLVAVETNLASLENFPIGHLK  124 (570)
T ss_dssp             SSCCEEECTT------CCCCEECTTTTTTCTTCCEEECTTCCCCEE-CTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCT
T ss_pred             CCceEEECCC------CcCCccCcccccCchhCCEEeCcCCcCCcc-CHhhhcCccccccccccccccccCCCccccccc
Confidence            4688999998      788887778899999999999999999874 568899999999999999999976666799999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCC----cEEeccCcCCCCCCCChhh----
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL----TTLYLGHCDLPPISTPSLL----  233 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L----~~L~l~~n~l~~~~~~~~~----  233 (598)
                      +|++|++++|.+.....+..+.++++|++|++++|.+++++  +..+..+++|    +.+++++|.+.+..+..+.    
T Consensus       125 ~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~~~~~L~l~~n~l~~~~~~~~~~~~L  202 (570)
T 2z63_A          125 TLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIY--CTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRL  202 (570)
T ss_dssp             TCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEEC--GGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEE
T ss_pred             cccEEecCCCccceecChhhhcccCCCCEEeCcCCccceec--HHHccchhccchhhhhcccCCCCceecCHHHhccCcc
Confidence            99999999999844345677999999999999999998763  3556666666    7788888877655432221    


Q ss_pred             --------------------------------------------------------------------------hccccC
Q 040109          234 --------------------------------------------------------------------------HLNYSK  239 (598)
Q Consensus       234 --------------------------------------------------------------------------~~~~~~  239 (598)
                                                                                                ....++
T Consensus       203 ~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~~~~~~l~  282 (570)
T 2z63_A          203 HKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLT  282 (570)
T ss_dssp             EEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEEESCSTTTTGGGT
T ss_pred             eeEecccccccccchhhhhcCccccceeeeccccccCchhhhhcchhhhccccccchhhhhhhcchhhhhhchhhhcCcC
Confidence                                                                                      011237


Q ss_pred             CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchh-h-------------------cCCCCccEEeeccC
Q 040109          240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVA-F-------------------GHMASLRYLGLLSN  299 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~-l-------------------~~l~~L~~L~Ls~n  299 (598)
                      +|+.|++++|.++ .+|..+... .  |++|++++|.+. .+|.. +                   ..+++|++|++++|
T Consensus       283 ~L~~L~l~~~~l~-~l~~~~~~~-~--L~~L~l~~n~~~-~l~~~~l~~L~~L~l~~n~~~~~~~~~~~~~L~~L~l~~n  357 (570)
T 2z63_A          283 NVSSFSLVSVTIE-RVKDFSYNF-G--WQHLELVNCKFG-QFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRN  357 (570)
T ss_dssp             TCSEEEEESCEEC-SCCBCCSCC-C--CSEEEEESCBCS-SCCBCBCSSCCEEEEESCBSCCBCCCCBCTTCCEEECCSS
T ss_pred             cccEEEecCccch-hhhhhhccC-C--ccEEeeccCccc-ccCcccccccCEEeCcCCccccccccccCCCCCEEeCcCC
Confidence            8999999999887 567666665 5  777777777665 23221 1                   56788999999999


Q ss_pred             CCCCc---chhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCC--CCCCCCcCcccccc
Q 040109          300 RLREV---PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP--NLGGFPGMLMPLIY  374 (598)
Q Consensus       300 ~l~~l---p~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p--~l~~l~~l~~~~~~  374 (598)
                      .++.+   |..+..+++|++|++++|.+.+..+. +..++       +|+.|++++|.+++..|  .+.+++++......
T Consensus       358 ~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~-~~~l~-------~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~  429 (570)
T 2z63_A          358 GLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN-FLGLE-------QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS  429 (570)
T ss_dssp             CCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEE-EETCT-------TCCEEECTTSEEESCTTSCTTTTCTTCCEEECT
T ss_pred             ccCccccccccccccCccCEEECCCCcccccccc-ccccC-------CCCEEEccCCccccccchhhhhcCCCCCEEeCc
Confidence            99874   67899999999999999999887666 77777       89999999999998766  46777777766554


Q ss_pred             ccceEEEEcCCcccccccccccceEeccCCcCC-CcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCc
Q 040109          375 FDKITVTWKGGQYEYKSILGLIKIIDLSSNKLG-GEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINH  453 (598)
Q Consensus       375 ~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~  453 (598)
                      .+.+.    +..+..+..+++|++|++++|.++ +.+|..+..+++|++|++++|++++..|..+..+++|++|++++|+
T Consensus       430 ~n~l~----~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  505 (570)
T 2z63_A          430 HTHTR----VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQ  505 (570)
T ss_dssp             TSCCE----ECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CCccc----ccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCCCc
Confidence            44432    223445677899999999999997 5789999999999999999999998889999999999999999999


Q ss_pred             cCCCCcccccCCCCCCEEeCCCCcceecCCCCCcc
Q 040109          454 FFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQL  488 (598)
Q Consensus       454 l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~  488 (598)
                      +++..|..+.++++|++|++++|+++|.+|....+
T Consensus       506 l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~  540 (570)
T 2z63_A          506 LKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYL  540 (570)
T ss_dssp             CSCCCTTTTTTCTTCCEEECCSSCBCCCTTTTHHH
T ss_pred             CCCCCHHHhhcccCCcEEEecCCcccCCCcchHHH
Confidence            99888888999999999999999999999976444

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

Probab=100.00  E-value=1.2e-38  Score=358.08  Aligned_cols=381  Identities=18%  Similarity=0.191  Sum_probs=287.6

Q ss_pred             CCCceecCccccCCCCCCEEECcCCCCCCC----------------CcchhcC--CCCCCCEEECCCCCCCCCCccccCC
Q 040109           98 DALKGTINPSLLKLQHLTYLDLSWNNFSGS----------------PIPEFIG--SLSKLSELALSSAQLAGPIPHQLGN  159 (598)
Q Consensus        98 ~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~----------------~~p~~l~--~l~~L~~L~Ls~n~l~~~~p~~l~~  159 (598)
                      +.++| +|+.|+++++|++|+|++|.+++.                .+|..++  ++++|++|+|++|.+.+.+|..|++
T Consensus       435 N~L~~-IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~  513 (876)
T 4ecn_A          435 NRITF-ISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYD  513 (876)
T ss_dssp             CEEEE-ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGG
T ss_pred             Ccccc-hhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhC
Confidence            56666 888899999999999999998861                1788877  8999999999999988899999999


Q ss_pred             CCCCCEEEccCCC-CCCC-CCccc-------ccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCC
Q 040109          160 LSRLQVLDLRFNN-LFSS-GNLDW-------LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTP  230 (598)
Q Consensus       160 l~~L~~L~Ls~n~-l~~~-~~~~~-------l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~  230 (598)
                      +++|++|++++|+ + .. ..+..       +..+++|++|++++|.++.+|. ...+..+++|+.|++++|.++..+  
T Consensus       514 L~~L~~L~Ls~N~~l-sg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~-~~~l~~L~~L~~L~Ls~N~l~~lp--  589 (876)
T 4ecn_A          514 LPELQSLNIACNRGI-SAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPA-SASLQKMVKLGLLDCVHNKVRHLE--  589 (876)
T ss_dssp             CSSCCEEECTTCTTS-CHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCC-HHHHTTCTTCCEEECTTSCCCBCC--
T ss_pred             CCCCCEEECcCCCCc-ccccchHHHHhhhhcccccCCccEEEeeCCcCCccCC-hhhhhcCCCCCEEECCCCCcccch--
Confidence            9999999999997 5 22 23332       3455699999999998886432 127888999999999999888443  


Q ss_pred             hhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCC--ccEEeeccCCCCC-cch-
Q 040109          231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMAS--LRYLGLLSNRLRE-VPK-  306 (598)
Q Consensus       231 ~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~--L~~L~Ls~n~l~~-lp~-  306 (598)
                      .+...   ++|+.|++++|.++ .+|..+..++.. |+.|++++|.++ .+|..+..++.  |+.|++++|++.+ +|. 
T Consensus       590 ~~~~L---~~L~~L~Ls~N~l~-~lp~~l~~l~~~-L~~L~Ls~N~L~-~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l  663 (876)
T 4ecn_A          590 AFGTN---VKLTDLKLDYNQIE-EIPEDFCAFTDQ-VEGLGFSHNKLK-YIPNIFNAKSVYVMGSVDFSYNKIGSEGRNI  663 (876)
T ss_dssp             CCCTT---SEESEEECCSSCCS-CCCTTSCEECTT-CCEEECCSSCCC-SCCSCCCTTCSSCEEEEECCSSCTTTTSSSC
T ss_pred             hhcCC---CcceEEECcCCccc-cchHHHhhcccc-CCEEECcCCCCC-cCchhhhccccCCCCEEECcCCcCCCccccc
Confidence            23322   88999999999988 778777776532 888999999988 77877776654  8999999998877 332 


Q ss_pred             --hhc--CCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC-CC--------CCCcCccccc
Q 040109          307 --FLG--NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LG--------GFPGMLMPLI  373 (598)
Q Consensus       307 --~l~--~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~-l~--------~l~~l~~~~~  373 (598)
                        .+.  .+++|+.|++++|.+...++..+..++       +|+.|+|++|.++ .+|. +.        ++++|..+..
T Consensus       664 ~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~-------~L~~L~Ls~N~L~-~ip~~~~~~~~~~l~nl~~L~~L~L  735 (876)
T 4ecn_A          664 SCSMDDYKGINASTVTLSYNEIQKFPTELFATGS-------PISTIILSNNLMT-SIPENSLKPKDGNYKNTYLLTTIDL  735 (876)
T ss_dssp             SSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTC-------CCSEEECCSCCCS-CCCTTSSSCTTSCCTTGGGCCEEEC
T ss_pred             hhhhccccCCCcCEEEccCCcCCccCHHHHccCC-------CCCEEECCCCcCC-ccChHHhccccccccccCCccEEEC
Confidence              222  345888999999998865555555666       8999999999888 4443 22        2235555444


Q ss_pred             cccceEEEEcCCcccccc--cccccceEeccCCcCCCcCchhhhcccCCcEEECcC------CcCcccCCcccCCCCCCC
Q 040109          374 YFDKITVTWKGGQYEYKS--ILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSN------NNLTGQITPRIGQLKSLD  445 (598)
Q Consensus       374 ~~~~~~~~~~~~~~~~~~--~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~------N~l~~~~p~~l~~l~~L~  445 (598)
                      ..+.+.     .++..+.  .+++|+.|+|++|++++ +|..+..+++|+.|+|++      |++.+.+|..+.++++|+
T Consensus       736 s~N~L~-----~lp~~l~~~~l~~L~~L~Ls~N~L~~-lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~  809 (876)
T 4ecn_A          736 RFNKLT-----SLSDDFRATTLPYLSNMDVSYNCFSS-FPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLI  809 (876)
T ss_dssp             CSSCCC-----CCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCC
T ss_pred             CCCCCc-----cchHHhhhccCCCcCEEEeCCCCCCc-cchhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCC
Confidence            444432     2334444  78999999999999996 899999999999999977      888999999999999999


Q ss_pred             eeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCC-ccCccCCCccCCCCCCC--CCC
Q 040109          446 FLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGT-QLQRFGASTYAGNPELC--GLP  506 (598)
Q Consensus       446 ~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~-~~~~l~~~~~~gnp~lC--~~~  506 (598)
                      .|+|++|++ +.+|..+.  ++|+.|+|++|++...-+... .........+.+|+..+  ||+
T Consensus       810 ~L~Ls~N~L-~~Ip~~l~--~~L~~LdLs~N~l~~i~~~~~~~~~~~~~~~L~~n~~~~I~gC~  870 (876)
T 4ecn_A          810 QLQIGSNDI-RKVDEKLT--PQLYILDIADNPNISIDVTSVCPYIEAGMYVLLYDKTQDIRGCD  870 (876)
T ss_dssp             EEECCSSCC-CBCCSCCC--SSSCEEECCSCTTCEEECGGGHHHHHTTCCEEECCTTSEEESCG
T ss_pred             EEECCCCCC-CccCHhhc--CCCCEEECCCCCCCccChHHccccccchheeecCCCccccCCCC
Confidence            999999999 78998765  699999999999974333221 12233455566776654  665

>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=100.00  E-value=1.4e-37  Score=336.47  Aligned_cols=349  Identities=20%  Similarity=0.216  Sum_probs=257.8

Q ss_pred             CCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCC-CCccccCC
Q 040109           81 TGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG-PIPHQLGN  159 (598)
Q Consensus        81 ~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~-~~p~~l~~  159 (598)
                      -.+++.|++++      +.+++..|..|.++++|++|+|++|.++.  +|..  .+++|++|++++|.+++ .+|..|++
T Consensus        44 l~~L~~L~Ls~------n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~--lp~~--~l~~L~~L~L~~N~l~~~~~p~~~~~  113 (520)
T 2z7x_B           44 LSKLRILIISH------NRIQYLDISVFKFNQELEYLDLSHNKLVK--ISCH--PTVNLKHLDLSFNAFDALPICKEFGN  113 (520)
T ss_dssp             CTTCCEEECCS------SCCCEEEGGGGTTCTTCCEEECCSSCCCE--EECC--CCCCCSEEECCSSCCSSCCCCGGGGG
T ss_pred             cccccEEecCC------CccCCcChHHhhcccCCCEEecCCCceee--cCcc--ccCCccEEeccCCccccccchhhhcc
Confidence            35789999998      88998889999999999999999999983  7776  79999999999999997 57899999


Q ss_pred             CCCCCEEEccCCCCCCCCCcccccCCCCC--CEEEcCCCcC--CCCCchhHhhcC-------------------------
Q 040109          160 LSRLQVLDLRFNNLFSSGNLDWLSYLSSL--RYLDLGDCKL--SKFSNWFQVLSN-------------------------  210 (598)
Q Consensus       160 l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L--~~L~L~~n~l--~~~~~~~~~l~~-------------------------  210 (598)
                      +++|++|++++|.+..    ..+..+++|  ++|++++|.+  .+.  .+..+..                         
T Consensus       114 l~~L~~L~L~~n~l~~----~~~~~l~~L~L~~L~l~~n~l~~~~~--~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~  187 (520)
T 2z7x_B          114 MSQLKFLGLSTTHLEK----SSVLPIAHLNISKVLLVLGETYGEKE--DPEGLQDFNTESLHIVFPTNKEFHFILDVSVK  187 (520)
T ss_dssp             CTTCCEEEEEESSCCG----GGGGGGTTSCEEEEEEEECTTTTSSC--CTTTTTTCCEEEEEEECCSSSCCCCCCCCCCT
T ss_pred             CCcceEEEecCcccch----hhccccccceeeEEEeeccccccccc--ccccccccccceEEEEeccCcchhhhhhhhhh
Confidence            9999999999999732    347778888  9999999988  332  2222222                         


Q ss_pred             -CCCCcEEeccCcC------------------------------CCCCCCChhhhccccCCccEEEccCCCCCCCcchhh
Q 040109          211 -LRSLTTLYLGHCD------------------------------LPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWL  259 (598)
Q Consensus       211 -l~~L~~L~l~~n~------------------------------l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l  259 (598)
                       +++|+.+++++|.                              +.+............++|++|++++|.+++.+|..+
T Consensus       188 ~l~~L~~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~p~~~  267 (520)
T 2z7x_B          188 TVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRD  267 (520)
T ss_dssp             TCSEEEECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEEEEEEEEEHHHHHHHHHHHHTSSCSEEEEEEEEEESCCCCCC
T ss_pred             cccceeeccccccccccccceeecchhhhccccchhhccccccccCHHHHHHHHHHhhhCcccEEEeecccccCccccch
Confidence             3344444444432                              111000000000001356666666666665555554


Q ss_pred             -----hhcCc------------------------cCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhc
Q 040109          260 -----LNVSS------------------------NLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLG  309 (598)
Q Consensus       260 -----~~~~~------------------------~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~  309 (598)
                           ..++.                        ..++.|++++|.+....  .+..+++|++|++++|++++ +|..+.
T Consensus       268 ~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~--~~~~l~~L~~L~Ls~n~l~~~~~~~~~  345 (520)
T 2z7x_B          268 FDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHML--CPSKISPFLHLDFSNNLLTDTVFENCG  345 (520)
T ss_dssp             CCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESSCCCCCC--CCSSCCCCCEEECCSSCCCTTTTTTCC
T ss_pred             hhcccccCceeEeccccccceecchhhhhcccccCceeEEEcCCCcccccc--chhhCCcccEEEeECCccChhhhhhhc
Confidence                 34443                        01555555555544221  12567788888888888887 777788


Q ss_pred             CCCCCcEEEcccCcCcc--chhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcc
Q 040109          310 NMSSLKMLVLSYNELRG--ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQY  387 (598)
Q Consensus       310 ~l~~L~~L~Ls~n~l~~--~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~  387 (598)
                      .+++|++|++++|++.+  ..|..+..++       +|++|++++|.+++.+|.                          
T Consensus       346 ~l~~L~~L~L~~N~l~~l~~~~~~~~~l~-------~L~~L~Ls~N~l~~~l~~--------------------------  392 (520)
T 2z7x_B          346 HLTELETLILQMNQLKELSKIAEMTTQMK-------SLQQLDISQNSVSYDEKK--------------------------  392 (520)
T ss_dssp             CCSSCCEEECCSSCCCBHHHHHHHHTTCT-------TCCEEECCSSCCBCCGGG--------------------------
T ss_pred             cCCCCCEEEccCCccCccccchHHHhhCC-------CCCEEECCCCcCCccccc--------------------------
Confidence            88888888888888886  4556777777       788888888888764442                          


Q ss_pred             cccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCccc-ccCCC
Q 040109          388 EYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSS-LSRLR  466 (598)
Q Consensus       388 ~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~  466 (598)
                      ..+..+++|+.|++++|++++.+|..+.  ++|+.|++++|+++ .+|..+..+++|++|++++|+++ .+|.. +..++
T Consensus       393 ~~~~~l~~L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~l~-~ip~~~~~l~~L~~L~L~~N~l~-~l~~~~~~~l~  468 (520)
T 2z7x_B          393 GDCSWTKSLLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLK-SVPDGIFDRLT  468 (520)
T ss_dssp             CSCCCCTTCCEEECCSSCCCGGGGGSCC--TTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCC-CCCTTTTTTCT
T ss_pred             chhccCccCCEEECcCCCCCcchhhhhc--ccCCEEECCCCccc-ccchhhhcCCCCCEEECCCCcCC-ccCHHHhccCC
Confidence            1234567899999999999988887664  79999999999999 88988889999999999999998 56654 89999


Q ss_pred             CCCEEeCCCCcceecCCC
Q 040109          467 LLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       467 ~L~~L~ls~N~l~~~~p~  484 (598)
                      +|++|++++|+++|.++.
T Consensus       469 ~L~~L~l~~N~~~c~c~~  486 (520)
T 2z7x_B          469 SLQKIWLHTNPWDCSCPR  486 (520)
T ss_dssp             TCCEEECCSSCBCCCHHH
T ss_pred             cccEEECcCCCCcccCCc
Confidence            999999999999987664

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

Probab=100.00  E-value=3.8e-37  Score=344.02  Aligned_cols=383  Identities=21%  Similarity=0.263  Sum_probs=296.2

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCccccCCCC--CCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCC
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLLKLQH--LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNL  160 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~--L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l  160 (598)
                      .++.+++++      +.+.+..|..+..++.  |++|++++|.+++. .|..++.+++|++|++++|.+++..|..|.++
T Consensus       223 ~L~~L~L~~------n~l~~~~~~~~~~l~~~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l  295 (680)
T 1ziw_A          223 SIRNLSLSN------SQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVV-GNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGL  295 (680)
T ss_dssp             CCCEEECTT------SCCCEECTTTTGGGGGSCCCEEECTTSCCCEE-CTTTTTTCTTCCEEECCSCCBSEECTTTTTTC
T ss_pred             cccEEEccC------CcccccChhHhhccCcCCCCEEECCCCCcCcc-CcccccCcccccEeeCCCCccCccChhhhcCC
Confidence            456677776      7788888888888765  99999999999875 67789999999999999999998888899999


Q ss_pred             CCCCEEEccCCCCCCC----CC----cccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCC--CCC
Q 040109          161 SRLQVLDLRFNNLFSS----GN----LDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPI--STP  230 (598)
Q Consensus       161 ~~L~~L~Ls~n~l~~~----~~----~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~--~~~  230 (598)
                      ++|++|++++|.....    ..    ...+..+++|++|++++|.+.+++  +..+..+++|++|++++|.+...  ...
T Consensus       296 ~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~Ls~n~~~~~~l~~~  373 (680)
T 1ziw_A          296 FNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIK--SNMFTGLINLKYLSLSNSFTSLRTLTNE  373 (680)
T ss_dssp             TTCCEEECTTCBCCC------CCEECTTTTTTCTTCCEEECCSCCBCCCC--TTTTTTCTTCCEEECTTCBSCCCEECTT
T ss_pred             CCccEEeccchhhhcccccccccccChhhcccCCCCCEEECCCCccCCCC--hhHhccccCCcEEECCCCchhhhhcchh
Confidence            9999999988754210    11    125778899999999999998864  36788899999999998875432  222


Q ss_pred             hhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccc-hhhcCCCCccEEeeccCCCCC-cchhh
Q 040109          231 SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP-VAFGHMASLRYLGLLSNRLRE-VPKFL  308 (598)
Q Consensus       231 ~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~Ls~n~l~~-lp~~l  308 (598)
                      .+..... ++|+.|++++|.+++..|..+..+++  |+.|++++|.+++.+| ..+..+++|++|++++|++.+ .+..+
T Consensus       374 ~f~~~~~-~~L~~L~L~~n~l~~~~~~~~~~l~~--L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~  450 (680)
T 1ziw_A          374 TFVSLAH-SPLHILNLTKNKISKIESDAFSWLGH--LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSF  450 (680)
T ss_dssp             TTGGGTT-SCCCEEECTTSCCCEECTTTTTTCTT--CCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTT
T ss_pred             hhccccc-CcCceEECCCCCCCeEChhhhhCCCC--CCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhh
Confidence            2333322 57888888888888777778888888  8888888888877655 577888888888888888776 44567


Q ss_pred             cCCCCCcEEEcccCcCc--cchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC-CCCCCcCccccccccceEEEEc--
Q 040109          309 GNMSSLKMLVLSYNELR--GELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN-LGGFPGMLMPLIYFDKITVTWK--  383 (598)
Q Consensus       309 ~~l~~L~~L~Ls~n~l~--~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~-l~~l~~l~~~~~~~~~~~~~~~--  383 (598)
                      ..+++|+.|++++|.+.  +..|..+..++       +|+.|++++|++++..|. +.+++++.......+.+.....  
T Consensus       451 ~~~~~L~~L~l~~n~l~~~~~~p~~~~~l~-------~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~  523 (680)
T 1ziw_A          451 ALVPSLQRLMLRRVALKNVDSSPSPFQPLR-------NLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHA  523 (680)
T ss_dssp             TTCTTCCEEECTTSCCBCTTCSSCTTTTCT-------TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTT
T ss_pred             hcCcccccchhccccccccccCCcccccCC-------CCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhh
Confidence            77788888888888775  45666666666       788888888888765554 5666666654433333221111  


Q ss_pred             --CCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCccc
Q 040109          384 --GGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSS  461 (598)
Q Consensus       384 --~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~  461 (598)
                        +.....+..+++|+.|+|++|+++...+..|.++++|+.|++++|++++..+..|..+++|++|++++|++++..|..
T Consensus       524 ~~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~  603 (680)
T 1ziw_A          524 NPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKV  603 (680)
T ss_dssp             STTSCCCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCCCBCCHHH
T ss_pred             ccCCcchhhcCCCCCCEEECCCCCCCCCCHHHcccccCcceeECCCCCCCcCCHhHhCCCCCCCEEECCCCcCCccChhH
Confidence              112234677899999999999999555567999999999999999999777777899999999999999999888888


Q ss_pred             cc-CCCCCCEEeCCCCcceecCCC
Q 040109          462 LS-RLRLLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       462 l~-~l~~L~~L~ls~N~l~~~~p~  484 (598)
                      +. .+++|+.|++++|++.+.++.
T Consensus       604 ~~~~~~~L~~l~l~~N~~~c~c~~  627 (680)
T 1ziw_A          604 FGPAFRNLTELDMRFNPFDCTCES  627 (680)
T ss_dssp             HHHHHTTCSEEECTTCCCCBCCCC
T ss_pred             hcccccccCEEEccCCCcccCCcc
Confidence            87 789999999999999998875

>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=100.00  E-value=2.9e-37  Score=330.17  Aligned_cols=335  Identities=20%  Similarity=0.185  Sum_probs=227.4

Q ss_pred             ecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccc
Q 040109          103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL  182 (598)
Q Consensus       103 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l  182 (598)
                      .+|..+.  +++++|+|++|.+++. .+..|..+++|++|+|++|.+++..|..|.++++|++|+|++|.+ .......|
T Consensus        25 ~ip~~~~--~~l~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~  100 (477)
T 2id5_A           25 AVPEGIP--TETRLLDLGKNRIKTL-NQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRL-KLIPLGVF  100 (477)
T ss_dssp             SCCSCCC--TTCSEEECCSSCCCEE-CTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC-CSCCTTSS
T ss_pred             cCCCCCC--CCCcEEECCCCccceE-CHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcC-CccCcccc
Confidence            4565543  5889999999999875 577889999999999999999988888999999999999999987 44444567


Q ss_pred             cCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhc
Q 040109          183 SYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV  262 (598)
Q Consensus       183 ~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  262 (598)
                      .++++|++|++++|.+..++  +..+..+++|++|++++|.+.+..+..+...   ++|++|++++|.+++..+..+..+
T Consensus       101 ~~l~~L~~L~Ls~n~i~~~~--~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l---~~L~~L~l~~n~l~~~~~~~l~~l  175 (477)
T 2id5_A          101 TGLSNLTKLDISENKIVILL--DYMFQDLYNLKSLEVGDNDLVYISHRAFSGL---NSLEQLTLEKCNLTSIPTEALSHL  175 (477)
T ss_dssp             TTCTTCCEEECTTSCCCEEC--TTTTTTCTTCCEEEECCTTCCEECTTSSTTC---TTCCEEEEESCCCSSCCHHHHTTC
T ss_pred             cCCCCCCEEECCCCccccCC--hhHccccccCCEEECCCCccceeChhhccCC---CCCCEEECCCCcCcccChhHhccc
Confidence            88889999999998888753  3567777888888888877776655333322   666666666666665555555555


Q ss_pred             CccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCC
Q 040109          263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK  341 (598)
Q Consensus       263 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~  341 (598)
                      +.  |+.|++++|.+.+..+..+..+++|++|++++|...+ +|.......+|+.|++++|.+++..+..+..       
T Consensus       176 ~~--L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~-------  246 (477)
T 2id5_A          176 HG--LIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRH-------  246 (477)
T ss_dssp             TT--CCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTT-------
T ss_pred             CC--CcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcC-------
Confidence            55  6666666666665555555555666666666555443 4443333445555555555555444444444       


Q ss_pred             CCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCc
Q 040109          342 NSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLV  421 (598)
Q Consensus       342 ~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~  421 (598)
                                                                         +++|+.|+|++|.+++..+..|..+++|+
T Consensus       247 ---------------------------------------------------l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  275 (477)
T 2id5_A          247 ---------------------------------------------------LVYLRFLNLSYNPISTIEGSMLHELLRLQ  275 (477)
T ss_dssp             ---------------------------------------------------CTTCCEEECCSSCCCEECTTSCTTCTTCC
T ss_pred             ---------------------------------------------------ccccCeeECCCCcCCccChhhccccccCC
Confidence                                                               34455555555555555555667777777


Q ss_pred             EEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCC
Q 040109          422 ALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPE  501 (598)
Q Consensus       422 ~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~  501 (598)
                      +|+|++|++++..|..|..+++|++|+|++|++++..+..|..+++|++|++++|++.+.++....+.......+.++..
T Consensus       276 ~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~c~c~~~~~~~~~~~~~~~~~~~  355 (477)
T 2id5_A          276 EIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQP  355 (477)
T ss_dssp             EEECCSSCCSEECTTTBTTCTTCCEEECCSSCCSCCCGGGBSCGGGCCEEECCSSCEECSGGGHHHHTTTTSSCCTTCCC
T ss_pred             EEECCCCccceECHHHhcCcccCCEEECCCCcCceeCHhHcCCCcccCEEEccCCCccCccchHhHHhhhhccccCccCc
Confidence            77777777777777777777777777777777776666667777777888888887776555433333334455666666


Q ss_pred             CCCCC
Q 040109          502 LCGLP  506 (598)
Q Consensus       502 lC~~~  506 (598)
                      .|..|
T Consensus       356 ~C~~p  360 (477)
T 2id5_A          356 TCATP  360 (477)
T ss_dssp             BEEES
T ss_pred             eeCCc
Confidence            66544

>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=100.00  E-value=8.8e-37  Score=332.43  Aligned_cols=372  Identities=24%  Similarity=0.250  Sum_probs=273.9

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCC-CCccccCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG-PIPHQLGNL  160 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~-~~p~~l~~l  160 (598)
                      .+++.|++++      +.+++..|..|..+++|++|++++|.+++. .|..|+.+++|++|++++|.+++ ..|..++++
T Consensus        50 ~~L~~L~Ls~------n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l  122 (549)
T 2z81_A           50 ANLQVLILKS------SRINTIEGDAFYSLGSLEHLDLSDNHLSSL-SSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNL  122 (549)
T ss_dssp             TTCCEEECTT------SCCCEECTTTTTTCTTCCEEECTTSCCCSC-CHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTC
T ss_pred             CcccEEECCC------CCcCccChhhccccccCCEEECCCCccCcc-CHHHhccCCCCcEEECCCCcccccchhhhhhcc
Confidence            5689999998      889988888999999999999999999975 66779999999999999999986 457789999


Q ss_pred             CCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcC------------------------CCCCcE
Q 040109          161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN------------------------LRSLTT  216 (598)
Q Consensus       161 ~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~------------------------l~~L~~  216 (598)
                      ++|++|++++|.+........+.++++|++|++++|.+++.  .+..+..                        +++|++
T Consensus       123 ~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~--~~~~l~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~  200 (549)
T 2z81_A          123 TNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNY--QSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRY  200 (549)
T ss_dssp             TTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE--CTTTTTTCSEEEEEEEECSBSTTHHHHHHHSTTTBSE
T ss_pred             CCccEEECCCCccccccCHhhhhcccccCeeeccCCccccc--ChhhhhccccCceEecccCcccccchhhHhhcccccE
Confidence            99999999999853444445688899999999999988763  2233433                        556666


Q ss_pred             EeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcch---------------------------------------
Q 040109          217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYP---------------------------------------  257 (598)
Q Consensus       217 L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~---------------------------------------  257 (598)
                      |++++|++++............++|+.|++++|.+++..+.                                       
T Consensus       201 L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~l  280 (549)
T 2z81_A          201 LELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSEL  280 (549)
T ss_dssp             EEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEESCEEECCSCCCCCTTTCCCCC
T ss_pred             EEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhccccccccccccccccccccccchhhhhhh
Confidence            66666666653211011111112233333322222110000                                       


Q ss_pred             ------------------------hhhhcCccCccEEEccCCccccccchhh-cCCCCccEEeeccCCCCC-cch---hh
Q 040109          258 ------------------------WLLNVSSNLVDHIDLGSNRLHGSIPVAF-GHMASLRYLGLLSNRLRE-VPK---FL  308 (598)
Q Consensus       258 ------------------------~l~~~~~~~L~~L~L~~n~l~~~~p~~l-~~l~~L~~L~Ls~n~l~~-lp~---~l  308 (598)
                                              .......  ++.|++++|.++ .+|..+ ..+++|++|++++|++++ +|.   .+
T Consensus       281 ~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~--L~~L~l~~n~l~-~ip~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~  357 (549)
T 2z81_A          281 GKVETVTIRRLHIPQFYLFYDLSTVYSLLEK--VKRITVENSKVF-LVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACK  357 (549)
T ss_dssp             TTCCEEEEESCBCSCGGGSCCCCHHHHHSTT--CCEEEEESSCCC-CCCHHHHHHCTTCCEEECCSSCCCHHHHHHHTCT
T ss_pred             cccccccccccccchhhhcccchhhhhhccc--ceEEEeccCccc-cCCHHHHhcCccccEEEccCCccccccccchhhh
Confidence                                    0111233  778888888876 566555 578999999999999887 443   36


Q ss_pred             cCCCCCcEEEcccCcCccchh--hhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCc
Q 040109          309 GNMSSLKMLVLSYNELRGELS--EFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQ  386 (598)
Q Consensus       309 ~~l~~L~~L~Ls~n~l~~~~~--~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~  386 (598)
                      ..+++|++|++++|++++..+  ..+..++       +|++|++++|++++..+.+..++++.......+.+..     .
T Consensus       358 ~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~-------~L~~L~Ls~N~l~~lp~~~~~~~~L~~L~Ls~N~l~~-----l  425 (549)
T 2z81_A          358 GAWPSLQTLVLSQNHLRSMQKTGEILLTLK-------NLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRV-----V  425 (549)
T ss_dssp             TSSTTCCEEECTTSCCCCHHHHHHHGGGCT-------TCCEEECTTCCCCCCCSCCCCCTTCCEEECTTSCCSC-----C
T ss_pred             hccccCcEEEccCCcccccccchhhhhcCC-------CCCEEECCCCCCccCChhhcccccccEEECCCCCccc-----c
Confidence            788899999999999987654  5577777       8999999999988544446666666655443333320     0


Q ss_pred             ccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCC
Q 040109          387 YEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR  466 (598)
Q Consensus       387 ~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~  466 (598)
                      +.  ..+++|++|++++|++++.+    ..+++|++|++++|+++ .+|. ...+++|++|+|++|++++..|..+..++
T Consensus       426 ~~--~~~~~L~~L~Ls~N~l~~~~----~~l~~L~~L~Ls~N~l~-~ip~-~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~  497 (549)
T 2z81_A          426 KT--CIPQTLEVLDVSNNNLDSFS----LFLPRLQELYISRNKLK-TLPD-ASLFPVLLVMKISRNQLKSVPDGIFDRLT  497 (549)
T ss_dssp             CT--TSCTTCSEEECCSSCCSCCC----CCCTTCCEEECCSSCCS-SCCC-GGGCTTCCEEECCSSCCCCCCTTGGGGCT
T ss_pred             cc--hhcCCceEEECCCCChhhhc----ccCChhcEEECCCCccC-cCCC-cccCccCCEEecCCCccCCcCHHHHhcCc
Confidence            11  12368999999999999653    57899999999999999 7776 56799999999999999999888999999


Q ss_pred             CCCEEeCCCCcceecCCCC
Q 040109          467 LLSVMDLSYNNFSGKIPKG  485 (598)
Q Consensus       467 ~L~~L~ls~N~l~~~~p~~  485 (598)
                      +|+.|++++|++.|.+|..
T Consensus       498 ~L~~L~l~~N~~~~~~~~~  516 (549)
T 2z81_A          498 SLQKIWLHTNPWDCSCPRI  516 (549)
T ss_dssp             TCCEEECCSSCBCCCHHHH
T ss_pred             ccCEEEecCCCccCCCccH
Confidence            9999999999999988843

>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=100.00  E-value=1.3e-36  Score=331.70  Aligned_cols=350  Identities=22%  Similarity=0.234  Sum_probs=262.3

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      ..++.+++++      +.+++..|.+|.++++|++|+|++|.+++. .|+.|..+++|++|+|++|.++ .+|..  .++
T Consensus        52 ~~L~~L~Ls~------N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls~N~l~-~lp~~--~l~  121 (562)
T 3a79_B           52 PRTKALSLSQ------NSISELRMPDISFLSELRVLRLSHNRIRSL-DFHVFLFNQDLEYLDVSHNRLQ-NISCC--PMA  121 (562)
T ss_dssp             TTCCEEECCS------SCCCCCCGGGTTTCTTCCEEECCSCCCCEE-CTTTTTTCTTCCEEECTTSCCC-EECSC--CCT
T ss_pred             CCcCEEECCC------CCccccChhhhccCCCccEEECCCCCCCcC-CHHHhCCCCCCCEEECCCCcCC-ccCcc--ccc
Confidence            5678888888      777776667888888899999988888874 6778888888999999888888 56665  788


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCC--cEEeccCcCC--CCCCCChhhhcc-
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL--TTLYLGHCDL--PPISTPSLLHLN-  236 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L--~~L~l~~n~l--~~~~~~~~~~~~-  236 (598)
                      +|++|++++|++.....+..+.++++|++|++++|.++..     .+..+++|  ++|++++|.+  ++..+..+.... 
T Consensus       122 ~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~~-----~~~~l~~L~L~~L~L~~n~l~~~~~~~~~l~~l~~  196 (562)
T 3a79_B          122 SLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQL-----DLLPVAHLHLSCILLDLVSYHIKGGETESLQIPNT  196 (562)
T ss_dssp             TCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCTT-----TTGGGTTSCEEEEEEEESSCCCCSSSCCEEEECCE
T ss_pred             cCCEEECCCCCccccCchHhhcccCcccEEecCCCccccC-----chhhhhhceeeEEEeecccccccccCcccccccCc
Confidence            8889999888874434446788888899999888888763     23444444  8888888887  555443332211 


Q ss_pred             ----------------------ccC-------------------------------------------------------
Q 040109          237 ----------------------YSK-------------------------------------------------------  239 (598)
Q Consensus       237 ----------------------~~~-------------------------------------------------------  239 (598)
                                            ..+                                                       
T Consensus       197 ~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~~~~~~~~~~~  276 (562)
T 3a79_B          197 TVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPR  276 (562)
T ss_dssp             EEEEEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECHHHHHHHHHHHTTS
T ss_pred             ceEEEEecCccchhhhhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEEecCCcCcHHHHHHHHHhhhcc
Confidence                                  012                                                       


Q ss_pred             CccEEEccCCCCCCCcchhh-----hhcCc------------------------cCccEEEccCCccccccchhhcCCCC
Q 040109          240 SLEVIDLSNNYLTNSIYPWL-----LNVSS------------------------NLVDHIDLGSNRLHGSIPVAFGHMAS  290 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l-----~~~~~------------------------~~L~~L~L~~n~l~~~~p~~l~~l~~  290 (598)
                      +|++|++++|.+++.+|..+     ..+..                        ..+++|++++|.+....  ....+++
T Consensus       277 ~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~~~~~--~~~~l~~  354 (562)
T 3a79_B          277 PVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMV--CPPSPSS  354 (562)
T ss_dssp             SEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCCCCCC--CCSSCCC
T ss_pred             cccEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCccccc--CccCCCC
Confidence            44444444444444444333     11111                        01344444444433111  0167889


Q ss_pred             ccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcCccc--hhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCc
Q 040109          291 LRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGE--LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPG  367 (598)
Q Consensus       291 L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~--~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~  367 (598)
                      |++|++++|.+++ +|..+.++++|++|++++|++++.  .|..+..++       +|+.|++++|.+++.+|.      
T Consensus       355 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~-------~L~~L~l~~N~l~~~~~~------  421 (562)
T 3a79_B          355 FTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMS-------SLETLDVSLNSLNSHAYD------  421 (562)
T ss_dssp             CCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCT-------TCCEEECTTSCCBSCCSS------
T ss_pred             ceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCC-------CCCEEECCCCcCCCccCh------
Confidence            9999999999998 888999999999999999999974  456677777       999999999999975553      


Q ss_pred             CccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCee
Q 040109          368 MLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFL  447 (598)
Q Consensus       368 l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L  447 (598)
                                          ..+..+++|+.|++++|++++.+|..+.  ++|+.|++++|+++ .+|..+..+++|++|
T Consensus       422 --------------------~~~~~l~~L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N~l~-~ip~~~~~l~~L~~L  478 (562)
T 3a79_B          422 --------------------RTCAWAESILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNNRIM-SIPKDVTHLQALQEL  478 (562)
T ss_dssp             --------------------CCCCCCTTCCEEECCSSCCCGGGGSSCC--TTCSEEECCSSCCC-CCCTTTTSSCCCSEE
T ss_pred             --------------------hhhcCcccCCEEECCCCCCCcchhhhhc--CcCCEEECCCCcCc-ccChhhcCCCCCCEE
Confidence                                1234567899999999999987776654  79999999999999 788888899999999


Q ss_pred             eCCCCccCCCCccc-ccCCCCCCEEeCCCCcceecCCCC
Q 040109          448 DLSINHFFGGIPSS-LSRLRLLSVMDLSYNNFSGKIPKG  485 (598)
Q Consensus       448 ~Ls~N~l~~~~p~~-l~~l~~L~~L~ls~N~l~~~~p~~  485 (598)
                      +|++|+++ .+|.. +..+++|+.|++++|++.|.+|..
T Consensus       479 ~L~~N~l~-~l~~~~~~~l~~L~~L~l~~N~~~c~c~~~  516 (562)
T 3a79_B          479 NVASNQLK-SVPDGVFDRLTSLQYIWLHDNPWDCTCPGI  516 (562)
T ss_dssp             ECCSSCCC-CCCTTSTTTCTTCCCEECCSCCBCCCHHHH
T ss_pred             ECCCCCCC-CCCHHHHhcCCCCCEEEecCCCcCCCcchH
Confidence            99999999 56665 999999999999999999887754

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=100.00  E-value=1.6e-36  Score=315.66  Aligned_cols=336  Identities=20%  Similarity=0.211  Sum_probs=263.9

Q ss_pred             cCCCCCCEEECcCCCCCCCCcch-hcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          109 LKLQHLTYLDLSWNNFSGSPIPE-FIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~~p~-~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      ..++++++|++++|.++.  +|. .+..+++|++|++++|.+++..+..|..+++|++|++++|.+ ....+..+.++++
T Consensus        42 ~~l~~l~~l~l~~~~l~~--l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~  118 (390)
T 3o6n_A           42 ITLNNQKIVTFKNSTMRK--LPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAI-RYLPPHVFQNVPL  118 (390)
T ss_dssp             GGGCCCSEEEEESCEESE--ECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC-CCCCTTTTTTCTT
T ss_pred             cccCCceEEEecCCchhh--CChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCC-CcCCHHHhcCCCC
Confidence            457899999999999985  554 478899999999999999977778999999999999999997 4455667899999


Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCc
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV  267 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L  267 (598)
                      |++|++++|.++.++.  ..+..+++|++|++++|.+.+..+..+...   ++|++|++++|.+++.   .+..++.  |
T Consensus       119 L~~L~L~~n~l~~l~~--~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l---~~L~~L~l~~n~l~~~---~~~~l~~--L  188 (390)
T 3o6n_A          119 LTVLVLERNDLSSLPR--GIFHNTPKLTTLSMSNNNLERIEDDTFQAT---TSLQNLQLSSNRLTHV---DLSLIPS--L  188 (390)
T ss_dssp             CCEEECCSSCCCCCCT--TTTTTCTTCCEEECCSSCCCBCCTTTTSSC---TTCCEEECCSSCCSBC---CGGGCTT--C
T ss_pred             CCEEECCCCccCcCCH--HHhcCCCCCcEEECCCCccCccChhhccCC---CCCCEEECCCCcCCcc---ccccccc--c
Confidence            9999999999998754  457889999999999999988776444433   8899999999998864   2455666  8


Q ss_pred             cEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCE
Q 040109          268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEW  347 (598)
Q Consensus       268 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~  347 (598)
                      +.|++++|.+++     +...++|++|++++|.+..+|...  .++|+.|++++|.+++.  ..+..++       +|++
T Consensus       189 ~~L~l~~n~l~~-----~~~~~~L~~L~l~~n~l~~~~~~~--~~~L~~L~l~~n~l~~~--~~l~~l~-------~L~~  252 (390)
T 3o6n_A          189 FHANVSYNLLST-----LAIPIAVEELDASHNSINVVRGPV--NVELTILKLQHNNLTDT--AWLLNYP-------GLVE  252 (390)
T ss_dssp             SEEECCSSCCSE-----EECCSSCSEEECCSSCCCEEECCC--CSSCCEEECCSSCCCCC--GGGGGCT-------TCSE
T ss_pred             ceeecccccccc-----cCCCCcceEEECCCCeeeeccccc--cccccEEECCCCCCccc--HHHcCCC-------CccE
Confidence            899999998874     234568899999999988876533  47889999999988864  4566666       8888


Q ss_pred             EEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcC
Q 040109          348 LYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSN  427 (598)
Q Consensus       348 L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~  427 (598)
                      |++++|.+++..|                           ..+..+++|+.|++++|+++ .+|..+..+++|++|++++
T Consensus       253 L~Ls~n~l~~~~~---------------------------~~~~~l~~L~~L~L~~n~l~-~~~~~~~~l~~L~~L~L~~  304 (390)
T 3o6n_A          253 VDLSYNELEKIMY---------------------------HPFVKMQRLERLYISNNRLV-ALNLYGQPIPTLKVLDLSH  304 (390)
T ss_dssp             EECCSSCCCEEES---------------------------GGGTTCSSCCEEECCSSCCC-EEECSSSCCTTCCEEECCS
T ss_pred             EECCCCcCCCcCh---------------------------hHccccccCCEEECCCCcCc-ccCcccCCCCCCCEEECCC
Confidence            8988888876433                           23445677888888888888 4566677788888888988


Q ss_pred             CcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          428 NNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       428 N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      |+++ .+|..+..+++|++|++++|+++.. |  +..+++|++|++++|++.+... ...+..+....+.+++..|.++
T Consensus       305 n~l~-~~~~~~~~l~~L~~L~L~~N~i~~~-~--~~~~~~L~~L~l~~N~~~~~~~-~~~~~~~~~~~~~~~~~~c~~~  378 (390)
T 3o6n_A          305 NHLL-HVERNQPQFDRLENLYLDHNSIVTL-K--LSTHHTLKNLTLSHNDWDCNSL-RALFRNVARPAVDDADQHCKID  378 (390)
T ss_dssp             SCCC-CCGGGHHHHTTCSEEECCSSCCCCC-C--CCTTCCCSEEECCSSCEEHHHH-HHHTTTCCTTTBCCCCSCCCTT
T ss_pred             Ccce-ecCccccccCcCCEEECCCCcccee-C--chhhccCCEEEcCCCCccchhH-HHHHHHHHhhcccccCceeccc
Confidence            8888 6677778888888899988888744 3  6778888889999888876422 2345555666677777777654

>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=100.00  E-value=6.2e-35  Score=310.92  Aligned_cols=342  Identities=27%  Similarity=0.360  Sum_probs=230.3

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCC
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR  162 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~  162 (598)
                      +++.+++.+      +.+.. +| .+..+++|++|++++|.+++  ++. +..+++|++|++++|.+++..+  ++++++
T Consensus        47 ~l~~L~l~~------~~i~~-l~-~~~~l~~L~~L~Ls~n~l~~--~~~-~~~l~~L~~L~l~~n~l~~~~~--~~~l~~  113 (466)
T 1o6v_A           47 QVTTLQADR------LGIKS-ID-GVEYLNNLTQINFSNNQLTD--ITP-LKNLTKLVDILMNNNQIADITP--LANLTN  113 (466)
T ss_dssp             TCCEEECCS------SCCCC-CT-TGGGCTTCCEEECCSSCCCC--CGG-GTTCTTCCEEECCSSCCCCCGG--GTTCTT
T ss_pred             cccEEecCC------CCCcc-Cc-chhhhcCCCEEECCCCccCC--chh-hhccccCCEEECCCCccccChh--hcCCCC
Confidence            567778776      44442 44 37778889999999988885  444 8888899999999888885544  888889


Q ss_pred             CCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCcc
Q 040109          163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLE  242 (598)
Q Consensus       163 L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~  242 (598)
                      |++|++++|.+..   .+.+.++++|++|++++|.+.+++    .+..+++|++|+++ +.+.+..+  +.  + +++|+
T Consensus       114 L~~L~L~~n~l~~---~~~~~~l~~L~~L~l~~n~l~~~~----~~~~l~~L~~L~l~-~~~~~~~~--~~--~-l~~L~  180 (466)
T 1o6v_A          114 LTGLTLFNNQITD---IDPLKNLTNLNRLELSSNTISDIS----ALSGLTSLQQLSFG-NQVTDLKP--LA--N-LTTLE  180 (466)
T ss_dssp             CCEEECCSSCCCC---CGGGTTCTTCSEEEEEEEEECCCG----GGTTCTTCSEEEEE-ESCCCCGG--GT--T-CTTCC
T ss_pred             CCEEECCCCCCCC---ChHHcCCCCCCEEECCCCccCCCh----hhccCCcccEeecC-CcccCchh--hc--c-CCCCC
Confidence            9999998888732   223788888999999888888753    47788888888886 44444322  22  2 27888


Q ss_pred             EEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccC
Q 040109          243 VIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYN  322 (598)
Q Consensus       243 ~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n  322 (598)
                      +|++++|.+++.  +.+..+++  |++|++++|.+++..|  ++.+++|++|++++|.+++++ .+..+++|+.|++++|
T Consensus       181 ~L~l~~n~l~~~--~~l~~l~~--L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n  253 (466)
T 1o6v_A          181 RLDISSNKVSDI--SVLAKLTN--LESLIATNNQISDITP--LGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANN  253 (466)
T ss_dssp             EEECCSSCCCCC--GGGGGCTT--CSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSS
T ss_pred             EEECcCCcCCCC--hhhccCCC--CCEEEecCCccccccc--ccccCCCCEEECCCCCcccch-hhhcCCCCCEEECCCC
Confidence            888888887753  34677777  8888888888886655  667888888888888888775 4777888888888888


Q ss_pred             cCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEecc
Q 040109          323 ELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLS  402 (598)
Q Consensus       323 ~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls  402 (598)
                      .+.+..+  +..++       +|+.|++++|.+++..+ +.                            .+++|+.|+++
T Consensus       254 ~l~~~~~--~~~l~-------~L~~L~l~~n~l~~~~~-~~----------------------------~l~~L~~L~L~  295 (466)
T 1o6v_A          254 QISNLAP--LSGLT-------KLTELKLGANQISNISP-LA----------------------------GLTALTNLELN  295 (466)
T ss_dssp             CCCCCGG--GTTCT-------TCSEEECCSSCCCCCGG-GT----------------------------TCTTCSEEECC
T ss_pred             ccccchh--hhcCC-------CCCEEECCCCccCcccc-cc----------------------------CCCccCeEEcC
Confidence            8887665  55555       78888888888775322 22                            34455555555


Q ss_pred             CCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecC
Q 040109          403 SNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKI  482 (598)
Q Consensus       403 ~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~  482 (598)
                      +|++++..+  +..+++|+.|++++|++++..|  +..+++|++|++++|++++.  ..+.++++|+.|++++|++++..
T Consensus       296 ~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~l~~n~l~~~~  369 (466)
T 1o6v_A          296 ENQLEDISP--ISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNKVSDV--SSLANLTNINWLSAGHNQISDLT  369 (466)
T ss_dssp             SSCCSCCGG--GGGCTTCSEEECCSSCCSCCGG--GGGCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECCSSCCCBCG
T ss_pred             CCcccCchh--hcCCCCCCEEECcCCcCCCchh--hccCccCCEeECCCCccCCc--hhhccCCCCCEEeCCCCccCccc
Confidence            555553322  4555555555555555554333  44555555555555555543  24555555555555555555444


Q ss_pred             CCCCccCccCCCccCCCCCC
Q 040109          483 PKGTQLQRFGASTYAGNPEL  502 (598)
Q Consensus       483 p~~~~~~~l~~~~~~gnp~l  502 (598)
                      | ...++++..+.+.+|++.
T Consensus       370 ~-~~~l~~L~~L~l~~n~~~  388 (466)
T 1o6v_A          370 P-LANLTRITQLGLNDQAWT  388 (466)
T ss_dssp             G-GTTCTTCCEEECCCEEEE
T ss_pred             h-hhcCCCCCEEeccCCccc
Confidence            4 334445555555555443

>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=100.00  E-value=1.7e-35  Score=324.92  Aligned_cols=336  Identities=20%  Similarity=0.199  Sum_probs=275.9

Q ss_pred             CCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCC
Q 040109          110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLR  189 (598)
Q Consensus       110 ~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~  189 (598)
                      .+.+++.+++++|.+... .+..+..+++|++|+|++|.+++..|..|+.+++|++|+|++|.+ ....+..|.++++|+
T Consensus        49 ~l~~l~~l~l~~~~l~~l-p~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~L~  126 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKL-PAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAI-RYLPPHVFQNVPLLT  126 (597)
T ss_dssp             GGCCCSEEEESSCEESEE-CTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC-CCCCTTTTTTCTTCC
T ss_pred             cCCCceEEEeeCCCCCCc-CHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcC-CCCCHHHHcCCCCCC
Confidence            467899999999998863 344578899999999999999988888999999999999999997 445556789999999


Q ss_pred             EEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccE
Q 040109          190 YLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDH  269 (598)
Q Consensus       190 ~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~  269 (598)
                      +|++++|.++.++.  ..+..+++|++|++++|.+++.++..+..+   ++|++|++++|.+++..   +..++.  |+.
T Consensus       127 ~L~L~~n~l~~l~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l---~~L~~L~L~~N~l~~~~---~~~l~~--L~~  196 (597)
T 3oja_B          127 VLVLERNDLSSLPR--GIFHNTPKLTTLSMSNNNLERIEDDTFQAT---TSLQNLQLSSNRLTHVD---LSLIPS--LFH  196 (597)
T ss_dssp             EEECCSSCCCCCCT--TTTTTCTTCCEEECCSSCCCBCCTTTTTTC---TTCCEEECTTSCCSBCC---GGGCTT--CSE
T ss_pred             EEEeeCCCCCCCCH--HHhccCCCCCEEEeeCCcCCCCChhhhhcC---CcCcEEECcCCCCCCcC---hhhhhh--hhh
Confidence            99999999998754  557899999999999999998877545443   88999999999998643   455666  999


Q ss_pred             EEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEE
Q 040109          270 IDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLY  349 (598)
Q Consensus       270 L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~  349 (598)
                      |++++|.+++     +...++|++|++++|.+..+|..+  .++|+.|++++|.+++.  ..+..++       +|+.|+
T Consensus       197 L~l~~n~l~~-----l~~~~~L~~L~ls~n~l~~~~~~~--~~~L~~L~L~~n~l~~~--~~l~~l~-------~L~~L~  260 (597)
T 3oja_B          197 ANVSYNLLST-----LAIPIAVEELDASHNSINVVRGPV--NVELTILKLQHNNLTDT--AWLLNYP-------GLVEVD  260 (597)
T ss_dssp             EECCSSCCSE-----EECCTTCSEEECCSSCCCEEECSC--CSCCCEEECCSSCCCCC--GGGGGCT-------TCSEEE
T ss_pred             hhcccCcccc-----ccCCchhheeeccCCccccccccc--CCCCCEEECCCCCCCCC--hhhccCC-------CCCEEE
Confidence            9999998874     345578999999999998876544  37899999999999874  5677777       899999


Q ss_pred             ccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCc
Q 040109          350 LASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNN  429 (598)
Q Consensus       350 Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~  429 (598)
                      +++|.+++.+|                           ..++.+++|+.|+|++|.+++ +|..+..+++|+.|+|++|.
T Consensus       261 Ls~N~l~~~~~---------------------------~~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~Ls~N~  312 (597)
T 3oja_B          261 LSYNELEKIMY---------------------------HPFVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHNH  312 (597)
T ss_dssp             CCSSCCCEEES---------------------------GGGTTCSSCCEEECTTSCCCE-EECSSSCCTTCCEEECCSSC
T ss_pred             CCCCccCCCCH---------------------------HHhcCccCCCEEECCCCCCCC-CCcccccCCCCcEEECCCCC
Confidence            99999987654                           234557789999999999985 67777889999999999999


Q ss_pred             CcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          430 LTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       430 l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      ++ .+|..+..+++|++|+|++|.+++. |  +..+++|+.|++++|++.|..+. ..+..+....+.+++..|+.+
T Consensus       313 l~-~i~~~~~~l~~L~~L~L~~N~l~~~-~--~~~~~~L~~L~l~~N~~~~~~~~-~~~~~~~~~~~~~~~~~C~~~  384 (597)
T 3oja_B          313 LL-HVERNQPQFDRLENLYLDHNSIVTL-K--LSTHHTLKNLTLSHNDWDCNSLR-ALFRNVARPAVDDADQHCKID  384 (597)
T ss_dssp             CC-CCGGGHHHHTTCSEEECCSSCCCCC-C--CCTTCCCSEEECCSSCEEHHHHH-HHTTTCCTTTBCCCCCCCCTT
T ss_pred             CC-ccCcccccCCCCCEEECCCCCCCCc-C--hhhcCCCCEEEeeCCCCCChhHH-HHHHHHhhhccccccccCCcc
Confidence            99 7888888999999999999999754 3  67788999999999999876432 345666667788888888754

>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=100.00  E-value=7.8e-35  Score=311.35  Aligned_cols=264  Identities=24%  Similarity=0.253  Sum_probs=225.1

Q ss_pred             ccCeeeCCC---------CCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEE
Q 040109           72 WRGVRCSNK---------TGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSEL  142 (598)
Q Consensus        72 w~gv~C~~~---------~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L  142 (598)
                      |..|.|...         ...++.|++++      +.+++..+..|.++++|++|+|++|.+++. .|..|.++++|++|
T Consensus        13 ~~~v~c~~~~l~~ip~~~~~~l~~L~L~~------n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~-~~~~~~~l~~L~~L   85 (477)
T 2id5_A           13 DRAVLCHRKRFVAVPEGIPTETRLLDLGK------NRIKTLNQDEFASFPHLEELELNENIVSAV-EPGAFNNLFNLRTL   85 (477)
T ss_dssp             TTEEECCSCCCSSCCSCCCTTCSEEECCS------SCCCEECTTTTTTCTTCCEEECTTSCCCEE-CTTTTTTCTTCCEE
T ss_pred             CCEEEeCCCCcCcCCCCCCCCCcEEECCC------CccceECHhHccCCCCCCEEECCCCccCEe-ChhhhhCCccCCEE
Confidence            567777532         23578899988      889988888999999999999999999975 68899999999999


Q ss_pred             ECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCc
Q 040109          143 ALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC  222 (598)
Q Consensus       143 ~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n  222 (598)
                      +|++|.+++..+..|.++++|++|++++|.+ ....+..+.++++|++|++++|.+..++  +..+..+++|++|++++|
T Consensus        86 ~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i-~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~n  162 (477)
T 2id5_A           86 GLRSNRLKLIPLGVFTGLSNLTKLDISENKI-VILLDYMFQDLYNLKSLEVGDNDLVYIS--HRAFSGLNSLEQLTLEKC  162 (477)
T ss_dssp             ECCSSCCCSCCTTSSTTCTTCCEEECTTSCC-CEECTTTTTTCTTCCEEEECCTTCCEEC--TTSSTTCTTCCEEEEESC
T ss_pred             ECCCCcCCccCcccccCCCCCCEEECCCCcc-ccCChhHccccccCCEEECCCCccceeC--hhhccCCCCCCEEECCCC
Confidence            9999999977677889999999999999998 4445567899999999999999998863  367899999999999999


Q ss_pred             CCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCC
Q 040109          223 DLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLR  302 (598)
Q Consensus       223 ~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~  302 (598)
                      .+++.++..+...   ++|+.|++++|.+.+..+..+..++.  |++|++++|...+.+|.......+|++|++++|.++
T Consensus       163 ~l~~~~~~~l~~l---~~L~~L~l~~n~i~~~~~~~~~~l~~--L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~  237 (477)
T 2id5_A          163 NLTSIPTEALSHL---HGLIVLRLRHLNINAIRDYSFKRLYR--LKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLT  237 (477)
T ss_dssp             CCSSCCHHHHTTC---TTCCEEEEESCCCCEECTTCSCSCTT--CCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCC
T ss_pred             cCcccChhHhccc---CCCcEEeCCCCcCcEeChhhcccCcc--cceeeCCCCccccccCcccccCccccEEECcCCccc
Confidence            9998765333333   89999999999999877778888888  999999999988888887777789999999999999


Q ss_pred             Ccc-hhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccc
Q 040109          303 EVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITG  357 (598)
Q Consensus       303 ~lp-~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~  357 (598)
                      .+| ..+..+++|+.|++++|.+.+..+..+..++       +|+.|++++|++++
T Consensus       238 ~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~-------~L~~L~L~~n~l~~  286 (477)
T 2id5_A          238 AVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELL-------RLQEIQLVGGQLAV  286 (477)
T ss_dssp             SCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCT-------TCCEEECCSSCCSE
T ss_pred             ccCHHHhcCccccCeeECCCCcCCccChhhccccc-------cCCEEECCCCccce
Confidence            987 4789999999999999999887776666655       66666666666554

>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=100.00  E-value=1.1e-33  Score=301.34  Aligned_cols=325  Identities=23%  Similarity=0.346  Sum_probs=277.6

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      .+++.|++++      +.+.+. ++ +..+++|++|++++|.+.+  ++. +..+++|++|++++|.+++.. . +.+++
T Consensus        68 ~~L~~L~Ls~------n~l~~~-~~-~~~l~~L~~L~l~~n~l~~--~~~-~~~l~~L~~L~L~~n~l~~~~-~-~~~l~  134 (466)
T 1o6v_A           68 NNLTQINFSN------NQLTDI-TP-LKNLTKLVDILMNNNQIAD--ITP-LANLTNLTGLTLFNNQITDID-P-LKNLT  134 (466)
T ss_dssp             TTCCEEECCS------SCCCCC-GG-GTTCTTCCEEECCSSCCCC--CGG-GTTCTTCCEEECCSSCCCCCG-G-GTTCT
T ss_pred             cCCCEEECCC------CccCCc-hh-hhccccCCEEECCCCcccc--Chh-hcCCCCCCEEECCCCCCCCCh-H-HcCCC
Confidence            4688999998      677654 44 9999999999999999986  444 899999999999999999653 3 89999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCc
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSL  241 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L  241 (598)
                      +|++|++++|.+..   .+.+..+++|++|+++ |.+...    ..+..+++|++|++++|.+.+...  +.   .+++|
T Consensus       135 ~L~~L~l~~n~l~~---~~~~~~l~~L~~L~l~-~~~~~~----~~~~~l~~L~~L~l~~n~l~~~~~--l~---~l~~L  201 (466)
T 1o6v_A          135 NLNRLELSSNTISD---ISALSGLTSLQQLSFG-NQVTDL----KPLANLTTLERLDISSNKVSDISV--LA---KLTNL  201 (466)
T ss_dssp             TCSEEEEEEEEECC---CGGGTTCTTCSEEEEE-ESCCCC----GGGTTCTTCCEEECCSSCCCCCGG--GG---GCTTC
T ss_pred             CCCEEECCCCccCC---ChhhccCCcccEeecC-CcccCc----hhhccCCCCCEEECcCCcCCCChh--hc---cCCCC
Confidence            99999999998732   3458999999999996 555554    248899999999999999987633  32   23899


Q ss_pred             cEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEccc
Q 040109          242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSY  321 (598)
Q Consensus       242 ~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~  321 (598)
                      ++|++++|.+++..+  +..++.  |+.|++++|.+++.  ..+..+++|++|++++|.+++++. +..+++|+.|++++
T Consensus       202 ~~L~l~~n~l~~~~~--~~~l~~--L~~L~l~~n~l~~~--~~l~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~  274 (466)
T 1o6v_A          202 ESLIATNNQISDITP--LGILTN--LDELSLNGNQLKDI--GTLASLTNLTDLDLANNQISNLAP-LSGLTKLTELKLGA  274 (466)
T ss_dssp             SEEECCSSCCCCCGG--GGGCTT--CCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCS
T ss_pred             CEEEecCCccccccc--ccccCC--CCEEECCCCCcccc--hhhhcCCCCCEEECCCCccccchh-hhcCCCCCEEECCC
Confidence            999999999997655  677888  99999999999864  468899999999999999999765 88999999999999


Q ss_pred             CcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEec
Q 040109          322 NELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDL  401 (598)
Q Consensus       322 n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~L  401 (598)
                      |.+.+..+  +..++       +|+.|++++|++++..+                             +..+++|+.|++
T Consensus       275 n~l~~~~~--~~~l~-------~L~~L~L~~n~l~~~~~-----------------------------~~~l~~L~~L~L  316 (466)
T 1o6v_A          275 NQISNISP--LAGLT-------ALTNLELNENQLEDISP-----------------------------ISNLKNLTYLTL  316 (466)
T ss_dssp             SCCCCCGG--GTTCT-------TCSEEECCSSCCSCCGG-----------------------------GGGCTTCSEEEC
T ss_pred             CccCcccc--ccCCC-------ccCeEEcCCCcccCchh-----------------------------hcCCCCCCEEEC
Confidence            99998766  66666       99999999999885321                             356788999999


Q ss_pred             cCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceec
Q 040109          402 SSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGK  481 (598)
Q Consensus       402 s~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~  481 (598)
                      ++|++++..|  +..+++|++|++++|++++.  ..+..+++|+.|++++|++++..|  +..+++|+.|++++|++++ 
T Consensus       317 ~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~~~~-  389 (466)
T 1o6v_A          317 YFNNISDISP--VSSLTKLQRLFFYNNKVSDV--SSLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQAWTN-  389 (466)
T ss_dssp             CSSCCSCCGG--GGGCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECCSSCCCBCGG--GTTCTTCCEEECCCEEEEC-
T ss_pred             cCCcCCCchh--hccCccCCEeECCCCccCCc--hhhccCCCCCEEeCCCCccCccch--hhcCCCCCEEeccCCcccC-
Confidence            9999997665  78999999999999999964  578999999999999999998877  8999999999999999996 


Q ss_pred             CCC
Q 040109          482 IPK  484 (598)
Q Consensus       482 ~p~  484 (598)
                      +|.
T Consensus       390 ~p~  392 (466)
T 1o6v_A          390 APV  392 (466)
T ss_dssp             CCB
T ss_pred             Cch
Confidence            443

>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=100.00  E-value=1.3e-33  Score=289.06  Aligned_cols=307  Identities=25%  Similarity=0.353  Sum_probs=232.9

Q ss_pred             ccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       108 l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      +..+++|++|+++++.+..  ++. +..+++|++|++++|.+++. +. +..+++|++|++++|.+..   .+.+.++++
T Consensus        40 ~~~l~~L~~L~l~~~~i~~--~~~-~~~~~~L~~L~l~~n~i~~~-~~-~~~l~~L~~L~L~~n~i~~---~~~~~~l~~  111 (347)
T 4fmz_A           40 QEELESITKLVVAGEKVAS--IQG-IEYLTNLEYLNLNGNQITDI-SP-LSNLVKLTNLYIGTNKITD---ISALQNLTN  111 (347)
T ss_dssp             HHHHTTCSEEECCSSCCCC--CTT-GGGCTTCCEEECCSSCCCCC-GG-GTTCTTCCEEECCSSCCCC---CGGGTTCTT
T ss_pred             chhcccccEEEEeCCcccc--chh-hhhcCCccEEEccCCccccc-hh-hhcCCcCCEEEccCCcccC---chHHcCCCc
Confidence            3456778888888888764  443 67788888888888887743 33 7788888888888887622   345778888


Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCc
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV  267 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L  267 (598)
                      |++|++++|.+.+++.    +..+++|++|++++|......+.    ...+++|++|++++|.+.+..+  +..++.  |
T Consensus       112 L~~L~l~~n~i~~~~~----~~~l~~L~~L~l~~n~~~~~~~~----~~~l~~L~~L~l~~~~~~~~~~--~~~l~~--L  179 (347)
T 4fmz_A          112 LRELYLNEDNISDISP----LANLTKMYSLNLGANHNLSDLSP----LSNMTGLNYLTVTESKVKDVTP--IANLTD--L  179 (347)
T ss_dssp             CSEEECTTSCCCCCGG----GTTCTTCCEEECTTCTTCCCCGG----GTTCTTCCEEECCSSCCCCCGG--GGGCTT--C
T ss_pred             CCEEECcCCcccCchh----hccCCceeEEECCCCCCcccccc----hhhCCCCcEEEecCCCcCCchh--hccCCC--C
Confidence            8888888888777532    77788888888888855443331    2222788888888888775443  667777  8


Q ss_pred             cEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCE
Q 040109          268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEW  347 (598)
Q Consensus       268 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~  347 (598)
                      ++|++++|.+.+..+  +..+++|++|++++|.+++++. +..+++|++|++++|.+++..+  +..++       +|++
T Consensus       180 ~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~~n~l~~~~~--~~~l~-------~L~~  247 (347)
T 4fmz_A          180 YSLSLNYNQIEDISP--LASLTSLHYFTAYVNQITDITP-VANMTRLNSLKIGNNKITDLSP--LANLS-------QLTW  247 (347)
T ss_dssp             SEEECTTSCCCCCGG--GGGCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GTTCT-------TCCE
T ss_pred             CEEEccCCccccccc--ccCCCccceeecccCCCCCCch-hhcCCcCCEEEccCCccCCCcc--hhcCC-------CCCE
Confidence            888888888875433  7788888888888888888655 7788888889998888887655  66666       8889


Q ss_pred             EEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcC
Q 040109          348 LYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSN  427 (598)
Q Consensus       348 L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~  427 (598)
                      |++++|.+++. +                            .+..+++|+.|++++|++++.  ..+..+++|++|++++
T Consensus       248 L~l~~n~l~~~-~----------------------------~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~L~~  296 (347)
T 4fmz_A          248 LEIGTNQISDI-N----------------------------AVKDLTKLKMLNVGSNQISDI--SVLNNLSQLNSLFLNN  296 (347)
T ss_dssp             EECCSSCCCCC-G----------------------------GGTTCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCS
T ss_pred             EECCCCccCCC-h----------------------------hHhcCCCcCEEEccCCccCCC--hhhcCCCCCCEEECcC
Confidence            99988887631 1                            234567889999999998853  4688899999999999


Q ss_pred             CcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcce
Q 040109          428 NNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       428 N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~  479 (598)
                      |++++..|..+..+++|++|++++|++++..|  +..+++|++|++++|+++
T Consensus       297 n~l~~~~~~~l~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~N~i~  346 (347)
T 4fmz_A          297 NQLGNEDMEVIGGLTNLTTLFLSQNHITDIRP--LASLSKMDSADFANQVIK  346 (347)
T ss_dssp             SCCCGGGHHHHHTCTTCSEEECCSSSCCCCGG--GGGCTTCSEESSSCC---
T ss_pred             CcCCCcChhHhhccccCCEEEccCCccccccC--hhhhhccceeehhhhccc
Confidence            99998888889999999999999999987666  888999999999999875

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

Probab=100.00  E-value=7e-34  Score=300.79  Aligned_cols=331  Identities=20%  Similarity=0.175  Sum_probs=241.3

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      .+++.+++++      +.+++ +| .+..+++|++|++++|.+++  +|  ++.+++|++|++++|.+++. +  +++++
T Consensus        42 ~~L~~L~Ls~------n~l~~-~~-~l~~l~~L~~L~Ls~n~l~~--~~--~~~l~~L~~L~Ls~N~l~~~-~--~~~l~  106 (457)
T 3bz5_A           42 ATLTSLDCHN------SSITD-MT-GIEKLTGLTKLICTSNNITT--LD--LSQNTNLTYLACDSNKLTNL-D--VTPLT  106 (457)
T ss_dssp             TTCCEEECCS------SCCCC-CT-TGGGCTTCSEEECCSSCCSC--CC--CTTCTTCSEEECCSSCCSCC-C--CTTCT
T ss_pred             CCCCEEEccC------CCccc-Ch-hhcccCCCCEEEccCCcCCe--Ec--cccCCCCCEEECcCCCCcee-e--cCCCC
Confidence            4678899988      67776 34 68999999999999999986  44  88899999999999999864 3  88999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCc
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSL  241 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L  241 (598)
                      +|++|++++|++.. .  + +..+++|++|++++|.++++     .+..+++|++|++++|...+..+  +..  . ++|
T Consensus       107 ~L~~L~L~~N~l~~-l--~-~~~l~~L~~L~l~~N~l~~l-----~l~~l~~L~~L~l~~n~~~~~~~--~~~--l-~~L  172 (457)
T 3bz5_A          107 KLTYLNCDTNKLTK-L--D-VSQNPLLTYLNCARNTLTEI-----DVSHNTQLTELDCHLNKKITKLD--VTP--Q-TQL  172 (457)
T ss_dssp             TCCEEECCSSCCSC-C--C-CTTCTTCCEEECTTSCCSCC-----CCTTCTTCCEEECTTCSCCCCCC--CTT--C-TTC
T ss_pred             cCCEEECCCCcCCe-e--c-CCCCCcCCEEECCCCcccee-----ccccCCcCCEEECCCCCcccccc--ccc--C-CcC
Confidence            99999999998733 2  2 88999999999999999885     27789999999999996544432  322  2 899


Q ss_pred             cEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEccc
Q 040109          242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSY  321 (598)
Q Consensus       242 ~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~  321 (598)
                      ++|++++|.+++ +|  +..++.  |+.|++++|.+++.   .+..+++|++|++++|+++++|  +..+++|+.|++++
T Consensus       173 ~~L~ls~n~l~~-l~--l~~l~~--L~~L~l~~N~l~~~---~l~~l~~L~~L~Ls~N~l~~ip--~~~l~~L~~L~l~~  242 (457)
T 3bz5_A          173 TTLDCSFNKITE-LD--VSQNKL--LNRLNCDTNNITKL---DLNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSV  242 (457)
T ss_dssp             CEEECCSSCCCC-CC--CTTCTT--CCEEECCSSCCSCC---CCTTCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCS
T ss_pred             CEEECCCCccce-ec--cccCCC--CCEEECcCCcCCee---ccccCCCCCEEECcCCcccccC--ccccCCCCEEEeeC
Confidence            999999999987 34  777777  99999999999875   3788899999999999999987  78899999999999


Q ss_pred             CcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEec
Q 040109          322 NELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDL  401 (598)
Q Consensus       322 n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~L  401 (598)
                      |++++..+..+..+..-.....+|+.|++++|.+.+.+|                             .+.+++|+.|++
T Consensus       243 N~l~~~~~~~l~~L~~L~l~~n~L~~L~l~~n~~~~~~~-----------------------------~~~l~~L~~L~L  293 (457)
T 3bz5_A          243 NPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQ-----------------------------AEGCRKIKELDV  293 (457)
T ss_dssp             SCCSCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEE-----------------------------CTTCTTCCCCCC
T ss_pred             CcCCCcCHHHCCCCCEEeccCCCCCEEECCCCccCCccc-----------------------------ccccccCCEEEC
Confidence            999987654443322111112234444455554444333                             123456666666


Q ss_pred             cCCcCCCcCchh--------hhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccc-----------
Q 040109          402 SSNKLGGEVPEE--------IMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL-----------  462 (598)
Q Consensus       402 s~n~l~~~~p~~--------l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l-----------  462 (598)
                      ++|...+.+|..        +..+++|++|++++|++++ ++  ++.+++|+.|++++|++++. + .+           
T Consensus       294 s~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~l~~-l~--l~~l~~L~~L~l~~N~l~~l-~-~L~~L~l~~n~l~  368 (457)
T 3bz5_A          294 THNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTELTE-LD--VSHNTKLKSLSCVNAHIQDF-S-SVGKIPALNNNFE  368 (457)
T ss_dssp             TTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCCCSC-CC--CTTCTTCSEEECCSSCCCBC-T-TGGGSSGGGTSEE
T ss_pred             CCCcccceeccCCCcceEechhhcccCCEEECCCCcccc-cc--cccCCcCcEEECCCCCCCCc-c-ccccccccCCcEE
Confidence            666655444431        3445566677777777765 22  66666777777777766642 1 11           


Q ss_pred             --cCCCCCCEEeCCCCcceecCCCC
Q 040109          463 --SRLRLLSVMDLSYNNFSGKIPKG  485 (598)
Q Consensus       463 --~~l~~L~~L~ls~N~l~~~~p~~  485 (598)
                        .++..|..+++++|+++|.+|..
T Consensus       369 g~~~~~~l~~l~l~~N~l~g~ip~~  393 (457)
T 3bz5_A          369 AEGQTITMPKETLTNNSLTIAVSPD  393 (457)
T ss_dssp             EEEEEEECCCBCCBTTBEEEECCTT
T ss_pred             ecceeeecCccccccCcEEEEcChh
Confidence              12345777888888888888864

>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=100.00  E-value=2.1e-33  Score=310.98  Aligned_cols=382  Identities=21%  Similarity=0.220  Sum_probs=280.0

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      .+++.|||++      +.+++..+.+|.++++|++|+|++|.+++. .+..|.++++|++|+|++|++++..+..|++++
T Consensus        76 ~~L~~L~Ls~------N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l-~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~  148 (635)
T 4g8a_A           76 PELQVLDLSR------CEIQTIEDGAYQSLSHLSTLILTGNPIQSL-ALGAFSGLSSLQKLVAVETNLASLENFPIGHLK  148 (635)
T ss_dssp             TTCCEEECTT------CCCCEECTTTTTTCTTCCEEECTTCCCCEE-CGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCT
T ss_pred             CCCCEEECCC------CcCCCcChhHhcCCCCCCEEEccCCcCCCC-CHHHhcCCCCCCEEECCCCcCCCCChhhhhcCc
Confidence            4678899988      788887777899999999999999999964 456789999999999999999987778899999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCC----cEEeccCcCCCCCCCChh-----
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL----TTLYLGHCDLPPISTPSL-----  232 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L----~~L~l~~n~l~~~~~~~~-----  232 (598)
                      +|++|++++|.+.....+..+..+++|++|++++|++++++.  ..+..+.++    ..++++.|.+....+..+     
T Consensus       149 ~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--~~l~~L~~l~~~~~~~~ls~n~l~~i~~~~~~~~~~  226 (635)
T 4g8a_A          149 TLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYC--TDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRL  226 (635)
T ss_dssp             TCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECG--GGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEE
T ss_pred             ccCeeccccCccccCCCchhhccchhhhhhcccCcccccccc--ccccchhhhhhhhhhhhcccCcccccCcccccchhh
Confidence            999999999998555566778999999999999999887532  222222211    123333332221111000     


Q ss_pred             --------------------------------------------------------------------------------
Q 040109          233 --------------------------------------------------------------------------------  232 (598)
Q Consensus       233 --------------------------------------------------------------------------------  232 (598)
                                                                                                      
T Consensus       227 ~~l~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~  306 (635)
T 4g8a_A          227 HKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLT  306 (635)
T ss_dssp             EEEEEESCCSSHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCTTTTGGGGGSEEEEEEEECCCSCEEECTTTTGGGT
T ss_pred             hhhhhhcccccccccchhhcCCcccccccccccccccccccccccccccccccchhhhhhhhhhhcccccchhhhhhhhc
Confidence                                                                                            


Q ss_pred             ---------------hhccccCCccEEEccCCCCCCCcch-------------------hhhhcCccCccEEEccCCccc
Q 040109          233 ---------------LHLNYSKSLEVIDLSNNYLTNSIYP-------------------WLLNVSSNLVDHIDLGSNRLH  278 (598)
Q Consensus       233 ---------------~~~~~~~~L~~L~Ls~n~l~~~~~~-------------------~l~~~~~~~L~~L~L~~n~l~  278 (598)
                                     ........++.|++.+|.+....+.                   ....++.  ++.|++++|.+.
T Consensus       307 ~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~l~~--L~~L~ls~n~l~  384 (635)
T 4g8a_A          307 NVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPS--LEFLDLSRNGLS  384 (635)
T ss_dssp             TCSEEEEESCEEEECGGGGSCCCCSEEEEESCEESSCCCCBCTTCCEEEEESCCSCCBCCCCBCTT--CCEEECCSSCCB
T ss_pred             ccccccccccccccccccccchhhhhhhcccccccCcCcccchhhhhcccccccCCCCcccccccc--cccchhhccccc
Confidence                           0000123566666666655432211                   1223455  899999999875


Q ss_pred             c--ccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchh-hhhhhcCCCCCCCCCCCEEEccCccc
Q 040109          279 G--SIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELS-EFIQNVSSGSTKNSSLEWLYLASNEI  355 (598)
Q Consensus       279 ~--~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~-~~l~~l~~g~~~~~~L~~L~Ls~N~l  355 (598)
                      .  ..+..+..+.+|+++++..|....++..+..+++|+.++++.|......+ ..+..+.       +++.++++.|.+
T Consensus       385 ~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~l~-------~l~~l~ls~n~l  457 (635)
T 4g8a_A          385 FKGCCSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLR-------NLIYLDISHTHT  457 (635)
T ss_dssp             EEEECCHHHHSCSCCCEEECCSCSEEEECSCCTTCTTCCEEECTTSEEESTTSSCTTTTCT-------TCCEEECTTSCC
T ss_pred             cccccccchhhhhhhhhhhccccccccccccccccccccchhhhhcccccccccccccccc-------cccccccccccc
Confidence            3  45566677788888888888777766667777888888887776654433 2344444       777788888777


Q ss_pred             cccCCC-CCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccC
Q 040109          356 TGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQI  434 (598)
Q Consensus       356 ~~~~p~-l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~  434 (598)
                      .+..|. +..++.+.......+..   ..+..+..+..+++|++|||++|++++..|..|.++++|++|+|++|++++..
T Consensus       458 ~~~~~~~~~~~~~L~~L~Ls~N~~---~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L~Ls~N~l~~l~  534 (635)
T 4g8a_A          458 RVAFNGIFNGLSSLEVLKMAGNSF---QENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLD  534 (635)
T ss_dssp             EECCTTTTTTCTTCCEEECTTCEE---GGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCBCC
T ss_pred             ccccccccccchhhhhhhhhhccc---ccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCCEEECCCCcCCCCC
Confidence            766554 23334443332222111   01122345677889999999999999999999999999999999999999888


Q ss_pred             CcccCCCCCCCeeeCCCCccCCCCcccccCC-CCCCEEeCCCCcceecCCC
Q 040109          435 TPRIGQLKSLDFLDLSINHFFGGIPSSLSRL-RLLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       435 p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l-~~L~~L~ls~N~l~~~~p~  484 (598)
                      |..|.++++|++|||++|++++..|+.+.++ ++|++|++++|++.+.+..
T Consensus       535 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L~~Np~~C~C~~  585 (635)
T 4g8a_A          535 TFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEH  585 (635)
T ss_dssp             CGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEECTTCCBCCSGGG
T ss_pred             hhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEeeCCCCcccCCc
Confidence            8999999999999999999999999999988 6899999999999987764

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=100.00  E-value=8.2e-34  Score=295.27  Aligned_cols=314  Identities=20%  Similarity=0.203  Sum_probs=268.5

Q ss_pred             CCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCC
Q 040109          135 SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL  214 (598)
Q Consensus       135 ~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L  214 (598)
                      .++++++|++++|.++...+..|..+++|++|++++|.+ ....+..+.++++|++|++++|.+.+++.  ..+..+++|
T Consensus        43 ~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L  119 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQI-EEIDTYAFAYAHTIQKLYMGFNAIRYLPP--HVFQNVPLL  119 (390)
T ss_dssp             GGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCC-CEECTTTTTTCTTCCEEECCSSCCCCCCT--TTTTTCTTC
T ss_pred             ccCCceEEEecCCchhhCChhHhcccccCcEEECCCCcc-cccChhhccCCCCcCEEECCCCCCCcCCH--HHhcCCCCC
Confidence            368999999999999865555678999999999999997 44455679999999999999999998743  678999999


Q ss_pred             cEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEE
Q 040109          215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYL  294 (598)
Q Consensus       215 ~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L  294 (598)
                      ++|++++|.++..++..+...   ++|++|++++|.+++..+..+..+++  |++|++++|.+++.   .+..+++|++|
T Consensus       120 ~~L~L~~n~l~~l~~~~~~~l---~~L~~L~L~~n~l~~~~~~~~~~l~~--L~~L~l~~n~l~~~---~~~~l~~L~~L  191 (390)
T 3o6n_A          120 TVLVLERNDLSSLPRGIFHNT---PKLTTLSMSNNNLERIEDDTFQATTS--LQNLQLSSNRLTHV---DLSLIPSLFHA  191 (390)
T ss_dssp             CEEECCSSCCCCCCTTTTTTC---TTCCEEECCSSCCCBCCTTTTSSCTT--CCEEECCSSCCSBC---CGGGCTTCSEE
T ss_pred             CEEECCCCccCcCCHHHhcCC---CCCcEEECCCCccCccChhhccCCCC--CCEEECCCCcCCcc---cccccccccee
Confidence            999999999998776444333   89999999999999888888999999  99999999999865   35678999999


Q ss_pred             eeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcccccc
Q 040109          295 GLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIY  374 (598)
Q Consensus       295 ~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~  374 (598)
                      ++++|.++.++    ..++|+.|++++|.+.......   .       ++|+.|++++|.+++.                
T Consensus       192 ~l~~n~l~~~~----~~~~L~~L~l~~n~l~~~~~~~---~-------~~L~~L~l~~n~l~~~----------------  241 (390)
T 3o6n_A          192 NVSYNLLSTLA----IPIAVEELDASHNSINVVRGPV---N-------VELTILKLQHNNLTDT----------------  241 (390)
T ss_dssp             ECCSSCCSEEE----CCSSCSEEECCSSCCCEEECCC---C-------SSCCEEECCSSCCCCC----------------
T ss_pred             ecccccccccC----CCCcceEEECCCCeeeeccccc---c-------ccccEEECCCCCCccc----------------
Confidence            99999998754    3468999999999998763322   1       3899999999998742                


Q ss_pred             ccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCcc
Q 040109          375 FDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHF  454 (598)
Q Consensus       375 ~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l  454 (598)
                                   ..+..+++|++|++++|.+++..|..+..+++|++|++++|+++ .+|..+..+++|++|++++|++
T Consensus       242 -------------~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~l~~L~~L~L~~n~l  307 (390)
T 3o6n_A          242 -------------AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV-ALNLYGQPIPTLKVLDLSHNHL  307 (390)
T ss_dssp             -------------GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCC-EEECSSSCCTTCCEEECCSSCC
T ss_pred             -------------HHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCc-ccCcccCCCCCCCEEECCCCcc
Confidence                         23456788999999999999888999999999999999999999 4677788899999999999999


Q ss_pred             CCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          455 FGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       455 ~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      + .+|..+..+++|++|++++|+++. +| ...+++++.+++.+||+.|++.
T Consensus       308 ~-~~~~~~~~l~~L~~L~L~~N~i~~-~~-~~~~~~L~~L~l~~N~~~~~~~  356 (390)
T 3o6n_A          308 L-HVERNQPQFDRLENLYLDHNSIVT-LK-LSTHHTLKNLTLSHNDWDCNSL  356 (390)
T ss_dssp             C-CCGGGHHHHTTCSEEECCSSCCCC-CC-CCTTCCCSEEECCSSCEEHHHH
T ss_pred             e-ecCccccccCcCCEEECCCCccce-eC-chhhccCCEEEcCCCCccchhH
Confidence            8 677788899999999999999984 45 4567889999999999999754

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

Probab=100.00  E-value=7.7e-33  Score=292.79  Aligned_cols=312  Identities=19%  Similarity=0.153  Sum_probs=261.9

Q ss_pred             cCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCccccc
Q 040109          104 INPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLS  183 (598)
Q Consensus       104 l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~  183 (598)
                      .+.+++++++|++|++++|.+++  +| .++.+++|++|++++|.+++. |  ++.+++|++|++++|.+...    .+.
T Consensus        34 ~~~~~~~l~~L~~L~Ls~n~l~~--~~-~l~~l~~L~~L~Ls~n~l~~~-~--~~~l~~L~~L~Ls~N~l~~~----~~~  103 (457)
T 3bz5_A           34 DTISEEQLATLTSLDCHNSSITD--MT-GIEKLTGLTKLICTSNNITTL-D--LSQNTNLTYLACDSNKLTNL----DVT  103 (457)
T ss_dssp             SEEEHHHHTTCCEEECCSSCCCC--CT-TGGGCTTCSEEECCSSCCSCC-C--CTTCTTCSEEECCSSCCSCC----CCT
T ss_pred             cccChhHcCCCCEEEccCCCccc--Ch-hhcccCCCCEEEccCCcCCeE-c--cccCCCCCEEECcCCCCcee----ecC
Confidence            34467889999999999999996  55 688999999999999999964 4  89999999999999998432    288


Q ss_pred             CCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcC
Q 040109          184 YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVS  263 (598)
Q Consensus       184 ~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~  263 (598)
                      ++++|++|++++|.+++++     +..+++|++|++++|++++..   +.  .. ++|++|++++|...+.+  .+..++
T Consensus       104 ~l~~L~~L~L~~N~l~~l~-----~~~l~~L~~L~l~~N~l~~l~---l~--~l-~~L~~L~l~~n~~~~~~--~~~~l~  170 (457)
T 3bz5_A          104 PLTKLTYLNCDTNKLTKLD-----VSQNPLLTYLNCARNTLTEID---VS--HN-TQLTELDCHLNKKITKL--DVTPQT  170 (457)
T ss_dssp             TCTTCCEEECCSSCCSCCC-----CTTCTTCCEEECTTSCCSCCC---CT--TC-TTCCEEECTTCSCCCCC--CCTTCT
T ss_pred             CCCcCCEEECCCCcCCeec-----CCCCCcCCEEECCCCccceec---cc--cC-CcCCEEECCCCCccccc--ccccCC
Confidence            9999999999999999852     789999999999999999863   22  22 89999999999766665  467778


Q ss_pred             ccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCC
Q 040109          264 SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNS  343 (598)
Q Consensus       264 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~  343 (598)
                      .  |++|++++|.+++ +|  +..+++|++|++++|++++++  +..+++|+.|++++|++++. |  +..++       
T Consensus       171 ~--L~~L~ls~n~l~~-l~--l~~l~~L~~L~l~~N~l~~~~--l~~l~~L~~L~Ls~N~l~~i-p--~~~l~-------  233 (457)
T 3bz5_A          171 Q--LTTLDCSFNKITE-LD--VSQNKLLNRLNCDTNNITKLD--LNQNIQLTFLDCSSNKLTEI-D--VTPLT-------  233 (457)
T ss_dssp             T--CCEEECCSSCCCC-CC--CTTCTTCCEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCC-C--CTTCT-------
T ss_pred             c--CCEEECCCCccce-ec--cccCCCCCEEECcCCcCCeec--cccCCCCCEEECcCCccccc-C--ccccC-------
Confidence            8  9999999999997 44  889999999999999999984  88899999999999999984 4  66666       


Q ss_pred             CCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEE
Q 040109          344 SLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL  423 (598)
Q Consensus       344 ~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L  423 (598)
                      +|+.|++++|++++..  ++.++++....                  -...+|+.|++++|.+.+.+|  ++.+++|+.|
T Consensus       234 ~L~~L~l~~N~l~~~~--~~~l~~L~~L~------------------l~~n~L~~L~l~~n~~~~~~~--~~~l~~L~~L  291 (457)
T 3bz5_A          234 QLTYFDCSVNPLTELD--VSTLSKLTTLH------------------CIQTDLLEIDLTHNTQLIYFQ--AEGCRKIKEL  291 (457)
T ss_dssp             TCSEEECCSSCCSCCC--CTTCTTCCEEE------------------CTTCCCSCCCCTTCTTCCEEE--CTTCTTCCCC
T ss_pred             CCCEEEeeCCcCCCcC--HHHCCCCCEEe------------------ccCCCCCEEECCCCccCCccc--ccccccCCEE
Confidence            8999999999999753  33444443211                  112368899999999888887  5688999999


Q ss_pred             ECcCCcCcccCCcc--------cCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCccee
Q 040109          424 NLSNNNLTGQITPR--------IGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       424 ~Ls~N~l~~~~p~~--------l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      ++++|...+.+|..        +.++++|++|++++|++++. +  +.++++|+.|++++|++++
T Consensus       292 ~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~l~~l-~--l~~l~~L~~L~l~~N~l~~  353 (457)
T 3bz5_A          292 DVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTELTEL-D--VSHNTKLKSLSCVNAHIQD  353 (457)
T ss_dssp             CCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCCCSCC-C--CTTCTTCSEEECCSSCCCB
T ss_pred             ECCCCcccceeccCCCcceEechhhcccCCEEECCCCccccc-c--cccCCcCcEEECCCCCCCC
Confidence            99999988777642        55668999999999999984 3  8999999999999999986

>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=100.00  E-value=4.8e-32  Score=277.31  Aligned_cols=306  Identities=22%  Similarity=0.349  Sum_probs=261.6

Q ss_pred             cCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCC
Q 040109          133 IGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLR  212 (598)
Q Consensus       133 l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~  212 (598)
                      +..+++|++|++++|.+. .++ .+..+++|++|++++|.+..  . +.+..+++|++|++++|.++.+    ..+..++
T Consensus        40 ~~~l~~L~~L~l~~~~i~-~~~-~~~~~~~L~~L~l~~n~i~~--~-~~~~~l~~L~~L~L~~n~i~~~----~~~~~l~  110 (347)
T 4fmz_A           40 QEELESITKLVVAGEKVA-SIQ-GIEYLTNLEYLNLNGNQITD--I-SPLSNLVKLTNLYIGTNKITDI----SALQNLT  110 (347)
T ss_dssp             HHHHTTCSEEECCSSCCC-CCT-TGGGCTTCCEEECCSSCCCC--C-GGGTTCTTCCEEECCSSCCCCC----GGGTTCT
T ss_pred             chhcccccEEEEeCCccc-cch-hhhhcCCccEEEccCCcccc--c-hhhhcCCcCCEEEccCCcccCc----hHHcCCC
Confidence            456899999999999998 444 48899999999999998732  2 2289999999999999999986    3589999


Q ss_pred             CCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCcc
Q 040109          213 SLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLR  292 (598)
Q Consensus       213 ~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~  292 (598)
                      +|++|++++|.+.+..+  +..   +++|+.|++++|.....++. +..++.  |++|++++|.+.+..+  +..+++|+
T Consensus       111 ~L~~L~l~~n~i~~~~~--~~~---l~~L~~L~l~~n~~~~~~~~-~~~l~~--L~~L~l~~~~~~~~~~--~~~l~~L~  180 (347)
T 4fmz_A          111 NLRELYLNEDNISDISP--LAN---LTKMYSLNLGANHNLSDLSP-LSNMTG--LNYLTVTESKVKDVTP--IANLTDLY  180 (347)
T ss_dssp             TCSEEECTTSCCCCCGG--GTT---CTTCCEEECTTCTTCCCCGG-GTTCTT--CCEEECCSSCCCCCGG--GGGCTTCS
T ss_pred             cCCEEECcCCcccCchh--hcc---CCceeEEECCCCCCcccccc-hhhCCC--CcEEEecCCCcCCchh--hccCCCCC
Confidence            99999999999988654  332   38999999999976655444 888888  9999999999986544  88999999


Q ss_pred             EEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcccc
Q 040109          293 YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPL  372 (598)
Q Consensus       293 ~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~  372 (598)
                      +|++++|.+++++. +..+++|+.|++++|.+.+..+  +..++       +|+.|++++|.+++..+            
T Consensus       181 ~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~--~~~~~-------~L~~L~l~~n~l~~~~~------------  238 (347)
T 4fmz_A          181 SLSLNYNQIEDISP-LASLTSLHYFTAYVNQITDITP--VANMT-------RLNSLKIGNNKITDLSP------------  238 (347)
T ss_dssp             EEECTTSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GGGCT-------TCCEEECCSSCCCCCGG------------
T ss_pred             EEEccCCccccccc-ccCCCccceeecccCCCCCCch--hhcCC-------cCCEEEccCCccCCCcc------------
Confidence            99999999999876 8899999999999999998766  66666       99999999999874321            


Q ss_pred             ccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCC
Q 040109          373 IYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN  452 (598)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N  452 (598)
                                       +..+++|++|++++|.+++ + +.+..+++|++|++++|++++.  +.+..+++|++|++++|
T Consensus       239 -----------------~~~l~~L~~L~l~~n~l~~-~-~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~L~~n  297 (347)
T 4fmz_A          239 -----------------LANLSQLTWLEIGTNQISD-I-NAVKDLTKLKMLNVGSNQISDI--SVLNNLSQLNSLFLNNN  297 (347)
T ss_dssp             -----------------GTTCTTCCEEECCSSCCCC-C-GGGTTCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCSS
T ss_pred             -----------------hhcCCCCCEEECCCCccCC-C-hhHhcCCCcCEEEccCCccCCC--hhhcCCCCCCEEECcCC
Confidence                             3457789999999999985 3 4789999999999999999954  46889999999999999


Q ss_pred             ccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCC
Q 040109          453 HFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPE  501 (598)
Q Consensus       453 ~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~  501 (598)
                      ++++..|..+.++++|++|++++|++++..| ...+++++.+++.+|+.
T Consensus       298 ~l~~~~~~~l~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~~N~i  345 (347)
T 4fmz_A          298 QLGNEDMEVIGGLTNLTTLFLSQNHITDIRP-LASLSKMDSADFANQVI  345 (347)
T ss_dssp             CCCGGGHHHHHTCTTCSEEECCSSSCCCCGG-GGGCTTCSEESSSCC--
T ss_pred             cCCCcChhHhhccccCCEEEccCCccccccC-hhhhhccceeehhhhcc
Confidence            9999999999999999999999999997666 66788899999999874

>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=100.00  E-value=2.3e-33  Score=296.62  Aligned_cols=330  Identities=24%  Similarity=0.276  Sum_probs=158.5

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCC-------------------------
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLS-------------------------  137 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~-------------------------  137 (598)
                      +++.+++++      +.+ |.+|++++++++|++|++++|.+.+. +|..++.++                         
T Consensus        12 ~L~~L~l~~------n~l-~~iP~~i~~L~~L~~L~l~~n~~~~~-~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l   83 (454)
T 1jl5_A           12 FLQEPLRHS------SNL-TEMPVEAENVKSKTEYYNAWSEWERN-APPGNGEQREMAVSRLRDCLDRQAHELELNNLGL   83 (454)
T ss_dssp             -----------------------------CCHHHHHHHHHHHHHT-SCTTSCCCHHHHHHHHHHHHHHTCSEEECTTSCC
T ss_pred             cchhhhccc------Cch-hhCChhHhcccchhhhhccCCccccc-CCcccccchhcchhhhhhhhccCCCEEEecCCcc
Confidence            445555555      444 55555555555555555555555443 555554444                         


Q ss_pred             --------CCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhc
Q 040109          138 --------KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLS  209 (598)
Q Consensus       138 --------~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~  209 (598)
                              +|++|++++|.+++ +|..   +++|++|++++|.+....  .   ..++|++|++++|.++++|    .+.
T Consensus        84 ~~lp~~~~~L~~L~l~~n~l~~-lp~~---~~~L~~L~l~~n~l~~l~--~---~~~~L~~L~L~~n~l~~lp----~~~  150 (454)
T 1jl5_A           84 SSLPELPPHLESLVASCNSLTE-LPEL---PQSLKSLLVDNNNLKALS--D---LPPLLEYLGVSNNQLEKLP----ELQ  150 (454)
T ss_dssp             SCCCSCCTTCSEEECCSSCCSS-CCCC---CTTCCEEECCSSCCSCCC--S---CCTTCCEEECCSSCCSSCC----CCT
T ss_pred             ccCCCCcCCCCEEEccCCcCCc-cccc---cCCCcEEECCCCccCccc--C---CCCCCCEEECcCCCCCCCc----ccC
Confidence                    44555555554443 3322   245555555555542110  0   0145666666666665543    255


Q ss_pred             CCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCC
Q 040109          210 NLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMA  289 (598)
Q Consensus       210 ~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~  289 (598)
                      .+++|++|++++|++++.+..       ..+|++|++++|.+++ +| .+..++.  |++|++++|.+++ +|..   .+
T Consensus       151 ~l~~L~~L~l~~N~l~~lp~~-------~~~L~~L~L~~n~l~~-l~-~~~~l~~--L~~L~l~~N~l~~-l~~~---~~  215 (454)
T 1jl5_A          151 NSSFLKIIDVDNNSLKKLPDL-------PPSLEFIAAGNNQLEE-LP-ELQNLPF--LTAIYADNNSLKK-LPDL---PL  215 (454)
T ss_dssp             TCTTCCEEECCSSCCSCCCCC-------CTTCCEEECCSSCCSS-CC-CCTTCTT--CCEEECCSSCCSS-CCCC---CT
T ss_pred             CCCCCCEEECCCCcCcccCCC-------cccccEEECcCCcCCc-Cc-cccCCCC--CCEEECCCCcCCc-CCCC---cC
Confidence            666666666666666553321       1456666666666664 33 3555555  6666666666654 3322   24


Q ss_pred             CccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCc
Q 040109          290 SLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGML  369 (598)
Q Consensus       290 ~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~  369 (598)
                      +|++|++++|.++.+|. +..+++|++|++++|++++. |..   ..       +|+.|++++|++++ +|..  .+++.
T Consensus       216 ~L~~L~l~~n~l~~lp~-~~~l~~L~~L~l~~N~l~~l-~~~---~~-------~L~~L~l~~N~l~~-l~~~--~~~L~  280 (454)
T 1jl5_A          216 SLESIVAGNNILEELPE-LQNLPFLTTIYADNNLLKTL-PDL---PP-------SLEALNVRDNYLTD-LPEL--PQSLT  280 (454)
T ss_dssp             TCCEEECCSSCCSSCCC-CTTCTTCCEEECCSSCCSSC-CSC---CT-------TCCEEECCSSCCSC-CCCC--CTTCC
T ss_pred             cccEEECcCCcCCcccc-cCCCCCCCEEECCCCcCCcc-ccc---cc-------ccCEEECCCCcccc-cCcc--cCcCC
Confidence            66666666666666663 56666666666666666542 211   12       56666666666664 3321  12222


Q ss_pred             cccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcc-cCCcEEECcCCcCcccCCcccCCCCCCCeee
Q 040109          370 MPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDL-VGLVALNLSNNNLTGQITPRIGQLKSLDFLD  448 (598)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l-~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  448 (598)
                      ......+.+..        .....++|+.|++++|++++ ++    .+ ++|++|++++|++++ +|..   +++|++|+
T Consensus       281 ~L~ls~N~l~~--------l~~~~~~L~~L~l~~N~l~~-i~----~~~~~L~~L~Ls~N~l~~-lp~~---~~~L~~L~  343 (454)
T 1jl5_A          281 FLDVSENIFSG--------LSELPPNLYYLNASSNEIRS-LC----DLPPSLEELNVSNNKLIE-LPAL---PPRLERLI  343 (454)
T ss_dssp             EEECCSSCCSE--------ESCCCTTCCEEECCSSCCSE-EC----CCCTTCCEEECCSSCCSC-CCCC---CTTCCEEE
T ss_pred             EEECcCCccCc--------ccCcCCcCCEEECcCCcCCc-cc----CCcCcCCEEECCCCcccc-cccc---CCcCCEEE
Confidence            22111111110        00112455566666665553 11    12 356666666666663 4443   35666666


Q ss_pred             CCCCccCCCCcccccCCCCCCEEeCCCCccee--cCCC
Q 040109          449 LSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG--KIPK  484 (598)
Q Consensus       449 Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~--~~p~  484 (598)
                      +++|+++ .+|.   .+++|++|++++|++++  .+|.
T Consensus       344 L~~N~l~-~lp~---~l~~L~~L~L~~N~l~~l~~ip~  377 (454)
T 1jl5_A          344 ASFNHLA-EVPE---LPQNLKQLHVEYNPLREFPDIPE  377 (454)
T ss_dssp             CCSSCCS-CCCC---CCTTCCEEECCSSCCSSCCCCCT
T ss_pred             CCCCccc-cccc---hhhhccEEECCCCCCCcCCCChH
Confidence            6666665 3444   35666666666666665  4443

>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=100.00  E-value=4.8e-33  Score=305.35  Aligned_cols=313  Identities=20%  Similarity=0.193  Sum_probs=270.8

Q ss_pred             CCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCc
Q 040109          136 LSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLT  215 (598)
Q Consensus       136 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~  215 (598)
                      +.+++.|++++|.+....+..|.++++|++|++++|.+ ....+..|..+++|++|+|++|.+++++.  ..+..+++|+
T Consensus        50 l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~  126 (597)
T 3oja_B           50 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQI-EEIDTYAFAYAHTIQKLYMGFNAIRYLPP--HVFQNVPLLT  126 (597)
T ss_dssp             GCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSCC-CEECTTTTTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCC
T ss_pred             CCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCCC-CCCChHHhcCCCCCCEEECCCCcCCCCCH--HHHcCCCCCC
Confidence            68999999999999976666788999999999999997 44455579999999999999999999743  6789999999


Q ss_pred             EEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEe
Q 040109          216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLG  295 (598)
Q Consensus       216 ~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~  295 (598)
                      +|++++|.+++.++..+..+   ++|++|++++|.+++..|..+..+++  |+.|++++|.+++..   +..+++|+.|+
T Consensus       127 ~L~L~~n~l~~l~~~~~~~l---~~L~~L~Ls~N~l~~~~~~~~~~l~~--L~~L~L~~N~l~~~~---~~~l~~L~~L~  198 (597)
T 3oja_B          127 VLVLERNDLSSLPRGIFHNT---PKLTTLSMSNNNLERIEDDTFQATTS--LQNLQLSSNRLTHVD---LSLIPSLFHAN  198 (597)
T ss_dssp             EEECCSSCCCCCCTTTTTTC---TTCCEEECCSSCCCBCCTTTTTTCTT--CCEEECTTSCCSBCC---GGGCTTCSEEE
T ss_pred             EEEeeCCCCCCCCHHHhccC---CCCCEEEeeCCcCCCCChhhhhcCCc--CcEEECcCCCCCCcC---hhhhhhhhhhh
Confidence            99999999998877544433   89999999999999888889999999  999999999998653   56778999999


Q ss_pred             eccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccc
Q 040109          296 LLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYF  375 (598)
Q Consensus       296 Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~  375 (598)
                      +++|.+++++    ..++|+.|++++|.+....+...          ++|+.|++++|.+++.                 
T Consensus       199 l~~n~l~~l~----~~~~L~~L~ls~n~l~~~~~~~~----------~~L~~L~L~~n~l~~~-----------------  247 (597)
T 3oja_B          199 VSYNLLSTLA----IPIAVEELDASHNSINVVRGPVN----------VELTILKLQHNNLTDT-----------------  247 (597)
T ss_dssp             CCSSCCSEEE----CCTTCSEEECCSSCCCEEECSCC----------SCCCEEECCSSCCCCC-----------------
T ss_pred             cccCcccccc----CCchhheeeccCCcccccccccC----------CCCCEEECCCCCCCCC-----------------
Confidence            9999998754    35689999999999986544322          2899999999999852                 


Q ss_pred             cceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccC
Q 040109          376 DKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       376 ~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  455 (598)
                                  ..+..+++|+.|+|++|.+++.+|..|..+++|+.|+|++|++++ +|..+..+++|+.|+|++|.++
T Consensus       248 ------------~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~Ls~N~l~  314 (597)
T 3oja_B          248 ------------AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHNHLL  314 (597)
T ss_dssp             ------------GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCE-EECSSSCCTTCCEEECCSSCCC
T ss_pred             ------------hhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCC-CCcccccCCCCcEEECCCCCCC
Confidence                        234567899999999999999999999999999999999999995 6778888999999999999998


Q ss_pred             CCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          456 GGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       456 ~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                       .+|..+..+++|++|++++|++++. | ...++++..+.+.+||+.|+|.
T Consensus       315 -~i~~~~~~l~~L~~L~L~~N~l~~~-~-~~~~~~L~~L~l~~N~~~~~~~  362 (597)
T 3oja_B          315 -HVERNQPQFDRLENLYLDHNSIVTL-K-LSTHHTLKNLTLSHNDWDCNSL  362 (597)
T ss_dssp             -CCGGGHHHHTTCSEEECCSSCCCCC-C-CCTTCCCSEEECCSSCEEHHHH
T ss_pred             -ccCcccccCCCCCEEECCCCCCCCc-C-hhhcCCCCEEEeeCCCCCChhH
Confidence             6888899999999999999999854 4 3467888999999999999753

>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=100.00  E-value=1.9e-31  Score=281.82  Aligned_cols=323  Identities=24%  Similarity=0.269  Sum_probs=166.0

Q ss_pred             CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEE
Q 040109          112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYL  191 (598)
Q Consensus       112 ~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L  191 (598)
                      ++|++|++++|.+++  +|..   +++|++|++++|.+++ +|..   .++|++|++++|.+..  .+ .+.++++|++|
T Consensus        91 ~~L~~L~l~~n~l~~--lp~~---~~~L~~L~l~~n~l~~-l~~~---~~~L~~L~L~~n~l~~--lp-~~~~l~~L~~L  158 (454)
T 1jl5_A           91 PHLESLVASCNSLTE--LPEL---PQSLKSLLVDNNNLKA-LSDL---PPLLEYLGVSNNQLEK--LP-ELQNSSFLKII  158 (454)
T ss_dssp             TTCSEEECCSSCCSS--CCCC---CTTCCEEECCSSCCSC-CCSC---CTTCCEEECCSSCCSS--CC-CCTTCTTCCEE
T ss_pred             CCCCEEEccCCcCCc--cccc---cCCCcEEECCCCccCc-ccCC---CCCCCEEECcCCCCCC--Cc-ccCCCCCCCEE
Confidence            456666666666653  4432   3556666666666553 2211   1456666666665522  11 35666666666


Q ss_pred             EcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEE
Q 040109          192 DLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID  271 (598)
Q Consensus       192 ~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~  271 (598)
                      ++++|+++++|..      .++|++|++++|.+++.+.  +...   ++|++|++++|.+++ +|...   .+  |++|+
T Consensus       159 ~l~~N~l~~lp~~------~~~L~~L~L~~n~l~~l~~--~~~l---~~L~~L~l~~N~l~~-l~~~~---~~--L~~L~  221 (454)
T 1jl5_A          159 DVDNNSLKKLPDL------PPSLEFIAAGNNQLEELPE--LQNL---PFLTAIYADNNSLKK-LPDLP---LS--LESIV  221 (454)
T ss_dssp             ECCSSCCSCCCCC------CTTCCEEECCSSCCSSCCC--CTTC---TTCCEEECCSSCCSS-CCCCC---TT--CCEEE
T ss_pred             ECCCCcCcccCCC------cccccEEECcCCcCCcCcc--ccCC---CCCCEEECCCCcCCc-CCCCc---Cc--ccEEE
Confidence            6666666554331      2356666666666655331  2221   566666666666553 22211   23  66666


Q ss_pred             ccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEcc
Q 040109          272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLA  351 (598)
Q Consensus       272 L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls  351 (598)
                      +++|.++ .+|. ++.+++|++|++++|+++++|..   +++|+.|++++|++.+. |...   +       +|+.|+++
T Consensus       222 l~~n~l~-~lp~-~~~l~~L~~L~l~~N~l~~l~~~---~~~L~~L~l~~N~l~~l-~~~~---~-------~L~~L~ls  285 (454)
T 1jl5_A          222 AGNNILE-ELPE-LQNLPFLTTIYADNNLLKTLPDL---PPSLEALNVRDNYLTDL-PELP---Q-------SLTFLDVS  285 (454)
T ss_dssp             CCSSCCS-SCCC-CTTCTTCCEEECCSSCCSSCCSC---CTTCCEEECCSSCCSCC-CCCC---T-------TCCEEECC
T ss_pred             CcCCcCC-cccc-cCCCCCCCEEECCCCcCCccccc---ccccCEEECCCCccccc-Cccc---C-------cCCEEECc
Confidence            6666665 4442 55666666666666666655542   25566666666665542 2211   2       56666666


Q ss_pred             CccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCc
Q 040109          352 SNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT  431 (598)
Q Consensus       352 ~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  431 (598)
                      +|.+++. |.+.  +++.......+.+..        .....++|+.|++++|++++ +|..   +++|++|++++|+++
T Consensus       286 ~N~l~~l-~~~~--~~L~~L~l~~N~l~~--------i~~~~~~L~~L~Ls~N~l~~-lp~~---~~~L~~L~L~~N~l~  350 (454)
T 1jl5_A          286 ENIFSGL-SELP--PNLYYLNASSNEIRS--------LCDLPPSLEELNVSNNKLIE-LPAL---PPRLERLIASFNHLA  350 (454)
T ss_dssp             SSCCSEE-SCCC--TTCCEEECCSSCCSE--------ECCCCTTCCEEECCSSCCSC-CCCC---CTTCCEEECCSSCCS
T ss_pred             CCccCcc-cCcC--CcCCEEECcCCcCCc--------ccCCcCcCCEEECCCCcccc-cccc---CCcCCEEECCCCccc
Confidence            6665541 1110  122211111111110        00113589999999999995 6654   589999999999999


Q ss_pred             ccCCcccCCCCCCCeeeCCCCccCC--CCcccccCC-------------CCCCEEeCCCCccee--cCCCCCccCccCCC
Q 040109          432 GQITPRIGQLKSLDFLDLSINHFFG--GIPSSLSRL-------------RLLSVMDLSYNNFSG--KIPKGTQLQRFGAS  494 (598)
Q Consensus       432 ~~~p~~l~~l~~L~~L~Ls~N~l~~--~~p~~l~~l-------------~~L~~L~ls~N~l~~--~~p~~~~~~~l~~~  494 (598)
                       .+|.   .+++|++|++++|++++  .+|..+.++             ++|++|++++|++++  .+|.     ++..+
T Consensus       351 -~lp~---~l~~L~~L~L~~N~l~~l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~l~~~~~iP~-----sl~~L  421 (454)
T 1jl5_A          351 -EVPE---LPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLREFPDIPE-----SVEDL  421 (454)
T ss_dssp             -CCCC---CCTTCCEEECCSSCCSSCCCCCTTCCEEECCC----------------------------------------
T ss_pred             -cccc---hhhhccEEECCCCCCCcCCCChHHHHhhhhcccccccccccCcCCEEECCCCcCCccccchh-----hHhhe
Confidence             5776   47899999999999998  788888877             889999999999987  6664     35555


Q ss_pred             ccCCCCCCC
Q 040109          495 TYAGNPELC  503 (598)
Q Consensus       495 ~~~gnp~lC  503 (598)
                      .+.+|...|
T Consensus       422 ~~~~~~~~~  430 (454)
T 1jl5_A          422 RMNSERVVD  430 (454)
T ss_dssp             ---------
T ss_pred             eCcCcccCC
Confidence            666665544

>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=99.98  E-value=1.1e-30  Score=265.10  Aligned_cols=289  Identities=21%  Similarity=0.205  Sum_probs=216.6

Q ss_pred             CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEE
Q 040109          113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLD  192 (598)
Q Consensus       113 ~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~  192 (598)
                      +++.++++++.++.  +|..+.  ++|++|++++|.+++..+..|+++++|++|++++|.+ ....+..+.++++|++|+
T Consensus        32 ~l~~l~~~~~~l~~--lp~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~  106 (330)
T 1xku_A           32 HLRVVQCSDLGLEK--VPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI-SKISPGAFAPLVKLERLY  106 (330)
T ss_dssp             ETTEEECTTSCCCS--CCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC-CCBCTTTTTTCTTCCEEE
T ss_pred             CCeEEEecCCCccc--cCccCC--CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcC-CeeCHHHhcCCCCCCEEE
Confidence            67888888888873  666553  6788888888888876666788888888888888876 333344566666666666


Q ss_pred             cCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEc
Q 040109          193 LGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL  272 (598)
Q Consensus       193 L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L  272 (598)
                      +++|.++.++.   .+                          .   ++|++|++++|.+++..+..+..++.  |+.|++
T Consensus       107 Ls~n~l~~l~~---~~--------------------------~---~~L~~L~l~~n~l~~~~~~~~~~l~~--L~~L~l  152 (330)
T 1xku_A          107 LSKNQLKELPE---KM--------------------------P---KTLQELRVHENEITKVRKSVFNGLNQ--MIVVEL  152 (330)
T ss_dssp             CCSSCCSBCCS---SC--------------------------C---TTCCEEECCSSCCCBBCHHHHTTCTT--CCEEEC
T ss_pred             CCCCcCCccCh---hh--------------------------c---ccccEEECCCCcccccCHhHhcCCcc--ccEEEC
Confidence            66666654322   10                          0   46667777777776655666777777  888888


Q ss_pred             cCCcccc--ccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEc
Q 040109          273 GSNRLHG--SIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL  350 (598)
Q Consensus       273 ~~n~l~~--~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~L  350 (598)
                      ++|.+..  ..+..+..+++|++|++++|.++.+|..+.  ++|++|++++|.+.+..|..+..++       +|+.|++
T Consensus       153 ~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~-------~L~~L~L  223 (330)
T 1xku_A          153 GTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLP--PSLTELHLDGNKITKVDAASLKGLN-------NLAKLGL  223 (330)
T ss_dssp             CSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCC--TTCSEEECTTSCCCEECTGGGTTCT-------TCCEEEC
T ss_pred             CCCcCCccCcChhhccCCCCcCEEECCCCccccCCcccc--ccCCEEECCCCcCCccCHHHhcCCC-------CCCEEEC
Confidence            8887753  567778888899999999999888876554  7899999999999888888888877       8999999


Q ss_pred             cCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcC
Q 040109          351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNL  430 (598)
Q Consensus       351 s~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l  430 (598)
                      ++|.+++..+                           ..+..+++|++|++++|+++ .+|..+..+++|++|++++|++
T Consensus       224 s~n~l~~~~~---------------------------~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N~i  275 (330)
T 1xku_A          224 SFNSISAVDN---------------------------GSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNI  275 (330)
T ss_dssp             CSSCCCEECT---------------------------TTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEECCSSCC
T ss_pred             CCCcCceeCh---------------------------hhccCCCCCCEEECCCCcCc-cCChhhccCCCcCEEECCCCcC
Confidence            9998876443                           12345678899999999998 7888889999999999999999


Q ss_pred             cccCCcccCC------CCCCCeeeCCCCccCC--CCcccccCCCCCCEEeCCCCc
Q 040109          431 TGQITPRIGQ------LKSLDFLDLSINHFFG--GIPSSLSRLRLLSVMDLSYNN  477 (598)
Q Consensus       431 ~~~~p~~l~~------l~~L~~L~Ls~N~l~~--~~p~~l~~l~~L~~L~ls~N~  477 (598)
                      ++..+..|..      .+.|+.|++++|.+..  ..|..|..++.++.+++++|+
T Consensus       276 ~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~L~~N~  330 (330)
T 1xku_A          276 SAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNYK  330 (330)
T ss_dssp             CCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEEC----
T ss_pred             CccChhhcCCcccccccccccceEeecCcccccccCccccccccceeEEEecccC
Confidence            9766666654      3788899999998853  556788889999999999885

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

Probab=99.98  E-value=4.9e-31  Score=268.05  Aligned_cols=288  Identities=23%  Similarity=0.234  Sum_probs=198.0

Q ss_pred             CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEE
Q 040109          113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLD  192 (598)
Q Consensus       113 ~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~  192 (598)
                      +++.++++++.++.  +|..+.  ++|++|++++|.+++..|..|.++++|++|++++|.+ ....+..+.++++|++|+
T Consensus        34 ~l~~l~~~~~~l~~--ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~  108 (332)
T 2ft3_A           34 HLRVVQCSDLGLKA--VPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKI-SKIHEKAFSPLRKLQKLY  108 (332)
T ss_dssp             ETTEEECCSSCCSS--CCSCCC--TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC-CEECGGGSTTCTTCCEEE
T ss_pred             cCCEEECCCCCccc--cCCCCC--CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCcc-CccCHhHhhCcCCCCEEE
Confidence            67888888888773  666553  6788888888888766667788888888888888876 333345566677777777


Q ss_pred             cCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEc
Q 040109          193 LGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL  272 (598)
Q Consensus       193 L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L  272 (598)
                      +++|.++.++.   .+.  ++                           |++|++++|.+++..+..+..+++  |+.|++
T Consensus       109 L~~n~l~~l~~---~~~--~~---------------------------L~~L~l~~n~i~~~~~~~~~~l~~--L~~L~l  154 (332)
T 2ft3_A          109 ISKNHLVEIPP---NLP--SS---------------------------LVELRIHDNRIRKVPKGVFSGLRN--MNCIEM  154 (332)
T ss_dssp             CCSSCCCSCCS---SCC--TT---------------------------CCEEECCSSCCCCCCSGGGSSCSS--CCEEEC
T ss_pred             CCCCcCCccCc---ccc--cc---------------------------CCEEECCCCccCccCHhHhCCCcc--CCEEEC
Confidence            77776665432   111  34                           445555555554433344455555  666666


Q ss_pred             cCCccc--cccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEc
Q 040109          273 GSNRLH--GSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL  350 (598)
Q Consensus       273 ~~n~l~--~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~L  350 (598)
                      ++|.++  +..+..+..+ +|++|++++|.++++|..+.  ++|++|++++|.+.+..+..+..++       +|+.|++
T Consensus       155 ~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~l~~l~-------~L~~L~L  224 (332)
T 2ft3_A          155 GGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDLP--ETLNELHLDHNKIQAIELEDLLRYS-------KLYRLGL  224 (332)
T ss_dssp             CSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSSSC--SSCSCCBCCSSCCCCCCTTSSTTCT-------TCSCCBC
T ss_pred             CCCccccCCCCcccccCC-ccCEEECcCCCCCccCcccc--CCCCEEECCCCcCCccCHHHhcCCC-------CCCEEEC
Confidence            666654  2455556666 77777777777777765543  6777777777777777766676666       7777777


Q ss_pred             cCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcC
Q 040109          351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNL  430 (598)
Q Consensus       351 s~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l  430 (598)
                      ++|.+++..+                           ..+..+++|+.|++++|+++ .+|..+..+++|+.|++++|++
T Consensus       225 ~~N~l~~~~~---------------------------~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N~l  276 (332)
T 2ft3_A          225 GHNQIRMIEN---------------------------GSLSFLPTLRELHLDNNKLS-RVPAGLPDLKLLQVVYLHTNNI  276 (332)
T ss_dssp             CSSCCCCCCT---------------------------TGGGGCTTCCEEECCSSCCC-BCCTTGGGCTTCCEEECCSSCC
T ss_pred             CCCcCCcCCh---------------------------hHhhCCCCCCEEECCCCcCe-ecChhhhcCccCCEEECCCCCC
Confidence            7777765332                           12345667888888888888 7788888899999999999999


Q ss_pred             cccCCcccCCC------CCCCeeeCCCCccC--CCCcccccCCCCCCEEeCCCCc
Q 040109          431 TGQITPRIGQL------KSLDFLDLSINHFF--GGIPSSLSRLRLLSVMDLSYNN  477 (598)
Q Consensus       431 ~~~~p~~l~~l------~~L~~L~Ls~N~l~--~~~p~~l~~l~~L~~L~ls~N~  477 (598)
                      ++..+..|...      ..|+.|++++|.+.  +..|..|..+++|+.+++++|+
T Consensus       277 ~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          277 TKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             CBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC----
T ss_pred             CccChhHccccccccccccccceEeecCcccccccCcccccccchhhhhhccccc
Confidence            87666666543      67889999999887  5677788889999999998885

>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=99.97  E-value=3.2e-32  Score=275.75  Aligned_cols=272  Identities=17%  Similarity=0.243  Sum_probs=188.5

Q ss_pred             cCCcHHHHHHHHHHHhcCC-CCCCCCCCCCC-CCCCCCCCCccCeeeCC--------CCCcEEEEEcCCCCCCCCCCCce
Q 040109           33 ISCLDEEKEALLAFKQGLI-DESGILSSWGR-EDEKRNCCKWRGVRCSN--------KTGHVLGLDLRALSDSPVDALKG  102 (598)
Q Consensus        33 ~~~~~~~~~~l~~~k~~~~-~~~~~l~~W~~-~~~~~~~c~w~gv~C~~--------~~~~v~~l~l~~~~~~~~~~l~g  102 (598)
                      ..+..+|+.||++||+++. ++.+.+.+|.. .....++|.|.|+.|+.        ..++|+.+++++      +.+. 
T Consensus        22 ~~~~~~~~~aLl~~k~~~~~~~~~~~~~w~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~l~~L~L~~------n~l~-   94 (328)
T 4fcg_A           22 STALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRS------VPLP-   94 (328)
T ss_dssp             -CCCCCHHHHHHHHHHHHHHCCTTHHHHHHHHTTTCTTSCCSHHHHHHHHHHHHHHHTSTTCCEEEEES------SCCS-
T ss_pred             cccCchHHHHHHHHHHhccCCchhhhhhhcccccccccccccCCcchhhhHHHHhcccccceeEEEccC------CCch-
Confidence            4567889999999999985 66667788931 01366799999999952        346788999988      6676 


Q ss_pred             ecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccc
Q 040109          103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL  182 (598)
Q Consensus       103 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l  182 (598)
                      .+|+.++++++|++|+|++|.++  .+|..++.+++|++|+|++|.++ .+|..++++++|++|++++|.+.. ..+..+
T Consensus        95 ~lp~~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           95 QFPDQAFRLSHLQHMTIDAAGLM--ELPDTMQQFAGLETLTLARNPLR-ALPASIASLNRLRELSIRACPELT-ELPEPL  170 (328)
T ss_dssp             SCCSCGGGGTTCSEEEEESSCCC--CCCSCGGGGTTCSEEEEESCCCC-CCCGGGGGCTTCCEEEEEEETTCC-CCCSCS
T ss_pred             hcChhhhhCCCCCEEECCCCCcc--chhHHHhccCCCCEEECCCCccc-cCcHHHhcCcCCCEEECCCCCCcc-ccChhH
Confidence            78888888999999999999998  38888889999999999999998 778889999999999999987633 223222


Q ss_pred             ---------cCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCC
Q 040109          183 ---------SYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTN  253 (598)
Q Consensus       183 ---------~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~  253 (598)
                               .++++|++|++++|.++.+   +..+..+++|++|++++|.+++.++. +.  . +++|++|++++|.+.+
T Consensus       171 ~~~~~~~~~~~l~~L~~L~L~~n~l~~l---p~~l~~l~~L~~L~L~~N~l~~l~~~-l~--~-l~~L~~L~Ls~n~~~~  243 (328)
T 4fcg_A          171 ASTDASGEHQGLVNLQSLRLEWTGIRSL---PASIANLQNLKSLKIRNSPLSALGPA-IH--H-LPKLEELDLRGCTALR  243 (328)
T ss_dssp             EEEC-CCCEEESTTCCEEEEEEECCCCC---CGGGGGCTTCCEEEEESSCCCCCCGG-GG--G-CTTCCEEECTTCTTCC
T ss_pred             hhccchhhhccCCCCCEEECcCCCcCcc---hHhhcCCCCCCEEEccCCCCCcCchh-hc--c-CCCCCEEECcCCcchh
Confidence                     3467777777777776653   34566666677777776666654331 11  1 2566666666666666


Q ss_pred             CcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcC
Q 040109          254 SIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNEL  324 (598)
Q Consensus       254 ~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l  324 (598)
                      .+|..+..+++  |++|++++|.+.+.+|..+..+++|++|++++|++.+ +|..+.++++|+.+++..+.+
T Consensus       244 ~~p~~~~~l~~--L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~~~~  313 (328)
T 4fcg_A          244 NYPPIFGGRAP--LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQ  313 (328)
T ss_dssp             BCCCCTTCCCC--CCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECCGGGS
T ss_pred             hhHHHhcCCCC--CCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCCHHHH
Confidence            66655555555  6666666665555566555566666666666655544 555556666666665555443

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

Probab=99.97  E-value=3e-30  Score=262.22  Aligned_cols=240  Identities=24%  Similarity=0.267  Sum_probs=169.8

Q ss_pred             EEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCC
Q 040109           84 VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRL  163 (598)
Q Consensus        84 v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L  163 (598)
                      ++.+++++      +.+. .+|..+.  ++|++|++++|.+++. .|..+..+++|++|++++|.+++..|..|+++++|
T Consensus        35 l~~l~~~~------~~l~-~ip~~~~--~~l~~L~l~~n~i~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  104 (332)
T 2ft3_A           35 LRVVQCSD------LGLK-AVPKEIS--PDTTLLDLQNNDISEL-RKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKL  104 (332)
T ss_dssp             TTEEECCS------SCCS-SCCSCCC--TTCCEEECCSSCCCEE-CTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTC
T ss_pred             CCEEECCC------CCcc-ccCCCCC--CCCeEEECCCCcCCcc-CHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCC
Confidence            45677776      4554 5676653  6899999999999974 56789999999999999999998889999999999


Q ss_pred             CEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCC--CCCChhhhccccCCc
Q 040109          164 QVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP--ISTPSLLHLNYSKSL  241 (598)
Q Consensus       164 ~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~--~~~~~~~~~~~~~~L  241 (598)
                      ++|++++|.+. .. +..+.  ++|++|++++|.+..++.  ..+..+++|++|++++|.++.  ..+..+.   . .+|
T Consensus       105 ~~L~L~~n~l~-~l-~~~~~--~~L~~L~l~~n~i~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~---~-l~L  174 (332)
T 2ft3_A          105 QKLYISKNHLV-EI-PPNLP--SSLVELRIHDNRIRKVPK--GVFSGLRNMNCIEMGGNPLENSGFEPGAFD---G-LKL  174 (332)
T ss_dssp             CEEECCSSCCC-SC-CSSCC--TTCCEEECCSSCCCCCCS--GGGSSCSSCCEEECCSCCCBGGGSCTTSSC---S-CCC
T ss_pred             CEEECCCCcCC-cc-Ccccc--ccCCEEECCCCccCccCH--hHhCCCccCCEEECCCCccccCCCCccccc---C-Ccc
Confidence            99999999983 22 22222  899999999999998754  678899999999999998864  3332221   1 167


Q ss_pred             cEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEcc
Q 040109          242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLS  320 (598)
Q Consensus       242 ~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls  320 (598)
                      +.|++++|.+++ +|..+.  +.  |++|++++|.+++..+..+..+++|++|++++|++++++ ..+..+++|++|+++
T Consensus       175 ~~L~l~~n~l~~-l~~~~~--~~--L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  249 (332)
T 2ft3_A          175 NYLRISEAKLTG-IPKDLP--ET--LNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLD  249 (332)
T ss_dssp             SCCBCCSSBCSS-CCSSSC--SS--CSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECC
T ss_pred             CEEECcCCCCCc-cCcccc--CC--CCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECC
Confidence            777777777764 343332  33  666666666666655566666666666666666666633 356666666666666


Q ss_pred             cCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          321 YNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       321 ~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      +|+++ .+|..+..++       +|+.|++++|+++
T Consensus       250 ~N~l~-~lp~~l~~l~-------~L~~L~l~~N~l~  277 (332)
T 2ft3_A          250 NNKLS-RVPAGLPDLK-------LLQVVYLHTNNIT  277 (332)
T ss_dssp             SSCCC-BCCTTGGGCT-------TCCEEECCSSCCC
T ss_pred             CCcCe-ecChhhhcCc-------cCCEEECCCCCCC
Confidence            66665 3344455444       5555555555555

>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=99.97  E-value=7.5e-33  Score=294.66  Aligned_cols=361  Identities=23%  Similarity=0.191  Sum_probs=269.0

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCcc-ccCCCCCCEEECcCCCCCCC---CcchhcCCCCCCCEEECCCCCCCCCCcccc
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPS-LLKLQHLTYLDLSWNNFSGS---PIPEFIGSLSKLSELALSSAQLAGPIPHQL  157 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~-l~~l~~L~~L~Ls~n~l~~~---~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l  157 (598)
                      .+++.+|+++      +.++...... +..+++|++|++++|.++..   .++..+..+++|++|++++|.+++..+..+
T Consensus         3 ~~l~~L~Ls~------~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l   76 (461)
T 1z7x_W            3 LDIQSLDIQC------EELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCV   76 (461)
T ss_dssp             EEEEEEEEES------CCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHH
T ss_pred             ccceehhhhh------cccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHH
Confidence            3578899987      5665433333 77889999999999998742   256778889999999999999875444333


Q ss_pred             -CCCC----CCCEEEccCCCCCCC---CCcccccCCCCCCEEEcCCCcCCCC--CchhHh-hcCCCCCcEEeccCcCCCC
Q 040109          158 -GNLS----RLQVLDLRFNNLFSS---GNLDWLSYLSSLRYLDLGDCKLSKF--SNWFQV-LSNLRSLTTLYLGHCDLPP  226 (598)
Q Consensus       158 -~~l~----~L~~L~Ls~n~l~~~---~~~~~l~~l~~L~~L~L~~n~l~~~--~~~~~~-l~~l~~L~~L~l~~n~l~~  226 (598)
                       ..++    +|++|++++|.+...   ..+..+..+++|++|++++|.+.+.  ..+... ....++|++|++++|++++
T Consensus        77 ~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~  156 (461)
T 1z7x_W           77 LQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSA  156 (461)
T ss_dssp             HHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBG
T ss_pred             HHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCH
Confidence             2344    799999999987321   1245688999999999999998753  111112 2235689999999998876


Q ss_pred             CCCChhh-hccccCCccEEEccCCCCCCCcchhhhh-----cCccCccEEEccCCccccc----cchhhcCCCCccEEee
Q 040109          227 ISTPSLL-HLNYSKSLEVIDLSNNYLTNSIYPWLLN-----VSSNLVDHIDLGSNRLHGS----IPVAFGHMASLRYLGL  296 (598)
Q Consensus       227 ~~~~~~~-~~~~~~~L~~L~Ls~n~l~~~~~~~l~~-----~~~~~L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~L  296 (598)
                      .....+. .+...++|++|++++|.+++..+..+..     .+.  |++|++++|.+++.    ++..+..+++|++|++
T Consensus       157 ~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~--L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L  234 (461)
T 1z7x_W          157 ASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQ--LEALKLESCGVTSDNCRDLCGIVASKASLRELAL  234 (461)
T ss_dssp             GGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCC--CCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEEC
T ss_pred             HHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCC--ceEEEccCCCCcHHHHHHHHHHHHhCCCccEEec
Confidence            5422111 1122389999999999987655544443     345  99999999999864    5777888999999999


Q ss_pred             ccCCCCCc------chhhcCCCCCcEEEcccCcCccc----hhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCC
Q 040109          297 LSNRLREV------PKFLGNMSSLKMLVLSYNELRGE----LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFP  366 (598)
Q Consensus       297 s~n~l~~l------p~~l~~l~~L~~L~Ls~n~l~~~----~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~  366 (598)
                      ++|.+++.      +..+..+++|++|++++|.+++.    ++..+..++       +|++|++++|.+++..+.     
T Consensus       235 s~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~-------~L~~L~Ls~n~i~~~~~~-----  302 (461)
T 1z7x_W          235 GSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKE-------SLKELSLAGNELGDEGAR-----  302 (461)
T ss_dssp             CSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCT-------TCCEEECTTCCCHHHHHH-----
T ss_pred             cCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCC-------CcceEECCCCCCchHHHH-----
Confidence            99998762      22334689999999999999875    566676677       899999999998742110     


Q ss_pred             cCccccccccceEEEEcCCccc-ccccccccceEeccCCcCCCc----CchhhhcccCCcEEECcCCcCcccCCcccCC-
Q 040109          367 GMLMPLIYFDKITVTWKGGQYE-YKSILGLIKIIDLSSNKLGGE----VPEEIMDLVGLVALNLSNNNLTGQITPRIGQ-  440 (598)
Q Consensus       367 ~l~~~~~~~~~~~~~~~~~~~~-~~~~l~~L~~L~Ls~n~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~-  440 (598)
                                        .... .....++|+.|++++|.+++.    ++..+..+++|++|++++|++++..+..+.. 
T Consensus       303 ------------------~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~  364 (461)
T 1z7x_W          303 ------------------LLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQG  364 (461)
T ss_dssp             ------------------HHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHH
T ss_pred             ------------------HHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHH
Confidence                              0000 011235899999999999865    5667778899999999999998765554442 


Q ss_pred             ----CCCCCeeeCCCCccCC----CCcccccCCCCCCEEeCCCCccee
Q 040109          441 ----LKSLDFLDLSINHFFG----GIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       441 ----l~~L~~L~Ls~N~l~~----~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                          .++|++|++++|++++    .+|..+..+++|++|++++|++++
T Consensus       365 l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~i~~  412 (461)
T 1z7x_W          365 LGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGD  412 (461)
T ss_dssp             HTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCH
T ss_pred             HcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCCCCH
Confidence                6799999999999986    788889999999999999999874

>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=99.97  E-value=1.3e-29  Score=257.30  Aligned_cols=241  Identities=22%  Similarity=0.260  Sum_probs=173.1

Q ss_pred             EEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCC
Q 040109           84 VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRL  163 (598)
Q Consensus        84 v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L  163 (598)
                      ++.+++++      ..+. .+|..+.  +++++|++++|.+++. .+..|..+++|++|++++|.+++..|..|+++++|
T Consensus        33 l~~l~~~~------~~l~-~lp~~~~--~~l~~L~L~~n~i~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  102 (330)
T 1xku_A           33 LRVVQCSD------LGLE-KVPKDLP--PDTALLDLQNNKITEI-KDGDFKNLKNLHTLILINNKISKISPGAFAPLVKL  102 (330)
T ss_dssp             TTEEECTT------SCCC-SCCCSCC--TTCCEEECCSSCCCCB-CTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTC
T ss_pred             CeEEEecC------CCcc-ccCccCC--CCCeEEECCCCcCCEe-ChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCC
Confidence            34567776      4444 4565543  6899999999999974 55689999999999999999998889999999999


Q ss_pred             CEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCC--CCCChhhhccccCCc
Q 040109          164 QVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP--ISTPSLLHLNYSKSL  241 (598)
Q Consensus       164 ~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~--~~~~~~~~~~~~~~L  241 (598)
                      ++|++++|.+. .. +..+  .++|++|++++|.+..++  +..+..+++|++|++++|.+..  ..+..+..  . ++|
T Consensus       103 ~~L~Ls~n~l~-~l-~~~~--~~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~--l-~~L  173 (330)
T 1xku_A          103 ERLYLSKNQLK-EL-PEKM--PKTLQELRVHENEITKVR--KSVFNGLNQMIVVELGTNPLKSSGIENGAFQG--M-KKL  173 (330)
T ss_dssp             CEEECCSSCCS-BC-CSSC--CTTCCEEECCSSCCCBBC--HHHHTTCTTCCEEECCSSCCCGGGBCTTGGGG--C-TTC
T ss_pred             CEEECCCCcCC-cc-Chhh--cccccEEECCCCcccccC--HhHhcCCccccEEECCCCcCCccCcChhhccC--C-CCc
Confidence            99999999973 22 2222  279999999999999874  3778999999999999998864  33322222  2 778


Q ss_pred             cEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEcc
Q 040109          242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLS  320 (598)
Q Consensus       242 ~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls  320 (598)
                      ++|++++|.++. +|..+.  +.  |++|++++|.+++..|..+..+++|++|++++|.+++++ ..+..+++|++|+++
T Consensus       174 ~~L~l~~n~l~~-l~~~~~--~~--L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  248 (330)
T 1xku_A          174 SYIRIADTNITT-IPQGLP--PS--LTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLN  248 (330)
T ss_dssp             CEEECCSSCCCS-CCSSCC--TT--CSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECC
T ss_pred             CEEECCCCcccc-CCcccc--cc--CCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECC
Confidence            888888887774 443332  34  777777777777666666777777777777777776633 356666666667766


Q ss_pred             cCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          321 YNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       321 ~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      +|++. .+|..+..++       +|++|++++|+++
T Consensus       249 ~N~l~-~lp~~l~~l~-------~L~~L~l~~N~i~  276 (330)
T 1xku_A          249 NNKLV-KVPGGLADHK-------YIQVVYLHNNNIS  276 (330)
T ss_dssp             SSCCS-SCCTTTTTCS-------SCCEEECCSSCCC
T ss_pred             CCcCc-cCChhhccCC-------CcCEEECCCCcCC
Confidence            66665 3344444444       5666666666555

>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=99.97  E-value=3.5e-33  Score=297.16  Aligned_cols=359  Identities=20%  Similarity=0.157  Sum_probs=274.2

Q ss_pred             CCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCC----CCccccCCCCCCCEEEccCCCCCCCCCcccccCCC
Q 040109          111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG----PIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLS  186 (598)
Q Consensus       111 l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~----~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~  186 (598)
                      .++|++||+++|.++.......+..+++|++|++++|.+++    .++..+..+++|++|++++|.+...........++
T Consensus         2 ~~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~   81 (461)
T 1z7x_W            2 SLDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQ   81 (461)
T ss_dssp             CEEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CccceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHh
Confidence            35789999999999865334447889999999999999984    35677888999999999999873222222234455


Q ss_pred             ----CCCEEEcCCCcCCCCC--chhHhhcCCCCCcEEeccCcCCCCCCCChhhh--ccccCCccEEEccCCCCCCCc---
Q 040109          187 ----SLRYLDLGDCKLSKFS--NWFQVLSNLRSLTTLYLGHCDLPPISTPSLLH--LNYSKSLEVIDLSNNYLTNSI---  255 (598)
Q Consensus       187 ----~L~~L~L~~n~l~~~~--~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~--~~~~~~L~~L~Ls~n~l~~~~---  255 (598)
                          +|++|++++|.++...  .++..+..+++|++|++++|.++......+..  ....++|++|++++|.+++..   
T Consensus        82 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~  161 (461)
T 1z7x_W           82 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEP  161 (461)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             hCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHH
Confidence                7999999999988531  35688999999999999999986543322221  111257999999999998744   


Q ss_pred             -chhhhhcCccCccEEEccCCccccccchhhc-----CCCCccEEeeccCCCCC-----cchhhcCCCCCcEEEcccCcC
Q 040109          256 -YPWLLNVSSNLVDHIDLGSNRLHGSIPVAFG-----HMASLRYLGLLSNRLRE-----VPKFLGNMSSLKMLVLSYNEL  324 (598)
Q Consensus       256 -~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~-----~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L~~L~Ls~n~l  324 (598)
                       +..+..++.  |++|++++|.+++..+..+.     ..++|++|++++|.++.     ++..+..+++|++|++++|.+
T Consensus       162 l~~~l~~~~~--L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l  239 (461)
T 1z7x_W          162 LASVLRAKPD--FKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKL  239 (461)
T ss_dssp             HHHHHHHCTT--CCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBC
T ss_pred             HHHHHhhCCC--CCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcC
Confidence             556667788  99999999999866555543     36799999999999987     577888899999999999998


Q ss_pred             ccchhhhhh-----hcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceE
Q 040109          325 RGELSEFIQ-----NVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKII  399 (598)
Q Consensus       325 ~~~~~~~l~-----~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L  399 (598)
                      .+.....+.     ..+       +|++|++++|.++..-.                       ......+..+++|++|
T Consensus       240 ~~~~~~~l~~~~~~~~~-------~L~~L~L~~n~l~~~~~-----------------------~~l~~~l~~~~~L~~L  289 (461)
T 1z7x_W          240 GDVGMAELCPGLLHPSS-------RLRTLWIWECGITAKGC-----------------------GDLCRVLRAKESLKEL  289 (461)
T ss_dssp             HHHHHHHHHHHHTSTTC-------CCCEEECTTSCCCHHHH-----------------------HHHHHHHHHCTTCCEE
T ss_pred             ChHHHHHHHHHHhcCCC-------CceEEECcCCCCCHHHH-----------------------HHHHHHHhhCCCcceE
Confidence            875433332     244       89999999999874200                       0012334557899999


Q ss_pred             eccCCcCCCcCchhhhcc-----cCCcEEECcCCcCccc----CCcccCCCCCCCeeeCCCCccCCCCcccccC-----C
Q 040109          400 DLSSNKLGGEVPEEIMDL-----VGLVALNLSNNNLTGQ----ITPRIGQLKSLDFLDLSINHFFGGIPSSLSR-----L  465 (598)
Q Consensus       400 ~Ls~n~l~~~~p~~l~~l-----~~L~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~-----l  465 (598)
                      ++++|.+++..+..+...     ++|++|++++|.+++.    ++..+..+++|++|++++|++++..+..+..     .
T Consensus       290 ~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~  369 (461)
T 1z7x_W          290 SLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPG  369 (461)
T ss_dssp             ECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTT
T ss_pred             ECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCC
Confidence            999999986666566543     6999999999999875    5667788899999999999998765555543     7


Q ss_pred             CCCCEEeCCCCccee----cCCCC-CccCccCCCccCCCCC
Q 040109          466 RLLSVMDLSYNNFSG----KIPKG-TQLQRFGASTYAGNPE  501 (598)
Q Consensus       466 ~~L~~L~ls~N~l~~----~~p~~-~~~~~l~~~~~~gnp~  501 (598)
                      ++|++|++++|++++    .+|.. ...+++..+++.+|+.
T Consensus       370 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~i  410 (461)
T 1z7x_W          370 SVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCL  410 (461)
T ss_dssp             CCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSC
T ss_pred             CceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCCC
Confidence            799999999999985    55543 3467788888888854

>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=99.96  E-value=1e-28  Score=253.10  Aligned_cols=188  Identities=21%  Similarity=0.268  Sum_probs=89.5

Q ss_pred             cCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCccccc
Q 040109          104 INPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLS  183 (598)
Q Consensus       104 l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~  183 (598)
                      +|..+.  ++|++|++++|.+++. .+..+..+++|++|++++|.+++..|..|+++++|++|++++|.+ .......+.
T Consensus        46 iP~~~~--~~L~~L~l~~n~i~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~~~~~  121 (353)
T 2z80_A           46 IPSGLT--EAVKSLDLSNNRITYI-SNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL-SNLSSSWFK  121 (353)
T ss_dssp             CCTTCC--TTCCEEECTTSCCCEE-CTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC-SSCCHHHHT
T ss_pred             cccccc--ccCcEEECCCCcCccc-CHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcC-CcCCHhHhC
Confidence            444433  3566666666666642 333566666666666666666655555566666666666666554 222222244


Q ss_pred             CCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCC-CCCCcchhhhhc
Q 040109          184 YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNY-LTNSIYPWLLNV  262 (598)
Q Consensus       184 ~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~  262 (598)
                      ++++|++|++++|.++.++. ...+..+                           ++|++|++++|. +.+..+..+..+
T Consensus       122 ~l~~L~~L~L~~n~l~~l~~-~~~~~~l---------------------------~~L~~L~l~~n~~~~~~~~~~~~~l  173 (353)
T 2z80_A          122 PLSSLTFLNLLGNPYKTLGE-TSLFSHL---------------------------TKLQILRVGNMDTFTKIQRKDFAGL  173 (353)
T ss_dssp             TCTTCSEEECTTCCCSSSCS-SCSCTTC---------------------------TTCCEEEEEESSSCCEECTTTTTTC
T ss_pred             CCccCCEEECCCCCCcccCc-hhhhccC---------------------------CCCcEEECCCCccccccCHHHccCC
Confidence            44444444444444443211 0012222                           444444444442 222223334444


Q ss_pred             CccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchh-hcCCCCCcEEEcccCcCc
Q 040109          263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF-LGNMSSLKMLVLSYNELR  325 (598)
Q Consensus       263 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~-l~~l~~L~~L~Ls~n~l~  325 (598)
                      ++  |++|++++|.+++..|..+..+++|++|++++|.++.+|.. +..+++|+.|++++|.++
T Consensus       174 ~~--L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~  235 (353)
T 2z80_A          174 TF--LEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLD  235 (353)
T ss_dssp             CE--EEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCT
T ss_pred             CC--CCEEECCCCCcCccCHHHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCccc
Confidence            44  55555555555544455555555555555555555444332 222444444444444443

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

Probab=99.96  E-value=5.9e-28  Score=255.07  Aligned_cols=251  Identities=22%  Similarity=0.231  Sum_probs=188.1

Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccC
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL  266 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~  266 (598)
                      ..+.++.++..++.+|.   .+  .++++.|++++|++....+..+..+   ++|++|+|++|.+++..+..+.++++  
T Consensus        44 ~~~~v~c~~~~l~~iP~---~~--~~~l~~L~L~~n~i~~~~~~~~~~l---~~L~~L~Ls~n~i~~i~~~~~~~l~~--  113 (440)
T 3zyj_A           44 QFSKVICVRKNLREVPD---GI--STNTRLLNLHENQIQIIKVNSFKHL---RHLEILQLSRNHIRTIEIGAFNGLAN--  113 (440)
T ss_dssp             TSCEEECCSCCCSSCCS---CC--CTTCSEEECCSCCCCEECTTTTSSC---SSCCEEECCSSCCCEECGGGGTTCSS--
T ss_pred             CCCEEEeCCCCcCcCCC---CC--CCCCcEEEccCCcCCeeCHHHhhCC---CCCCEEECCCCcCCccChhhccCCcc--
Confidence            45678888888877654   22  2678888888888887766444433   78888888888888766777778877  


Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch-hhcCCCCCcEEEcccC-cCccchhhhhhhcCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYN-ELRGELSEFIQNVSSGSTKNSS  344 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~-~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~l~~g~~~~~~  344 (598)
                      |++|++++|.+++..+..|..+++|++|++++|.++.+|. .+..+++|++|++++| .+....+..+..++       +
T Consensus       114 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~-------~  186 (440)
T 3zyj_A          114 LNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLS-------N  186 (440)
T ss_dssp             CCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCS-------S
T ss_pred             CCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhccc-------c
Confidence            8888888888886666678888888888888888887554 6777888888888874 44444444566666       7


Q ss_pred             CCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEE
Q 040109          345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALN  424 (598)
Q Consensus       345 L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~  424 (598)
                      |+.|++++|.++ .+|.+                            ..+++|+.|+|++|++++..|..|.++++|+.|+
T Consensus       187 L~~L~L~~n~l~-~~~~~----------------------------~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  237 (440)
T 3zyj_A          187 LRYLNLAMCNLR-EIPNL----------------------------TPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLW  237 (440)
T ss_dssp             CCEEECTTSCCS-SCCCC----------------------------TTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEE
T ss_pred             cCeecCCCCcCc-ccccc----------------------------CCCcccCEEECCCCccCccChhhhccCccCCEEE
Confidence            888888888776 23322                            3355678888888888877778888888888888


Q ss_pred             CcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCC
Q 040109          425 LSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       425 Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                      |++|++++..+..|.++++|++|+|++|++++..+..|..+++|+.|++++|++.+.+.
T Consensus       238 L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~CdC~  296 (440)
T 3zyj_A          238 MIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWNCNCD  296 (440)
T ss_dssp             CTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEECCSSCEECSST
T ss_pred             CCCCceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEcCCCCccCCCC
Confidence            88888887777788888888888888888887666777788888888888888876554

>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=99.96  E-value=8.6e-28  Score=254.70  Aligned_cols=252  Identities=22%  Similarity=0.208  Sum_probs=202.8

Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccC
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL  266 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~  266 (598)
                      ..+.++.++..++.+|.   .+  .++++.|++++|.+++..+..+..+   ++|++|++++|.+++..+..+.++++  
T Consensus        55 ~~~~v~c~~~~l~~iP~---~~--~~~l~~L~L~~n~i~~~~~~~~~~l---~~L~~L~Ls~n~i~~~~~~~~~~l~~--  124 (452)
T 3zyi_A           55 QFSKVVCTRRGLSEVPQ---GI--PSNTRYLNLMENNIQMIQADTFRHL---HHLEVLQLGRNSIRQIEVGAFNGLAS--  124 (452)
T ss_dssp             SSCEEECCSSCCSSCCS---CC--CTTCSEEECCSSCCCEECTTTTTTC---TTCCEEECCSSCCCEECTTTTTTCTT--
T ss_pred             CCcEEEECCCCcCccCC---CC--CCCccEEECcCCcCceECHHHcCCC---CCCCEEECCCCccCCcChhhccCccc--
Confidence            45678888888887654   22  2688999999999988776555443   88999999999998777788888888  


Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch-hhcCCCCCcEEEcccC-cCccchhhhhhhcCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYN-ELRGELSEFIQNVSSGSTKNSS  344 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~-~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~l~~g~~~~~~  344 (598)
                      |++|++++|.+++..+..|..+++|++|++++|+++.+|. .+.++++|+.|++++| .+....+..+..++       +
T Consensus       125 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~-------~  197 (452)
T 3zyi_A          125 LNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLF-------N  197 (452)
T ss_dssp             CCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCT-------T
T ss_pred             CCEEECCCCcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCC-------C
Confidence            9999999999987777778889999999999999888654 6888899999999984 44444445666666       8


Q ss_pred             CCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEE
Q 040109          345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALN  424 (598)
Q Consensus       345 L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~  424 (598)
                      |+.|++++|.+++ +|.+                            ..+++|+.|+|++|.+++..|..|.++++|+.|+
T Consensus       198 L~~L~L~~n~l~~-~~~~----------------------------~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  248 (452)
T 3zyi_A          198 LKYLNLGMCNIKD-MPNL----------------------------TPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLW  248 (452)
T ss_dssp             CCEEECTTSCCSS-CCCC----------------------------TTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEE
T ss_pred             CCEEECCCCcccc-cccc----------------------------cccccccEEECcCCcCcccCcccccCccCCCEEE
Confidence            9999999998874 2332                            3456788899999999888888888999999999


Q ss_pred             CcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCC
Q 040109          425 LSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       425 Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~  484 (598)
                      +++|++++..|..|..+++|+.|+|++|++++..+..+..+++|+.|++++|++.+.+..
T Consensus       249 L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~CdC~~  308 (452)
T 3zyi_A          249 VMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHHNPWNCDCDI  308 (452)
T ss_dssp             CTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEECCSSCEECSTTT
T ss_pred             eCCCcCceECHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEEccCCCcCCCCCc
Confidence            999999888888888899999999999999877777788888999999999988866553

>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=99.96  E-value=4e-28  Score=243.57  Aligned_cols=233  Identities=25%  Similarity=0.297  Sum_probs=181.8

Q ss_pred             CCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCC--cchhhhhcCccCccEEEccCCccccccchhhcCCC
Q 040109          212 RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS--IYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMA  289 (598)
Q Consensus       212 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~--~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~  289 (598)
                      ++|++|++++|.++..+...+...   ++|++|++++|.++..  .+..+..+++  |++|++++|.++ .+|..+..++
T Consensus        28 ~~l~~L~L~~n~l~~i~~~~~~~l---~~L~~L~L~~n~l~~~~~~~~~~~~~~~--L~~L~Ls~n~i~-~l~~~~~~l~  101 (306)
T 2z66_A           28 SSATRLELESNKLQSLPHGVFDKL---TQLTKLSLSSNGLSFKGCCSQSDFGTTS--LKYLDLSFNGVI-TMSSNFLGLE  101 (306)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTC---TTCSEEECCSSCCCEEEEEEHHHHSCSC--CCEEECCSCSEE-EEEEEEETCT
T ss_pred             CCCCEEECCCCccCccCHhHhhcc---ccCCEEECCCCccCcccCcccccccccc--cCEEECCCCccc-cChhhcCCCC
Confidence            355555555555554443222222   5666666666666522  2455666666  888888888887 4666688889


Q ss_pred             CccEEeeccCCCCCcc--hhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccc-cCCCCCCCC
Q 040109          290 SLRYLGLLSNRLREVP--KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITG-TIPNLGGFP  366 (598)
Q Consensus       290 ~L~~L~Ls~n~l~~lp--~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~-~~p~l~~l~  366 (598)
                      +|++|++++|.+++++  ..+..+++|++|++++|.+.+..+..+..++       +|++|++++|.+++ .+|      
T Consensus       102 ~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~-------~L~~L~l~~n~l~~~~~~------  168 (306)
T 2z66_A          102 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLS-------SLEVLKMAGNSFQENFLP------  168 (306)
T ss_dssp             TCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCT-------TCCEEECTTCEEGGGEEC------
T ss_pred             CCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCc-------CCCEEECCCCccccccch------
Confidence            9999999999888865  3788889999999999999888888887777       89999999998875 233      


Q ss_pred             cCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCe
Q 040109          367 GMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDF  446 (598)
Q Consensus       367 ~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~  446 (598)
                                           ..+..+++|++|++++|++++..|..+..+++|++|++++|++++..+..+..+++|++
T Consensus       169 ---------------------~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~  227 (306)
T 2z66_A          169 ---------------------DIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQV  227 (306)
T ss_dssp             ---------------------SCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCE
T ss_pred             ---------------------hHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCE
Confidence                                 23345778999999999999888889999999999999999999777778999999999


Q ss_pred             eeCCCCccCCCCcccccCCC-CCCEEeCCCCcceecCCC
Q 040109          447 LDLSINHFFGGIPSSLSRLR-LLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       447 L~Ls~N~l~~~~p~~l~~l~-~L~~L~ls~N~l~~~~p~  484 (598)
                      |++++|++++..|..+..++ +|++|++++|++++..+.
T Consensus       228 L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~~~~~c~~  266 (306)
T 2z66_A          228 LDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEH  266 (306)
T ss_dssp             EECTTSCCCBCSSSSCCCCCTTCCEEECTTCCEECSGGG
T ss_pred             eECCCCCCcccCHHHHHhhhccCCEEEccCCCeecccCh
Confidence            99999999999999998885 899999999999876553

>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=99.95  E-value=4.8e-28  Score=248.17  Aligned_cols=284  Identities=22%  Similarity=0.215  Sum_probs=194.5

Q ss_pred             cCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCC
Q 040109          109 LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSL  188 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L  188 (598)
                      ..++.....+++++.++.  +|..+.  ++|++|++++|.+++..+..|.++++|++|++++|.+ ....+..+.++++|
T Consensus        28 ~~C~~~~~c~~~~~~l~~--iP~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~L  102 (353)
T 2z80_A           28 LSCDRNGICKGSSGSLNS--IPSGLT--EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGI-NTIEEDSFSSLGSL  102 (353)
T ss_dssp             CEECTTSEEECCSTTCSS--CCTTCC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCC-CEECTTTTTTCTTC
T ss_pred             CCCCCCeEeeCCCCCccc--cccccc--ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCcc-CccCHhhcCCCCCC
Confidence            345556678999999984  777664  5899999999999876666888999999999999887 33444557778888


Q ss_pred             CEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCcc
Q 040109          189 RYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD  268 (598)
Q Consensus       189 ~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~  268 (598)
                      ++|++++|.+++++.  ..+..+++|++|++++|+++..+.                          ...+..+++  |+
T Consensus       103 ~~L~Ls~n~l~~~~~--~~~~~l~~L~~L~L~~n~l~~l~~--------------------------~~~~~~l~~--L~  152 (353)
T 2z80_A          103 EHLDLSYNYLSNLSS--SWFKPLSSLTFLNLLGNPYKTLGE--------------------------TSLFSHLTK--LQ  152 (353)
T ss_dssp             CEEECCSSCCSSCCH--HHHTTCTTCSEEECTTCCCSSSCS--------------------------SCSCTTCTT--CC
T ss_pred             CEEECCCCcCCcCCH--hHhCCCccCCEEECCCCCCcccCc--------------------------hhhhccCCC--Cc
Confidence            888888887777532  445666666666665555543211                          024556677  99


Q ss_pred             EEEccCC-ccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCC
Q 040109          269 HIDLGSN-RLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE  346 (598)
Q Consensus       269 ~L~L~~n-~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~  346 (598)
                      +|++++| .+++..+..+..+++|++|++++|.+++ .|..+..+++|++|++++|.+....+..+..++       +|+
T Consensus       153 ~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~-------~L~  225 (353)
T 2z80_A          153 ILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTS-------SVE  225 (353)
T ss_dssp             EEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTT-------TEE
T ss_pred             EEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCccccchhhhhhhcc-------ccc
Confidence            9999999 4776667889999999999999999998 578899999999999999998766655555666       889


Q ss_pred             EEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECc
Q 040109          347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS  426 (598)
Q Consensus       347 ~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls  426 (598)
                      .|++++|.+++..+.-  +                      .                        .....+.++.++++
T Consensus       226 ~L~L~~n~l~~~~~~~--l----------------------~------------------------~~~~~~~l~~l~L~  257 (353)
T 2z80_A          226 CLELRDTDLDTFHFSE--L----------------------S------------------------TGETNSLIKKFTFR  257 (353)
T ss_dssp             EEEEESCBCTTCCCC------------------------------------------------------CCCCCCEEEEE
T ss_pred             EEECCCCccccccccc--c----------------------c------------------------cccccchhhccccc
Confidence            9999988887533210  0                      0                        01112334444444


Q ss_pred             CCcCcc----cCCcccCCCCCCCeeeCCCCccCCCCccc-ccCCCCCCEEeCCCCcceecCC
Q 040109          427 NNNLTG----QITPRIGQLKSLDFLDLSINHFFGGIPSS-LSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       427 ~N~l~~----~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                      ++.+++    .+|+.+..+++|++|++++|+++ .+|.. |.++++|++|++++|++.|.+|
T Consensus       258 ~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~-~i~~~~~~~l~~L~~L~L~~N~~~~~~~  318 (353)
T 2z80_A          258 NVKITDESLFQVMKLLNQISGLLELEFSRNQLK-SVPDGIFDRLTSLQKIWLHTNPWDCSCP  318 (353)
T ss_dssp             SCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCBCCCHH
T ss_pred             cccccCcchhhhHHHHhcccCCCEEECCCCCCC-ccCHHHHhcCCCCCEEEeeCCCccCcCC
Confidence            444433    24555566666666666666665 34433 4666666666666666666554

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.95  E-value=5.6e-28  Score=243.07  Aligned_cols=226  Identities=28%  Similarity=0.422  Sum_probs=205.6

Q ss_pred             CCccEEEccCCCCCC--CcchhhhhcCccCccEEEccC-CccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCC
Q 040109          239 KSLEVIDLSNNYLTN--SIYPWLLNVSSNLVDHIDLGS-NRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSL  314 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~--~~~~~l~~~~~~~L~~L~L~~-n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L  314 (598)
                      .+++.|++++|.+++  .+|+.+..++.  |++|++++ |.+.+.+|..+.++++|++|++++|.+++ +|..+.++++|
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~--L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L  127 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPY--LNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTT--CSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCC--CCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCC
Confidence            578999999999998  88999999999  99999995 99999999999999999999999999995 89999999999


Q ss_pred             cEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCccccccccc
Q 040109          315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG  394 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~  394 (598)
                      ++|++++|.+.+..|..+..++       +|++|++++|.+++.+|.                           .+..++
T Consensus       128 ~~L~Ls~N~l~~~~p~~~~~l~-------~L~~L~L~~N~l~~~~p~---------------------------~l~~l~  173 (313)
T 1ogq_A          128 VTLDFSYNALSGTLPPSISSLP-------NLVGITFDGNRISGAIPD---------------------------SYGSFS  173 (313)
T ss_dssp             CEEECCSSEEESCCCGGGGGCT-------TCCEEECCSSCCEEECCG---------------------------GGGCCC
T ss_pred             CEEeCCCCccCCcCChHHhcCC-------CCCeEECcCCcccCcCCH---------------------------HHhhhh
Confidence            9999999999999999999988       999999999999977663                           233454


Q ss_pred             -ccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeC
Q 040109          395 -LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL  473 (598)
Q Consensus       395 -~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  473 (598)
                       +|+.|++++|++++.+|..+..++ |++|++++|++++.+|..+..+++|++|++++|++++.+|. +..+++|++|++
T Consensus       174 ~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~~l~~L~~L~L  251 (313)
T 1ogq_A          174 KLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDL  251 (313)
T ss_dssp             TTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG-CCCCTTCCEEEC
T ss_pred             hcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCc-ccccCCCCEEEC
Confidence             899999999999999999999997 99999999999999999999999999999999999977766 888999999999


Q ss_pred             CCCcceecCCCC-CccCccCCCccCCCCCC
Q 040109          474 SYNNFSGKIPKG-TQLQRFGASTYAGNPEL  502 (598)
Q Consensus       474 s~N~l~~~~p~~-~~~~~l~~~~~~gnp~l  502 (598)
                      ++|++++.+|.. ..+++++.+++++|+..
T Consensus       252 s~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  281 (313)
T 1ogq_A          252 RNNRIYGTLPQGLTQLKFLHSLNVSFNNLC  281 (313)
T ss_dssp             CSSCCEECCCGGGGGCTTCCEEECCSSEEE
T ss_pred             cCCcccCcCChHHhcCcCCCEEECcCCccc
Confidence            999999999875 46788888999999654

>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=99.95  E-value=1.2e-27  Score=240.19  Aligned_cols=251  Identities=19%  Similarity=0.204  Sum_probs=214.8

Q ss_pred             cEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccc--cchhhcCCCCcc
Q 040109          215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS--IPVAFGHMASLR  292 (598)
Q Consensus       215 ~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~--~p~~l~~l~~L~  292 (598)
                      +.++.+++.++..+..      ..+++++|++++|.++...+..+..++.  |++|++++|.++..  .+..+..+++|+
T Consensus        10 ~~l~c~~~~l~~ip~~------~~~~l~~L~L~~n~l~~i~~~~~~~l~~--L~~L~L~~n~l~~~~~~~~~~~~~~~L~   81 (306)
T 2z66_A           10 TEIRCNSKGLTSVPTG------IPSSATRLELESNKLQSLPHGVFDKLTQ--LTKLSLSSNGLSFKGCCSQSDFGTTSLK   81 (306)
T ss_dssp             TEEECCSSCCSSCCSC------CCTTCCEEECCSSCCCCCCTTTTTTCTT--CSEEECCSSCCCEEEEEEHHHHSCSCCC
T ss_pred             CEEEcCCCCcccCCCC------CCCCCCEEECCCCccCccCHhHhhcccc--CCEEECCCCccCcccCcccccccccccC
Confidence            4567777777665542      1278999999999999655556788988  99999999999843  467788899999


Q ss_pred             EEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchh-hhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccc
Q 040109          293 YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELS-EFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMP  371 (598)
Q Consensus       293 ~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~-~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~  371 (598)
                      +|++++|.++.+|..+..+++|++|++++|.+.+..+ ..+..++       +|++|++++|.+++..|.          
T Consensus        82 ~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~-------~L~~L~l~~n~l~~~~~~----------  144 (306)
T 2z66_A           82 YLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLR-------NLIYLDISHTHTRVAFNG----------  144 (306)
T ss_dssp             EEECCSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCT-------TCCEEECTTSCCEECSTT----------
T ss_pred             EEECCCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhcc-------CCCEEECCCCcCCccchh----------
Confidence            9999999999999889999999999999999988765 5677776       999999999999865543          


Q ss_pred             cccccceEEEEcCCcccccccccccceEeccCCcCCC-cCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCC
Q 040109          372 LIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGG-EVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS  450 (598)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~-~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls  450 (598)
                                       .+..+++|++|++++|.+++ .+|..+..+++|++|++++|++++..|..+..+++|++|+++
T Consensus       145 -----------------~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  207 (306)
T 2z66_A          145 -----------------IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMS  207 (306)
T ss_dssp             -----------------TTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECT
T ss_pred             -----------------hcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECC
Confidence                             23457789999999999986 578899999999999999999998889999999999999999


Q ss_pred             CCccCCCCcccccCCCCCCEEeCCCCcceecCCCC-Ccc-CccCCCccCCCCCCCCCCC
Q 040109          451 INHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQL-QRFGASTYAGNPELCGLPL  507 (598)
Q Consensus       451 ~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~~-~~l~~~~~~gnp~lC~~~~  507 (598)
                      +|++++..+..+..+++|++|++++|++++..|.. ..+ .++..+++.+||+.|+|+.
T Consensus       208 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~~~~~c~~  266 (306)
T 2z66_A          208 HNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEH  266 (306)
T ss_dssp             TSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCCEECSGGG
T ss_pred             CCccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCCeecccCh
Confidence            99999887778999999999999999999887765 334 4888999999999998764

>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=99.95  E-value=2.8e-26  Score=249.74  Aligned_cols=262  Identities=21%  Similarity=0.234  Sum_probs=160.6

Q ss_pred             CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEE
Q 040109          112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYL  191 (598)
Q Consensus       112 ~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L  191 (598)
                      .+++.|++++|.++  .+|..+.  ++|++|++++|.++ .+|.   .+++|++|++++|.+..  .+.   .+++|++|
T Consensus        40 ~~l~~L~ls~n~L~--~lp~~l~--~~L~~L~L~~N~l~-~lp~---~l~~L~~L~Ls~N~l~~--lp~---~l~~L~~L  106 (622)
T 3g06_A           40 NGNAVLNVGESGLT--TLPDCLP--AHITTLVIPDNNLT-SLPA---LPPELRTLEVSGNQLTS--LPV---LPPGLLEL  106 (622)
T ss_dssp             HCCCEEECCSSCCS--CCCSCCC--TTCSEEEECSCCCS-CCCC---CCTTCCEEEECSCCCSC--CCC---CCTTCCEE
T ss_pred             CCCcEEEecCCCcC--ccChhhC--CCCcEEEecCCCCC-CCCC---cCCCCCEEEcCCCcCCc--CCC---CCCCCCEE
Confidence            35899999999998  4787765  89999999999998 5665   57899999999998732  222   67889999


Q ss_pred             EcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEE
Q 040109          192 DLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID  271 (598)
Q Consensus       192 ~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~  271 (598)
                      ++++|.+++++.      .+++|+.|++++|.++..+..       .++|++|++++|.+++ +|..   ..+  |+.|+
T Consensus       107 ~Ls~N~l~~l~~------~l~~L~~L~L~~N~l~~lp~~-------l~~L~~L~Ls~N~l~~-l~~~---~~~--L~~L~  167 (622)
T 3g06_A          107 SIFSNPLTHLPA------LPSGLCKLWIFGNQLTSLPVL-------PPGLQELSVSDNQLAS-LPAL---PSE--LCKLW  167 (622)
T ss_dssp             EECSCCCCCCCC------CCTTCCEEECCSSCCSCCCCC-------CTTCCEEECCSSCCSC-CCCC---CTT--CCEEE
T ss_pred             ECcCCcCCCCCC------CCCCcCEEECCCCCCCcCCCC-------CCCCCEEECcCCcCCC-cCCc---cCC--CCEEE
Confidence            999998888643      467788888888877765431       1566677777666653 2221   122  55555


Q ss_pred             ccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEcc
Q 040109          272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLA  351 (598)
Q Consensus       272 L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls  351 (598)
                      +++|.+++ +|   ..+++|+.|++++|.++++|..   +++|+.|++++|.++....                      
T Consensus       168 L~~N~l~~-l~---~~~~~L~~L~Ls~N~l~~l~~~---~~~L~~L~L~~N~l~~l~~----------------------  218 (622)
T 3g06_A          168 AYNNQLTS-LP---MLPSGLQELSVSDNQLASLPTL---PSELYKLWAYNNRLTSLPA----------------------  218 (622)
T ss_dssp             CCSSCCSC-CC---CCCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSSCCC----------------------
T ss_pred             CCCCCCCC-Cc---ccCCCCcEEECCCCCCCCCCCc---cchhhEEECcCCcccccCC----------------------
Confidence            55555553 33   2334555555555555554432   2344444444444442211                      


Q ss_pred             CccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCc
Q 040109          352 SNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLT  431 (598)
Q Consensus       352 ~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  431 (598)
                                                              .+++|+.|++++|++++ +|   ..+++|+.|++++|+++
T Consensus       219 ----------------------------------------~~~~L~~L~Ls~N~L~~-lp---~~l~~L~~L~Ls~N~L~  254 (622)
T 3g06_A          219 ----------------------------------------LPSGLKELIVSGNRLTS-LP---VLPSELKELMVSGNRLT  254 (622)
T ss_dssp             ----------------------------------------CCTTCCEEECCSSCCSC-CC---CCCTTCCEEECCSSCCS
T ss_pred             ----------------------------------------CCCCCCEEEccCCccCc-CC---CCCCcCcEEECCCCCCC
Confidence                                                    12345555555555553 33   23455666666666665


Q ss_pred             ccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCC
Q 040109          432 GQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       432 ~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                       .+|.   .+++|+.|+|++|+++ .+|..+.++++|+.|++++|++++.+|
T Consensus       255 -~lp~---~~~~L~~L~Ls~N~L~-~lp~~l~~l~~L~~L~L~~N~l~~~~~  301 (622)
T 3g06_A          255 -SLPM---LPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTL  301 (622)
T ss_dssp             -CCCC---CCTTCCEEECCSSCCC-SCCGGGGGSCTTCEEECCSCCCCHHHH
T ss_pred             -cCCc---ccccCcEEeCCCCCCC-cCCHHHhhccccCEEEecCCCCCCcCH
Confidence             3444   3455666666666665 455556666666666666666655444

>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=99.95  E-value=2.2e-27  Score=235.58  Aligned_cols=249  Identities=20%  Similarity=0.177  Sum_probs=186.6

Q ss_pred             cEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEE
Q 040109          215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYL  294 (598)
Q Consensus       215 ~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L  294 (598)
                      +.++.+++.++..+..      ..++|++|++++|.+++..+..+..++.  |++|++++|.+++..|..+..+++|++|
T Consensus        14 ~~~~c~~~~l~~ip~~------~~~~l~~L~l~~n~i~~~~~~~~~~~~~--L~~L~l~~n~l~~~~~~~~~~l~~L~~L   85 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVG------IPAASQRIFLHGNRISHVPAASFRACRN--LTILWLHSNVLARIDAAAFTGLALLEQL   85 (285)
T ss_dssp             CEEECCSSCCSSCCTT------CCTTCSEEECTTSCCCEECTTTTTTCTT--CCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             eEEEcCcCCcccCCcC------CCCCceEEEeeCCcCCccCHHHcccCCC--CCEEECCCCccceeCHhhcCCccCCCEE
Confidence            3455555555544321      1156777777777777655566777777  8888888888877777778888888888


Q ss_pred             eeccCC-CCCc-chhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcccc
Q 040109          295 GLLSNR-LREV-PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPL  372 (598)
Q Consensus       295 ~Ls~n~-l~~l-p~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~  372 (598)
                      ++++|. ++.+ |..+..+++|++|++++|.+.+..|..+..++       +|++|++++|.+++..+.           
T Consensus        86 ~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~-------~L~~L~l~~n~l~~~~~~-----------  147 (285)
T 1ozn_A           86 DLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLA-------ALQYLYLQDNALQALPDD-----------  147 (285)
T ss_dssp             ECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCT-------TCCEEECCSSCCCCCCTT-----------
T ss_pred             eCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCc-------CCCEEECCCCcccccCHh-----------
Confidence            888886 7765 56778888888888888888887777777776       788888888887743321           


Q ss_pred             ccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCC
Q 040109          373 IYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN  452 (598)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N  452 (598)
                                      .++.+++|++|++++|++++..+..+..+++|++|++++|++++..|..+..+++|++|++++|
T Consensus       148 ----------------~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  211 (285)
T 1ozn_A          148 ----------------TFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN  211 (285)
T ss_dssp             ----------------TTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             ----------------HhccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCC
Confidence                            2344667888999999888666667888999999999999999888889999999999999999


Q ss_pred             ccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCC
Q 040109          453 HFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGL  505 (598)
Q Consensus       453 ~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~  505 (598)
                      ++++..++.+..+++|++|++++|++.+..+.......+.......+...|..
T Consensus       212 ~l~~~~~~~~~~l~~L~~L~l~~N~~~c~~~~~~~~~~l~~~~~~~~~~~c~~  264 (285)
T 1ozn_A          212 NLSALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEVPCSL  264 (285)
T ss_dssp             CCSCCCHHHHTTCTTCCEEECCSSCEECSGGGHHHHHHHHHCCSEECCCBEEE
T ss_pred             cCCcCCHHHcccCcccCEEeccCCCccCCCCcHHHHHHHHhcccccCccccCC
Confidence            99887777889999999999999999877665444444444455555555543

>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=99.95  E-value=3.5e-26  Score=248.99  Aligned_cols=291  Identities=24%  Similarity=0.260  Sum_probs=212.0

Q ss_pred             CCCCCCCCCCCCCCCCccCeee------CCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCc
Q 040109           56 ILSSWGREDEKRNCCKWRGVRC------SNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPI  129 (598)
Q Consensus        56 ~l~~W~~~~~~~~~c~w~gv~C------~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~  129 (598)
                      ...+|.   .+.++|.|+|..|      .-....++.+++++      +.++ .+|..+.  ++|++|++++|.++.  +
T Consensus        11 ~w~~W~---~~~~~~~~~~r~~~~~~~~~c~~~~l~~L~ls~------n~L~-~lp~~l~--~~L~~L~L~~N~l~~--l   76 (622)
T 3g06_A           11 VWSAWR---RAAPAEESRGRAAVVQKMRACLNNGNAVLNVGE------SGLT-TLPDCLP--AHITTLVIPDNNLTS--L   76 (622)
T ss_dssp             HHHHHH---HTCCGGGHHHHHHHHHHHHHHHHHCCCEEECCS------SCCS-CCCSCCC--TTCSEEEECSCCCSC--C
T ss_pred             HHHHHH---hcCCcchhccccccCcccccccCCCCcEEEecC------CCcC-ccChhhC--CCCcEEEecCCCCCC--C
Confidence            345575   3667899976422      11123478899998      6776 7787776  899999999999984  6


Q ss_pred             chhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhc
Q 040109          130 PEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLS  209 (598)
Q Consensus       130 p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~  209 (598)
                      |.   .+++|++|+|++|.++ .+|.   .+++|++|++++|.+...  +.   .+++|++|++++|+++.+|.      
T Consensus        77 p~---~l~~L~~L~Ls~N~l~-~lp~---~l~~L~~L~Ls~N~l~~l--~~---~l~~L~~L~L~~N~l~~lp~------  138 (622)
T 3g06_A           77 PA---LPPELRTLEVSGNQLT-SLPV---LPPGLLELSIFSNPLTHL--PA---LPSGLCKLWIFGNQLTSLPV------  138 (622)
T ss_dssp             CC---CCTTCCEEEECSCCCS-CCCC---CCTTCCEEEECSCCCCCC--CC---CCTTCCEEECCSSCCSCCCC------
T ss_pred             CC---cCCCCCEEEcCCCcCC-cCCC---CCCCCCEEECcCCcCCCC--CC---CCCCcCEEECCCCCCCcCCC------
Confidence            66   5799999999999998 5665   779999999999998332  22   67899999999999998764      


Q ss_pred             CCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCC
Q 040109          210 NLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMA  289 (598)
Q Consensus       210 ~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~  289 (598)
                      .+++|++|++++|.+++.+.       .+++|+.|++++|.+++ +|   ..+++  |+.|++++|.+++ +|.   .++
T Consensus       139 ~l~~L~~L~Ls~N~l~~l~~-------~~~~L~~L~L~~N~l~~-l~---~~~~~--L~~L~Ls~N~l~~-l~~---~~~  201 (622)
T 3g06_A          139 LPPGLQELSVSDNQLASLPA-------LPSELCKLWAYNNQLTS-LP---MLPSG--LQELSVSDNQLAS-LPT---LPS  201 (622)
T ss_dssp             CCTTCCEEECCSSCCSCCCC-------CCTTCCEEECCSSCCSC-CC---CCCTT--CCEEECCSSCCSC-CCC---CCT
T ss_pred             CCCCCCEEECcCCcCCCcCC-------ccCCCCEEECCCCCCCC-Cc---ccCCC--CcEEECCCCCCCC-CCC---ccc
Confidence            24899999999999988653       12789999999999986 45   34556  9999999999985 443   347


Q ss_pred             CccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCc
Q 040109          290 SLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGML  369 (598)
Q Consensus       290 ~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~  369 (598)
                      +|+.|++++|.++.+|..   +++|+.|++++|.+++. |   ..++       +|+.|++++|.++             
T Consensus       202 ~L~~L~L~~N~l~~l~~~---~~~L~~L~Ls~N~L~~l-p---~~l~-------~L~~L~Ls~N~L~-------------  254 (622)
T 3g06_A          202 ELYKLWAYNNRLTSLPAL---PSGLKELIVSGNRLTSL-P---VLPS-------ELKELMVSGNRLT-------------  254 (622)
T ss_dssp             TCCEEECCSSCCSSCCCC---CTTCCEEECCSSCCSCC-C---CCCT-------TCCEEECCSSCCS-------------
T ss_pred             hhhEEECcCCcccccCCC---CCCCCEEEccCCccCcC-C---CCCC-------cCcEEECCCCCCC-------------
Confidence            999999999999998853   47888888888887753 2   1112       5555555555554             


Q ss_pred             cccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeC
Q 040109          370 MPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDL  449 (598)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L  449 (598)
                                                             .+|.   .+++|+.|+|++|+++ .+|..+.++++|+.|+|
T Consensus       255 ---------------------------------------~lp~---~~~~L~~L~Ls~N~L~-~lp~~l~~l~~L~~L~L  291 (622)
T 3g06_A          255 ---------------------------------------SLPM---LPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNL  291 (622)
T ss_dssp             ---------------------------------------CCCC---CCTTCCEEECCSSCCC-SCCGGGGGSCTTCEEEC
T ss_pred             ---------------------------------------cCCc---ccccCcEEeCCCCCCC-cCCHHHhhccccCEEEe
Confidence                                                   2332   3455666666666665 55555666666666666


Q ss_pred             CCCccCCCCcccccCC
Q 040109          450 SINHFFGGIPSSLSRL  465 (598)
Q Consensus       450 s~N~l~~~~p~~l~~l  465 (598)
                      ++|.+++..|..+..+
T Consensus       292 ~~N~l~~~~~~~l~~L  307 (622)
T 3g06_A          292 EGNPLSERTLQALREI  307 (622)
T ss_dssp             CSCCCCHHHHHHHHHH
T ss_pred             cCCCCCCcCHHHHHhc
Confidence            6666665555555443

>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=99.95  E-value=1.6e-26  Score=233.78  Aligned_cols=235  Identities=17%  Similarity=0.196  Sum_probs=145.1

Q ss_pred             CCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCc
Q 040109          185 LSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSS  264 (598)
Q Consensus       185 l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~  264 (598)
                      .+++++|++++|.++.+|   ..+..+++|++|++++|.++.. +..+..  + ++|++|++++|.++ .+|..+..+++
T Consensus        80 ~~~l~~L~L~~n~l~~lp---~~l~~l~~L~~L~L~~n~l~~l-p~~~~~--l-~~L~~L~Ls~n~l~-~lp~~l~~l~~  151 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFP---DQAFRLSHLQHMTIDAAGLMEL-PDTMQQ--F-AGLETLTLARNPLR-ALPASIASLNR  151 (328)
T ss_dssp             STTCCEEEEESSCCSSCC---SCGGGGTTCSEEEEESSCCCCC-CSCGGG--G-TTCSEEEEESCCCC-CCCGGGGGCTT
T ss_pred             ccceeEEEccCCCchhcC---hhhhhCCCCCEEECCCCCccch-hHHHhc--c-CCCCEEECCCCccc-cCcHHHhcCcC
Confidence            456777777777777543   3455566666666666666632 221222  1 56666666666665 45555555555


Q ss_pred             cCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCC
Q 040109          265 NLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSS  344 (598)
Q Consensus       265 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~  344 (598)
                        |++|++++|.+.+.+|..+...              .++..+.++++|++|++++|.++ .+|..+..++       +
T Consensus       152 --L~~L~L~~n~~~~~~p~~~~~~--------------~~~~~~~~l~~L~~L~L~~n~l~-~lp~~l~~l~-------~  207 (328)
T 4fcg_A          152 --LRELSIRACPELTELPEPLAST--------------DASGEHQGLVNLQSLRLEWTGIR-SLPASIANLQ-------N  207 (328)
T ss_dssp             --CCEEEEEEETTCCCCCSCSEEE--------------C-CCCEEESTTCCEEEEEEECCC-CCCGGGGGCT-------T
T ss_pred             --CCEEECCCCCCccccChhHhhc--------------cchhhhccCCCCCEEECcCCCcC-cchHhhcCCC-------C
Confidence              6666666655555555444320              00011223555555555555554 3344444444       5


Q ss_pred             CCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEE
Q 040109          345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALN  424 (598)
Q Consensus       345 L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~  424 (598)
                      |++|++++|.+++..+                            .+..+++|++|++++|++.+.+|..+..+++|++|+
T Consensus       208 L~~L~L~~N~l~~l~~----------------------------~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~  259 (328)
T 4fcg_A          208 LKSLKIRNSPLSALGP----------------------------AIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI  259 (328)
T ss_dssp             CCEEEEESSCCCCCCG----------------------------GGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEE
T ss_pred             CCEEEccCCCCCcCch----------------------------hhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEE
Confidence            5555555555543111                            123355667777777777777777788888888888


Q ss_pred             CcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcce
Q 040109          425 LSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       425 Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~  479 (598)
                      |++|++.+.+|..+..+++|++|+|++|++.+.+|+.+.++++|+.+++..|.+.
T Consensus       260 L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~~~~~  314 (328)
T 4fcg_A          260 LKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQA  314 (328)
T ss_dssp             CTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECCGGGSC
T ss_pred             CCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCCHHHHH
Confidence            8888888888888888888888888888888888888888888888888876554

>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=99.95  E-value=2.3e-26  Score=243.72  Aligned_cols=227  Identities=23%  Similarity=0.254  Sum_probs=136.2

Q ss_pred             CCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCcc
Q 040109          186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSN  265 (598)
Q Consensus       186 ~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~  265 (598)
                      +++++|+|++|.++.++  +..|.++++|++|++++|.+++..+..+..+   ++|++|+|++|.+++..+..+..+++ 
T Consensus        75 ~~l~~L~L~~n~i~~~~--~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l---~~L~~L~L~~n~l~~~~~~~~~~l~~-  148 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQ--ADTFRHLHHLEVLQLGRNSIRQIEVGAFNGL---ASLNTLELFDNWLTVIPSGAFEYLSK-  148 (452)
T ss_dssp             TTCSEEECCSSCCCEEC--TTTTTTCTTCCEEECCSSCCCEECTTTTTTC---TTCCEEECCSSCCSBCCTTTSSSCTT-
T ss_pred             CCccEEECcCCcCceEC--HHHcCCCCCCCEEECCCCccCCcChhhccCc---ccCCEEECCCCcCCccChhhhcccCC-
Confidence            46666666666666542  2556666666666666666666554333332   66666666666666554555666666 


Q ss_pred             CccEEEccCCccccccchhhcCCCCccEEeecc-CCCCCcch-hhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCC
Q 040109          266 LVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLS-NRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNS  343 (598)
Q Consensus       266 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~-n~l~~lp~-~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~  343 (598)
                       |++|++++|.+++..+..|..+++|++|++++ |.+..++. .+.++++|++|++++|.+++. | .+..++       
T Consensus       149 -L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~-~-~~~~l~-------  218 (452)
T 3zyi_A          149 -LRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDM-P-NLTPLV-------  218 (452)
T ss_dssp             -CCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSC-C-CCTTCT-------
T ss_pred             -CCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccc-c-cccccc-------
Confidence             66666666666655555666666666666666 33333443 456666666666666666543 2 233333       


Q ss_pred             CCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEE
Q 040109          344 SLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL  423 (598)
Q Consensus       344 ~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L  423 (598)
                      +|+.|++++|.+++..|                           ..+..+++|+.|+|++|++++..+..|..+++|+.|
T Consensus       219 ~L~~L~Ls~N~l~~~~~---------------------------~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  271 (452)
T 3zyi_A          219 GLEELEMSGNHFPEIRP---------------------------GSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVEL  271 (452)
T ss_dssp             TCCEEECTTSCCSEECG---------------------------GGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEE
T ss_pred             cccEEECcCCcCcccCc---------------------------ccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEE
Confidence            66666666666654332                           223345566666666666666666666666666666


Q ss_pred             ECcCCcCcccCCcccCCCCCCCeeeCCCCccC
Q 040109          424 NLSNNNLTGQITPRIGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       424 ~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  455 (598)
                      +|++|++++..+..+..+++|+.|+|++|.+.
T Consensus       272 ~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          272 NLAHNNLSSLPHDLFTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             ECCSSCCSCCCTTSSTTCTTCCEEECCSSCEE
T ss_pred             ECCCCcCCccChHHhccccCCCEEEccCCCcC
Confidence            66666666555555666666666666666654

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

Probab=99.95  E-value=2.9e-26  Score=242.05  Aligned_cols=251  Identities=21%  Similarity=0.220  Sum_probs=172.8

Q ss_pred             CcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccE
Q 040109          214 LTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRY  293 (598)
Q Consensus       214 L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  293 (598)
                      .+.++.++..++.++...      .++++.|+|++|.+++..+..+..+++  |++|++++|.+++..+..|.++++|++
T Consensus        45 ~~~v~c~~~~l~~iP~~~------~~~l~~L~L~~n~i~~~~~~~~~~l~~--L~~L~Ls~n~i~~i~~~~~~~l~~L~~  116 (440)
T 3zyj_A           45 FSKVICVRKNLREVPDGI------STNTRLLNLHENQIQIIKVNSFKHLRH--LEILQLSRNHIRTIEIGAFNGLANLNT  116 (440)
T ss_dssp             SCEEECCSCCCSSCCSCC------CTTCSEEECCSCCCCEECTTTTSSCSS--CCEEECCSSCCCEECGGGGTTCSSCCE
T ss_pred             CCEEEeCCCCcCcCCCCC------CCCCcEEEccCCcCCeeCHHHhhCCCC--CCEEECCCCcCCccChhhccCCccCCE
Confidence            456666666666554421      156777777777777666667777777  777777777777666677777777777


Q ss_pred             EeeccCCCCCcch-hhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcccc
Q 040109          294 LGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPL  372 (598)
Q Consensus       294 L~Ls~n~l~~lp~-~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~  372 (598)
                      |++++|+++.+|. .+..+++|++|++++|.+.+..+..+..++       +|+.|++++|...+.++.           
T Consensus       117 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~-------~L~~L~l~~~~~l~~i~~-----------  178 (440)
T 3zyj_A          117 LELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIP-------SLRRLDLGELKRLSYISE-----------  178 (440)
T ss_dssp             EECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCT-------TCCEEECCCCTTCCEECT-----------
T ss_pred             EECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCc-------ccCEeCCCCCCCcceeCc-----------
Confidence            7777777777554 577777777777777777776666666666       777777777544333321           


Q ss_pred             ccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCC
Q 040109          373 IYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN  452 (598)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N  452 (598)
                                     ..+..+++|++|+|++|+++ .+| .+..+++|++|+|++|++++..|..|.++++|+.|+|++|
T Consensus       179 ---------------~~~~~l~~L~~L~L~~n~l~-~~~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n  241 (440)
T 3zyj_A          179 ---------------GAFEGLSNLRYLNLAMCNLR-EIP-NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS  241 (440)
T ss_dssp             ---------------TTTTTCSSCCEEECTTSCCS-SCC-CCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC
T ss_pred             ---------------chhhcccccCeecCCCCcCc-ccc-ccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCC
Confidence                           12344666777777777777 444 4667777777777777777766777777777777777777


Q ss_pred             ccCCCCcccccCCCCCCEEeCCCCcceecCCCC-CccCccCCCccCCCCCCCCCCC
Q 040109          453 HFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLPL  507 (598)
Q Consensus       453 ~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~~  507 (598)
                      ++++..+..|.++++|++|+|++|++++..+.. ..+++++.+++.+||+.|+|.+
T Consensus       242 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~CdC~l  297 (440)
T 3zyj_A          242 QIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWNCNCDI  297 (440)
T ss_dssp             CCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEECCSSCEECSSTT
T ss_pred             ceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEcCCCCccCCCCc
Confidence            777777777777777777777777777433332 3456677777777777777753

>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=99.94  E-value=4.4e-26  Score=226.24  Aligned_cols=231  Identities=23%  Similarity=0.242  Sum_probs=143.2

Q ss_pred             eeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCcc
Q 040109           76 RCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPH  155 (598)
Q Consensus        76 ~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~  155 (598)
                      .|.....  +.++.++      ..++ .+|..+  .++|++|++++|.++.. .+..|..+++|++|++++|.+++..|.
T Consensus         7 ~C~~~~~--~~~~c~~------~~l~-~ip~~~--~~~l~~L~l~~n~i~~~-~~~~~~~~~~L~~L~l~~n~l~~~~~~   74 (285)
T 1ozn_A            7 VCYNEPK--VTTSCPQ------QGLQ-AVPVGI--PAASQRIFLHGNRISHV-PAASFRACRNLTILWLHSNVLARIDAA   74 (285)
T ss_dssp             EEECSSS--CEEECCS------SCCS-SCCTTC--CTTCSEEECTTSCCCEE-CTTTTTTCTTCCEEECCSSCCCEECTT
T ss_pred             eECCCCC--eEEEcCc------CCcc-cCCcCC--CCCceEEEeeCCcCCcc-CHHHcccCCCCCEEECCCCccceeCHh
Confidence            5643332  4456655      3444 345433  46889999999988864 556788889999999999988877788


Q ss_pred             ccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhc
Q 040109          156 QLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHL  235 (598)
Q Consensus       156 ~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~  235 (598)
                      .|.++++|++|++++|.......+..+..+++|++|++++|.+++++  +..+..+++|++|++++|.+++.++..+...
T Consensus        75 ~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l  152 (285)
T 1ozn_A           75 AFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELG--PGLFRGLAALQYLYLQDNALQALPDDTFRDL  152 (285)
T ss_dssp             TTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCC--TTTTTTCTTCCEEECCSSCCCCCCTTTTTTC
T ss_pred             hcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEEC--HhHhhCCcCCCEEECCCCcccccCHhHhccC
Confidence            88888889999998887224444566777888888888888877753  2556666777777777766665544322222


Q ss_pred             cccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCC
Q 040109          236 NYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSL  314 (598)
Q Consensus       236 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L  314 (598)
                         ++|++|++++|.++                          +..+..+..+++|++|++++|.+++ .|..+..+++|
T Consensus       153 ---~~L~~L~l~~n~l~--------------------------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  203 (285)
T 1ozn_A          153 ---GNLTHLFLHGNRIS--------------------------SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRL  203 (285)
T ss_dssp             ---TTCCEEECCSSCCC--------------------------EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTC
T ss_pred             ---CCccEEECCCCccc--------------------------ccCHHHhcCccccCEEECCCCcccccCHhHccCcccc
Confidence               45555555555544                          3333344445555555555555554 24445555555


Q ss_pred             cEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      +.|++++|.+++..+..+..++       +|+.|++++|++.
T Consensus       204 ~~L~l~~n~l~~~~~~~~~~l~-------~L~~L~l~~N~~~  238 (285)
T 1ozn_A          204 MTLYLFANNLSALPTEALAPLR-------ALQYLRLNDNPWV  238 (285)
T ss_dssp             CEEECCSSCCSCCCHHHHTTCT-------TCCEEECCSSCEE
T ss_pred             cEeeCCCCcCCcCCHHHcccCc-------ccCEEeccCCCcc
Confidence            5555555555555444454444       5555555555554

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.94  E-value=3.9e-28  Score=244.83  Aligned_cols=265  Identities=24%  Similarity=0.297  Sum_probs=144.9

Q ss_pred             CEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcC
Q 040109          115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG  194 (598)
Q Consensus       115 ~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~  194 (598)
                      +..+++.+.+... .+..+..+++|++|+|++|.+++..|..|..+++|++|++++|.+..  .. .+..+++|++|+++
T Consensus        13 ~i~~ls~~~l~~~-~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~--~~-~~~~l~~L~~L~Ls   88 (317)
T 3o53_A           13 KIEKVTDSSLKQA-LASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYE--TL-DLESLSTLRTLDLN   88 (317)
T ss_dssp             EEESCCTTTHHHH-HHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEE--EE-EETTCTTCCEEECC
T ss_pred             eEeeccccchhhh-HHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCc--ch-hhhhcCCCCEEECc
Confidence            3344444444321 22334444556666666666655555555566666666666655411  11 15555556666665


Q ss_pred             CCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccC
Q 040109          195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS  274 (598)
Q Consensus       195 ~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~  274 (598)
                      +|.+++++       ..++|++|++++|.+++..+.     .+ ++|++|++++|                         
T Consensus        89 ~n~l~~l~-------~~~~L~~L~l~~n~l~~~~~~-----~~-~~L~~L~l~~N-------------------------  130 (317)
T 3o53_A           89 NNYVQELL-------VGPSIETLHAANNNISRVSCS-----RG-QGKKNIYLANN-------------------------  130 (317)
T ss_dssp             SSEEEEEE-------ECTTCCEEECCSSCCSEEEEC-----CC-SSCEEEECCSS-------------------------
T ss_pred             CCcccccc-------CCCCcCEEECCCCccCCcCcc-----cc-CCCCEEECCCC-------------------------
Confidence            55554432       124555555555555443221     01 34444444444                         


Q ss_pred             CccccccchhhcCCCCccEEeeccCCCCCc-chhh-cCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccC
Q 040109          275 NRLHGSIPVAFGHMASLRYLGLLSNRLREV-PKFL-GNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLAS  352 (598)
Q Consensus       275 n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~l-p~~l-~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~  352 (598)
                       .+++..+..+..+++|++|++++|.++++ +..+ ..+++|++|++++|.+++..+..  .++       +        
T Consensus       131 -~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~--~l~-------~--------  192 (317)
T 3o53_A          131 -KITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQV--VFA-------K--------  192 (317)
T ss_dssp             -CCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECCC--CCT-------T--------
T ss_pred             -CCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccccccc--ccc-------c--------
Confidence             44444444455555566666666666552 2333 35666666777666665431110  111       3        


Q ss_pred             ccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcc
Q 040109          353 NEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTG  432 (598)
Q Consensus       353 N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~  432 (598)
                                                                 |++|++++|+++ .+|..+..+++|++|++++|+++ 
T Consensus       193 -------------------------------------------L~~L~Ls~N~l~-~l~~~~~~l~~L~~L~L~~N~l~-  227 (317)
T 3o53_A          193 -------------------------------------------LKTLDLSSNKLA-FMGPEFQSAAGVTWISLRNNKLV-  227 (317)
T ss_dssp             -------------------------------------------CCEEECCSSCCC-EECGGGGGGTTCSEEECTTSCCC-
T ss_pred             -------------------------------------------CCEEECCCCcCC-cchhhhcccCcccEEECcCCccc-
Confidence                                                       444444444444 23344667777888888888777 


Q ss_pred             cCCcccCCCCCCCeeeCCCCccC-CCCcccccCCCCCCEEeCCC-CcceecCCC
Q 040109          433 QITPRIGQLKSLDFLDLSINHFF-GGIPSSLSRLRLLSVMDLSY-NNFSGKIPK  484 (598)
Q Consensus       433 ~~p~~l~~l~~L~~L~Ls~N~l~-~~~p~~l~~l~~L~~L~ls~-N~l~~~~p~  484 (598)
                      .+|..+..+++|+.|++++|.++ +.+|..+..+++|+.+++++ +.+.|..|.
T Consensus       228 ~l~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l~~~~~l~~~~~~  281 (317)
T 3o53_A          228 LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEE  281 (317)
T ss_dssp             EECTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHHHHHHHHHSSSSC
T ss_pred             chhhHhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEECCCchhccCCchh
Confidence            56777777788888888888877 66677777788888888773 455555444

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.93  E-value=1e-27  Score=241.81  Aligned_cols=257  Identities=21%  Similarity=0.211  Sum_probs=173.4

Q ss_pred             CCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEe
Q 040109          139 LSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLY  218 (598)
Q Consensus       139 L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~  218 (598)
                      ++..+++.+.+...+...+..+++|++|++++|.+ ....+..+.++++|++|++++|.+++.+.    +..+++     
T Consensus        12 l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~----~~~l~~-----   81 (317)
T 3o53_A           12 YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPL-SQISAADLAPFTKLELLNLSSNVLYETLD----LESLST-----   81 (317)
T ss_dssp             EEEESCCTTTHHHHHHHHHTTGGGCSEEECTTSCC-CCCCHHHHTTCTTCCEEECTTSCCEEEEE----ETTCTT-----
T ss_pred             eeEeeccccchhhhHHHHhccCCCCCEEECcCCcc-CcCCHHHhhCCCcCCEEECCCCcCCcchh----hhhcCC-----
Confidence            34445555555433334444555666666666665 22333445555566666666555554311    444444     


Q ss_pred             ccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeecc
Q 040109          219 LGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLS  298 (598)
Q Consensus       219 l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~  298 (598)
                                            |++|++++|.+++..     ..+.  |++|++++|.+++..+.   .+++|++|++++
T Consensus        82 ----------------------L~~L~Ls~n~l~~l~-----~~~~--L~~L~l~~n~l~~~~~~---~~~~L~~L~l~~  129 (317)
T 3o53_A           82 ----------------------LRTLDLNNNYVQELL-----VGPS--IETLHAANNNISRVSCS---RGQGKKNIYLAN  129 (317)
T ss_dssp             ----------------------CCEEECCSSEEEEEE-----ECTT--CCEEECCSSCCSEEEEC---CCSSCEEEECCS
T ss_pred             ----------------------CCEEECcCCcccccc-----CCCC--cCEEECCCCccCCcCcc---ccCCCCEEECCC
Confidence                                  555555555444211     1134  77777777777765443   357899999999


Q ss_pred             CCCCCc-chhhcCCCCCcEEEcccCcCccchhhhhh-hcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcccccccc
Q 040109          299 NRLREV-PKFLGNMSSLKMLVLSYNELRGELSEFIQ-NVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD  376 (598)
Q Consensus       299 n~l~~l-p~~l~~l~~L~~L~Ls~n~l~~~~~~~l~-~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~  376 (598)
                      |+++++ +..+..+++|++|++++|.+.+..+..+. .++       +|++|++++|.+++                   
T Consensus       130 N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~-------~L~~L~L~~N~l~~-------------------  183 (317)
T 3o53_A          130 NKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSD-------TLEHLNLQYNFIYD-------------------  183 (317)
T ss_dssp             SCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTT-------TCCEEECTTSCCCE-------------------
T ss_pred             CCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccC-------cCCEEECCCCcCcc-------------------
Confidence            999995 45788899999999999999988777664 455       67777777776652                   


Q ss_pred             ceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCC
Q 040109          377 KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG  456 (598)
Q Consensus       377 ~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~  456 (598)
                                                      . + ....+++|++|++++|++++ +|..+..+++|++|++++|+++ 
T Consensus       184 --------------------------------~-~-~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~L~~N~l~-  227 (317)
T 3o53_A          184 --------------------------------V-K-GQVVFAKLKTLDLSSNKLAF-MGPEFQSAAGVTWISLRNNKLV-  227 (317)
T ss_dssp             --------------------------------E-E-CCCCCTTCCEEECCSSCCCE-ECGGGGGGTTCSEEECTTSCCC-
T ss_pred             --------------------------------c-c-cccccccCCEEECCCCcCCc-chhhhcccCcccEEECcCCccc-
Confidence                                            1 1 12247899999999999995 5566999999999999999998 


Q ss_pred             CCcccccCCCCCCEEeCCCCcce-ecCCCC-CccCccCCCccCCC
Q 040109          457 GIPSSLSRLRLLSVMDLSYNNFS-GKIPKG-TQLQRFGASTYAGN  499 (598)
Q Consensus       457 ~~p~~l~~l~~L~~L~ls~N~l~-~~~p~~-~~~~~l~~~~~~gn  499 (598)
                      .+|..+..+++|+.|++++|++. +.+|.. ..++.+..+.+.++
T Consensus       228 ~l~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l~~~  272 (317)
T 3o53_A          228 LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTV  272 (317)
T ss_dssp             EECTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             chhhHhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEECCCc
Confidence            57888999999999999999998 444432 23445555555543

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

Probab=99.93  E-value=4e-27  Score=236.82  Aligned_cols=259  Identities=19%  Similarity=0.173  Sum_probs=138.9

Q ss_pred             hcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCC
Q 040109          132 FIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNL  211 (598)
Q Consensus       132 ~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l  211 (598)
                      .++..++|++|++++|.+  .+|..+...  |++|++++|.+.....+..+.                   .....+..+
T Consensus        38 ~~~~~~~L~~l~l~~n~l--~~p~~~~~~--L~~L~L~~n~l~~~~~~~~~~-------------------~~~~~~~~l   94 (312)
T 1wwl_A           38 LYGGGRSLEYLLKRVDTE--ADLGQFTDI--IKSLSLKRLTVRAARIPSRIL-------------------FGALRVLGI   94 (312)
T ss_dssp             EEEEEEECTTHHHHCCTT--CCCHHHHHH--HHHCCCCEEEEEEEECBHHHH-------------------HHHHHHHTT
T ss_pred             EEccCCCceeEeeccccc--ccHHHHHHH--HhhcccccccccCCCcCHHHH-------------------HHHHHhcCc
Confidence            344556677777777776  455544432  555566655541111111111                   000011145


Q ss_pred             CCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhc-----CccCccEEEccCCccccccchhhc
Q 040109          212 RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV-----SSNLVDHIDLGSNRLHGSIPVAFG  286 (598)
Q Consensus       212 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~-----~~~~L~~L~L~~n~l~~~~p~~l~  286 (598)
                      ++|++|++++|++++..+..+..... ++|++|++++|.+++. |..+..+     ++  |++|++++|.+++..|..++
T Consensus        95 ~~L~~L~L~~n~l~~~~~~~~~~~~l-~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~--L~~L~L~~N~l~~~~~~~~~  170 (312)
T 1wwl_A           95 SGLQELTLENLEVTGTAPPPLLEATG-PDLNILNLRNVSWATR-DAWLAELQQWLKPG--LKVLSIAQAHSLNFSCEQVR  170 (312)
T ss_dssp             SCCCEEEEEEEBCBSCCCCCSSSCCS-CCCSEEEEESCBCSSS-SSHHHHHHTTCCTT--CCEEEEESCSCCCCCTTTCC
T ss_pred             CCccEEEccCCcccchhHHHHHHhcC-CCccEEEccCCCCcch-hHHHHHHHHhhcCC--CcEEEeeCCCCccchHHHhc
Confidence            55666666666655444322211122 5666666666666655 5555554     45  66667766666666666666


Q ss_pred             CCCCccEEeeccCCCCC---cchhh--cCCCCCcEEEcccCcCccc---hhhhhhhcCCCCCCCCCCCEEEccCcccccc
Q 040109          287 HMASLRYLGLLSNRLRE---VPKFL--GNMSSLKMLVLSYNELRGE---LSEFIQNVSSGSTKNSSLEWLYLASNEITGT  358 (598)
Q Consensus       287 ~l~~L~~L~Ls~n~l~~---lp~~l--~~l~~L~~L~Ls~n~l~~~---~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~  358 (598)
                      .+++|++|++++|++.+   +|..+  ..+++|++|++++|++++.   ....+..++       +|+.|++++|.++  
T Consensus       171 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~-------~L~~L~Ls~N~l~--  241 (312)
T 1wwl_A          171 VFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARV-------QLQGLDLSHNSLR--  241 (312)
T ss_dssp             CCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTC-------CCSEEECTTSCCC--
T ss_pred             cCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCC-------CCCEEECCCCcCC--
Confidence            66667777777666554   23333  5666666666666666531   112223333       4555555555544  


Q ss_pred             CCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCc-hhhhcccCCcEEECcCCcCcccCCcc
Q 040109          359 IPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVP-EEIMDLVGLVALNLSNNNLTGQITPR  437 (598)
Q Consensus       359 ~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p-~~l~~l~~L~~L~Ls~N~l~~~~p~~  437 (598)
                                                                       +.+| ..+..+++|++|++++|+++ .+|..
T Consensus       242 -------------------------------------------------~~~~~~~~~~l~~L~~L~Ls~N~l~-~ip~~  271 (312)
T 1wwl_A          242 -------------------------------------------------DAAGAPSCDWPSQLNSLNLSFTGLK-QVPKG  271 (312)
T ss_dssp             -------------------------------------------------SSCCCSCCCCCTTCCEEECTTSCCS-SCCSS
T ss_pred             -------------------------------------------------cccchhhhhhcCCCCEEECCCCccC-hhhhh
Confidence                                                             3332 23334556666666666666 55555


Q ss_pred             cCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCccee
Q 040109          438 IGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       438 l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      +.  ++|++||+++|++++. |. +..+++|++|++++|++++
T Consensus       272 ~~--~~L~~L~Ls~N~l~~~-p~-~~~l~~L~~L~L~~N~l~~  310 (312)
T 1wwl_A          272 LP--AKLSVLDLSYNRLDRN-PS-PDELPQVGNLSLKGNPFLD  310 (312)
T ss_dssp             CC--SEEEEEECCSSCCCSC-CC-TTTSCEEEEEECTTCTTTC
T ss_pred             cc--CCceEEECCCCCCCCC-hh-HhhCCCCCEEeccCCCCCC
Confidence            54  5666666666666644 44 6666666666666666653

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

Probab=99.93  E-value=3.8e-28  Score=244.29  Aligned_cols=270  Identities=23%  Similarity=0.283  Sum_probs=207.6

Q ss_pred             CCCCCCCCCCCCCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcC--
Q 040109           57 LSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIG--  134 (598)
Q Consensus        57 l~~W~~~~~~~~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~--  134 (598)
                      ..+|.   ....|+.+..+........++.+++++      +.+  .+|..+...  |++|+|++|.++...+|..+.  
T Consensus        21 ~~~~~---~~~~c~~~~~~~~~~~~~~L~~l~l~~------n~l--~~p~~~~~~--L~~L~L~~n~l~~~~~~~~~~~~   87 (312)
T 1wwl_A           21 KPDWS---SAFNCLGAADVELYGGGRSLEYLLKRV------DTE--ADLGQFTDI--IKSLSLKRLTVRAARIPSRILFG   87 (312)
T ss_dssp             SCCGG---GGGGSSSCSEEEEEEEEEECTTHHHHC------CTT--CCCHHHHHH--HHHCCCCEEEEEEEECBHHHHHH
T ss_pred             ccchH---HHhhhhccccEEEEccCCCceeEeecc------ccc--ccHHHHHHH--HhhcccccccccCCCcCHHHHHH
Confidence            45675   234555555543322223445555655      556  677766554  889999999985445777766  


Q ss_pred             -----CCCCCCEEECCCCCCCCCCcccc--CCCCCCCEEEccCCCCCCCCCcccccCC-----CCCCEEEcCCCcCCCCC
Q 040109          135 -----SLSKLSELALSSAQLAGPIPHQL--GNLSRLQVLDLRFNNLFSSGNLDWLSYL-----SSLRYLDLGDCKLSKFS  202 (598)
Q Consensus       135 -----~l~~L~~L~Ls~n~l~~~~p~~l--~~l~~L~~L~Ls~n~l~~~~~~~~l~~l-----~~L~~L~L~~n~l~~~~  202 (598)
                           .+++|++|++++|.+++.+|..+  +.+++|++|++++|.+...  +..+..+     ++|++|++++|++.+++
T Consensus        88 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~--~~~~~~l~~~~~~~L~~L~L~~N~l~~~~  165 (312)
T 1wwl_A           88 ALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR--DAWLAELQQWLKPGLKVLSIAQAHSLNFS  165 (312)
T ss_dssp             HHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS--SSHHHHHHTTCCTTCCEEEEESCSCCCCC
T ss_pred             HHHhcCcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcch--hHHHHHHHHhhcCCCcEEEeeCCCCccch
Confidence                 79999999999999999899886  8999999999999998433  4556665     89999999999999874


Q ss_pred             chhHhhcCCCCCcEEeccCcCCCCCCCC--hhhhccccCCccEEEccCCCCCC--Ccc-hhhhhcCccCccEEEccCCcc
Q 040109          203 NWFQVLSNLRSLTTLYLGHCDLPPISTP--SLLHLNYSKSLEVIDLSNNYLTN--SIY-PWLLNVSSNLVDHIDLGSNRL  277 (598)
Q Consensus       203 ~~~~~l~~l~~L~~L~l~~n~l~~~~~~--~~~~~~~~~~L~~L~Ls~n~l~~--~~~-~~l~~~~~~~L~~L~L~~n~l  277 (598)
                        +..+..+++|++|++++|++.+..+.  .+..... ++|++|++++|.+++  .++ ..+..+++  |++|++++|.+
T Consensus       166 --~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l-~~L~~L~L~~N~l~~~~~~~~~~~~~l~~--L~~L~Ls~N~l  240 (312)
T 1wwl_A          166 --CEQVRVFPALSTLDLSDNPELGERGLISALCPLKF-PTLQVLALRNAGMETPSGVCSALAAARVQ--LQGLDLSHNSL  240 (312)
T ss_dssp             --TTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSC-TTCCEEECTTSCCCCHHHHHHHHHHTTCC--CSEEECTTSCC
T ss_pred             --HHHhccCCCCCEEECCCCCcCcchHHHHHHHhccC-CCCCEEECCCCcCcchHHHHHHHHhcCCC--CCEEECCCCcC
Confidence              37889999999999999997653211  1111233 899999999999984  222 23346677  99999999999


Q ss_pred             ccccc-hhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          278 HGSIP-VAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       278 ~~~~p-~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      ++..| ..+..+++|++|++++|+++.+|..+.  ++|++|++++|++++. |. +..++       +|++|++++|+++
T Consensus       241 ~~~~~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~--~~L~~L~Ls~N~l~~~-p~-~~~l~-------~L~~L~L~~N~l~  309 (312)
T 1wwl_A          241 RDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLP--AKLSVLDLSYNRLDRN-PS-PDELP-------QVGNLSLKGNPFL  309 (312)
T ss_dssp             CSSCCCSCCCCCTTCCEEECTTSCCSSCCSSCC--SEEEEEECCSSCCCSC-CC-TTTSC-------EEEEEECTTCTTT
T ss_pred             CcccchhhhhhcCCCCEEECCCCccChhhhhcc--CCceEEECCCCCCCCC-hh-HhhCC-------CCCEEeccCCCCC
Confidence            98775 456678999999999999999998776  8999999999999987 54 77777       8999999999987


Q ss_pred             c
Q 040109          357 G  357 (598)
Q Consensus       357 ~  357 (598)
                      +
T Consensus       310 ~  310 (312)
T 1wwl_A          310 D  310 (312)
T ss_dssp             C
T ss_pred             C
Confidence            5

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.93  E-value=5.2e-26  Score=242.56  Aligned_cols=146  Identities=23%  Similarity=0.212  Sum_probs=67.7

Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccC
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL  266 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~  266 (598)
                      +|++|+|++|.+++++  +..+..+++|++|++++|.+++..+  +..   +++|++|++++|.+++..+     .+.  
T Consensus        35 ~L~~L~Ls~n~l~~~~--~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~---l~~L~~L~Ls~N~l~~l~~-----~~~--  100 (487)
T 3oja_A           35 NVKELDLSGNPLSQIS--AADLAPFTKLELLNLSSNVLYETLD--LES---LSTLRTLDLNNNYVQELLV-----GPS--  100 (487)
T ss_dssp             GCCEEECCSSCCCCCC--GGGGTTCTTCCEEECTTSCCEEEEE--CTT---CTTCCEEECCSSEEEEEEE-----CTT--
T ss_pred             CccEEEeeCCcCCCCC--HHHHhCCCCCCEEEeeCCCCCCCcc--ccc---CCCCCEEEecCCcCCCCCC-----CCC--
Confidence            5555555555555542  2445555555555555555544332  111   1455555555555442211     123  


Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcCccchhhhhh-hcCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQ-NVSSGSTKNSS  344 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~-~l~~g~~~~~~  344 (598)
                      |+.|++++|.+++..+.   .+++|++|++++|.+++ .|..+..+++|+.|++++|.+++..|..+. .++       +
T Consensus       101 L~~L~L~~N~l~~~~~~---~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~-------~  170 (487)
T 3oja_A          101 IETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSD-------T  170 (487)
T ss_dssp             CCEEECCSSCCCCEEEC---CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTT-------T
T ss_pred             cCEEECcCCcCCCCCcc---ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCC-------c
Confidence            55555555555443332   23445555555555544 233444445555555555555544444433 333       4


Q ss_pred             CCEEEccCcccc
Q 040109          345 LEWLYLASNEIT  356 (598)
Q Consensus       345 L~~L~Ls~N~l~  356 (598)
                      |+.|+|++|.++
T Consensus       171 L~~L~Ls~N~l~  182 (487)
T 3oja_A          171 LEHLNLQYNFIY  182 (487)
T ss_dssp             CCEEECTTSCCC
T ss_pred             ccEEecCCCccc
Confidence            444555444444

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.93  E-value=6.1e-26  Score=242.05  Aligned_cols=233  Identities=27%  Similarity=0.315  Sum_probs=127.6

Q ss_pred             CCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEE
Q 040109          138 KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTL  217 (598)
Q Consensus       138 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L  217 (598)
                      +|++|+|++|.+++..|..|+.+++|++|+|++|.+..  .+ .+..+++|++|++++|.+++++.       .++|++|
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~--~~-~l~~l~~L~~L~Ls~N~l~~l~~-------~~~L~~L  104 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYE--TL-DLESLSTLRTLDLNNNYVQELLV-------GPSIETL  104 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEE--EE-ECTTCTTCCEEECCSSEEEEEEE-------CTTCCEE
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCC--Cc-ccccCCCCCEEEecCCcCCCCCC-------CCCcCEE
Confidence            56666666666666556666666666666666666521  11 15566666666666665554321       2555555


Q ss_pred             eccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeec
Q 040109          218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLL  297 (598)
Q Consensus       218 ~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls  297 (598)
                      ++++|.+++.++.     .+ ++|+.|++++|.++                          +..|..++.+++|++|+++
T Consensus       105 ~L~~N~l~~~~~~-----~l-~~L~~L~L~~N~l~--------------------------~~~~~~~~~l~~L~~L~Ls  152 (487)
T 3oja_A          105 HAANNNISRVSCS-----RG-QGKKNIYLANNKIT--------------------------MLRDLDEGCRSRVQYLDLK  152 (487)
T ss_dssp             ECCSSCCCCEEEC-----CC-SSCEEEECCSSCCC--------------------------SGGGBCGGGGSSEEEEECT
T ss_pred             ECcCCcCCCCCcc-----cc-CCCCEEECCCCCCC--------------------------CCCchhhcCCCCCCEEECC
Confidence            5555555543321     01 44444444444444                          4444444455555555555


Q ss_pred             cCCCCC-cchhhc-CCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccc
Q 040109          298 SNRLRE-VPKFLG-NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYF  375 (598)
Q Consensus       298 ~n~l~~-lp~~l~-~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~  375 (598)
                      +|.+++ .|..+. .+++|+.|++++|.+++..+..  .++       +|                              
T Consensus       153 ~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~~~--~l~-------~L------------------------------  193 (487)
T 3oja_A          153 LNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQV--VFA-------KL------------------------------  193 (487)
T ss_dssp             TSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECCC--CCT-------TC------------------------------
T ss_pred             CCCCCCcChHHHhhhCCcccEEecCCCccccccccc--cCC-------CC------------------------------
Confidence            555555 333333 4566666666666655442110  111       33                              


Q ss_pred             cceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccC
Q 040109          376 DKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       376 ~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  455 (598)
                                           +.|+|++|.+++ +|..+..+++|+.|+|++|.++ .+|..+..+++|+.|++++|.+.
T Consensus       194 ---------------------~~L~Ls~N~l~~-~~~~~~~l~~L~~L~Ls~N~l~-~lp~~l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          194 ---------------------KTLDLSSNKLAF-MGPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             ---------------------CEEECCSSCCCE-ECGGGGGGTTCSEEECTTSCCC-EECTTCCCCTTCCEEECTTCCBC
T ss_pred             ---------------------CEEECCCCCCCC-CCHhHcCCCCccEEEecCCcCc-ccchhhccCCCCCEEEcCCCCCc
Confidence                                 334444444442 2334566666777777777766 35666666677777777777766


Q ss_pred             -CCCcccccCCCCCCEEeCC
Q 040109          456 -GGIPSSLSRLRLLSVMDLS  474 (598)
Q Consensus       456 -~~~p~~l~~l~~L~~L~ls  474 (598)
                       +.+|..+..++.|+.++++
T Consensus       251 c~~~~~~~~~l~~L~~l~~~  270 (487)
T 3oja_A          251 CGTLRDFFSKNQRVQTVAKQ  270 (487)
T ss_dssp             HHHHHHHHTTCHHHHHHHHH
T ss_pred             CcchHHHHHhCCCCcEEecc
Confidence             4556666666666666664

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.92  E-value=3.3e-24  Score=210.88  Aligned_cols=218  Identities=26%  Similarity=0.303  Sum_probs=142.5

Q ss_pred             CCCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCC
Q 040109           67 RNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSS  146 (598)
Q Consensus        67 ~~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~  146 (598)
                      .++|.|.|+.|.- .+.++.+++++      +.++ .+|..+.  +++++|++++|.++.. .+..|..+++|++|++++
T Consensus         2 ~~~C~~~~~~C~c-~~~~~~l~~~~------~~l~-~ip~~~~--~~l~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~   70 (270)
T 2o6q_A            2 EALCKKDGGVCSC-NNNKNSVDCSS------KKLT-AIPSNIP--ADTKKLDLQSNKLSSL-PSKAFHRLTKLRLLYLND   70 (270)
T ss_dssp             CCCBGGGTCSBEE-ETTTTEEECTT------SCCS-SCCSCCC--TTCSEEECCSSCCSCC-CTTSSSSCTTCCEEECCS
T ss_pred             CccCCCCCCCCEe-CCCCCEEEccC------CCCC-ccCCCCC--CCCCEEECcCCCCCee-CHHHhcCCCCCCEEECCC
Confidence            3689999999852 23445677776      5555 3555443  5678888888887764 445677788888888888


Q ss_pred             CCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCC
Q 040109          147 AQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPP  226 (598)
Q Consensus       147 n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~  226 (598)
                      |.++...+..|.++++|++|++++|.+ .......+.++++|++|++++|.++.++.  ..+..+++|++|++++|.+++
T Consensus        71 n~l~~i~~~~~~~l~~L~~L~l~~n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L~Ls~n~l~~  147 (270)
T 2o6q_A           71 NKLQTLPAGIFKELKNLETLWVTDNKL-QALPIGVFDQLVNLAELRLDRNQLKSLPP--RVFDSLTKLTYLSLGYNELQS  147 (270)
T ss_dssp             SCCSCCCTTTTSSCTTCCEEECCSSCC-CCCCTTTTTTCSSCCEEECCSSCCCCCCT--TTTTTCTTCCEEECCSSCCCC
T ss_pred             CccCeeChhhhcCCCCCCEEECCCCcC-CcCCHhHcccccCCCEEECCCCccCeeCH--HHhCcCcCCCEEECCCCcCCc
Confidence            877755555567777777777777776 33333445666667777776666666532  344555555555555555544


Q ss_pred             CCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch
Q 040109          227 ISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK  306 (598)
Q Consensus       227 ~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~  306 (598)
                      .+                           +..+..+++  |++|++++|.+++..+..|..+++|++|++++|+++++|.
T Consensus       148 ~~---------------------------~~~~~~l~~--L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  198 (270)
T 2o6q_A          148 LP---------------------------KGVFDKLTS--LKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPE  198 (270)
T ss_dssp             CC---------------------------TTTTTTCTT--CCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             cC---------------------------HhHccCCcc--cceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCH
Confidence            33                           333444555  6666666666665555567777777788888777777554


Q ss_pred             -hhcCCCCCcEEEcccCcCccc
Q 040109          307 -FLGNMSSLKMLVLSYNELRGE  327 (598)
Q Consensus       307 -~l~~l~~L~~L~Ls~n~l~~~  327 (598)
                       .+..+++|+.|++++|++...
T Consensus       199 ~~~~~l~~L~~L~l~~N~~~c~  220 (270)
T 2o6q_A          199 GAFDSLEKLKMLQLQENPWDCT  220 (270)
T ss_dssp             TTTTTCTTCCEEECCSSCBCCS
T ss_pred             HHhccccCCCEEEecCCCeeCC
Confidence             467778888888888877543

>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=99.92  E-value=1.8e-27  Score=261.29  Aligned_cols=332  Identities=13%  Similarity=0.071  Sum_probs=165.0

Q ss_pred             CCCCCCEEECCCCCCCCC----CccccCCCCCCCEEEccCCCCCCCC---CcccccCCCCCCEEEcCCCcCCCCCchhHh
Q 040109          135 SLSKLSELALSSAQLAGP----IPHQLGNLSRLQVLDLRFNNLFSSG---NLDWLSYLSSLRYLDLGDCKLSKFSNWFQV  207 (598)
Q Consensus       135 ~l~~L~~L~Ls~n~l~~~----~p~~l~~l~~L~~L~Ls~n~l~~~~---~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~  207 (598)
                      .+++|++|+|++|.+++.    ++..+..+++|++|++++|.+....   ....+.++++|++|++++|.+.+   ++..
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~---l~~~  238 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILE---LVGF  238 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGG---GHHH
T ss_pred             hCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHH---HHHH
Confidence            455555555555554433    2223344555555555555541000   01123445555555555555544   2344


Q ss_pred             hcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccc-hhhc
Q 040109          208 LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP-VAFG  286 (598)
Q Consensus       208 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p-~~l~  286 (598)
                      +..+++|++|+++...........+.....+++|+.|+++++. ...+|..+..+++  |++|++++|.+++... ..+.
T Consensus       239 ~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~l~~~~~~~~~--L~~L~Ls~~~l~~~~~~~~~~  315 (592)
T 3ogk_B          239 FKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMG-PNEMPILFPFAAQ--IRKLDLLYALLETEDHCTLIQ  315 (592)
T ss_dssp             HHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCC-TTTGGGGGGGGGG--CCEEEETTCCCCHHHHHHHHT
T ss_pred             HhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccc-hhHHHHHHhhcCC--CcEEecCCCcCCHHHHHHHHH
Confidence            5555555555555322111101111112222555555555532 2345555555656  6677776666554332 2345


Q ss_pred             CCCCccEEeeccCCCCC--cchhhcCCCCCcEEEccc-----------CcCccchhh-hhhhcCCCCCCCCCCCEEEccC
Q 040109          287 HMASLRYLGLLSNRLRE--VPKFLGNMSSLKMLVLSY-----------NELRGELSE-FIQNVSSGSTKNSSLEWLYLAS  352 (598)
Q Consensus       287 ~l~~L~~L~Ls~n~l~~--lp~~l~~l~~L~~L~Ls~-----------n~l~~~~~~-~l~~l~~g~~~~~~L~~L~Ls~  352 (598)
                      .+++|++|+++ +.+..  ++.....+++|++|++++           |.+++.... ....++       +|++|+++.
T Consensus       316 ~~~~L~~L~L~-~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~-------~L~~L~l~~  387 (592)
T 3ogk_B          316 KCPNLEVLETR-NVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQ-------ELEYMAVYV  387 (592)
T ss_dssp             TCTTCCEEEEE-GGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCT-------TCSEEEEEE
T ss_pred             hCcCCCEEecc-CccCHHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCc-------cCeEEEeec
Confidence            66666666666 33332  444445566666666662           444433222 223344       666666666


Q ss_pred             ccccccCCC-CC-CCCcCcccccc----ccceEEE-EcCCcccccccccccceEeccCCc--CCCcCchhhhc-ccCCcE
Q 040109          353 NEITGTIPN-LG-GFPGMLMPLIY----FDKITVT-WKGGQYEYKSILGLIKIIDLSSNK--LGGEVPEEIMD-LVGLVA  422 (598)
Q Consensus       353 N~l~~~~p~-l~-~l~~l~~~~~~----~~~~~~~-~~~~~~~~~~~l~~L~~L~Ls~n~--l~~~~p~~l~~-l~~L~~  422 (598)
                      |.+++..+. +. ++++|......    .+.+... ...........+++|+.|+++.|.  +++..+..+.. +++|++
T Consensus       388 ~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~  467 (592)
T 3ogk_B          388 SDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRW  467 (592)
T ss_dssp             SCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCE
T ss_pred             CCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceE
Confidence            665542211 00 01122111110    0000000 000112224457778888886443  56555555544 677888


Q ss_pred             EECcCCcCccc-CCcccCCCCCCCeeeCCCCccCCC-CcccccCCCCCCEEeCCCCccee
Q 040109          423 LNLSNNNLTGQ-ITPRIGQLKSLDFLDLSINHFFGG-IPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       423 L~Ls~N~l~~~-~p~~l~~l~~L~~L~Ls~N~l~~~-~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      |++++|++++. ++..+..+++|++|+|++|.+++. ++.....+++|++|++++|+++.
T Consensus       468 L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~ls~n~it~  527 (592)
T 3ogk_B          468 MLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQGYRASM  527 (592)
T ss_dssp             EEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBHHHHHHHHHHCSSCCEEEEESCBCCT
T ss_pred             eeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcHHHHHHHHHhcCccCeeECcCCcCCH
Confidence            88888877753 444556777888888888877544 33344567788888888887653

>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=99.91  E-value=9.5e-24  Score=208.34  Aligned_cols=211  Identities=24%  Similarity=0.171  Sum_probs=151.7

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKML  317 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L  317 (598)
                      +++++|++++|.+++..+..+..++.  |++|++++|.+++..+..+..+++|++|++++|.+++++ ..+.++++|++|
T Consensus        28 ~~l~~L~ls~n~l~~~~~~~~~~l~~--L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  105 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPE--LQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKL  105 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCTT--CSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEE
T ss_pred             CCccEEECCCCcccccCHhHhccccC--CcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEE
Confidence            45666777777666555556666666  777777777777666666777777777777777777743 567777777777


Q ss_pred             EcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccc
Q 040109          318 VLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK  397 (598)
Q Consensus       318 ~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~  397 (598)
                      ++++|.+.+..+..+..++       +|++|++++|.+++.                          ..+..+..+++|+
T Consensus       106 ~l~~n~l~~~~~~~~~~l~-------~L~~L~l~~n~l~~~--------------------------~l~~~~~~l~~L~  152 (276)
T 2z62_A          106 VAVETNLASLENFPIGHLK-------TLKELNVAHNLIQSF--------------------------KLPEYFSNLTNLE  152 (276)
T ss_dssp             ECTTSCCCCSTTCCCTTCT-------TCCEEECCSSCCCCC--------------------------CCCGGGGGCTTCC
T ss_pred             ECCCCCccccCchhcccCC-------CCCEEECcCCcccee--------------------------cCchhhccCCCCC
Confidence            7777777766665566655       777777777777631                          0113345567788


Q ss_pred             eEeccCCcCCCcCchhhhcccCCc----EEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeC
Q 040109          398 IIDLSSNKLGGEVPEEIMDLVGLV----ALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL  473 (598)
Q Consensus       398 ~L~Ls~n~l~~~~p~~l~~l~~L~----~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  473 (598)
                      +|++++|++++..+..+..+++|+    +|++++|++++..+..+. ..+|++|++++|++++..+..+.++++|+.|++
T Consensus       153 ~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~-~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  231 (276)
T 2z62_A          153 HLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFK-EIRLKELALDTNQLKSVPDGIFDRLTSLQKIWL  231 (276)
T ss_dssp             EEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSC-SCCEEEEECCSSCCSCCCTTTTTTCCSCCEEEC
T ss_pred             EEECCCCCCCcCCHHHhhhhhhccccceeeecCCCcccccCccccC-CCcccEEECCCCceeecCHhHhcccccccEEEc
Confidence            888888888877777777777777    888999998855555444 458999999999988766667788899999999


Q ss_pred             CCCcceecCCCC
Q 040109          474 SYNNFSGKIPKG  485 (598)
Q Consensus       474 s~N~l~~~~p~~  485 (598)
                      ++|++.+.+|..
T Consensus       232 ~~N~~~c~c~~l  243 (276)
T 2z62_A          232 HTNPWDCSCPRI  243 (276)
T ss_dssp             CSSCBCCCTTTT
T ss_pred             cCCcccccCCch
Confidence            999988877754

>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=99.91  E-value=7.8e-26  Score=248.28  Aligned_cols=350  Identities=12%  Similarity=0.073  Sum_probs=227.3

Q ss_pred             cCCCCCCEEECcCCCCCCCC---cchhcCCCCCCCEEECCCCCCCC----CCccccCCCCCCCEEEccCCCCCCCCCccc
Q 040109          109 LKLQHLTYLDLSWNNFSGSP---IPEFIGSLSKLSELALSSAQLAG----PIPHQLGNLSRLQVLDLRFNNLFSSGNLDW  181 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~---~p~~l~~l~~L~~L~Ls~n~l~~----~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~  181 (598)
                      ..+++|++|+|++|.+++..   ++.....+++|++|++++|.+++    .++..+.++++|++|++++|.+.  ..+..
T Consensus       161 ~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~--~l~~~  238 (592)
T 3ogk_B          161 THCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEIL--ELVGF  238 (592)
T ss_dssp             HHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGG--GGHHH
T ss_pred             hhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHH--HHHHH
Confidence            46789999999999876532   44456678899999999998873    34445567899999999998762  34456


Q ss_pred             ccCCCCCCEEEcCCCcCC-CCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcc-hhh
Q 040109          182 LSYLSSLRYLDLGDCKLS-KFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIY-PWL  259 (598)
Q Consensus       182 l~~l~~L~~L~L~~n~l~-~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~-~~l  259 (598)
                      +.++++|++|+++.+... .....+..+..+++|+.|+++++.....+.    ....+++|++|++++|.+++... ..+
T Consensus       239 ~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~----~~~~~~~L~~L~Ls~~~l~~~~~~~~~  314 (592)
T 3ogk_B          239 FKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPI----LFPFAAQIRKLDLLYALLETEDHCTLI  314 (592)
T ss_dssp             HHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGG----GGGGGGGCCEEEETTCCCCHHHHHHHH
T ss_pred             HhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHH----HHhhcCCCcEEecCCCcCCHHHHHHHH
Confidence            778888888888753222 112233556677788888887753322211    12223778888888887665433 334


Q ss_pred             hhcCccCccEEEccCCccccccchhhcCCCCccEEeecc-----------CCCCC--cchhhcCCCCCcEEEcccCcCcc
Q 040109          260 LNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLS-----------NRLRE--VPKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       260 ~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~-----------n~l~~--lp~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      ..+++  |++|+++++...+.++.....+++|++|++++           |.++.  ++.....+++|++|+++.|.+++
T Consensus       315 ~~~~~--L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~  392 (592)
T 3ogk_B          315 QKCPN--LEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITN  392 (592)
T ss_dssp             TTCTT--CCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCH
T ss_pred             HhCcC--CCEEeccCccCHHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccH
Confidence            56677  88888874333333444446677888888883           55554  44445567888888888888877


Q ss_pred             chhhhhhh-cCCCCCCCCCCCEEEcc----CccccccCCC------CCCCCcCccccccc--cceEEEEcCCcc-ccccc
Q 040109          327 ELSEFIQN-VSSGSTKNSSLEWLYLA----SNEITGTIPN------LGGFPGMLMPLIYF--DKITVTWKGGQY-EYKSI  392 (598)
Q Consensus       327 ~~~~~l~~-l~~g~~~~~~L~~L~Ls----~N~l~~~~p~------l~~l~~l~~~~~~~--~~~~~~~~~~~~-~~~~~  392 (598)
                      ..+..+.. ++       +|+.|+++    .|.+++...+      +.++++|.......  +.+    .+... .....
T Consensus       393 ~~~~~l~~~~~-------~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l----~~~~~~~~~~~  461 (592)
T 3ogk_B          393 ESLESIGTYLK-------NLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGL----TDLGLSYIGQY  461 (592)
T ss_dssp             HHHHHHHHHCC-------SCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGC----CHHHHHHHHHS
T ss_pred             HHHHHHHhhCC-------CCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCc----cHHHHHHHHHh
Confidence            76666655 55       78888886    4555542100      12233333222110  000    01111 12234


Q ss_pred             ccccceEeccCCcCCCc-CchhhhcccCCcEEECcCCcCccc-CCcccCCCCCCCeeeCCCCccCCCCcccc-cCCCCCC
Q 040109          393 LGLIKIIDLSSNKLGGE-VPEEIMDLVGLVALNLSNNNLTGQ-ITPRIGQLKSLDFLDLSINHFFGGIPSSL-SRLRLLS  469 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~-~p~~l~~l~~L~~L~Ls~N~l~~~-~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l-~~l~~L~  469 (598)
                      +++|+.|++++|++++. ++..+..+++|++|+|++|.+++. ++.....+++|++|+|++|++++.....+ ..++.+.
T Consensus       462 ~~~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~ls~n~it~~~~~~l~~~~p~l~  541 (592)
T 3ogk_B          462 SPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQGYRASMTGQDLMQMARPYWN  541 (592)
T ss_dssp             CTTCCEEEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBHHHHHHHHHHCSSCCEEEEESCBCCTTCTTGGGGCCTTEE
T ss_pred             CccceEeeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcHHHHHHHHHhcCccCeeECcCCcCCHHHHHHHHHhCCCcE
Confidence            78899999999999863 455567899999999999998865 44445678999999999999987644434 4567777


Q ss_pred             EEeCCCCc
Q 040109          470 VMDLSYNN  477 (598)
Q Consensus       470 ~L~ls~N~  477 (598)
                      ...+..++
T Consensus       542 ~~~~~~~~  549 (592)
T 3ogk_B          542 IELIPSRR  549 (592)
T ss_dssp             EEEECCC-
T ss_pred             EEEecCcc
Confidence            66666553

>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=99.91  E-value=1.8e-23  Score=206.29  Aligned_cols=216  Identities=24%  Similarity=0.253  Sum_probs=131.9

Q ss_pred             cCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCccccc
Q 040109          104 INPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLS  183 (598)
Q Consensus       104 l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~  183 (598)
                      +|..+.  ++|++|++++|.+++. .+..+..+++|++|++++|.+++..+..|.++++|++|++++|.+ ....+..+.
T Consensus        22 ip~~l~--~~l~~L~ls~n~l~~~-~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~   97 (276)
T 2z62_A           22 IPDNLP--FSTKNLDLSFNPLRHL-GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI-QSLALGAFS   97 (276)
T ss_dssp             CCSSSC--TTCCEEECTTCCCCEE-CTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC-CEECTTTTT
T ss_pred             cCCCCC--CCccEEECCCCccccc-CHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCcc-CccChhhhc
Confidence            454443  4688888888888764 445777888888888888888866666778888888888888876 333445567


Q ss_pred             CCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcC
Q 040109          184 YLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVS  263 (598)
Q Consensus       184 ~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~  263 (598)
                      ++++|++|++++|.+..++.  ..+..+++|++|++++|.+.+..                          +|..+..++
T Consensus        98 ~l~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~--------------------------l~~~~~~l~  149 (276)
T 2z62_A           98 GLSSLQKLVAVETNLASLEN--FPIGHLKTLKELNVAHNLIQSFK--------------------------LPEYFSNLT  149 (276)
T ss_dssp             TCTTCCEEECTTSCCCCSTT--CCCTTCTTCCEEECCSSCCCCCC--------------------------CCGGGGGCT
T ss_pred             CCccccEEECCCCCccccCc--hhcccCCCCCEEECcCCccceec--------------------------CchhhccCC
Confidence            77777777777777766532  23555555666665555555432                          234444444


Q ss_pred             ccCccEEEccCCccccccchhhcCCCCcc----EEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCC
Q 040109          264 SNLVDHIDLGSNRLHGSIPVAFGHMASLR----YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGS  339 (598)
Q Consensus       264 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~----~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~  339 (598)
                      +  |++|++++|.+++..+..+..+++|+    +|++++|.+++++.......+|+.|++++|++++..+..+..++   
T Consensus       150 ~--L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~---  224 (276)
T 2z62_A          150 N--LEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLT---  224 (276)
T ss_dssp             T--CCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCC---
T ss_pred             C--CCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECCCCceeecCHhHhcccc---
Confidence            4  55555555555444444444333333    56666666665544443444566666666666655555555555   


Q ss_pred             CCCCCCCEEEccCccccccCC
Q 040109          340 TKNSSLEWLYLASNEITGTIP  360 (598)
Q Consensus       340 ~~~~~L~~L~Ls~N~l~~~~p  360 (598)
                          +|+.|++++|++++..|
T Consensus       225 ----~L~~L~l~~N~~~c~c~  241 (276)
T 2z62_A          225 ----SLQKIWLHTNPWDCSCP  241 (276)
T ss_dssp             ----SCCEEECCSSCBCCCTT
T ss_pred             ----cccEEEccCCcccccCC
Confidence                66666666666665443

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.91  E-value=3.9e-23  Score=203.21  Aligned_cols=206  Identities=23%  Similarity=0.270  Sum_probs=153.7

Q ss_pred             CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch-hhcCCCCCcEEE
Q 040109          240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLV  318 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~-~l~~l~~L~~L~  318 (598)
                      +.+.++++++.++ .+|..+.  ..  +++|++++|.+++..+..|.++++|++|++++|.++.+|. .+.++++|++|+
T Consensus        17 ~~~~l~~~~~~l~-~ip~~~~--~~--l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~   91 (270)
T 2o6q_A           17 NKNSVDCSSKKLT-AIPSNIP--AD--TKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLW   91 (270)
T ss_dssp             TTTEEECTTSCCS-SCCSCCC--TT--CSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEE
T ss_pred             CCCEEEccCCCCC-ccCCCCC--CC--CCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEE
Confidence            4556666666666 3444332  23  7777777777776666677778888888888888877654 456778888888


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +++|.+.+..+..+..++       +|++|++++|.+++..+.                           .+..+++|++
T Consensus        92 l~~n~l~~~~~~~~~~l~-------~L~~L~l~~n~l~~~~~~---------------------------~~~~l~~L~~  137 (270)
T 2o6q_A           92 VTDNKLQALPIGVFDQLV-------NLAELRLDRNQLKSLPPR---------------------------VFDSLTKLTY  137 (270)
T ss_dssp             CCSSCCCCCCTTTTTTCS-------SCCEEECCSSCCCCCCTT---------------------------TTTTCTTCCE
T ss_pred             CCCCcCCcCCHhHccccc-------CCCEEECCCCccCeeCHH---------------------------HhCcCcCCCE
Confidence            888888777776666666       788888888877754332                           2344667888


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      |+|++|.+++..+..|..+++|++|++++|++++..+..|..+++|++|++++|++++..+..+..+++|+.|++++|++
T Consensus       138 L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          138 LSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             EECCCCcCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCCCe
Confidence            88888888866666688889999999999999876666788889999999999998876666788888999999999988


Q ss_pred             eecCCC
Q 040109          479 SGKIPK  484 (598)
Q Consensus       479 ~~~~p~  484 (598)
                      .+..+.
T Consensus       218 ~c~c~~  223 (270)
T 2o6q_A          218 DCTCNG  223 (270)
T ss_dssp             CCSSSS
T ss_pred             eCCCcc
Confidence            876653

>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=99.91  E-value=1.9e-23  Score=207.30  Aligned_cols=201  Identities=25%  Similarity=0.213  Sum_probs=133.1

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV  318 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  318 (598)
                      +++++++++++.++ .+|..+.  +.  ++.|++++|.+++..+..+..+++|++|++++|.+++++.. ..+++|++|+
T Consensus        10 ~~l~~l~~~~~~l~-~ip~~~~--~~--l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~   83 (290)
T 1p9a_G           10 ASHLEVNCDKRNLT-ALPPDLP--KD--TTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTLD   83 (290)
T ss_dssp             TTCCEEECTTSCCS-SCCSCCC--TT--CCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEEE
T ss_pred             CCccEEECCCCCCC-cCCCCCC--CC--CCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEEE
Confidence            77888888888887 4454443  34  78888888888877777788888888888888888776653 6677778888


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +++|++.. +|..+..++       +|++|++++|++++..|                           ..+..+++|++
T Consensus        84 Ls~N~l~~-l~~~~~~l~-------~L~~L~l~~N~l~~l~~---------------------------~~~~~l~~L~~  128 (290)
T 1p9a_G           84 LSHNQLQS-LPLLGQTLP-------ALTVLDVSFNRLTSLPL---------------------------GALRGLGELQE  128 (290)
T ss_dssp             CCSSCCSS-CCCCTTTCT-------TCCEEECCSSCCCCCCS---------------------------STTTTCTTCCE
T ss_pred             CCCCcCCc-CchhhccCC-------CCCEEECCCCcCcccCH---------------------------HHHcCCCCCCE
Confidence            88777763 344444444       67777777776664322                           12234556666


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      |+|++|++++..+..|..+++|+.|+|++|++++..+..|..+++|++|+|++|+++ .+|..+..+++|+.+++++|++
T Consensus       129 L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~ip~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCB
T ss_pred             EECCCCCCCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCC-ccChhhcccccCCeEEeCCCCc
Confidence            667766666555555666666666777666666444445566666666666666665 5556666666666666666666


Q ss_pred             eec
Q 040109          479 SGK  481 (598)
Q Consensus       479 ~~~  481 (598)
                      .+.
T Consensus       208 ~C~  210 (290)
T 1p9a_G          208 LCN  210 (290)
T ss_dssp             CCS
T ss_pred             cCc
Confidence            543

>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=99.90  E-value=1.1e-25  Score=247.32  Aligned_cols=354  Identities=16%  Similarity=0.107  Sum_probs=198.5

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCcccc-CCCCCCEEECcCC-CCCCCCcchhcCCCCCCCEEECCCCCCCCCCcccc---
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLL-KLQHLTYLDLSWN-NFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQL---  157 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~-~l~~L~~L~Ls~n-~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l---  157 (598)
                      .++.+++++      +.+++..+..+. .+++|++|+|++| .++...++..+..+++|++|+|++|.+++..+..+   
T Consensus       106 ~L~~L~L~~------~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~  179 (594)
T 2p1m_B          106 WLEEIRLKR------MVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHF  179 (594)
T ss_dssp             TCCEEEEES------CBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGS
T ss_pred             CCCeEEeeC------cEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHH
Confidence            466677766      445554444454 5677777777776 44332234444467777777777777665433333   


Q ss_pred             -CCCCCCCEEEccCCCCCCCCCc----ccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCC--------
Q 040109          158 -GNLSRLQVLDLRFNNLFSSGNL----DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDL--------  224 (598)
Q Consensus       158 -~~l~~L~~L~Ls~n~l~~~~~~----~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l--------  224 (598)
                       ..+++|++|++++|.  .....    ..+..+++|++|++++|..  ...++..+..+++|++|+++.+..        
T Consensus       180 ~~~~~~L~~L~l~~~~--~~~~~~~l~~l~~~~~~L~~L~L~~~~~--~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~  255 (594)
T 2p1m_B          180 PDTYTSLVSLNISCLA--SEVSFSALERLVTRCPNLKSLKLNRAVP--LEKLATLLQRAPQLEELGTGGYTAEVRPDVYS  255 (594)
T ss_dssp             CTTCCCCCEEECTTCC--SCCCHHHHHHHHHHCTTCCEEECCTTSC--HHHHHHHHHHCTTCSEEECSBCCCCCCHHHHH
T ss_pred             hhcCCcCcEEEecccC--CcCCHHHHHHHHHhCCCCcEEecCCCCc--HHHHHHHHhcCCcceEcccccccCccchhhHH
Confidence             356677777777765  11111    1124457777777777621  112445556666666666544421        


Q ss_pred             ------------------CCCCCChhh-hccccCCccEEEccCCCCCCCcch-hhhhcCccCccEEEccCCcccc-ccch
Q 040109          225 ------------------PPISTPSLL-HLNYSKSLEVIDLSNNYLTNSIYP-WLLNVSSNLVDHIDLGSNRLHG-SIPV  283 (598)
Q Consensus       225 ------------------~~~~~~~~~-~~~~~~~L~~L~Ls~n~l~~~~~~-~l~~~~~~~L~~L~L~~n~l~~-~~p~  283 (598)
                                        .......+. ....+++|++|++++|.+++.... .+..+++  |++|++++| +++ .++.
T Consensus       256 ~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~--L~~L~l~~~-~~~~~l~~  332 (594)
T 2p1m_B          256 GLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPK--LQRLWVLDY-IEDAGLEV  332 (594)
T ss_dssp             HHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCTT--CCEEEEEGG-GHHHHHHH
T ss_pred             HHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCCC--cCEEeCcCc-cCHHHHHH
Confidence                              111100010 001125666666666665432222 2334555  666666666 322 1222


Q ss_pred             hhcCCCCccEEeecc---------CCCCC--cchhhcCCCCCcEEEcccCcCccchhhhhh-hcCCCCCCCCCCCEEEcc
Q 040109          284 AFGHMASLRYLGLLS---------NRLRE--VPKFLGNMSSLKMLVLSYNELRGELSEFIQ-NVSSGSTKNSSLEWLYLA  351 (598)
Q Consensus       284 ~l~~l~~L~~L~Ls~---------n~l~~--lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~-~l~~g~~~~~~L~~L~Ls  351 (598)
                      ....+++|++|++++         +.+++  +......+++|+.|.++.|.+++..+..+. .++       +|+.|+++
T Consensus       333 l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~-------~L~~L~L~  405 (594)
T 2p1m_B          333 LASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRP-------NMTRFRLC  405 (594)
T ss_dssp             HHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCT-------TCCEEEEE
T ss_pred             HHHhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCC-------CcceeEee
Confidence            223456666666632         33433  222223456666666666666655554443 244       67777766


Q ss_pred             --C----ccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhc-ccCCcEEE
Q 040109          352 --S----NEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMD-LVGLVALN  424 (598)
Q Consensus       352 --~----N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~-l~~L~~L~  424 (598)
                        +    +.+++. |.                     ..........+++|+.|++++ .+++..+..+.. +++|+.|+
T Consensus       406 ~~~~~~~~~l~~~-~~---------------------~~~~~~l~~~~~~L~~L~L~~-~l~~~~~~~l~~~~~~L~~L~  462 (594)
T 2p1m_B          406 IIEPKAPDYLTLE-PL---------------------DIGFGAIVEHCKDLRRLSLSG-LLTDKVFEYIGTYAKKMEMLS  462 (594)
T ss_dssp             ESSTTCCCTTTCC-CT---------------------HHHHHHHHHHCTTCCEEECCS-SCCHHHHHHHHHHCTTCCEEE
T ss_pred             cccCCCcccccCC-ch---------------------hhHHHHHHhhCCCccEEeecC-cccHHHHHHHHHhchhccEee
Confidence              2    222210 00                     011112245577888888877 676666666665 78899999


Q ss_pred             CcCCcCcccCCccc-CCCCCCCeeeCCCCccCCCCcc-cccCCCCCCEEeCCCCcce
Q 040109          425 LSNNNLTGQITPRI-GQLKSLDFLDLSINHFFGGIPS-SLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       425 Ls~N~l~~~~p~~l-~~l~~L~~L~Ls~N~l~~~~p~-~l~~l~~L~~L~ls~N~l~  479 (598)
                      |++|.+++..+..+ ..+++|++|+|++|.+++..+. ....+++|++|++++|+++
T Consensus       463 L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l~~~~~~  519 (594)
T 2p1m_B          463 VAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSVS  519 (594)
T ss_dssp             EESCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEEESSCCB
T ss_pred             ccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEeeeCCCCC
Confidence            99888876655554 5678899999998888654433 3455788899999888874

>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=99.89  E-value=3.2e-22  Score=198.47  Aligned_cols=202  Identities=22%  Similarity=0.180  Sum_probs=133.2

Q ss_pred             ccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       108 l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      +.+++++++++++++.++.  +|..+.  +++++|+|++|.+++..+..|..+++|++|++++|.+..   ......+++
T Consensus         6 ~~~l~~l~~l~~~~~~l~~--ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~---~~~~~~l~~   78 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTA--LPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTK---LQVDGTLPV   78 (290)
T ss_dssp             EECSTTCCEEECTTSCCSS--CCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCE---EECCSCCTT
T ss_pred             ccccCCccEEECCCCCCCc--CCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCc---ccCCCCCCc
Confidence            6678889999999999884  676654  789999999999988778889999999999999998732   222367888


Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCc
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV  267 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L  267 (598)
                      |++|++++|.++.++   ..+..+++|++|++++|++++.++..+..+   ++|++|++++|++++..+..+..+++  |
T Consensus        79 L~~L~Ls~N~l~~l~---~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l---~~L~~L~L~~N~l~~~~~~~~~~l~~--L  150 (290)
T 1p9a_G           79 LGTLDLSHNQLQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGL---GELQELYLKGNELKTLPPGLLTPTPK--L  150 (290)
T ss_dssp             CCEEECCSSCCSSCC---CCTTTCTTCCEEECCSSCCCCCCSSTTTTC---TTCCEEECTTSCCCCCCTTTTTTCTT--C
T ss_pred             CCEEECCCCcCCcCc---hhhccCCCCCEEECCCCcCcccCHHHHcCC---CCCCEEECCCCCCCccChhhcccccC--C
Confidence            888888888887654   355667777777777777776655433333   56666666666665444444444555  5


Q ss_pred             cEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcC
Q 040109          268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNEL  324 (598)
Q Consensus       268 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l  324 (598)
                      +.|++++|++++..+..+..+++|++|++++|+++.+|..+...++|+.|++++|++
T Consensus       151 ~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          151 EKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             CEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCCB
T ss_pred             CEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeCCCCc
Confidence            555555555554444444555555555555555555555444444555555555544

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.89  E-value=8.3e-24  Score=217.26  Aligned_cols=234  Identities=23%  Similarity=0.243  Sum_probs=130.8

Q ss_pred             EEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCc----cccCCCC-CCCEEEccCCCCCCCCCcccccCC-----
Q 040109          116 YLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIP----HQLGNLS-RLQVLDLRFNNLFSSGNLDWLSYL-----  185 (598)
Q Consensus       116 ~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p----~~l~~l~-~L~~L~Ls~n~l~~~~~~~~l~~l-----  185 (598)
                      ++++++|.+++. +|..+...++|++|+|++|.+++..+    ..+..++ +|++|++++|.+ ....+..+..+     
T Consensus         2 ~~~ls~n~~~~~-~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l-~~~~~~~l~~~l~~~~   79 (362)
T 3goz_A            2 NYKLTLHPGSNP-VEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSL-GFKNSDELVQILAAIP   79 (362)
T ss_dssp             EEECCCCTTCCH-HHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCG-GGSCHHHHHHHHHTSC
T ss_pred             ccccccccchHH-HHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCC-CHHHHHHHHHHHhccC
Confidence            355666666664 66666555557777777776665544    5555666 667777766665 22222223322     


Q ss_pred             CCCCEEEcCCCcCCCCCc--hhHhhcCC-CCCcEEeccCcCCCCCCCChhhh-c-cccCCccEEEccCCCCCCCcchh--
Q 040109          186 SSLRYLDLGDCKLSKFSN--WFQVLSNL-RSLTTLYLGHCDLPPISTPSLLH-L-NYSKSLEVIDLSNNYLTNSIYPW--  258 (598)
Q Consensus       186 ~~L~~L~L~~n~l~~~~~--~~~~l~~l-~~L~~L~l~~n~l~~~~~~~~~~-~-~~~~~L~~L~Ls~n~l~~~~~~~--  258 (598)
                      ++|++|++++|.+++...  +...+..+ ++|++|++++|.+++.....+.. + ...++|++|++++|.+++..+..  
T Consensus        80 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~  159 (362)
T 3goz_A           80 ANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELI  159 (362)
T ss_dssp             TTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHH
T ss_pred             CCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHH
Confidence            666666666666654311  11234444 66777777777766554422211 1 11246777777777766533332  


Q ss_pred             --hhhcC-ccCccEEEccCCccccccchhhc----CC-CCccEEeeccCCCCC-----cchhhcC-CCCCcEEEcccCcC
Q 040109          259 --LLNVS-SNLVDHIDLGSNRLHGSIPVAFG----HM-ASLRYLGLLSNRLRE-----VPKFLGN-MSSLKMLVLSYNEL  324 (598)
Q Consensus       259 --l~~~~-~~~L~~L~L~~n~l~~~~p~~l~----~l-~~L~~L~Ls~n~l~~-----lp~~l~~-l~~L~~L~Ls~n~l  324 (598)
                        +...+ .  |++|++++|.+++..+..+.    .. ++|++|++++|.+++     ++..+.. .++|++|++++|.+
T Consensus       160 ~~l~~~~~~--L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l  237 (362)
T 3goz_A          160 QILAAIPAN--VNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCL  237 (362)
T ss_dssp             HHHHTSCTT--CCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCC
T ss_pred             HHHhcCCcc--ccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCC
Confidence              23333 4  77777777777665554333    33 477777777777765     4555554 34777777777777


Q ss_pred             ccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          325 RGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       325 ~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      .+..+..+..+.   ..+++|+.|++++|.+.
T Consensus       238 ~~~~~~~l~~~~---~~l~~L~~L~L~~n~l~  266 (362)
T 3goz_A          238 HGPSLENLKLLK---DSLKHLQTVYLDYDIVK  266 (362)
T ss_dssp             CCCCHHHHHHTT---TTTTTCSEEEEEHHHHT
T ss_pred             CcHHHHHHHHHH---hcCCCccEEEeccCCcc
Confidence            665554443221   11225666666666643

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.89  E-value=6.3e-23  Score=201.90  Aligned_cols=200  Identities=25%  Similarity=0.294  Sum_probs=142.8

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKML  317 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L  317 (598)
                      ++|+.|++++|.++.  .+.+..++.  |++|++++|.+++.  ..+..+++|++|++++|.+++++ ..+..+++|++|
T Consensus        41 ~~L~~L~l~~~~i~~--~~~l~~l~~--L~~L~l~~n~l~~~--~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  114 (272)
T 3rfs_A           41 NSIDQIIANNSDIKS--VQGIQYLPN--VRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL  114 (272)
T ss_dssp             TTCCEEECTTSCCCC--CTTGGGCTT--CCEEECTTSCCCCC--GGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             cceeeeeeCCCCccc--ccccccCCC--CcEEECCCCCCCCc--hhhcCCCCCCEEECCCCccCccChhHhcCCcCCCEE
Confidence            555666666655542  123455555  66666666666542  25666677777777777776644 345667777777


Q ss_pred             EcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccc
Q 040109          318 VLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK  397 (598)
Q Consensus       318 ~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~  397 (598)
                      ++++|.+++..+..+..++       +|++|++++|.+++..+.                           .++.+++|+
T Consensus       115 ~L~~n~l~~~~~~~~~~l~-------~L~~L~L~~n~l~~~~~~---------------------------~~~~l~~L~  160 (272)
T 3rfs_A          115 VLVENQLQSLPDGVFDKLT-------NLTYLNLAHNQLQSLPKG---------------------------VFDKLTNLT  160 (272)
T ss_dssp             ECTTSCCCCCCTTTTTTCT-------TCCEEECCSSCCCCCCTT---------------------------TTTTCTTCC
T ss_pred             ECCCCcCCccCHHHhccCC-------CCCEEECCCCccCccCHH---------------------------HhccCccCC
Confidence            7777777766666666665       677777777777643331                           223456788


Q ss_pred             eEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCc
Q 040109          398 IIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNN  477 (598)
Q Consensus       398 ~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~  477 (598)
                      .|++++|++++..+..+..+++|+.|++++|++++..|..+..+++|++|++++|.+.+.       ++.|+.|+++.|+
T Consensus       161 ~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~-------~~~l~~l~~~~n~  233 (272)
T 3rfs_A          161 ELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCT-------CPGIRYLSEWINK  233 (272)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCC-------TTTTHHHHHHHHH
T ss_pred             EEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCCCcccc-------CcHHHHHHHHHHh
Confidence            888888888877777788899999999999999987777889999999999999988754       4578899999999


Q ss_pred             ceecCCCC
Q 040109          478 FSGKIPKG  485 (598)
Q Consensus       478 l~~~~p~~  485 (598)
                      ++|.+|..
T Consensus       234 ~~g~ip~~  241 (272)
T 3rfs_A          234 HSGVVRNS  241 (272)
T ss_dssp             TGGGBBCT
T ss_pred             CCCcccCc
Confidence            99999874

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.89  E-value=1.8e-22  Score=198.59  Aligned_cols=196  Identities=21%  Similarity=0.311  Sum_probs=95.3

Q ss_pred             CEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcC
Q 040109          115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG  194 (598)
Q Consensus       115 ~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~  194 (598)
                      ..+++..+.+...   .....+++|++|++++|.++. + ..+..+++|++|++++|.+..   .+.+..+++|++|+++
T Consensus        22 ~~l~l~~~~~~~~---~~~~~l~~L~~L~l~~~~i~~-~-~~l~~l~~L~~L~l~~n~l~~---~~~l~~l~~L~~L~L~   93 (272)
T 3rfs_A           22 IKANLKKKSVTDA---VTQNELNSIDQIIANNSDIKS-V-QGIQYLPNVRYLALGGNKLHD---ISALKELTNLTYLILT   93 (272)
T ss_dssp             HHHHHTCSCTTSE---ECHHHHTTCCEEECTTSCCCC-C-TTGGGCTTCCEEECTTSCCCC---CGGGTTCTTCCEEECT
T ss_pred             HHHHhcCcccccc---cccccccceeeeeeCCCCccc-c-cccccCCCCcEEECCCCCCCC---chhhcCCCCCCEEECC
Confidence            3344444444421   223345666666666666552 2 235555666666666655421   2244555555555555


Q ss_pred             CCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccC
Q 040109          195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS  274 (598)
Q Consensus       195 ~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~  274 (598)
                      +|.+++++.  ..+..+++|++|++++|                           .+++..+..+..+++  |++|++++
T Consensus        94 ~n~l~~~~~--~~~~~l~~L~~L~L~~n---------------------------~l~~~~~~~~~~l~~--L~~L~L~~  142 (272)
T 3rfs_A           94 GNQLQSLPN--GVFDKLTNLKELVLVEN---------------------------QLQSLPDGVFDKLTN--LTYLNLAH  142 (272)
T ss_dssp             TSCCCCCCT--TTTTTCTTCCEEECTTS---------------------------CCCCCCTTTTTTCTT--CCEEECCS
T ss_pred             CCccCccCh--hHhcCCcCCCEEECCCC---------------------------cCCccCHHHhccCCC--CCEEECCC
Confidence            555554322  23344444444444444                           444333333344444  55555555


Q ss_pred             CccccccchhhcCCCCccEEeeccCCCCCcch-hhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCc
Q 040109          275 NRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASN  353 (598)
Q Consensus       275 n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~-~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N  353 (598)
                      |.+++..+..+..+++|++|++++|+++++|. .+..+++|++|++++|++++..+..+..++       +|+.|++++|
T Consensus       143 n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~-------~L~~L~l~~N  215 (272)
T 3rfs_A          143 NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLT-------SLQYIWLHDN  215 (272)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCT-------TCCEEECCSS
T ss_pred             CccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCc-------CCCEEEccCC
Confidence            55554444444555555555555555555332 345555555555555555555544444444       4555555555


Q ss_pred             ccc
Q 040109          354 EIT  356 (598)
Q Consensus       354 ~l~  356 (598)
                      .+.
T Consensus       216 ~~~  218 (272)
T 3rfs_A          216 PWD  218 (272)
T ss_dssp             CBC
T ss_pred             Ccc
Confidence            444

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.88  E-value=3.4e-23  Score=207.95  Aligned_cols=82  Identities=29%  Similarity=0.266  Sum_probs=46.4

Q ss_pred             ccccceEeccCCcCCCcCchhhhcc---cCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCC
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDL---VGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLS  469 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l---~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~  469 (598)
                      +++|++|||++|++++..|..+..+   ++|++|+|++|+++ .+|..+.  ++|++|+|++|++++. |. +..+++|+
T Consensus       223 l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~--~~L~~L~Ls~N~l~~~-~~-~~~l~~L~  297 (310)
T 4glp_A          223 GVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE-QVPKGLP--AKLRVLDLSSNRLNRA-PQ-PDELPEVD  297 (310)
T ss_dssp             TCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC-SCCSCCC--SCCSCEECCSCCCCSC-CC-TTSCCCCS
T ss_pred             CCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC-chhhhhc--CCCCEEECCCCcCCCC-ch-hhhCCCcc
Confidence            3455555555555554445444444   46666666666666 4555443  5666666666666543 22 45556666


Q ss_pred             EEeCCCCcce
Q 040109          470 VMDLSYNNFS  479 (598)
Q Consensus       470 ~L~ls~N~l~  479 (598)
                      .|++++|+++
T Consensus       298 ~L~L~~N~l~  307 (310)
T 4glp_A          298 NLTLDGNPFL  307 (310)
T ss_dssp             CEECSSTTTS
T ss_pred             EEECcCCCCC
Confidence            6666666654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.88  E-value=5.8e-23  Score=210.93  Aligned_cols=186  Identities=21%  Similarity=0.214  Sum_probs=101.2

Q ss_pred             EEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCc----ccccCCC-CCCEEEcCCCcCCCCCchhHhhcCCCCCc
Q 040109          141 ELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNL----DWLSYLS-SLRYLDLGDCKLSKFSNWFQVLSNLRSLT  215 (598)
Q Consensus       141 ~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~----~~l~~l~-~L~~L~L~~n~l~~~~~~~~~l~~l~~L~  215 (598)
                      ++++++|.+++.+|..+...++|++|++++|.+ .....    ..+..++ +|++|++++|.++...  +..+..+    
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l-~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~--~~~l~~~----   74 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLNNL-YSISTVELIQAFANTPASVTSLNLSGNSLGFKN--SDELVQI----   74 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEECTTSCG-GGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSC--HHHHHHH----
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEccCCCC-ChHHHHHHHHHHHhCCCceeEEECcCCCCCHHH--HHHHHHH----
Confidence            467888888888777777777788888888876 22322    3455555 6666666666655431  1222221    


Q ss_pred             EEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhc-----CccCccEEEccCCccccccchhhc----
Q 040109          216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV-----SSNLVDHIDLGSNRLHGSIPVAFG----  286 (598)
Q Consensus       216 ~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~-----~~~~L~~L~L~~n~l~~~~p~~l~----  286 (598)
                                        .....++|++|++++|.+++..+..+...     +.  |++|++++|.+++..+..+.    
T Consensus        75 ------------------l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~--L~~L~Ls~N~l~~~~~~~l~~~l~  134 (362)
T 3goz_A           75 ------------------LAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFT--ITVLDLGWNDFSSKSSSEFKQAFS  134 (362)
T ss_dssp             ------------------HHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT--CCEEECCSSCGGGSCHHHHHHHHT
T ss_pred             ------------------HhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCC--ccEEECcCCcCCcHHHHHHHHHHH
Confidence                              00001344455555555444433333222     34  66666666666554443332    


Q ss_pred             C-CCCccEEeeccCCCCC-----cchhhcCCC-CCcEEEcccCcCccchhhhhhhcCCCCCCC-CCCCEEEccCcccc
Q 040109          287 H-MASLRYLGLLSNRLRE-----VPKFLGNMS-SLKMLVLSYNELRGELSEFIQNVSSGSTKN-SSLEWLYLASNEIT  356 (598)
Q Consensus       287 ~-l~~L~~L~Ls~n~l~~-----lp~~l~~l~-~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~-~~L~~L~Ls~N~l~  356 (598)
                      . .++|++|++++|.+++     ++..+..++ +|++|++++|.+++..+..+...-   ..+ ++|+.|++++|.++
T Consensus       135 ~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l---~~~~~~L~~L~Ls~N~i~  209 (362)
T 3goz_A          135 NLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFL---ASIPASVTSLDLSANLLG  209 (362)
T ss_dssp             TSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHH---HTSCTTCCEEECTTSCGG
T ss_pred             hCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHH---HhCCCCCCEEECCCCCCC
Confidence            2 2466666666666663     334445554 677777777777666655444320   000 15666666666655

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.88  E-value=7.3e-22  Score=198.22  Aligned_cols=225  Identities=20%  Similarity=0.213  Sum_probs=180.8

Q ss_pred             CCccEEEccCCCCCCCcch---hhhhcCccCccEEEccCCccccccchhh--cCCCCccEEeeccCCCCC-cc----hhh
Q 040109          239 KSLEVIDLSNNYLTNSIYP---WLLNVSSNLVDHIDLGSNRLHGSIPVAF--GHMASLRYLGLLSNRLRE-VP----KFL  308 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~---~l~~~~~~~L~~L~L~~n~l~~~~p~~l--~~l~~L~~L~Ls~n~l~~-lp----~~l  308 (598)
                      ..++.+.+.++.++.....   .....+.  |++|++++|.+++..|..+  ..+++|++|++++|.+++ .+    ..+
T Consensus        64 ~~l~~l~l~~~~~~~~~~~~~~~~~~~~~--L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~  141 (310)
T 4glp_A           64 LRVRRLTVGAAQVPAQLLVGALRVLAYSR--LKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQ  141 (310)
T ss_dssp             CCCCEEEECSCCCBHHHHHHHHHHHHHSC--CCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHT
T ss_pred             cceeEEEEeCCcCCHHHHHHHHHhcccCc--eeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHh
Confidence            4577888888777532211   1223455  9999999999999998888  889999999999999987 33    345


Q ss_pred             cCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccccc--CCCCCCCCcCccccccccceEEEEcCCc
Q 040109          309 GNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGT--IPNLGGFPGMLMPLIYFDKITVTWKGGQ  386 (598)
Q Consensus       309 ~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~--~p~l~~l~~l~~~~~~~~~~~~~~~~~~  386 (598)
                      ..+++|++|++++|.+.+..+..+..++       +|++|++++|++.+.  ++.                         
T Consensus       142 ~~~~~L~~L~Ls~n~l~~~~~~~~~~l~-------~L~~L~Ls~N~l~~~~~~~~-------------------------  189 (310)
T 4glp_A          142 WLKPGLKVLSIAQAHSPAFSCEQVRAFP-------ALTSLDLSDNPGLGERGLMA-------------------------  189 (310)
T ss_dssp             TBCSCCCEEEEECCSSCCCCTTSCCCCT-------TCCEEECCSCTTCHHHHHHT-------------------------
T ss_pred             hhccCCCEEEeeCCCcchhhHHHhccCC-------CCCEEECCCCCCccchhhhH-------------------------
Confidence            5789999999999999998888888887       899999999998642  110                         


Q ss_pred             ccccccccccceEeccCCcCCCcCch----hhhcccCCcEEECcCCcCcccCCcccCCC---CCCCeeeCCCCccCCCCc
Q 040109          387 YEYKSILGLIKIIDLSSNKLGGEVPE----EIMDLVGLVALNLSNNNLTGQITPRIGQL---KSLDFLDLSINHFFGGIP  459 (598)
Q Consensus       387 ~~~~~~l~~L~~L~Ls~n~l~~~~p~----~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l---~~L~~L~Ls~N~l~~~~p  459 (598)
                      ....+.+++|++|+|++|+++ .++.    .+..+++|++|+|++|++++.+|..+..+   ++|++|+|++|+++ .+|
T Consensus       190 ~~~~~~l~~L~~L~Ls~N~l~-~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp  267 (310)
T 4glp_A          190 ALCPHKFPAIQNLALRNTGME-TPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE-QVP  267 (310)
T ss_dssp             TSCTTSSCCCCSCBCCSSCCC-CHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC-SCC
T ss_pred             HHhhhcCCCCCEEECCCCCCC-chHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC-chh
Confidence            012245778999999999997 3343    35788999999999999998888888777   69999999999998 778


Q ss_pred             ccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCC
Q 040109          460 SSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPEL  502 (598)
Q Consensus       460 ~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~l  502 (598)
                      ..+.  ++|++|++++|++++ +|....+++++.+.+++|+..
T Consensus       268 ~~~~--~~L~~L~Ls~N~l~~-~~~~~~l~~L~~L~L~~N~l~  307 (310)
T 4glp_A          268 KGLP--AKLRVLDLSSNRLNR-APQPDELPEVDNLTLDGNPFL  307 (310)
T ss_dssp             SCCC--SCCSCEECCSCCCCS-CCCTTSCCCCSCEECSSTTTS
T ss_pred             hhhc--CCCCEEECCCCcCCC-CchhhhCCCccEEECcCCCCC
Confidence            7764  899999999999995 455567889999999999864

>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=99.88  E-value=2.8e-24  Score=235.91  Aligned_cols=371  Identities=16%  Similarity=0.134  Sum_probs=206.6

Q ss_pred             cCCCCCCEEECcCCCCCCCCcchhcC-CCCCCCEEECCCC-CCCCC-CccccCCCCCCCEEEccCCCCCCCCCcc----c
Q 040109          109 LKLQHLTYLDLSWNNFSGSPIPEFIG-SLSKLSELALSSA-QLAGP-IPHQLGNLSRLQVLDLRFNNLFSSGNLD----W  181 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~~p~~l~-~l~~L~~L~Ls~n-~l~~~-~p~~l~~l~~L~~L~Ls~n~l~~~~~~~----~  181 (598)
                      ..+++|++|+|++|.+++. .+..+. .+++|++|+|++| .++.. ++..+.++++|++|++++|.+.. ....    .
T Consensus       102 ~~~~~L~~L~L~~~~~~~~-~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~-~~~~~l~~~  179 (594)
T 2p1m_B          102 SSYTWLEEIRLKRMVVTDD-CLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDD-VSGHWLSHF  179 (594)
T ss_dssp             HHCTTCCEEEEESCBCCHH-HHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEEC-CCGGGGGGS
T ss_pred             HhCCCCCeEEeeCcEEcHH-HHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCC-cchHHHHHH
Confidence            3566777777777776653 444443 5677777777777 34321 33334467777777777776522 2222    2


Q ss_pred             ccCCCCCCEEEcCCCcCCCC--CchhHhhcCCCCCcEEeccCcC-CCCCCCChhhhccccCCccEEEccCCCCC------
Q 040109          182 LSYLSSLRYLDLGDCKLSKF--SNWFQVLSNLRSLTTLYLGHCD-LPPISTPSLLHLNYSKSLEVIDLSNNYLT------  252 (598)
Q Consensus       182 l~~l~~L~~L~L~~n~l~~~--~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~------  252 (598)
                      ...+++|++|++++|. ..+  ..+...+..+++|++|++++|. +.+ .   .......++|+.|+++.+...      
T Consensus       180 ~~~~~~L~~L~l~~~~-~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~-l---~~~~~~~~~L~~L~l~~~~~~~~~~~~  254 (594)
T 2p1m_B          180 PDTYTSLVSLNISCLA-SEVSFSALERLVTRCPNLKSLKLNRAVPLEK-L---ATLLQRAPQLEELGTGGYTAEVRPDVY  254 (594)
T ss_dssp             CTTCCCCCEEECTTCC-SCCCHHHHHHHHHHCTTCCEEECCTTSCHHH-H---HHHHHHCTTCSEEECSBCCCCCCHHHH
T ss_pred             hhcCCcCcEEEecccC-CcCCHHHHHHHHHhCCCCcEEecCCCCcHHH-H---HHHHhcCCcceEcccccccCccchhhH
Confidence            2356677777777775 211  1122233446777777777762 222 1   111122266777775544210      


Q ss_pred             CCcchhhhhcCccCccEE-EccCCccccccchhhcCCCCccEEeeccCCCCC--cchhhcCCCCCcEEEcccCcCccc-h
Q 040109          253 NSIYPWLLNVSSNLVDHI-DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE--VPKFLGNMSSLKMLVLSYNELRGE-L  328 (598)
Q Consensus       253 ~~~~~~l~~~~~~~L~~L-~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~--lp~~l~~l~~L~~L~Ls~n~l~~~-~  328 (598)
                      ..++..+.++++  |+.| .+.+... +.++..+..+++|++|++++|.++.  ++..+..+++|+.|++++| +... +
T Consensus       255 ~~l~~~l~~~~~--L~~Ls~~~~~~~-~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~-~~~~~l  330 (594)
T 2p1m_B          255 SGLSVALSGCKE--LRCLSGFWDAVP-AYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY-IEDAGL  330 (594)
T ss_dssp             HHHHHHHHTCTT--CCEEECCBTCCG-GGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGG-GHHHHH
T ss_pred             HHHHHHHhcCCC--cccccCCcccch-hhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCc-cCHHHH
Confidence            012223444444  4444 2222211 2334444456677777777776554  3334556677777777766 3322 2


Q ss_pred             hhhhhhcCCCCCCCCCCCEEEccC---------ccccccC-CCC-CCCCcCccccccccceEEEEcCCcccccccccccc
Q 040109          329 SEFIQNVSSGSTKNSSLEWLYLAS---------NEITGTI-PNL-GGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK  397 (598)
Q Consensus       329 ~~~l~~l~~g~~~~~~L~~L~Ls~---------N~l~~~~-p~l-~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~  397 (598)
                      +.....++       +|++|++++         +.+++.. ..+ .++++|.........+.   ..........+++|+
T Consensus       331 ~~l~~~~~-------~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~l~---~~~~~~l~~~~~~L~  400 (594)
T 2p1m_B          331 EVLASTCK-------DLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMT---NAALITIARNRPNMT  400 (594)
T ss_dssp             HHHHHHCT-------TCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESCCC---HHHHHHHHHHCTTCC
T ss_pred             HHHHHhCC-------CCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCCcC---HHHHHHHHhhCCCcc
Confidence            22222344       677776633         2332110 000 01122221111000000   000111223578999


Q ss_pred             eEecc--C----CcCCCc-----CchhhhcccCCcEEECcCCcCcccCCcccCC-CCCCCeeeCCCCccCCCCcccc-cC
Q 040109          398 IIDLS--S----NKLGGE-----VPEEIMDLVGLVALNLSNNNLTGQITPRIGQ-LKSLDFLDLSINHFFGGIPSSL-SR  464 (598)
Q Consensus       398 ~L~Ls--~----n~l~~~-----~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~-l~~L~~L~Ls~N~l~~~~p~~l-~~  464 (598)
                      .|+++  +    +.+++.     ++..+..+++|+.|++++ .+++..+..+.. +++|++|+|++|.+++..+..+ ..
T Consensus       401 ~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~  479 (594)
T 2p1m_B          401 RFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSG  479 (594)
T ss_dssp             EEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHH
T ss_pred             eeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhc
Confidence            99999  4    566622     222367889999999988 777666666665 8999999999999977665555 67


Q ss_pred             CCCCCEEeCCCCcceecCCC--CCccCccCCCccCCCCC
Q 040109          465 LRLLSVMDLSYNNFSGKIPK--GTQLQRFGASTYAGNPE  501 (598)
Q Consensus       465 l~~L~~L~ls~N~l~~~~p~--~~~~~~l~~~~~~gnp~  501 (598)
                      +++|++|++++|++++..+.  ...+++++.+.+.+|+.
T Consensus       480 ~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          480 CDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             CTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEEESSCC
T ss_pred             CCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEeeeCCCC
Confidence            99999999999998643221  23467888888998875

>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=99.87  E-value=9.6e-24  Score=218.88  Aligned_cols=248  Identities=17%  Similarity=0.157  Sum_probs=145.0

Q ss_pred             cccCCCCCCEEEcCCCcCCCCC--chhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchh
Q 040109          181 WLSYLSSLRYLDLGDCKLSKFS--NWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPW  258 (598)
Q Consensus       181 ~l~~l~~L~~L~L~~n~l~~~~--~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~  258 (598)
                      .+..+++|++|++++|.+....  .+...+..+++|++|++++|.+...                        ++.+|..
T Consensus        27 ~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l------------------------~~~~~~~   82 (386)
T 2ca6_A           27 VLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRV------------------------KDEIPEA   82 (386)
T ss_dssp             HHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSC------------------------GGGSHHH
T ss_pred             HHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCcc------------------------ccchhHH
Confidence            3555666777777777665421  1222355566666666666544322                        1122222


Q ss_pred             h-------hhcCccCccEEEccCCcccc----ccchhhcCCCCccEEeeccCCCCC-----cchhhcCC---------CC
Q 040109          259 L-------LNVSSNLVDHIDLGSNRLHG----SIPVAFGHMASLRYLGLLSNRLRE-----VPKFLGNM---------SS  313 (598)
Q Consensus       259 l-------~~~~~~~L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~Ls~n~l~~-----lp~~l~~l---------~~  313 (598)
                      +       ..++.  |++|++++|.+++    .+|..+..+++|++|++++|.++.     ++..+..+         ++
T Consensus        83 ~~~l~~~l~~~~~--L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~  160 (386)
T 2ca6_A           83 LRLLLQALLKCPK--LHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPP  160 (386)
T ss_dssp             HHHHHHHHTTCTT--CCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHhhCCc--ccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCC
Confidence            2       33344  5555555555554    244455555555555555555543     22223333         56


Q ss_pred             CcEEEcccCcCc-cchh---hhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccc
Q 040109          314 LKMLVLSYNELR-GELS---EFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEY  389 (598)
Q Consensus       314 L~~L~Ls~n~l~-~~~~---~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~  389 (598)
                      |++|++++|++. +..+   ..+..++       +|++|++++|.++..--                      ....+..
T Consensus       161 L~~L~L~~n~l~~~~~~~l~~~l~~~~-------~L~~L~L~~n~l~~~g~----------------------~~l~~~~  211 (386)
T 2ca6_A          161 LRSIICGRNRLENGSMKEWAKTFQSHR-------LLHTVKMVQNGIRPEGI----------------------EHLLLEG  211 (386)
T ss_dssp             CCEEECCSSCCTGGGHHHHHHHHHHCT-------TCCEEECCSSCCCHHHH----------------------HHHHHTT
T ss_pred             CcEEECCCCCCCcHHHHHHHHHHHhCC-------CcCEEECcCCCCCHhHH----------------------HHHHHHH
Confidence            666666666665 2333   2344444       66666666666651000                      0000012


Q ss_pred             cccccccceEeccCCcCC----CcCchhhhcccCCcEEECcCCcCccc----CCccc--CCCCCCCeeeCCCCccCC---
Q 040109          390 KSILGLIKIIDLSSNKLG----GEVPEEIMDLVGLVALNLSNNNLTGQ----ITPRI--GQLKSLDFLDLSINHFFG---  456 (598)
Q Consensus       390 ~~~l~~L~~L~Ls~n~l~----~~~p~~l~~l~~L~~L~Ls~N~l~~~----~p~~l--~~l~~L~~L~Ls~N~l~~---  456 (598)
                      +..+++|+.|+|++|.++    +.+|..+..+++|++|+|++|++++.    ++..+  +.+++|++|+|++|.+++   
T Consensus       212 l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~  291 (386)
T 2ca6_A          212 LAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAV  291 (386)
T ss_dssp             GGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHH
T ss_pred             hhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHH
Confidence            344567777777777775    46777788888888888888888765    55666  337888888888888886   


Q ss_pred             -CCcccc-cCCCCCCEEeCCCCcceecCC
Q 040109          457 -GIPSSL-SRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       457 -~~p~~l-~~l~~L~~L~ls~N~l~~~~p  483 (598)
                       .+|..+ .++++|++|++++|++++..|
T Consensus       292 ~~l~~~l~~~l~~L~~L~l~~N~l~~~~~  320 (386)
T 2ca6_A          292 RTLKTVIDEKMPDLLFLELNGNRFSEEDD  320 (386)
T ss_dssp             HHHHHHHHHHCTTCCEEECTTSBSCTTSH
T ss_pred             HHHHHHHHhcCCCceEEEccCCcCCcchh
Confidence             477766 668888888888888876543

>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=99.87  E-value=1.1e-22  Score=206.80  Aligned_cols=250  Identities=20%  Similarity=0.219  Sum_probs=166.7

Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCC--CCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCC-cchhhhhcCc
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNL--RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS-IYPWLLNVSS  264 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l--~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~-~~~~l~~~~~  264 (598)
                      ++.++++++.+..     ..+..+  ++++.|++++|.+.+..+..   ... ++|++|++++|.+++. ++..+..+++
T Consensus        49 ~~~l~l~~~~~~~-----~~~~~~~~~~l~~L~l~~n~l~~~~~~~---~~~-~~L~~L~L~~~~l~~~~~~~~~~~~~~  119 (336)
T 2ast_B           49 WQTLDLTGKNLHP-----DVTGRLLSQGVIAFRCPRSFMDQPLAEH---FSP-FRVQHMDLSNSVIEVSTLHGILSQCSK  119 (336)
T ss_dssp             SSEEECTTCBCCH-----HHHHHHHHTTCSEEECTTCEECSCCCSC---CCC-BCCCEEECTTCEECHHHHHHHHTTBCC
T ss_pred             heeeccccccCCH-----HHHHhhhhccceEEEcCCccccccchhh---ccC-CCCCEEEccCCCcCHHHHHHHHhhCCC
Confidence            4555555555441     334444  56667777776666655431   122 7778888888777654 6666777777


Q ss_pred             cCccEEEccCCccccccchhhcCCCCccEEeeccC-CCCC--cchhhcCCCCCcEEEcccC-cCccc-hhhhhhhcCCCC
Q 040109          265 NLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN-RLRE--VPKFLGNMSSLKMLVLSYN-ELRGE-LSEFIQNVSSGS  339 (598)
Q Consensus       265 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n-~l~~--lp~~l~~l~~L~~L~Ls~n-~l~~~-~~~~l~~l~~g~  339 (598)
                        |++|++++|.+++..+..+..+++|++|++++| .+++  ++..+..+++|++|++++| .+++. ++..+..++.  
T Consensus       120 --L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~--  195 (336)
T 2ast_B          120 --LQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSE--  195 (336)
T ss_dssp             --CSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCT--
T ss_pred             --CCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhccc--
Confidence              888888888887777777888888888888888 6764  6666777888888888888 77754 4555655541  


Q ss_pred             CCCCCCCEEEccCcc--ccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCc-CCCcCchhhhc
Q 040109          340 TKNSSLEWLYLASNE--ITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNK-LGGEVPEEIMD  416 (598)
Q Consensus       340 ~~~~~L~~L~Ls~N~--l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~p~~l~~  416 (598)
                          +|++|++++|.  ++.                          +..+.....+++|+.|++++|. +++..+..+..
T Consensus       196 ----~L~~L~l~~~~~~~~~--------------------------~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~  245 (336)
T 2ast_B          196 ----TITQLNLSGYRKNLQK--------------------------SDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQ  245 (336)
T ss_dssp             ----TCCEEECCSCGGGSCH--------------------------HHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGG
T ss_pred             ----CCCEEEeCCCcccCCH--------------------------HHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhC
Confidence                68888888873  331                          1112234456778888888887 66677777888


Q ss_pred             ccCCcEEECcCCc-CcccCCcccCCCCCCCeeeCCCCccCCCCcccccCC-CCCCEEeCCCCcceecCCC
Q 040109          417 LVGLVALNLSNNN-LTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRL-RLLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       417 l~~L~~L~Ls~N~-l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l-~~L~~L~ls~N~l~~~~p~  484 (598)
                      +++|++|++++|. ++......+..+++|++|++++| ++..   .+..+ ..|..|++++|++++..|.
T Consensus       246 l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~-i~~~---~~~~l~~~l~~L~l~~n~l~~~~~~  311 (336)
T 2ast_B          246 LNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI-VPDG---TLQLLKEALPHLQINCSHFTTIARP  311 (336)
T ss_dssp             CTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS-SCTT---CHHHHHHHSTTSEESCCCSCCTTCS
T ss_pred             CCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc-cCHH---HHHHHHhhCcceEEecccCccccCC
Confidence            8888888888884 33332335777888888888888 4332   23333 2366666788888877665

>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=99.87  E-value=6.4e-22  Score=192.28  Aligned_cols=210  Identities=23%  Similarity=0.228  Sum_probs=129.1

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCc-chhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL  345 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~l-p~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L  345 (598)
                      .+.++++++.++ .+|..+.  +++++|++++|.++++ +..+.++++|++|++++|.+.+..+..+..++       +|
T Consensus        16 ~~~l~~~~~~l~-~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~-------~L   85 (251)
T 3m19_A           16 KKEVDCQGKSLD-SVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLT-------EL   85 (251)
T ss_dssp             GTEEECTTCCCS-SCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCT-------TC
T ss_pred             CeEEecCCCCcc-ccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCC-------cC
Confidence            344444444444 2333222  3455555555555552 23455555555555555555555555555554       56


Q ss_pred             CEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEEC
Q 040109          346 EWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNL  425 (598)
Q Consensus       346 ~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~L  425 (598)
                      ++|++++|.+++..+.                           .+..+++|++|+|++|++++..+..|..+++|++|+|
T Consensus        86 ~~L~L~~n~l~~~~~~---------------------------~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  138 (251)
T 3m19_A           86 GTLGLANNQLASLPLG---------------------------VFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL  138 (251)
T ss_dssp             CEEECTTSCCCCCCTT---------------------------TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CEEECCCCcccccChh---------------------------HhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEEC
Confidence            6666666665532221                           1233556777777777777666666788899999999


Q ss_pred             cCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccC------ccCCCccCCC
Q 040109          426 SNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQ------RFGASTYAGN  499 (598)
Q Consensus       426 s~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~------~l~~~~~~gn  499 (598)
                      ++|++++..+..|..+++|++|+|++|++++..+..+..+++|+.|++++|++.+.......+.      ........|+
T Consensus       139 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~~~~~~~l~~~~~~~~~~~~~~~~~  218 (251)
T 3m19_A          139 NTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFDCSRCEILYLSQWIRENSNKVKDGTGQ  218 (251)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCTTSTTHHHHHHHHHHSGGGBCC----
T ss_pred             cCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCceeCCccccHHHHHHHHhcccceeeccCc
Confidence            9999997666688899999999999999987777788899999999999999987633321111      1111223344


Q ss_pred             CCCCCCCCCCCCCCC
Q 040109          500 PELCGLPLPNKCLDE  514 (598)
Q Consensus       500 p~lC~~~~~~~c~~~  514 (598)
                      . .|+.+....|..+
T Consensus       219 ~-~~~~~~~~~C~~~  232 (251)
T 3m19_A          219 N-LHESPDGVTCSDG  232 (251)
T ss_dssp             ----CCGGGCBBTTS
T ss_pred             c-cccCCCcCccCCC
Confidence            3 5655656677655

>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=99.87  E-value=3.6e-23  Score=210.32  Aligned_cols=265  Identities=20%  Similarity=0.238  Sum_probs=206.4

Q ss_pred             CCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCC--CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECC
Q 040109           68 NCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKL--QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALS  145 (598)
Q Consensus        68 ~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l--~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls  145 (598)
                      -|..|.++.|+.  ..++.+++++      +.+.   +..+..+  ++++.|++++|.+.+. .+. +..+++|++|+++
T Consensus        35 vc~~W~~~~~~~--~~~~~l~l~~------~~~~---~~~~~~~~~~~l~~L~l~~n~l~~~-~~~-~~~~~~L~~L~L~  101 (336)
T 2ast_B           35 VCKRWYRLASDE--SLWQTLDLTG------KNLH---PDVTGRLLSQGVIAFRCPRSFMDQP-LAE-HFSPFRVQHMDLS  101 (336)
T ss_dssp             SCHHHHHHHTCS--TTSSEEECTT------CBCC---HHHHHHHHHTTCSEEECTTCEECSC-CCS-CCCCBCCCEEECT
T ss_pred             HHHHHHHHhcCc--hhheeecccc------ccCC---HHHHHhhhhccceEEEcCCcccccc-chh-hccCCCCCEEEcc
Confidence            355799988853  3467889987      4444   4556666  8999999999999874 444 5679999999999


Q ss_pred             CCCCCCC-CccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCC-cCCCCCchhHhhcCCCCCcEEeccCc-
Q 040109          146 SAQLAGP-IPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDC-KLSKFSNWFQVLSNLRSLTTLYLGHC-  222 (598)
Q Consensus       146 ~n~l~~~-~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n-~l~~~~~~~~~l~~l~~L~~L~l~~n-  222 (598)
                      +|.+++. ++..+..+++|++|++++|.+ ....+..+..+++|++|++++| .+++. .++..+..+++|++|++++| 
T Consensus       102 ~~~l~~~~~~~~~~~~~~L~~L~L~~~~l-~~~~~~~l~~~~~L~~L~L~~~~~l~~~-~l~~~~~~~~~L~~L~l~~~~  179 (336)
T 2ast_B          102 NSVIEVSTLHGILSQCSKLQNLSLEGLRL-SDPIVNTLAKNSNLVRLNLSGCSGFSEF-ALQTLLSSCSRLDELNLSWCF  179 (336)
T ss_dssp             TCEECHHHHHHHHTTBCCCSEEECTTCBC-CHHHHHHHTTCTTCSEEECTTCBSCCHH-HHHHHHHHCTTCCEEECCCCT
T ss_pred             CCCcCHHHHHHHHhhCCCCCEEeCcCccc-CHHHHHHHhcCCCCCEEECCCCCCCCHH-HHHHHHhcCCCCCEEcCCCCC
Confidence            9999865 788899999999999999986 3344556888999999999999 56642 24566888999999999999 


Q ss_pred             CCCCCCCChhhhccccC-CccEEEccCC--CCC-CCcchhhhhcCccCccEEEccCCc-cccccchhhcCCCCccEEeec
Q 040109          223 DLPPISTPSLLHLNYSK-SLEVIDLSNN--YLT-NSIYPWLLNVSSNLVDHIDLGSNR-LHGSIPVAFGHMASLRYLGLL  297 (598)
Q Consensus       223 ~l~~~~~~~~~~~~~~~-~L~~L~Ls~n--~l~-~~~~~~l~~~~~~~L~~L~L~~n~-l~~~~p~~l~~l~~L~~L~Ls  297 (598)
                      .+++...  ......++ +|++|++++|  .++ +.++..+..+++  |++|++++|. +++..+..+..+++|++|+++
T Consensus       180 ~l~~~~~--~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~--L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~  255 (336)
T 2ast_B          180 DFTEKHV--QVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPN--LVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLS  255 (336)
T ss_dssp             TCCHHHH--HHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTT--CSEEECTTCTTCCGGGGGGGGGCTTCCEEECT
T ss_pred             CcChHHH--HHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCC--CCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCC
Confidence            8875321  11122237 9999999999  566 456777888888  9999999999 787888889999999999999


Q ss_pred             cCC-CCC-cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCC
Q 040109          298 SNR-LRE-VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPN  361 (598)
Q Consensus       298 ~n~-l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~  361 (598)
                      +|. +.. ....+..+++|+.|++++| +.......+..         ++..|++++|++++..|.
T Consensus       256 ~~~~~~~~~~~~l~~~~~L~~L~l~~~-i~~~~~~~l~~---------~l~~L~l~~n~l~~~~~~  311 (336)
T 2ast_B          256 RCYDIIPETLLELGEIPTLKTLQVFGI-VPDGTLQLLKE---------ALPHLQINCSHFTTIARP  311 (336)
T ss_dssp             TCTTCCGGGGGGGGGCTTCCEEECTTS-SCTTCHHHHHH---------HSTTSEESCCCSCCTTCS
T ss_pred             CCCCCCHHHHHHHhcCCCCCEEeccCc-cCHHHHHHHHh---------hCcceEEecccCccccCC
Confidence            995 332 2235788999999999999 54433333322         577888999999988775

>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=99.86  E-value=4.9e-21  Score=191.81  Aligned_cols=191  Identities=19%  Similarity=0.316  Sum_probs=123.8

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV  318 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  318 (598)
                      ++|++|++++|.++. ++ .+..++.  |++|++++|.+++..+  +..+++|++|++++|.+++++ .+..+++|++|+
T Consensus        41 ~~L~~L~l~~~~i~~-l~-~~~~l~~--L~~L~L~~n~i~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~  113 (308)
T 1h6u_A           41 DGITTLSAFGTGVTT-IE-GVQYLNN--LIGLELKDNQITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLD  113 (308)
T ss_dssp             HTCCEEECTTSCCCC-CT-TGGGCTT--CCEEECCSSCCCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEE
T ss_pred             CCcCEEEeeCCCccC-ch-hhhccCC--CCEEEccCCcCCCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEE
Confidence            556666666665553 22 3555555  6666666666664333  666666777777777666654 466666777777


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +++|.+++..+  +..++       +|+.|++++|.+++..+                             +..+++|+.
T Consensus       114 l~~n~l~~~~~--l~~l~-------~L~~L~l~~n~l~~~~~-----------------------------l~~l~~L~~  155 (308)
T 1h6u_A          114 LTSTQITDVTP--LAGLS-------NLQVLYLDLNQITNISP-----------------------------LAGLTNLQY  155 (308)
T ss_dssp             CTTSCCCCCGG--GTTCT-------TCCEEECCSSCCCCCGG-----------------------------GGGCTTCCE
T ss_pred             CCCCCCCCchh--hcCCC-------CCCEEECCCCccCcCcc-----------------------------ccCCCCccE
Confidence            77776665432  55554       67777777776653211                             234566777


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      |++++|++++ ++. +..+++|+.|++++|++++. +. +..+++|++|++++|++++..|  +..+++|+.|++++|++
T Consensus       156 L~l~~n~l~~-~~~-l~~l~~L~~L~l~~n~l~~~-~~-l~~l~~L~~L~L~~N~l~~~~~--l~~l~~L~~L~l~~N~i  229 (308)
T 1h6u_A          156 LSIGNAQVSD-LTP-LANLSKLTTLKADDNKISDI-SP-LASLPNLIEVHLKNNQISDVSP--LANTSNLFIVTLTNQTI  229 (308)
T ss_dssp             EECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCCC-GG-GGGCTTCCEEECTTSCCCBCGG--GTTCTTCCEEEEEEEEE
T ss_pred             EEccCCcCCC-Chh-hcCCCCCCEEECCCCccCcC-hh-hcCCCCCCEEEccCCccCcccc--ccCCCCCCEEEccCCee
Confidence            7777777774 333 77778888888888888743 32 6777888888888888875442  77788888888888887


Q ss_pred             ee
Q 040109          479 SG  480 (598)
Q Consensus       479 ~~  480 (598)
                      ++
T Consensus       230 ~~  231 (308)
T 1h6u_A          230 TN  231 (308)
T ss_dssp             EC
T ss_pred             ec
Confidence            64

>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=99.86  E-value=4.8e-21  Score=191.86  Aligned_cols=195  Identities=24%  Similarity=0.331  Sum_probs=122.2

Q ss_pred             ccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       108 l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      +..+++|++|++++|.++.  +| .+..+++|++|++++|.+++.. . +..+++|++|++++|.+..   .+.+..+++
T Consensus        37 ~~~l~~L~~L~l~~~~i~~--l~-~~~~l~~L~~L~L~~n~i~~~~-~-~~~l~~L~~L~L~~n~l~~---~~~~~~l~~  108 (308)
T 1h6u_A           37 QADLDGITTLSAFGTGVTT--IE-GVQYLNNLIGLELKDNQITDLA-P-LKNLTKITELELSGNPLKN---VSAIAGLQS  108 (308)
T ss_dssp             HHHHHTCCEEECTTSCCCC--CT-TGGGCTTCCEEECCSSCCCCCG-G-GTTCCSCCEEECCSCCCSC---CGGGTTCTT
T ss_pred             HHHcCCcCEEEeeCCCccC--ch-hhhccCCCCEEEccCCcCCCCh-h-HccCCCCCEEEccCCcCCC---chhhcCCCC
Confidence            3456778888888888774  44 4777888888888888887443 3 7788888888888887622   245777788


Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCc
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLV  267 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L  267 (598)
                      |++|++++|.+++++    .+..+++|++|++++|.+++..+  +..   +++|+.|++++|.+++..+  +..+++  |
T Consensus       109 L~~L~l~~n~l~~~~----~l~~l~~L~~L~l~~n~l~~~~~--l~~---l~~L~~L~l~~n~l~~~~~--l~~l~~--L  175 (308)
T 1h6u_A          109 IKTLDLTSTQITDVT----PLAGLSNLQVLYLDLNQITNISP--LAG---LTNLQYLSIGNAQVSDLTP--LANLSK--L  175 (308)
T ss_dssp             CCEEECTTSCCCCCG----GGTTCTTCCEEECCSSCCCCCGG--GGG---CTTCCEEECCSSCCCCCGG--GTTCTT--C
T ss_pred             CCEEECCCCCCCCch----hhcCCCCCCEEECCCCccCcCcc--ccC---CCCccEEEccCCcCCCChh--hcCCCC--C
Confidence            888888888777752    26677777777777777766543  221   2566666666666654222  444555  5


Q ss_pred             cEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCcc
Q 040109          268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       268 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      +.|++++|.+++..+  +..+++|++|++++|++++++. +..+++|+.|++++|++++
T Consensus       176 ~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~l~~N~i~~  231 (308)
T 1h6u_A          176 TTLKADDNKISDISP--LASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLTNQTITN  231 (308)
T ss_dssp             CEEECCSSCCCCCGG--GGGCTTCCEEECTTSCCCBCGG-GTTCTTCCEEEEEEEEEEC
T ss_pred             CEEECCCCccCcChh--hcCCCCCCEEEccCCccCcccc-ccCCCCCCEEEccCCeeec
Confidence            555555555553322  4455555555555555555442 4455555555555555443

>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=99.86  E-value=8.9e-22  Score=189.78  Aligned_cols=198  Identities=15%  Similarity=0.161  Sum_probs=116.1

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCC-CCCcch-hhcCCCCCcEEEccc-CcCccchhhhhhhcCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNR-LREVPK-FLGNMSSLKMLVLSY-NELRGELSEFIQNVSSGSTKNS  343 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~-l~~lp~-~l~~l~~L~~L~Ls~-n~l~~~~~~~l~~l~~g~~~~~  343 (598)
                      +++|++++|.+++..+..|.++++|++|++++|+ ++.++. .|.++++|++|++++ |.+++..+..|..++       
T Consensus        33 l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~-------  105 (239)
T 2xwt_C           33 TQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELP-------  105 (239)
T ss_dssp             CCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCT-------
T ss_pred             ccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCC-------
Confidence            5566666666655555556666666666666664 555443 556666666666665 666655555555555       


Q ss_pred             CCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCC-cCCCcCchhhhcccCCc-
Q 040109          344 SLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSN-KLGGEVPEEIMDLVGLV-  421 (598)
Q Consensus       344 ~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~p~~l~~l~~L~-  421 (598)
                      +|++|++++|.+++ +|.+.++++                         +..|++|++++| ++++..+..|..+++|+ 
T Consensus       106 ~L~~L~l~~n~l~~-lp~~~~l~~-------------------------L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~  159 (239)
T 2xwt_C          106 LLKFLGIFNTGLKM-FPDLTKVYS-------------------------TDIFFILEITDNPYMTSIPVNAFQGLCNETL  159 (239)
T ss_dssp             TCCEEEEEEECCCS-CCCCTTCCB-------------------------CCSEEEEEEESCTTCCEECTTTTTTTBSSEE
T ss_pred             CCCEEeCCCCCCcc-ccccccccc-------------------------cccccEEECCCCcchhhcCcccccchhccee
Confidence            66666666666654 333222221                         111336777777 66655555566777777 


Q ss_pred             EEECcCCcCcccCCcccCCCCCCCeeeCCCCc-cCCCCcccccCC-CCCCEEeCCCCcceecCCCCCccCccCCCccCCC
Q 040109          422 ALNLSNNNLTGQITPRIGQLKSLDFLDLSINH-FFGGIPSSLSRL-RLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGN  499 (598)
Q Consensus       422 ~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~~~p~~l~~l-~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gn  499 (598)
                      +|++++|+++ .+|......++|+.|++++|+ +++..+..|..+ ++|+.|++++|+++ .+|.. .+..+..+.+.++
T Consensus       160 ~L~l~~n~l~-~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~-~l~~~-~~~~L~~L~l~~~  236 (239)
T 2xwt_C          160 TLKLYNNGFT-SVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVT-ALPSK-GLEHLKELIARNT  236 (239)
T ss_dssp             EEECCSCCCC-EECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCC-CCCCT-TCTTCSEEECTTC
T ss_pred             EEEcCCCCCc-ccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCccc-cCChh-HhccCceeeccCc
Confidence            7777777776 444332223667777777774 665555566666 77777777777776 44443 4555655555554


Q ss_pred             C
Q 040109          500 P  500 (598)
Q Consensus       500 p  500 (598)
                      +
T Consensus       237 ~  237 (239)
T 2xwt_C          237 W  237 (239)
T ss_dssp             -
T ss_pred             c
Confidence            3

>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=99.86  E-value=5.4e-21  Score=185.68  Aligned_cols=191  Identities=23%  Similarity=0.311  Sum_probs=129.6

Q ss_pred             CCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCC
Q 040109           68 NCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSA  147 (598)
Q Consensus        68 ~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n  147 (598)
                      .|+.|.|..|...   .+.+++++      +.++ .+|..+.  +++++|+|++|.+++. .+..+..+++|++|+|++|
T Consensus         3 ~Cp~~~gC~C~~~---~~~l~~~~------~~l~-~~p~~~~--~~l~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~n   69 (251)
T 3m19_A            3 TCETVTGCTCNEG---KKEVDCQG------KSLD-SVPSGIP--ADTEKLDLQSTGLATL-SDATFRGLTKLTWLNLDYN   69 (251)
T ss_dssp             -CHHHHSSEEEGG---GTEEECTT------CCCS-SCCSCCC--TTCCEEECTTSCCCCC-CTTTTTTCTTCCEEECTTS
T ss_pred             cCCCCCceEcCCC---CeEEecCC------CCcc-ccCCCCC--CCCCEEEccCCCcCcc-CHhHhcCcccCCEEECCCC
Confidence            4789999999532   23567776      4554 4665554  5889999999999875 6677888899999999999


Q ss_pred             CCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCC
Q 040109          148 QLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPI  227 (598)
Q Consensus       148 ~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~  227 (598)
                      .+++..+..|..+++|++|++++|.+ ....+..+..+++|++|++++|.++.++.  ..+..+++|++|++++|.+++.
T Consensus        70 ~l~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--~~~~~l~~L~~L~Ls~N~l~~~  146 (251)
T 3m19_A           70 QLQTLSAGVFDDLTELGTLGLANNQL-ASLPLGVFDHLTQLDKLYLGGNQLKSLPS--GVFDRLTKLKELRLNTNQLQSI  146 (251)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECTTSCC-CCCCTTTTTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCCEEECCSSCCCCC
T ss_pred             cCCccCHhHhccCCcCCEEECCCCcc-cccChhHhcccCCCCEEEcCCCcCCCcCh--hHhccCCcccEEECcCCcCCcc
Confidence            99887777888888888888888887 34444557777888888888887776543  4455666666666666666554


Q ss_pred             CCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCC
Q 040109          228 STPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE  303 (598)
Q Consensus       228 ~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~  303 (598)
                      ++                           ..+..+++  |++|++++|.+++..+..+..+++|++|++++|.+..
T Consensus       147 ~~---------------------------~~~~~l~~--L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c  193 (251)
T 3m19_A          147 PA---------------------------GAFDKLTN--LQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFDC  193 (251)
T ss_dssp             CT---------------------------TTTTTCTT--CCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCT
T ss_pred             CH---------------------------HHcCcCcC--CCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCceeC
Confidence            44                           23333444  5555555555554444455555666666666666543

>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=99.86  E-value=1.8e-22  Score=209.36  Aligned_cols=256  Identities=20%  Similarity=0.157  Sum_probs=151.9

Q ss_pred             CCccccCCCCCCCEEEccCCCCCCCCC---cccccCCCCCCEEEcCCCcCCCCCc-hhHh-------hcCCCCCcEEecc
Q 040109          152 PIPHQLGNLSRLQVLDLRFNNLFSSGN---LDWLSYLSSLRYLDLGDCKLSKFSN-WFQV-------LSNLRSLTTLYLG  220 (598)
Q Consensus       152 ~~p~~l~~l~~L~~L~Ls~n~l~~~~~---~~~l~~l~~L~~L~L~~n~l~~~~~-~~~~-------l~~l~~L~~L~l~  220 (598)
                      .++..+..+++|++|++++|.+.....   ...+..+++|++|+|++|.+..+.. +|..       +..+++|++|+++
T Consensus        23 ~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls  102 (386)
T 2ca6_A           23 SVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLS  102 (386)
T ss_dssp             TTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECC
T ss_pred             HHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECC
Confidence            566778889999999999998732211   1237789999999999987664421 2223       3566666666666


Q ss_pred             CcCCCCCCCChh-hhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCC---------CC
Q 040109          221 HCDLPPISTPSL-LHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHM---------AS  290 (598)
Q Consensus       221 ~n~l~~~~~~~~-~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l---------~~  290 (598)
                      +|.+.......+ ..+..+++|++|+|++|.++...+..+..                      .+..+         ++
T Consensus       103 ~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~----------------------~l~~l~~~~~~~~~~~  160 (386)
T 2ca6_A          103 DNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIAR----------------------ALQELAVNKKAKNAPP  160 (386)
T ss_dssp             SCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHH----------------------HHHHHHHHHHHHTCCC
T ss_pred             CCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHH----------------------HHHHHhhhhhcccCCC
Confidence            666654321100 01111245555555555544322222221                      11122         55


Q ss_pred             ccEEeeccCCCCC--cc---hhhcCCCCCcEEEcccCcCcc-----chhhhhhhcCCCCCCCCCCCEEEccCccccccCC
Q 040109          291 LRYLGLLSNRLRE--VP---KFLGNMSSLKMLVLSYNELRG-----ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIP  360 (598)
Q Consensus       291 L~~L~Ls~n~l~~--lp---~~l~~l~~L~~L~Ls~n~l~~-----~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p  360 (598)
                      |++|++++|+++.  +|   ..+..+++|+.|++++|.+..     ..+..+..++       +|+.|+|++|.++..- 
T Consensus       161 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~-------~L~~L~Ls~n~l~~~g-  232 (386)
T 2ca6_A          161 LRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQ-------ELKVLDLQDNTFTHLG-  232 (386)
T ss_dssp             CCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCT-------TCCEEECCSSCCHHHH-
T ss_pred             CcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCC-------CccEEECcCCCCCcHH-
Confidence            6666666666552  33   345555666666666666552     1222344444       6666666666654100 


Q ss_pred             CCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCc----Cchhhhc--ccCCcEEECcCCcCcc--
Q 040109          361 NLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGE----VPEEIMD--LVGLVALNLSNNNLTG--  432 (598)
Q Consensus       361 ~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~----~p~~l~~--l~~L~~L~Ls~N~l~~--  432 (598)
                                            .+..+..+..+++|+.|+|++|.+++.    ++..+..  +++|+.|+|++|.+++  
T Consensus       233 ----------------------~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g  290 (386)
T 2ca6_A          233 ----------------------SSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDA  290 (386)
T ss_dssp             ----------------------HHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHH
T ss_pred             ----------------------HHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHH
Confidence                                  000112234455677777777777654    4566643  8899999999999987  


Q ss_pred             --cCCccc-CCCCCCCeeeCCCCccCCCCc
Q 040109          433 --QITPRI-GQLKSLDFLDLSINHFFGGIP  459 (598)
Q Consensus       433 --~~p~~l-~~l~~L~~L~Ls~N~l~~~~p  459 (598)
                        .+|..+ .++++|++|++++|++++..+
T Consensus       291 ~~~l~~~l~~~l~~L~~L~l~~N~l~~~~~  320 (386)
T 2ca6_A          291 VRTLKTVIDEKMPDLLFLELNGNRFSEEDD  320 (386)
T ss_dssp             HHHHHHHHHHHCTTCCEEECTTSBSCTTSH
T ss_pred             HHHHHHHHHhcCCCceEEEccCCcCCcchh
Confidence              477777 668999999999999987764

>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=99.86  E-value=1.4e-21  Score=188.32  Aligned_cols=196  Identities=22%  Similarity=0.259  Sum_probs=144.8

Q ss_pred             CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCC-CCCCCccccCCCCCCCEEEccC-CCCCCCCCcccccCCCCCCE
Q 040109          113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQ-LAGPIPHQLGNLSRLQVLDLRF-NNLFSSGNLDWLSYLSSLRY  190 (598)
Q Consensus       113 ~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~-l~~~~p~~l~~l~~L~~L~Ls~-n~l~~~~~~~~l~~l~~L~~  190 (598)
                      +|++|++++|.+++. .+..|..+++|++|++++|. ++...+..|.++++|++|++++ |.+ .......|.++++|++
T Consensus        32 ~l~~L~l~~n~l~~i-~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l-~~i~~~~f~~l~~L~~  109 (239)
T 2xwt_C           32 STQTLKLIETHLRTI-PSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNL-TYIDPDALKELPLLKF  109 (239)
T ss_dssp             TCCEEEEESCCCSEE-CTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTC-CEECTTSEECCTTCCE
T ss_pred             cccEEEEeCCcceEE-CHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCe-eEcCHHHhCCCCCCCE
Confidence            899999999999864 45578899999999999997 8866667899999999999998 887 4444556888999999


Q ss_pred             EEcCCCcCCCCCchhHhhcCCCCCc---EEeccCc-CCCCCCCChhhhccccCCcc-EEEccCCCCCCCcchhhhhcCcc
Q 040109          191 LDLGDCKLSKFSNWFQVLSNLRSLT---TLYLGHC-DLPPISTPSLLHLNYSKSLE-VIDLSNNYLTNSIYPWLLNVSSN  265 (598)
Q Consensus       191 L~L~~n~l~~~~~~~~~l~~l~~L~---~L~l~~n-~l~~~~~~~~~~~~~~~~L~-~L~Ls~n~l~~~~~~~l~~~~~~  265 (598)
                      |++++|.++++|.    +..+++|+   +|++++| .+++.++..+...   ++|+ .|++++|.++ .+|......++ 
T Consensus       110 L~l~~n~l~~lp~----~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l---~~L~~~L~l~~n~l~-~i~~~~~~~~~-  180 (239)
T 2xwt_C          110 LGIFNTGLKMFPD----LTKVYSTDIFFILEITDNPYMTSIPVNAFQGL---CNETLTLKLYNNGFT-SVQGYAFNGTK-  180 (239)
T ss_dssp             EEEEEECCCSCCC----CTTCCBCCSEEEEEEESCTTCCEECTTTTTTT---BSSEEEEECCSCCCC-EECTTTTTTCE-
T ss_pred             EeCCCCCCccccc----cccccccccccEEECCCCcchhhcCcccccch---hcceeEEEcCCCCCc-ccCHhhcCCCC-
Confidence            9999999888653    66666666   8888888 7777665444433   6777 7888777777 44444333355 


Q ss_pred             CccEEEccCCc-cccccchhhcCC-CCccEEeeccCCCCCcchhhcCCCCCcEEEcccC
Q 040109          266 LVDHIDLGSNR-LHGSIPVAFGHM-ASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYN  322 (598)
Q Consensus       266 ~L~~L~L~~n~-l~~~~p~~l~~l-~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n  322 (598)
                       |++|++++|+ +++..+..|..+ ++|++|++++|+++++|..  .+++|+.|+++++
T Consensus       181 -L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l~~~--~~~~L~~L~l~~~  236 (239)
T 2xwt_C          181 -LDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSK--GLEHLKELIARNT  236 (239)
T ss_dssp             -EEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCCCCT--TCTTCSEEECTTC
T ss_pred             -CCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCccccCChh--HhccCceeeccCc
Confidence             7777777774 665555666666 7777777777777766644  4566666666654

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.83  E-value=3.5e-20  Score=199.34  Aligned_cols=211  Identities=19%  Similarity=0.294  Sum_probs=143.2

Q ss_pred             CCCCCCCCCCCCCC-----CccCe-eeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcc
Q 040109           57 LSSWGREDEKRNCC-----KWRGV-RCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIP  130 (598)
Q Consensus        57 l~~W~~~~~~~~~c-----~w~gv-~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p  130 (598)
                      +.+|..   +.++|     .|.|+ .|.  .++++.+++++      +.+++ +|..+.  ++|++|+|++|.++.  +|
T Consensus        33 l~~W~~---~~~~~~~~~~~~~~l~~C~--~~~L~~L~Ls~------n~L~~-lp~~l~--~~L~~L~Ls~N~l~~--ip   96 (571)
T 3cvr_A           33 WDKWEK---QALPGENRNEAVSLLKECL--INQFSELQLNR------LNLSS-LPDNLP--PQITVLEITQNALIS--LP   96 (571)
T ss_dssp             HHHHHT---TCCTTCCHHHHHHHHHHHH--HTTCSEEECCS------SCCSC-CCSCCC--TTCSEEECCSSCCSC--CC
T ss_pred             HHHHhc---cCCccccccchhhhccccc--cCCccEEEeCC------CCCCc-cCHhHc--CCCCEEECcCCCCcc--cc
Confidence            345652   44556     69999 674  24688888888      67766 777663  788888888888883  66


Q ss_pred             hhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcC
Q 040109          131 EFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN  210 (598)
Q Consensus       131 ~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~  210 (598)
                         ..+++|++|++++|.+++ +|. +.+  +|++|++++|.+..  .+.   .+++|++|++++|.++++|.      .
T Consensus        97 ---~~l~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls~N~l~~--lp~---~l~~L~~L~Ls~N~l~~lp~------~  158 (571)
T 3cvr_A           97 ---ELPASLEYLDACDNRLST-LPE-LPA--SLKHLDVDNNQLTM--LPE---LPALLEYINADNNQLTMLPE------L  158 (571)
T ss_dssp             ---CCCTTCCEEECCSSCCSC-CCC-CCT--TCCEEECCSSCCSC--CCC---CCTTCCEEECCSSCCSCCCC------C
T ss_pred             ---cccCCCCEEEccCCCCCC-cch-hhc--CCCEEECCCCcCCC--CCC---cCccccEEeCCCCccCcCCC------c
Confidence               457888888888888885 666 554  78888888887632  222   56677777777777666432      3


Q ss_pred             CCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcC---
Q 040109          211 LRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGH---  287 (598)
Q Consensus       211 l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~---  287 (598)
                      +++|++|++++|.+++.+.  +.     ++                          |+.|++++|.++ .+|. +..   
T Consensus       159 l~~L~~L~Ls~N~L~~lp~--l~-----~~--------------------------L~~L~Ls~N~L~-~lp~-~~~~L~  203 (571)
T 3cvr_A          159 PTSLEVLSVRNNQLTFLPE--LP-----ES--------------------------LEALDVSTNLLE-SLPA-VPVRNH  203 (571)
T ss_dssp             CTTCCEEECCSSCCSCCCC--CC-----TT--------------------------CCEEECCSSCCS-SCCC-CC----
T ss_pred             CCCcCEEECCCCCCCCcch--hh-----CC--------------------------CCEEECcCCCCC-chhh-HHHhhh
Confidence            4555555555555555322  11     34                          555555555555 3343 332   


Q ss_pred             --CCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcC
Q 040109          288 --MASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVS  336 (598)
Q Consensus       288 --l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~  336 (598)
                        .+.|++|++++|+++.+|..+..+++|+.|+|++|++++..|..+..+.
T Consensus       204 ~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~l~~~~p~~l~~l~  254 (571)
T 3cvr_A          204 HSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNPLSSRIRESLSQQT  254 (571)
T ss_dssp             ----CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSSCCHHHHHHHHHHH
T ss_pred             cccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCcCCCcCHHHHHHhh
Confidence              1223899999999999998888899999999999999999998887764

>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=99.82  E-value=6.1e-20  Score=187.42  Aligned_cols=230  Identities=18%  Similarity=0.195  Sum_probs=164.4

Q ss_pred             ecCccccCCCCCCEEECcCCCCCCCCcc-hhcCCCCCCCEEECCCCCCCCCCc-cccCCCCCCCE-EEccCCCCCCCCCc
Q 040109          103 TINPSLLKLQHLTYLDLSWNNFSGSPIP-EFIGSLSKLSELALSSAQLAGPIP-HQLGNLSRLQV-LDLRFNNLFSSGNL  179 (598)
Q Consensus       103 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~p-~~l~~l~~L~~L~Ls~n~l~~~~p-~~l~~l~~L~~-L~Ls~n~l~~~~~~  179 (598)
                      .+|..+  .+++++|+|++|.|+.  +| ..|.++++|++|+|++|.+.+.+| ..|.++++|++ +.+++|++ ....+
T Consensus        23 ~iP~~l--~~~l~~L~Ls~N~i~~--i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l-~~l~~   97 (350)
T 4ay9_X           23 EIPSDL--PRNAIELRFVLTKLRV--IQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNL-LYINP   97 (350)
T ss_dssp             SCCTTC--CTTCSEEEEESCCCSE--ECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTC-CEECT
T ss_pred             ccCcCc--CCCCCEEEccCCcCCC--cCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcc-cccCc
Confidence            456555  3689999999999985  55 468999999999999999876555 56888988876 55666776 44556


Q ss_pred             ccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccC-cCCCCCCCChhhhccccCCccEEEccCCCCCCCcchh
Q 040109          180 DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGH-CDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPW  258 (598)
Q Consensus       180 ~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~-n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~  258 (598)
                      ..|.++++|++|++++|++..++.  ..+....++..+++.+ +.+.......+...  ...++.|++++|+++ .+++.
T Consensus        98 ~~f~~l~~L~~L~l~~n~l~~~~~--~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~--~~~l~~L~L~~N~i~-~i~~~  172 (350)
T 4ay9_X           98 EAFQNLPNLQYLLISNTGIKHLPD--VHKIHSLQKVLLDIQDNINIHTIERNSFVGL--SFESVILWLNKNGIQ-EIHNS  172 (350)
T ss_dssp             TSBCCCTTCCEEEEEEECCSSCCC--CTTCCBSSCEEEEEESCTTCCEECTTSSTTS--BSSCEEEECCSSCCC-EECTT
T ss_pred             hhhhhccccccccccccccccCCc--hhhcccchhhhhhhccccccccccccchhhc--chhhhhhcccccccc-CCChh
Confidence            678999999999999999988754  4556667788888865 56666555434332  256888899998887 45555


Q ss_pred             hhhcCccCccEEEccC-CccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCC
Q 040109          259 LLNVSSNLVDHIDLGS-NRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSS  337 (598)
Q Consensus       259 l~~~~~~~L~~L~L~~-n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~  337 (598)
                      .....+  ++.|++.+ |.++...++.|..+++|++|++++|+++.+|..  .+.+|+.|.+.++.--..+|. +..++ 
T Consensus       173 ~f~~~~--L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~--~~~~L~~L~~l~~~~l~~lP~-l~~l~-  246 (350)
T 4ay9_X          173 AFNGTQ--LDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY--GLENLKKLRARSTYNLKKLPT-LEKLV-  246 (350)
T ss_dssp             SSTTEE--EEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSS--SCTTCCEEECTTCTTCCCCCC-TTTCC-
T ss_pred             hccccc--hhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChh--hhccchHhhhccCCCcCcCCC-chhCc-
Confidence            545555  88888875 556544445678888888888888888888753  355666776665544344442 45555 


Q ss_pred             CCCCCCCCCEEEccCcc
Q 040109          338 GSTKNSSLEWLYLASNE  354 (598)
Q Consensus       338 g~~~~~~L~~L~Ls~N~  354 (598)
                            +|+.++++++.
T Consensus       247 ------~L~~l~l~~~~  257 (350)
T 4ay9_X          247 ------ALMEASLTYPS  257 (350)
T ss_dssp             ------SCCEEECSCHH
T ss_pred             ------ChhhCcCCCCc
Confidence                  78888887654

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.82  E-value=9.2e-20  Score=196.05  Aligned_cols=95  Identities=23%  Similarity=0.316  Sum_probs=47.9

Q ss_pred             CCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCcc
Q 040109          213 SLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLR  292 (598)
Q Consensus       213 ~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~  292 (598)
                      +|+.|++++|.+++++...   .   ++|+.|++++|.++ .+|   ..+++  |++|++++|.+++ +|. +..  +|+
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l---~---~~L~~L~Ls~N~l~-~ip---~~l~~--L~~L~Ls~N~l~~-ip~-l~~--~L~  123 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL---P---PQITVLEITQNALI-SLP---ELPAS--LEYLDACDNRLST-LPE-LPA--SLK  123 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC---C---TTCSEEECCSSCCS-CCC---CCCTT--CCEEECCSSCCSC-CCC-CCT--TCC
T ss_pred             CccEEEeCCCCCCccCHhH---c---CCCCEEECcCCCCc-ccc---cccCC--CCEEEccCCCCCC-cch-hhc--CCC
Confidence            5666666666665533211   1   45555555555555 333   22333  5555555555554 443 332  555


Q ss_pred             EEeeccCCCCCcchhhcCCCCCcEEEcccCcCcc
Q 040109          293 YLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       293 ~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      +|++++|+++++|.   .+++|+.|++++|.+++
T Consensus       124 ~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~l~~  154 (571)
T 3cvr_A          124 HLDVDNNQLTMLPE---LPALLEYINADNNQLTM  154 (571)
T ss_dssp             EEECCSSCCSCCCC---CCTTCCEEECCSSCCSC
T ss_pred             EEECCCCcCCCCCC---cCccccEEeCCCCccCc
Confidence            55555555555544   34555555555555544

>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=99.81  E-value=1.5e-19  Score=184.45  Aligned_cols=227  Identities=16%  Similarity=0.128  Sum_probs=174.4

Q ss_pred             CEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCE-EEc
Q 040109          115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRY-LDL  193 (598)
Q Consensus       115 ~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~-L~L  193 (598)
                      ++++.++++++  .+|..+  .+++++|+|++|+|+...+..|.++++|++|+|++|++....+...|.+++++++ +.+
T Consensus        12 ~~v~C~~~~Lt--~iP~~l--~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~   87 (350)
T 4ay9_X           12 RVFLCQESKVT--EIPSDL--PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   87 (350)
T ss_dssp             TEEEEESTTCC--SCCTTC--CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEE
T ss_pred             CEEEecCCCCC--ccCcCc--CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcc
Confidence            56788888898  478776  3789999999999996656789999999999999999755455567899999876 566


Q ss_pred             CCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccC-CCCCCCcchhhhhcCccCccEEEc
Q 040109          194 GDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSN-NYLTNSIYPWLLNVSSNLVDHIDL  272 (598)
Q Consensus       194 ~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~-n~l~~~~~~~l~~~~~~~L~~L~L  272 (598)
                      ++|+++.++.  ..|..+++|++|++++|++...++..+  ... .++..|++.+ +.+....+..+..... .++.|++
T Consensus        88 ~~N~l~~l~~--~~f~~l~~L~~L~l~~n~l~~~~~~~~--~~~-~~l~~l~l~~~~~i~~l~~~~f~~~~~-~l~~L~L  161 (350)
T 4ay9_X           88 KANNLLYINP--EAFQNLPNLQYLLISNTGIKHLPDVHK--IHS-LQKVLLDIQDNINIHTIERNSFVGLSF-ESVILWL  161 (350)
T ss_dssp             EETTCCEECT--TSBCCCTTCCEEEEEEECCSSCCCCTT--CCB-SSCEEEEEESCTTCCEECTTSSTTSBS-SCEEEEC
T ss_pred             cCCcccccCc--hhhhhccccccccccccccccCCchhh--ccc-chhhhhhhccccccccccccchhhcch-hhhhhcc
Confidence            7789998743  789999999999999999998877433  333 6788899876 4555433344555432 1889999


Q ss_pred             cCCccccccchhhcCCCCccEEeecc-CCCCCcch-hhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEc
Q 040109          273 GSNRLHGSIPVAFGHMASLRYLGLLS-NRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL  350 (598)
Q Consensus       273 ~~n~l~~~~p~~l~~l~~L~~L~Ls~-n~l~~lp~-~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~L  350 (598)
                      ++|+++. +|.......+|++|++++ |.++.+|. .|.++++|++|++++|+++..++..+.          +|+.|.+
T Consensus       162 ~~N~i~~-i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~~~----------~L~~L~~  230 (350)
T 4ay9_X          162 NKNGIQE-IHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLE----------NLKKLRA  230 (350)
T ss_dssp             CSSCCCE-ECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSSSCT----------TCCEEEC
T ss_pred             ccccccC-CChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChhhhc----------cchHhhh
Confidence            9999985 454444667899999975 77888885 678999999999999999977665443          6778887


Q ss_pred             cCccccccCCCC
Q 040109          351 ASNEITGTIPNL  362 (598)
Q Consensus       351 s~N~l~~~~p~l  362 (598)
                      .++.-...+|.+
T Consensus       231 l~~~~l~~lP~l  242 (350)
T 4ay9_X          231 RSTYNLKKLPTL  242 (350)
T ss_dssp             TTCTTCCCCCCT
T ss_pred             ccCCCcCcCCCc
Confidence            766544455544

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.81  E-value=1.8e-19  Score=169.61  Aligned_cols=184  Identities=23%  Similarity=0.288  Sum_probs=131.2

Q ss_pred             CCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCC
Q 040109           69 CCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQ  148 (598)
Q Consensus        69 ~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~  148 (598)
                      .|.|.++.|+..                  .++ .+|..+  .++|++|++++|.+++. .+..+..+++|++|++++|.
T Consensus         6 ~C~~~~v~c~~~------------------~l~-~~p~~~--~~~l~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~n~   63 (208)
T 2o6s_A            6 SCSGTTVECYSQ------------------GRT-SVPTGI--PAQTTYLDLETNSLKSL-PNGVFDELTSLTQLYLGGNK   63 (208)
T ss_dssp             EEETTEEECCSS------------------CCS-SCCSCC--CTTCSEEECCSSCCCCC-CTTTTTTCTTCSEEECCSSC
T ss_pred             EECCCEEEecCC------------------Ccc-CCCCCC--CCCCcEEEcCCCccCcC-ChhhhcccccCcEEECCCCc
Confidence            378999999642                  111 233333  45899999999999864 55668899999999999999


Q ss_pred             CCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCC
Q 040109          149 LAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIS  228 (598)
Q Consensus       149 l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~  228 (598)
                      +++..+..|..+++|++|++++|.+ .......+.++++|++|++++|.+++++.  ..+..+++|++|++++|.+++.+
T Consensus        64 l~~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--~~~~~l~~L~~L~l~~N~l~~~~  140 (208)
T 2o6s_A           64 LQSLPNGVFNKLTSLTYLNLSTNQL-QSLPNGVFDKLTQLKELALNTNQLQSLPD--GVFDKLTQLKDLRLYQNQLKSVP  140 (208)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCC-CCCCTTTTTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCCEEECCSSCCSCCC
T ss_pred             cCccChhhcCCCCCcCEEECCCCcC-CccCHhHhcCccCCCEEEcCCCcCcccCH--hHhccCCcCCEEECCCCccceeC
Confidence            9977667788999999999999987 34444557888899999999998887643  45777888888888888877665


Q ss_pred             CChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCC
Q 040109          229 TPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMA  289 (598)
Q Consensus       229 ~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~  289 (598)
                      +..+...   ++|+.|++++|.+.+..       +.  ++.|+++.|.++|.+|..++.++
T Consensus       141 ~~~~~~l---~~L~~L~l~~N~~~~~~-------~~--l~~L~~~~n~~~g~ip~~~~~l~  189 (208)
T 2o6s_A          141 DGVFDRL---TSLQYIWLHDNPWDCTC-------PG--IRYLSEWINKHSGVVRNSAGSVA  189 (208)
T ss_dssp             TTTTTTC---TTCCEEECCSCCBCCCT-------TT--THHHHHHHHHCTTTBBCTTSSBC
T ss_pred             HHHhccC---CCccEEEecCCCeecCC-------CC--HHHHHHHHHhCCceeeccCcccc
Confidence            5333322   66777777777655432       23  56666666666666665555443

>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=99.81  E-value=6.4e-20  Score=174.14  Aligned_cols=158  Identities=21%  Similarity=0.187  Sum_probs=123.1

Q ss_pred             cEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchh-hhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcc
Q 040109          292 RYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELS-EFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLM  370 (598)
Q Consensus       292 ~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~-~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~  370 (598)
                      +.+++++|.++.+|..+.  +.+++|++++|.+++..+ ..+..++       +|+.|++++|.+++..+.         
T Consensus        14 ~~l~~s~n~l~~iP~~~~--~~~~~L~L~~N~l~~~~~~~~~~~l~-------~L~~L~L~~N~i~~i~~~---------   75 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHIP--QYTAELRLNNNEFTVLEATGIFKKLP-------QLRKINFSNNKITDIEEG---------   75 (220)
T ss_dssp             TEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCEECCCCCGGGCT-------TCCEEECCSSCCCEECTT---------
T ss_pred             CEeEeCCCCcccCccCCC--CCCCEEEcCCCcCCccCchhhhccCC-------CCCEEECCCCcCCEECHH---------
Confidence            466666676666665442  345677777777766643 3455555       677777777777654331         


Q ss_pred             ccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCC
Q 040109          371 PLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS  450 (598)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls  450 (598)
                                        .+..+++|++|+|++|++++..+..|..+++|++|+|++|++++..|..|..+++|++|+|+
T Consensus        76 ------------------~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  137 (220)
T 2v70_A           76 ------------------AFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLY  137 (220)
T ss_dssp             ------------------TTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECT
T ss_pred             ------------------HhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECC
Confidence                              23446678888888888887778889999999999999999998889999999999999999


Q ss_pred             CCccCCCCcccccCCCCCCEEeCCCCcceecCCCC
Q 040109          451 INHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG  485 (598)
Q Consensus       451 ~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~  485 (598)
                      +|++++..|..|..+++|++|++++|++.+.++..
T Consensus       138 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c~l~  172 (220)
T 2v70_A          138 DNQITTVAPGAFDTLHSLSTLNLLANPFNCNCYLA  172 (220)
T ss_dssp             TSCCCCBCTTTTTTCTTCCEEECCSCCEECSGGGH
T ss_pred             CCcCCEECHHHhcCCCCCCEEEecCcCCcCCCchH
Confidence            99999888999999999999999999999876643

>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=99.80  E-value=1.5e-19  Score=171.51  Aligned_cols=156  Identities=21%  Similarity=0.204  Sum_probs=118.2

Q ss_pred             cEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccc
Q 040109          292 RYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMP  371 (598)
Q Consensus       292 ~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~  371 (598)
                      +.++++++.++.+|..+.  ++|+.|++++|.+.+..+..+..++       +|+.|+|++|++++..|.          
T Consensus        14 ~~v~c~~~~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~-------~L~~L~Ls~N~i~~~~~~----------   74 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYK-------KLRRIDLSNNQISELAPD----------   74 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCT-------TCCEEECCSSCCCEECTT----------
T ss_pred             CEEEcCCCCcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCC-------CCCEEECCCCcCCCcCHH----------
Confidence            456677777777665443  5677777777777766666666665       677777777777654332          


Q ss_pred             cccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCC
Q 040109          372 LIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSI  451 (598)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~  451 (598)
                                       .+..+++|++|+|++|+|+...+..|..+++|++|+|++|++++..|..|..+++|++|+|++
T Consensus        75 -----------------~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~  137 (220)
T 2v9t_B           75 -----------------AFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYD  137 (220)
T ss_dssp             -----------------TTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             -----------------HhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCC
Confidence                             234456778888888888855556678889999999999999988888899999999999999


Q ss_pred             CccCCCCcccccCCCCCCEEeCCCCcceecCC
Q 040109          452 NHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       452 N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                      |++++..+..|..+++|++|++++|++.+..+
T Consensus       138 N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~  169 (220)
T 2v9t_B          138 NKLQTIAKGTFSPLRAIQTMHLAQNPFICDCH  169 (220)
T ss_dssp             SCCSCCCTTTTTTCTTCCEEECCSSCEECSGG
T ss_pred             CcCCEECHHHHhCCCCCCEEEeCCCCcCCCCc
Confidence            99988777788889999999999999886544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.79  E-value=2.5e-19  Score=183.67  Aligned_cols=176  Identities=24%  Similarity=0.225  Sum_probs=88.4

Q ss_pred             cEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch-hhc-CCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCC
Q 040109          268 DHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLG-NMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL  345 (598)
Q Consensus       268 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~-~l~-~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L  345 (598)
                      +.++++++.++ .+|..+.  +.++.|+|++|++++++. .+. .+++|+.|+|++|++++..+..|..++       +|
T Consensus        21 ~~l~c~~~~l~-~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~-------~L   90 (361)
T 2xot_A           21 NILSCSKQQLP-NVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVP-------NL   90 (361)
T ss_dssp             TEEECCSSCCS-SCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCT-------TC
T ss_pred             CEEEeCCCCcC-ccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCC-------CC
Confidence            45566666655 2443332  345666666666665433 333 556666666666666655555555554       55


Q ss_pred             CEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEEC
Q 040109          346 EWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNL  425 (598)
Q Consensus       346 ~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~L  425 (598)
                      +.|+|++|++++..+.                           .+..+++|+.|+|++|+|++..|..|..+++|+.|+|
T Consensus        91 ~~L~Ls~N~l~~~~~~---------------------------~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L  143 (361)
T 2xot_A           91 RYLDLSSNHLHTLDEF---------------------------LFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYL  143 (361)
T ss_dssp             CEEECCSSCCCEECTT---------------------------TTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEEECCCCcCCcCCHH---------------------------HhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEEC
Confidence            5555555555532221                           1223444555555555555444555555555555555


Q ss_pred             cCCcCcccCCccc---CCCCCCCeeeCCCCccCCCCcccccCCCC--CCEEeCCCCccee
Q 040109          426 SNNNLTGQITPRI---GQLKSLDFLDLSINHFFGGIPSSLSRLRL--LSVMDLSYNNFSG  480 (598)
Q Consensus       426 s~N~l~~~~p~~l---~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~--L~~L~ls~N~l~~  480 (598)
                      ++|++++..+..|   ..+++|+.|||++|++++..+..+..++.  |+.|++++|++.+
T Consensus       144 ~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~~C  203 (361)
T 2xot_A          144 SQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLEC  203 (361)
T ss_dssp             CSSCCCSCCGGGTC----CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCSSCEEC
T ss_pred             CCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEecCCCccC
Confidence            5555553222222   34555555555555555433344444444  2445555555543

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.78  E-value=1.4e-18  Score=163.48  Aligned_cols=69  Identities=23%  Similarity=0.398  Sum_probs=29.3

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch-hhcCCCCCcEEEcccCcCccchhhhhhhc
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNV  335 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~-~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l  335 (598)
                      |++|++++|.+++..+..+..+++|++|++++|+++++|. .+..+++|++|++++|.+++..+..+..+
T Consensus        78 L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l  147 (208)
T 2o6s_A           78 LTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRL  147 (208)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTC
T ss_pred             cCEEECCCCcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccC
Confidence            4444444444443333334444444444444444444332 23444444444444444444333333333

>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=99.78  E-value=8.7e-19  Score=166.32  Aligned_cols=159  Identities=21%  Similarity=0.163  Sum_probs=137.3

Q ss_pred             CcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccc
Q 040109          314 LKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSIL  393 (598)
Q Consensus       314 L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l  393 (598)
                      -+.+++++|.++.. |..+..         .++.|++++|.+++..|.                          ..+..+
T Consensus        13 ~~~l~~s~n~l~~i-P~~~~~---------~~~~L~L~~N~l~~~~~~--------------------------~~~~~l   56 (220)
T 2v70_A           13 GTTVDCSNQKLNKI-PEHIPQ---------YTAELRLNNNEFTVLEAT--------------------------GIFKKL   56 (220)
T ss_dssp             TTEEECCSSCCSSC-CSCCCT---------TCSEEECCSSCCCEECCC--------------------------CCGGGC
T ss_pred             CCEeEeCCCCcccC-ccCCCC---------CCCEEEcCCCcCCccCch--------------------------hhhccC
Confidence            36899999999864 443322         689999999999865432                          234568


Q ss_pred             cccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeC
Q 040109          394 GLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL  473 (598)
Q Consensus       394 ~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  473 (598)
                      ++|+.|+|++|++++..+..|.++++|++|+|++|++++..+..|..+++|++|+|++|++++..|..|..+++|++|++
T Consensus        57 ~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  136 (220)
T 2v70_A           57 PQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSL  136 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEEC
T ss_pred             CCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEEC
Confidence            89999999999999888889999999999999999999888888999999999999999999998999999999999999


Q ss_pred             CCCcceecCCCC-CccCccCCCccCCCCCCCCCCCC
Q 040109          474 SYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       474 s~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~~~  508 (598)
                      ++|++++..|.. ..++++..+.+.+||+.|+|++.
T Consensus       137 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c~l~  172 (220)
T 2v70_A          137 YDNQITTVAPGAFDTLHSLSTLNLLANPFNCNCYLA  172 (220)
T ss_dssp             TTSCCCCBCTTTTTTCTTCCEEECCSCCEECSGGGH
T ss_pred             CCCcCCEECHHHhcCCCCCCEEEecCcCCcCCCchH
Confidence            999999877765 46788899999999999998753

>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=99.78  E-value=3e-18  Score=169.99  Aligned_cols=167  Identities=23%  Similarity=0.308  Sum_probs=109.1

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE  346 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~  346 (598)
                      ++.|++++|.+... + .+..+++|++|++++|++++++. +..+++|+.|++++|.+.+. + .+..++       +|+
T Consensus        48 L~~L~l~~~~i~~~-~-~~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~-~-~l~~l~-------~L~  115 (291)
T 1h6t_A           48 IDQIIANNSDIKSV-Q-GIQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKDL-S-SLKDLK-------KLK  115 (291)
T ss_dssp             CCEEECTTSCCCCC-T-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCG-G-GGTTCT-------TCC
T ss_pred             ccEEEccCCCcccC-h-hHhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCCcCCCC-h-hhccCC-------CCC
Confidence            55555555555432 2 25555666666666666666544 55666666666666666542 2 244444       666


Q ss_pred             EEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECc
Q 040109          347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS  426 (598)
Q Consensus       347 ~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls  426 (598)
                      .|++++|.+++. +                            .+..+++|+.|++++|++++.  ..+..+++|+.|+++
T Consensus       116 ~L~L~~n~i~~~-~----------------------------~l~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~L~  164 (291)
T 1h6t_A          116 SLSLEHNGISDI-N----------------------------GLVHLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLE  164 (291)
T ss_dssp             EEECTTSCCCCC-G----------------------------GGGGCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECC
T ss_pred             EEECCCCcCCCC-h----------------------------hhcCCCCCCEEEccCCcCCcc--hhhccCCCCCEEEcc
Confidence            666666666531 1                            123456677777777777743  567788888888888


Q ss_pred             CCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCccee
Q 040109          427 NNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       427 ~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      +|++++..|  +..+++|++|++++|++++ +| .+..+++|+.|++++|+++.
T Consensus       165 ~N~l~~~~~--l~~l~~L~~L~L~~N~i~~-l~-~l~~l~~L~~L~l~~n~i~~  214 (291)
T 1h6t_A          165 DNQISDIVP--LAGLTKLQNLYLSKNHISD-LR-ALAGLKNLDVLELFSQECLN  214 (291)
T ss_dssp             SSCCCCCGG--GTTCTTCCEEECCSSCCCB-CG-GGTTCTTCSEEEEEEEEEEC
T ss_pred             CCccccchh--hcCCCccCEEECCCCcCCC-Ch-hhccCCCCCEEECcCCcccC
Confidence            888885444  7888888888888888875 44 47888888888888888863

>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=99.78  E-value=7.2e-19  Score=174.44  Aligned_cols=170  Identities=26%  Similarity=0.385  Sum_probs=129.9

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV  318 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  318 (598)
                      ++|+.|++++|.++..  +.+..+++  |+.|++++|.+++..+  +..+++|++|++++|.++++|. +..+++|++|+
T Consensus        46 ~~L~~L~l~~~~i~~~--~~~~~l~~--L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~  118 (291)
T 1h6t_A           46 NSIDQIIANNSDIKSV--QGIQYLPN--VTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLS  118 (291)
T ss_dssp             HTCCEEECTTSCCCCC--TTGGGCTT--CCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEEE
T ss_pred             CcccEEEccCCCcccC--hhHhcCCC--CCEEEccCCccCCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCEEE
Confidence            6677777777777643  23666666  7788888887775444  7788888888888888887664 77888888888


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +++|.+.+.  ..+..++       +|+.|++++|.+++.                             ..+..+++|+.
T Consensus       119 L~~n~i~~~--~~l~~l~-------~L~~L~l~~n~l~~~-----------------------------~~l~~l~~L~~  160 (291)
T 1h6t_A          119 LEHNGISDI--NGLVHLP-------QLESLYLGNNKITDI-----------------------------TVLSRLTKLDT  160 (291)
T ss_dssp             CTTSCCCCC--GGGGGCT-------TCCEEECCSSCCCCC-----------------------------GGGGGCTTCSE
T ss_pred             CCCCcCCCC--hhhcCCC-------CCCEEEccCCcCCcc-----------------------------hhhccCCCCCE
Confidence            888888764  3466666       788888888887742                             12345778899


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCC
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGG  457 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  457 (598)
                      |++++|++++..+  +..+++|+.|++++|++++ ++ .+..+++|+.|++++|+++..
T Consensus       161 L~L~~N~l~~~~~--l~~l~~L~~L~L~~N~i~~-l~-~l~~l~~L~~L~l~~n~i~~~  215 (291)
T 1h6t_A          161 LSLEDNQISDIVP--LAGLTKLQNLYLSKNHISD-LR-ALAGLKNLDVLELFSQECLNK  215 (291)
T ss_dssp             EECCSSCCCCCGG--GTTCTTCCEEECCSSCCCB-CG-GGTTCTTCSEEEEEEEEEECC
T ss_pred             EEccCCccccchh--hcCCCccCEEECCCCcCCC-Ch-hhccCCCCCEEECcCCcccCC
Confidence            9999999986544  8899999999999999985 44 488999999999999998753

>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=99.77  E-value=2.4e-18  Score=164.37  Aligned_cols=156  Identities=23%  Similarity=0.216  Sum_probs=124.3

Q ss_pred             ccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcc
Q 040109          291 LRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLM  370 (598)
Q Consensus       291 L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~  370 (598)
                      .+.++.+++.++.+|..+.  ++|++|++++|.+++..|..+..++       +|+.|+|++|.++...+          
T Consensus        21 ~~~v~c~~~~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~-------~L~~L~L~~N~l~~i~~----------   81 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLI-------NLKELYLGSNQLGALPV----------   81 (229)
T ss_dssp             TTEEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCT-------TCCEEECCSSCCCCCCT----------
T ss_pred             CCEeEccCCCcCccCCCCC--CCCCEEEcCCCccCccCHHHhhCcc-------CCcEEECCCCCCCCcCh----------
Confidence            4567777777777776443  6788888888888877777777766       78888888887753322          


Q ss_pred             ccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCC
Q 040109          371 PLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS  450 (598)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls  450 (598)
                                       ..+..+++|+.|+|++|++++..+..|..+++|++|+|++|+++ .+|..+..+++|++|+|+
T Consensus        82 -----------------~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~L~  143 (229)
T 3e6j_A           82 -----------------GVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGIERLTHLTHLALD  143 (229)
T ss_dssp             -----------------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-SCCTTGGGCTTCSEEECC
T ss_pred             -----------------hhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEeccCCccc-ccCcccccCCCCCEEECC
Confidence                             12344667888888888888776777889999999999999998 788889999999999999


Q ss_pred             CCccCCCCcccccCCCCCCEEeCCCCcceecCC
Q 040109          451 INHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       451 ~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                      +|++++..+..+..+++|+.|++++|++.+.++
T Consensus       144 ~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~  176 (229)
T 3e6j_A          144 QNQLKSIPHGAFDRLSSLTHAYLFGNPWDCECR  176 (229)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECTTSCBCTTBG
T ss_pred             CCcCCccCHHHHhCCCCCCEEEeeCCCccCCcc
Confidence            999987777788999999999999999987765

>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=99.77  E-value=8.8e-19  Score=166.26  Aligned_cols=157  Identities=22%  Similarity=0.207  Sum_probs=133.4

Q ss_pred             cEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCccccccccc
Q 040109          315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG  394 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~  394 (598)
                      +.++++++.++..+. .+.         ++|+.|++++|.+++..+.                           .+..++
T Consensus        14 ~~v~c~~~~l~~iP~-~l~---------~~l~~L~l~~n~i~~i~~~---------------------------~~~~l~   56 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPT-NLP---------ETITEIRLEQNTIKVIPPG---------------------------AFSPYK   56 (220)
T ss_dssp             TEEECTTSCCSSCCS-SCC---------TTCCEEECCSSCCCEECTT---------------------------SSTTCT
T ss_pred             CEEEcCCCCcCcCCC-ccC---------cCCCEEECCCCcCCCcCHh---------------------------HhhCCC
Confidence            678999998876533 232         2899999999999864431                           234577


Q ss_pred             ccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCC
Q 040109          395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLS  474 (598)
Q Consensus       395 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls  474 (598)
                      +|+.|+|++|++++..|..|.++++|++|+|++|++++..+..|..+++|++|+|++|++++..|..|..+++|++|+++
T Consensus        57 ~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  136 (220)
T 2v9t_B           57 KLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLY  136 (220)
T ss_dssp             TCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECC
Confidence            89999999999998889999999999999999999996666678999999999999999999989999999999999999


Q ss_pred             CCcceecCCCC-CccCccCCCccCCCCCCCCCCCC
Q 040109          475 YNNFSGKIPKG-TQLQRFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       475 ~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~~~  508 (598)
                      +|++++..+.. ..++++..+.+.+||+.|+|++.
T Consensus       137 ~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~l~  171 (220)
T 2v9t_B          137 DNKLQTIAKGTFSPLRAIQTMHLAQNPFICDCHLK  171 (220)
T ss_dssp             SSCCSCCCTTTTTTCTTCCEEECCSSCEECSGGGH
T ss_pred             CCcCCEECHHHHhCCCCCCEEEeCCCCcCCCCccH
Confidence            99999665542 45788889999999999998753

>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=99.76  E-value=1.1e-17  Score=159.86  Aligned_cols=161  Identities=26%  Similarity=0.255  Sum_probs=129.4

Q ss_pred             CCCCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECC
Q 040109           66 KRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALS  145 (598)
Q Consensus        66 ~~~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls  145 (598)
                      +...|.|.+|.|...                  .+ +.+|..+.  ++|++|+|++|.+++. .|..|..+++|++|+|+
T Consensus        15 ~~~~Cs~~~v~c~~~------------------~l-~~ip~~~~--~~L~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~L~   72 (229)
T 3e6j_A           15 SQCSCSGTTVDCRSK------------------RH-ASVPAGIP--TNAQILYLHDNQITKL-EPGVFDSLINLKELYLG   72 (229)
T ss_dssp             TTCEEETTEEECTTS------------------CC-SSCCSCCC--TTCSEEECCSSCCCCC-CTTTTTTCTTCCEEECC
T ss_pred             CCCEEeCCEeEccCC------------------Cc-CccCCCCC--CCCCEEEcCCCccCcc-CHHHhhCccCCcEEECC
Confidence            667899999999641                  12 23454443  7899999999999985 78889999999999999


Q ss_pred             CCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCC
Q 040109          146 SAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP  225 (598)
Q Consensus       146 ~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~  225 (598)
                      +|.++...+..|..+++|++|+|++|++ .......+..+++|++|++++|+++.+|   ..+..+++|++|++++|+++
T Consensus        73 ~N~l~~i~~~~~~~l~~L~~L~Ls~N~l-~~l~~~~~~~l~~L~~L~Ls~N~l~~lp---~~~~~l~~L~~L~L~~N~l~  148 (229)
T 3e6j_A           73 SNQLGALPVGVFDSLTQLTVLDLGTNQL-TVLPSAVFDRLVHLKELFMCCNKLTELP---RGIERLTHLTHLALDQNQLK  148 (229)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCC-CCCCTTTTTTCTTCCEEECCSSCCCSCC---TTGGGCTTCSEEECCSSCCC
T ss_pred             CCCCCCcChhhcccCCCcCEEECCCCcC-CccChhHhCcchhhCeEeccCCcccccC---cccccCCCCCEEECCCCcCC
Confidence            9999876667789999999999999998 4445556889999999999999999754   56788899999999999988


Q ss_pred             CCCCChhhhccccCCccEEEccCCCCCCCc
Q 040109          226 PISTPSLLHLNYSKSLEVIDLSNNYLTNSI  255 (598)
Q Consensus       226 ~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~  255 (598)
                      +.++..+..+   ++|+.|++++|.+....
T Consensus       149 ~~~~~~~~~l---~~L~~L~l~~N~~~c~c  175 (229)
T 3e6j_A          149 SIPHGAFDRL---SSLTHAYLFGNPWDCEC  175 (229)
T ss_dssp             CCCTTTTTTC---TTCCEEECTTSCBCTTB
T ss_pred             ccCHHHHhCC---CCCCEEEeeCCCccCCc
Confidence            8776444333   78888888888877543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.75  E-value=3.6e-18  Score=174.99  Aligned_cols=175  Identities=24%  Similarity=0.186  Sum_probs=100.0

Q ss_pred             cEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhc-CCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEc
Q 040109          242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFG-HMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVL  319 (598)
Q Consensus       242 ~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~-~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~L  319 (598)
                      +.++++++.++. +|..+..  .  ++.|++++|.+++..+..+. .+++|++|+|++|++++++ ..|.++++|++|+|
T Consensus        21 ~~l~c~~~~l~~-iP~~~~~--~--l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~L   95 (361)
T 2xot_A           21 NILSCSKQQLPN-VPQSLPS--Y--TALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDL   95 (361)
T ss_dssp             TEEECCSSCCSS-CCSSCCT--T--CSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEEEeCCCCcCc-cCccCCC--C--CCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEEC
Confidence            456666666653 4433321  2  56666666666655555555 6666666666666666644 34666666666666


Q ss_pred             ccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceE
Q 040109          320 SYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKII  399 (598)
Q Consensus       320 s~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L  399 (598)
                      ++|++.+..+..|..++       +|+.|+|++|++++..|.                           .+..+++|+.|
T Consensus        96 s~N~l~~~~~~~~~~l~-------~L~~L~L~~N~i~~~~~~---------------------------~~~~l~~L~~L  141 (361)
T 2xot_A           96 SSNHLHTLDEFLFSDLQ-------ALEVLLLYNNHIVVVDRN---------------------------AFEDMAQLQKL  141 (361)
T ss_dssp             CSSCCCEECTTTTTTCT-------TCCEEECCSSCCCEECTT---------------------------TTTTCTTCCEE
T ss_pred             CCCcCCcCCHHHhCCCc-------CCCEEECCCCcccEECHH---------------------------HhCCcccCCEE
Confidence            66666666555555555       666666666666543221                           22335556666


Q ss_pred             eccCCcCCCcCchhh---hcccCCcEEECcCCcCcccCCcccCCCCC--CCeeeCCCCccC
Q 040109          400 DLSSNKLGGEVPEEI---MDLVGLVALNLSNNNLTGQITPRIGQLKS--LDFLDLSINHFF  455 (598)
Q Consensus       400 ~Ls~n~l~~~~p~~l---~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~--L~~L~Ls~N~l~  455 (598)
                      +|++|+|++..+..|   ..+++|+.|+|++|+|++..+..+..++.  ++.|+|++|.+.
T Consensus       142 ~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          142 YLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             ECCSSCCCSCCGGGTC----CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             ECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEecCCCcc
Confidence            666666664333333   45666666666666666444445555554  356666666664

>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=99.75  E-value=3.7e-21  Score=207.92  Aligned_cols=196  Identities=21%  Similarity=0.251  Sum_probs=101.5

Q ss_pred             CCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCC
Q 040109          134 GSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRS  213 (598)
Q Consensus       134 ~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~  213 (598)
                      ..+++|+.|+|++|.++ .+|..++++++|+.|++++|.... ..+..      +     ..+...+  ..+..+..+++
T Consensus       346 ~~~~~L~~L~Ls~n~L~-~Lp~~i~~l~~L~~L~l~~n~~l~-~l~~l------l-----~~~~~~~--~~~~~l~~l~~  410 (567)
T 1dce_A          346 ATDEQLFRCELSVEKST-VLQSELESCKELQELEPENKWCLL-TIILL------M-----RALDPLL--YEKETLQYFST  410 (567)
T ss_dssp             STTTTSSSCCCCHHHHH-HHHHHHHHHHHHHHHCTTCHHHHH-HHHHH------H-----HHHCTGG--GHHHHHHHHHH
T ss_pred             ccCccceeccCChhhHH-hhHHHHHHHHHHHHhccccchhhh-hHHHH------H-----Hhccccc--CCHHHHHHHHh
Confidence            44666667777777665 566667777777777765543100 00000      0     0000111  13345555555


Q ss_pred             CcEEe-ccCcCCCCCCCC-----hhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcC
Q 040109          214 LTTLY-LGHCDLPPISTP-----SLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGH  287 (598)
Q Consensus       214 L~~L~-l~~n~l~~~~~~-----~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~  287 (598)
                      |+.|+ ++.|.+......     .+..... ..|+.|++++|.+++ +|. +..++.  |+.|++++|.++ .+|..++.
T Consensus       411 L~~L~~l~~n~~~~L~~l~l~~n~i~~l~~-~~L~~L~Ls~n~l~~-lp~-~~~l~~--L~~L~Ls~N~l~-~lp~~~~~  484 (567)
T 1dce_A          411 LKAVDPMRAAYLDDLRSKFLLENSVLKMEY-ADVRVLHLAHKDLTV-LCH-LEQLLL--VTHLDLSHNRLR-ALPPALAA  484 (567)
T ss_dssp             HHHHCGGGHHHHHHHHHHHHHHHHHHHHHH-TTCSEEECTTSCCSS-CCC-GGGGTT--CCEEECCSSCCC-CCCGGGGG
T ss_pred             cccCcchhhcccchhhhhhhhcccccccCc-cCceEEEecCCCCCC-CcC-cccccc--CcEeecCccccc-ccchhhhc
Confidence            55555 333322110000     0000011 345666666666654 343 555555  666666666666 55566666


Q ss_pred             CCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccch-hhhhhhcCCCCCCCCCCCEEEccCcccccc
Q 040109          288 MASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGEL-SEFIQNVSSGSTKNSSLEWLYLASNEITGT  358 (598)
Q Consensus       288 l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~  358 (598)
                      +++|++|+|++|.++++| .+..+++|+.|+|++|.+++.. |..+..++       +|+.|++++|.+++.
T Consensus       485 l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~-------~L~~L~L~~N~l~~~  548 (567)
T 1dce_A          485 LRCLEVLQASDNALENVD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCP-------RLVLLNLQGNSLCQE  548 (567)
T ss_dssp             CTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCT-------TCCEEECTTSGGGGS
T ss_pred             CCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCC-------CCCEEEecCCcCCCC
Confidence            666666666666666665 5666666666666666666554 55555555       566666666665543

>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=99.75  E-value=3.8e-18  Score=185.52  Aligned_cols=17  Identities=18%  Similarity=0.395  Sum_probs=7.5

Q ss_pred             CCCCCcEEeccCcCCCC
Q 040109          210 NLRSLTTLYLGHCDLPP  226 (598)
Q Consensus       210 ~l~~L~~L~l~~n~l~~  226 (598)
                      .+++|+.|++++|.+..
T Consensus        41 ~L~~L~~L~l~~n~i~~   57 (605)
T 1m9s_A           41 ELNSIDQIIANNSDIKS   57 (605)
T ss_dssp             HHTTCCCCBCTTCCCCC
T ss_pred             cCCCCCEEECcCCCCCC
Confidence            34444444444444443

>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=99.75  E-value=3e-18  Score=186.32  Aligned_cols=172  Identities=25%  Similarity=0.340  Sum_probs=82.7

Q ss_pred             cCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCC
Q 040109          109 LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSL  188 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L  188 (598)
                      ..+++|+.|++++|.+..  ++ .+..+++|++|+|++|.+++..|  +..+++|++|+|++|.+..   ++.+..+++|
T Consensus        40 ~~L~~L~~L~l~~n~i~~--l~-~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~---l~~l~~l~~L  111 (605)
T 1m9s_A           40 NELNSIDQIIANNSDIKS--VQ-GIQYLPNVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENKIKD---LSSLKDLKKL  111 (605)
T ss_dssp             HHHTTCCCCBCTTCCCCC--CT-TGGGCTTCCEEECTTSCCCCCGG--GGGCTTCCEEECCSSCCCC---CTTSTTCTTC
T ss_pred             hcCCCCCEEECcCCCCCC--Ch-HHccCCCCCEEEeeCCCCCCChh--hccCCCCCEEECcCCCCCC---ChhhccCCCC
Confidence            345555555555555543  22 34555555555555555553332  5555555555555555411   1234455555


Q ss_pred             CEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCcc
Q 040109          189 RYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD  268 (598)
Q Consensus       189 ~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~  268 (598)
                      ++|+|++|.+..+    ..+..+++|+.|++++|.+++.                             +.+..++.  |+
T Consensus       112 ~~L~Ls~N~l~~l----~~l~~l~~L~~L~Ls~N~l~~l-----------------------------~~l~~l~~--L~  156 (605)
T 1m9s_A          112 KSLSLEHNGISDI----NGLVHLPQLESLYLGNNKITDI-----------------------------TVLSRLTK--LD  156 (605)
T ss_dssp             CEEECTTSCCCCC----GGGGGCTTCSEEECCSSCCCCC-----------------------------GGGGSCTT--CS
T ss_pred             CEEEecCCCCCCC----ccccCCCccCEEECCCCccCCc-----------------------------hhhcccCC--CC
Confidence            5555555554443    1233444444444444444332                             23333344  44


Q ss_pred             EEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCcc
Q 040109          269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       269 ~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      .|+|++|.+++..|  +..+++|+.|+|++|.++++| .+..+++|+.|+|++|++.+
T Consensus       157 ~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          157 TLSLEDNQISDIVP--LAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFSQECLN  211 (605)
T ss_dssp             EEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCBCG-GGTTCTTCSEEECCSEEEEC
T ss_pred             EEECcCCcCCCchh--hccCCCCCEEECcCCCCCCCh-HHccCCCCCEEEccCCcCcC
Confidence            44444444444333  445555555555555555543 34455555555555555543

>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=99.74  E-value=8.8e-18  Score=156.55  Aligned_cols=154  Identities=19%  Similarity=0.248  Sum_probs=113.4

Q ss_pred             cCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCC
Q 040109          286 GHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGF  365 (598)
Q Consensus       286 ~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l  365 (598)
                      ..+++|++|++++|.++.+| .+..+++|++|++++|.+...  ..+..++       +|++|++++|.+++..|.    
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n~~~~~--~~l~~l~-------~L~~L~l~~n~l~~~~~~----  106 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLT-GIEYAHNIKDLTINNIHATNY--NPISGLS-------NLERLRIMGKDVTSDKIP----  106 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCT-TGGGCTTCSEEEEESCCCSCC--GGGTTCT-------TCCEEEEECTTCBGGGSC----
T ss_pred             hhcCCccEEeccCCCccChH-HHhcCCCCCEEEccCCCCCcc--hhhhcCC-------CCCEEEeECCccCcccCh----
Confidence            44566777777777777666 566777777777777755432  2455555       777777777777653321    


Q ss_pred             CcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCc-CcccCCcccCCCCCC
Q 040109          366 PGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNN-LTGQITPRIGQLKSL  444 (598)
Q Consensus       366 ~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~~~p~~l~~l~~L  444 (598)
                                             .++.+++|++|++++|++++..|..+..+++|++|++++|+ ++ .+| .+..+++|
T Consensus       107 -----------------------~l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~-~~~-~l~~l~~L  161 (197)
T 4ezg_A          107 -----------------------NLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAIT-DIM-PLKTLPEL  161 (197)
T ss_dssp             -----------------------CCTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCC-CCG-GGGGCSSC
T ss_pred             -----------------------hhcCCCCCCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCcc-ccH-hhcCCCCC
Confidence                                   23346678888888888887788889999999999999998 55 566 68899999


Q ss_pred             CeeeCCCCccCCCCcccccCCCCCCEEeCCCCccee
Q 040109          445 DFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       445 ~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      ++|++++|++++ ++ .+..+++|+.|++++|++.+
T Consensus       162 ~~L~l~~n~i~~-~~-~l~~l~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          162 KSLNIQFDGVHD-YR-GIEDFPKLNQLYAFSQTIGG  195 (197)
T ss_dssp             CEEECTTBCCCC-CT-TGGGCSSCCEEEECBC----
T ss_pred             CEEECCCCCCcC-hH-HhccCCCCCEEEeeCcccCC
Confidence            999999999985 43 78889999999999998753

>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=99.74  E-value=4.7e-18  Score=157.64  Aligned_cols=115  Identities=22%  Similarity=0.288  Sum_probs=79.6

Q ss_pred             cccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEE
Q 040109          392 ILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVM  471 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L  471 (598)
                      .+++|++|+|++|++++..|..|.++++|++|+|++|++++..+..|.++++|++|+|++|++++..|..+..+++|++|
T Consensus        52 ~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  131 (192)
T 1w8a_A           52 RLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSL  131 (192)
T ss_dssp             GCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEE
T ss_pred             cCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEE
Confidence            34456666666666666667777788888888888888887777778888888888888888887777788888888888


Q ss_pred             eCCCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          472 DLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       472 ~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      ++++|++.|.++.......+....+.++...|+.|
T Consensus       132 ~L~~N~l~c~c~l~~~~~~l~~~~~~~~~~~C~~P  166 (192)
T 1w8a_A          132 NLASNPFNCNCHLAWFAEWLRKKSLNGGAARCGAP  166 (192)
T ss_dssp             ECTTCCBCCSGGGHHHHHHHHHHCCSGGGCBBCSS
T ss_pred             EeCCCCccCcCcchHHHHHHHHcCCCCCCCCCCCC
Confidence            88888887766543222222223344444445433

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.73  E-value=7.3e-18  Score=164.55  Aligned_cols=167  Identities=20%  Similarity=0.301  Sum_probs=116.5

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE  346 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~  346 (598)
                      +..++++++.+++..  .+..+++|++|++++|.++.+| .+..+++|+.|++++|++++..+  +..++       +|+
T Consensus        21 l~~l~l~~~~i~~~~--~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~--l~~l~-------~L~   88 (263)
T 1xeu_A           21 AVKQNLGKQSVTDLV--SQKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQISDLSP--LKDLT-------KLE   88 (263)
T ss_dssp             HHHHHHTCSCTTSEE--CHHHHTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCS-------SCC
T ss_pred             HHHHHhcCCCccccc--chhhcCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCccCCChh--hccCC-------CCC
Confidence            444555666655332  3556666777777777776666 46667777777777777766554  55555       677


Q ss_pred             EEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECc
Q 040109          347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLS  426 (598)
Q Consensus       347 ~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls  426 (598)
                      .|++++|++++ +|.+                            .. ++|+.|++++|++++ ++ .+..+++|+.|+++
T Consensus        89 ~L~L~~N~l~~-l~~~----------------------------~~-~~L~~L~L~~N~l~~-~~-~l~~l~~L~~L~Ls  136 (263)
T 1xeu_A           89 ELSVNRNRLKN-LNGI----------------------------PS-ACLSRLFLDNNELRD-TD-SLIHLKNLEILSIR  136 (263)
T ss_dssp             EEECCSSCCSC-CTTC----------------------------CC-SSCCEEECCSSCCSB-SG-GGTTCTTCCEEECT
T ss_pred             EEECCCCccCC-cCcc----------------------------cc-CcccEEEccCCccCC-Ch-hhcCcccccEEECC
Confidence            77777777664 2211                            01 467888888888874 33 57888888888888


Q ss_pred             CCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceec
Q 040109          427 NNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGK  481 (598)
Q Consensus       427 ~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~  481 (598)
                      +|++++. + .+..+++|++|++++|++++.  ..+..+++|+.|++++|++++.
T Consensus       137 ~N~i~~~-~-~l~~l~~L~~L~L~~N~i~~~--~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          137 NNKLKSI-V-MLGFLSKLEVLDLHGNEITNT--GGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             TSCCCBC-G-GGGGCTTCCEEECTTSCCCBC--TTSTTCCCCCEEEEEEEEEECC
T ss_pred             CCcCCCC-h-HHccCCCCCEEECCCCcCcch--HHhccCCCCCEEeCCCCcccCC
Confidence            8888853 4 678888888888888888765  6678888888888888888744

>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=99.71  E-value=7.6e-20  Score=197.66  Aligned_cols=216  Identities=19%  Similarity=0.125  Sum_probs=120.6

Q ss_pred             cCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhc
Q 040109          183 SYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV  262 (598)
Q Consensus       183 ~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  262 (598)
                      ..+++|+.|+|++|.++.   +|..++.+++|++|++++|..         .......+     ..+...+..|..+..+
T Consensus       346 ~~~~~L~~L~Ls~n~L~~---Lp~~i~~l~~L~~L~l~~n~~---------l~~l~~ll-----~~~~~~~~~~~~l~~l  408 (567)
T 1dce_A          346 ATDEQLFRCELSVEKSTV---LQSELESCKELQELEPENKWC---------LLTIILLM-----RALDPLLYEKETLQYF  408 (567)
T ss_dssp             STTTTSSSCCCCHHHHHH---HHHHHHHHHHHHHHCTTCHHH---------HHHHHHHH-----HHHCTGGGHHHHHHHH
T ss_pred             ccCccceeccCChhhHHh---hHHHHHHHHHHHHhccccchh---------hhhHHHHH-----HhcccccCCHHHHHHH
Confidence            567888889999988875   678888999999998866531         00000000     1122334566666776


Q ss_pred             CccCccEEE-ccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCC
Q 040109          263 SSNLVDHID-LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTK  341 (598)
Q Consensus       263 ~~~~L~~L~-L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~  341 (598)
                      ++  |+.|+ ++.|.+.           .|+.+.+++|.++.+|.     ..|+.|++++|.+++. |. +..++     
T Consensus       409 ~~--L~~L~~l~~n~~~-----------~L~~l~l~~n~i~~l~~-----~~L~~L~Ls~n~l~~l-p~-~~~l~-----  463 (567)
T 1dce_A          409 ST--LKAVDPMRAAYLD-----------DLRSKFLLENSVLKMEY-----ADVRVLHLAHKDLTVL-CH-LEQLL-----  463 (567)
T ss_dssp             HH--HHHHCGGGHHHHH-----------HHHHHHHHHHHHHHHHH-----TTCSEEECTTSCCSSC-CC-GGGGT-----
T ss_pred             Hh--cccCcchhhcccc-----------hhhhhhhhcccccccCc-----cCceEEEecCCCCCCC-cC-ccccc-----
Confidence            66  77666 4444332           33444455555544432     2466777777777653 33 55555     


Q ss_pred             CCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCc
Q 040109          342 NSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLV  421 (598)
Q Consensus       342 ~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~  421 (598)
                        +|+.|+|++|.++ .+|                           ..++.+++|+.|+|++|+|++ +| .++.+++|+
T Consensus       464 --~L~~L~Ls~N~l~-~lp---------------------------~~~~~l~~L~~L~Ls~N~l~~-lp-~l~~l~~L~  511 (567)
T 1dce_A          464 --LVTHLDLSHNRLR-ALP---------------------------PALAALRCLEVLQASDNALEN-VD-GVANLPRLQ  511 (567)
T ss_dssp             --TCCEEECCSSCCC-CCC---------------------------GGGGGCTTCCEEECCSSCCCC-CG-GGTTCSSCC
T ss_pred             --cCcEeecCccccc-ccc---------------------------hhhhcCCCCCEEECCCCCCCC-Cc-ccCCCCCCc
Confidence              5555555555554 222                           112334445555555555553 44 555666666


Q ss_pred             EEECcCCcCcccC-CcccCCCCCCCeeeCCCCccCCCCcc---cccCCCCCCEEe
Q 040109          422 ALNLSNNNLTGQI-TPRIGQLKSLDFLDLSINHFFGGIPS---SLSRLRLLSVMD  472 (598)
Q Consensus       422 ~L~Ls~N~l~~~~-p~~l~~l~~L~~L~Ls~N~l~~~~p~---~l~~l~~L~~L~  472 (598)
                      .|+|++|++++.. |..++.+++|+.|+|++|++++..|.   .+..+++|+.|+
T Consensus       512 ~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          512 ELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             EEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             EEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence            6666666666544 55666666666666666666544332   123355565554

>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=99.70  E-value=5.8e-17  Score=150.93  Aligned_cols=148  Identities=16%  Similarity=0.171  Sum_probs=77.7

Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLE  346 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~  346 (598)
                      ++.|++++|.++ .+| .+..+++|++|++++|.++.++ .+..+++|++|++++|.+++..+..+..++       +|+
T Consensus        46 L~~L~l~~n~i~-~l~-~l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~-------~L~  115 (197)
T 4ezg_A           46 LTYITLANINVT-DLT-GIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLT-------SLT  115 (197)
T ss_dssp             CCEEEEESSCCS-CCT-TGGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCT-------TCC
T ss_pred             ccEEeccCCCcc-ChH-HHhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCC-------CCC
Confidence            444444444444 223 3444445555555555444332 344455555555555555444444444444       455


Q ss_pred             EEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCc-CCCcCchhhhcccCCcEEEC
Q 040109          347 WLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNK-LGGEVPEEIMDLVGLVALNL  425 (598)
Q Consensus       347 ~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~p~~l~~l~~L~~L~L  425 (598)
                      +|++++|.+++..|                           ..+..+++|++|++++|. ++ .+| .+..+++|+.|++
T Consensus       116 ~L~Ls~n~i~~~~~---------------------------~~l~~l~~L~~L~L~~n~~i~-~~~-~l~~l~~L~~L~l  166 (197)
T 4ezg_A          116 LLDISHSAHDDSIL---------------------------TKINTLPKVNSIDLSYNGAIT-DIM-PLKTLPELKSLNI  166 (197)
T ss_dssp             EEECCSSBCBGGGH---------------------------HHHTTCSSCCEEECCSCTBCC-CCG-GGGGCSSCCEEEC
T ss_pred             EEEecCCccCcHhH---------------------------HHHhhCCCCCEEEccCCCCcc-ccH-hhcCCCCCCEEEC
Confidence            55555555443211                           122334456666666665 43 444 5677777777788


Q ss_pred             cCCcCcccCCcccCCCCCCCeeeCCCCccC
Q 040109          426 SNNNLTGQITPRIGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       426 s~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  455 (598)
                      ++|++++ ++ .+..+++|++|++++|++.
T Consensus       167 ~~n~i~~-~~-~l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          167 QFDGVHD-YR-GIEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             TTBCCCC-CT-TGGGCSSCCEEEECBC---
T ss_pred             CCCCCcC-hH-HhccCCCCCEEEeeCcccC
Confidence            7777774 33 5677777888888877764

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.70  E-value=2.4e-17  Score=160.86  Aligned_cols=168  Identities=20%  Similarity=0.301  Sum_probs=113.4

Q ss_pred             CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEc
Q 040109          240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVL  319 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L  319 (598)
                      ++..++++++.+++. + .+..++.  |+.|++++|.++. ++ .+..+++|++|++++|+++++|. +..+++|+.|++
T Consensus        20 ~l~~l~l~~~~i~~~-~-~~~~l~~--L~~L~l~~n~i~~-l~-~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L   92 (263)
T 1xeu_A           20 NAVKQNLGKQSVTDL-V-SQKELSG--VQNFNGDNSNIQS-LA-GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSV   92 (263)
T ss_dssp             HHHHHHHTCSCTTSE-E-CHHHHTT--CSEEECTTSCCCC-CT-TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEEC
T ss_pred             HHHHHHhcCCCcccc-c-chhhcCc--CcEEECcCCCccc-ch-HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEEC
Confidence            344445555555432 2 3445555  6666666666653 33 46666777777777777777665 667777777777


Q ss_pred             ccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceE
Q 040109          320 SYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKII  399 (598)
Q Consensus       320 s~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L  399 (598)
                      ++|++++..+.  .. .       +|+.|++++|.+++. +                            .+..+++|+.|
T Consensus        93 ~~N~l~~l~~~--~~-~-------~L~~L~L~~N~l~~~-~----------------------------~l~~l~~L~~L  133 (263)
T 1xeu_A           93 NRNRLKNLNGI--PS-A-------CLSRLFLDNNELRDT-D----------------------------SLIHLKNLEIL  133 (263)
T ss_dssp             CSSCCSCCTTC--CC-S-------SCCEEECCSSCCSBS-G----------------------------GGTTCTTCCEE
T ss_pred             CCCccCCcCcc--cc-C-------cccEEEccCCccCCC-h----------------------------hhcCcccccEE
Confidence            77777653221  11 2       677788887777642 1                            13446678888


Q ss_pred             eccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCC
Q 040109          400 DLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGG  457 (598)
Q Consensus       400 ~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  457 (598)
                      ++++|++++ ++ .+..+++|+.|++++|++++.  ..+..+++|+.|++++|.+++.
T Consensus       134 ~Ls~N~i~~-~~-~l~~l~~L~~L~L~~N~i~~~--~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          134 SIRNNKLKS-IV-MLGFLSKLEVLDLHGNEITNT--GGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             ECTTSCCCB-CG-GGGGCTTCCEEECTTSCCCBC--TTSTTCCCCCEEEEEEEEEECC
T ss_pred             ECCCCcCCC-Ch-HHccCCCCCEEECCCCcCcch--HHhccCCCCCEEeCCCCcccCC
Confidence            888888874 34 688889999999999999865  6788889999999999998755

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.69  E-value=5.7e-18  Score=188.70  Aligned_cols=263  Identities=20%  Similarity=0.162  Sum_probs=126.7

Q ss_pred             cCCcHHHHHHHHHHHhcCCC-CCCCCCCCCCCCCCCCCCCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCC
Q 040109           33 ISCLDEEKEALLAFKQGLID-ESGILSSWGREDEKRNCCKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKL  111 (598)
Q Consensus        33 ~~~~~~~~~~l~~~k~~~~~-~~~~l~~W~~~~~~~~~c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l  111 (598)
                      .+..+.++.+++++..+... ....-..|..  .....+.|.++.++.  ++++.+++.+      +.+.. .+..+...
T Consensus       127 ~s~~~~~~~~l~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~s~--~~~~~l~L~~------n~~~~-~~~~~l~~  195 (727)
T 4b8c_D          127 KSLVDCTKQALMEMADTLTDSKTAKKQQPTG--DSTPSGTATNSAVST--PLTPKIELFA------NGKDE-ANQALLQH  195 (727)
T ss_dssp             -----CCCHHHHHHHHHHHHHHTTC-------------------------------------------------------
T ss_pred             hhccccchhhhhhhhhhcccccCcccCCCcC--CCCccccCCCceecC--CccceEEeeC------CCCCc-chhhHhhc
Confidence            34567788899998877641 1122345642  345567898888853  6788999876      44543 34433333


Q ss_pred             CCCCEEE-----CcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCC
Q 040109          112 QHLTYLD-----LSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLS  186 (598)
Q Consensus       112 ~~L~~L~-----Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~  186 (598)
                      ..|+.+.     ++.|.+.  ..+..+..+++|++|+|++|.+. .+|..+.++++|++|+|++|.+.  ..+..+.+++
T Consensus       196 l~Ls~~~i~~~~~~~n~~~--~~~~~~~~l~~L~~L~Ls~n~l~-~l~~~~~~l~~L~~L~Ls~N~l~--~lp~~~~~l~  270 (727)
T 4b8c_D          196 KKLSQYSIDEDDDIENRMV--MPKDSKYDDQLWHALDLSNLQIF-NISANIFKYDFLTRLYLNGNSLT--ELPAEIKNLS  270 (727)
T ss_dssp             ----------------------------CCCCCCEEECTTSCCS-CCCGGGGGCCSCSCCBCTTSCCS--CCCGGGGGGT
T ss_pred             CccCcccccCcccccccee--cChhhhccCCCCcEEECCCCCCC-CCChhhcCCCCCCEEEeeCCcCc--ccChhhhCCC
Confidence            3333332     3333333  25777888999999999999998 77777889999999999999983  4556789999


Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccC
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL  266 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~  266 (598)
                      +|++|+|++|.++.+   |..+..+++|++|+|++|.++.++.. +..  + ++|+.|+|++|.+++.+|..+...... 
T Consensus       271 ~L~~L~Ls~N~l~~l---p~~~~~l~~L~~L~L~~N~l~~lp~~-~~~--l-~~L~~L~L~~N~l~~~~p~~~~~~~~~-  342 (727)
T 4b8c_D          271 NLRVLDLSHNRLTSL---PAELGSCFQLKYFYFFDNMVTTLPWE-FGN--L-CNLQFLGVEGNPLEKQFLKILTEKSVT-  342 (727)
T ss_dssp             TCCEEECTTSCCSSC---CSSGGGGTTCSEEECCSSCCCCCCSS-TTS--C-TTCCCEECTTSCCCSHHHHHHHHHHHH-
T ss_pred             CCCEEeCcCCcCCcc---ChhhcCCCCCCEEECCCCCCCccChh-hhc--C-CCccEEeCCCCccCCCChHHHhhcchh-
Confidence            999999999999865   45688899999999999999866442 332  2 899999999999998888887665321 


Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccC--------CCCC-cchhhcCCCCCcEEEcccCcCc
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN--------RLRE-VPKFLGNMSSLKMLVLSYNELR  325 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n--------~l~~-lp~~l~~l~~L~~L~Ls~n~l~  325 (598)
                      ...+++++|.+++.+|.      .|+.|+++.|        .+.+ .+..+..+..+....+++|-+.
T Consensus       343 ~~~l~l~~N~l~~~~p~------~l~~l~l~~n~~~~~~~~~l~~~~~~~~~~l~~~~~~~ls~Nil~  404 (727)
T 4b8c_D          343 GLIFYLRDNRPEIPLPH------ERRFIEINTDGEPQREYDSLQQSTEHLATDLAKRTFTVLSYNTLC  404 (727)
T ss_dssp             HHHHHHHHCCCCCCCCC------C-----------------------------------------CCC
T ss_pred             hhHHhhccCcccCcCcc------ccceeEeecccccccccCCccccccchhhcccccceeeeeccccc
Confidence            33478889999888775      4556666666        2222 2233445566666777777664

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.68  E-value=1.2e-17  Score=185.98  Aligned_cols=181  Identities=20%  Similarity=0.218  Sum_probs=96.4

Q ss_pred             cchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhh
Q 040109          255 IYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQN  334 (598)
Q Consensus       255 ~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~  334 (598)
                      .+..+..+..  |+.|+|++|.+. .+|..+..+++|++|+|++|.++.+|..+..+++|++|+|++|.++ .+|..+..
T Consensus       216 ~~~~~~~l~~--L~~L~Ls~n~l~-~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~  291 (727)
T 4b8c_D          216 PKDSKYDDQL--WHALDLSNLQIF-NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLT-SLPAELGS  291 (727)
T ss_dssp             ------CCCC--CCEEECTTSCCS-CCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCS-SCCSSGGG
T ss_pred             ChhhhccCCC--CcEEECCCCCCC-CCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCC-ccChhhcC
Confidence            3455566666  777777777776 5555566777777777777777777777777777777777777777 44666666


Q ss_pred             cCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhh
Q 040109          335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI  414 (598)
Q Consensus       335 l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l  414 (598)
                      +.       +|++|+|++|.++ .+|.                           .++.+++|+.|+|++|.+++.+|..+
T Consensus       292 l~-------~L~~L~L~~N~l~-~lp~---------------------------~~~~l~~L~~L~L~~N~l~~~~p~~~  336 (727)
T 4b8c_D          292 CF-------QLKYFYFFDNMVT-TLPW---------------------------EFGNLCNLQFLGVEGNPLEKQFLKIL  336 (727)
T ss_dssp             GT-------TCSEEECCSSCCC-CCCS---------------------------STTSCTTCCCEECTTSCCCSHHHHHH
T ss_pred             CC-------CCCEEECCCCCCC-ccCh---------------------------hhhcCCCccEEeCCCCccCCCChHHH
Confidence            66       7777777777765 3332                           13445667777888888777777776


Q ss_pred             hcccC-CcEEECcCCcCcccCCcccCCCCCCCeeeCCCC--------ccCCCCcccccCCCCCCEEeCCCCccee
Q 040109          415 MDLVG-LVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN--------HFFGGIPSSLSRLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       415 ~~l~~-L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N--------~l~~~~p~~l~~l~~L~~L~ls~N~l~~  480 (598)
                      ..+.. +..|+|++|.+++.+|.      .|+.|++++|        .+.+..+..+.++..+....+++|-+.+
T Consensus       337 ~~~~~~~~~l~l~~N~l~~~~p~------~l~~l~l~~n~~~~~~~~~l~~~~~~~~~~l~~~~~~~ls~Nil~~  405 (727)
T 4b8c_D          337 TEKSVTGLIFYLRDNRPEIPLPH------ERRFIEINTDGEPQREYDSLQQSTEHLATDLAKRTFTVLSYNTLCQ  405 (727)
T ss_dssp             HHHHHHHHHHHHHHCCCCCCCCC------C-----------------------------------------CCCG
T ss_pred             hhcchhhhHHhhccCcccCcCcc------ccceeEeecccccccccCCccccccchhhcccccceeeeecccccc
Confidence            55422 23467778888777765      3455566666        3333344445566666777777777653

>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=99.68  E-value=8.3e-17  Score=149.16  Aligned_cols=176  Identities=22%  Similarity=0.222  Sum_probs=107.2

Q ss_pred             cEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhh-hhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcc
Q 040109          292 RYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSE-FIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLM  370 (598)
Q Consensus       292 ~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~-~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~  370 (598)
                      +++++++|.++.+|..+.  ++|++|++++|.+.+..+. .+..++       +|++|++++|.+++..|.         
T Consensus        11 ~~l~~s~~~l~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~~l~-------~L~~L~Ls~N~l~~~~~~---------   72 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLP-------HLVKLELKRNQLTGIEPN---------   72 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCT-------TCCEEECCSSCCCCBCTT---------
T ss_pred             CEEEcCCCCcCcCccCCC--CCCCEEECCCCcCCccCCccccccCC-------CCCEEECCCCCCCCcCHh---------
Confidence            445555555555554332  2555555555555554443 244444       566666666665544331         


Q ss_pred             ccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCC
Q 040109          371 PLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS  450 (598)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls  450 (598)
                                        .+..+++|++|+|++|++++..+..|..+++|++|+|++|++++..|..+..+++|++|+|+
T Consensus        73 ------------------~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  134 (192)
T 1w8a_A           73 ------------------AFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLA  134 (192)
T ss_dssp             ------------------TTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECT
T ss_pred             ------------------HcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeC
Confidence                              22335567777777777776777778889999999999999998889999999999999999


Q ss_pred             CCccCCCCccc-ccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCCCC
Q 040109          451 INHFFGGIPSS-LSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPL  507 (598)
Q Consensus       451 ~N~l~~~~p~~-l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~~  507 (598)
                      +|.+++..+.. +.  ..++...+..+...+..|..  +......++..+...|..+.
T Consensus       135 ~N~l~c~c~l~~~~--~~l~~~~~~~~~~~C~~P~~--l~~~~l~~l~~~~~~C~~~~  188 (192)
T 1w8a_A          135 SNPFNCNCHLAWFA--EWLRKKSLNGGAARCGAPSK--VRDVQIKDLPHSEFKCSSEN  188 (192)
T ss_dssp             TCCBCCSGGGHHHH--HHHHHHCCSGGGCBBCSSTT--TTTSBGGGSCTTTCCCCCC-
T ss_pred             CCCccCcCcchHHH--HHHHHcCCCCCCCCCCCChH--HcCCChhhCcHhhcCcCCCC
Confidence            99998765532 11  11222344455555555543  23333344555666665443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.66  E-value=2.1e-16  Score=146.44  Aligned_cols=114  Identities=24%  Similarity=0.341  Sum_probs=102.6

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEe
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD  472 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  472 (598)
                      .++|+.|++++|+++ .+|..|.++++|+.|+|++|++++..+..|.++++|++|+|++|++++..|..|..+++|++|+
T Consensus        30 ~~~l~~L~L~~n~i~-~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~  108 (193)
T 2wfh_A           30 PRDVTELYLDGNQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLS  108 (193)
T ss_dssp             CTTCCEEECCSSCCC-SCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEE
T ss_pred             CCCCCEEECCCCcCc-hhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEE
Confidence            347999999999998 7889999999999999999999988888999999999999999999988888999999999999


Q ss_pred             CCCCcceecCCCC--CccCccCCCccCCCCCCCCCCCC
Q 040109          473 LSYNNFSGKIPKG--TQLQRFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       473 ls~N~l~~~~p~~--~~~~~l~~~~~~gnp~lC~~~~~  508 (598)
                      |++|++++ +|..  ..++++..+.+.+||+.|+|.+.
T Consensus       109 L~~N~l~~-~~~~~~~~l~~L~~L~L~~N~~~C~c~l~  145 (193)
T 2wfh_A          109 LHGNDISV-VPEGAFNDLSALSHLAIGANPLYCDCNMQ  145 (193)
T ss_dssp             CCSSCCCB-CCTTTTTTCTTCCEEECCSSCEECSGGGH
T ss_pred             CCCCCCCe-eChhhhhcCccccEEEeCCCCeecCCcCH
Confidence            99999985 4543  46788899999999999998753

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.63  E-value=5.4e-16  Score=143.71  Aligned_cols=91  Identities=24%  Similarity=0.245  Sum_probs=75.0

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEe
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD  472 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  472 (598)
                      +++|+.|+|++|.|++..+..|.++++|++|+|++|++++..|..|..+++|++|+|++|++++..+..|..+++|+.|+
T Consensus        53 l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~  132 (193)
T 2wfh_A           53 YKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLA  132 (193)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEE
T ss_pred             ccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEE
Confidence            44566666666666666667788889999999999999977778899999999999999999866666788999999999


Q ss_pred             CCCCcceecCC
Q 040109          473 LSYNNFSGKIP  483 (598)
Q Consensus       473 ls~N~l~~~~p  483 (598)
                      +++|++.+.+.
T Consensus       133 L~~N~~~C~c~  143 (193)
T 2wfh_A          133 IGANPLYCDCN  143 (193)
T ss_dssp             CCSSCEECSGG
T ss_pred             eCCCCeecCCc
Confidence            99999987554

>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=99.63  E-value=1.4e-15  Score=137.73  Aligned_cols=92  Identities=26%  Similarity=0.211  Sum_probs=74.7

Q ss_pred             cccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccC-CcccCCCCCCCeeeCCCCccCCCCc---ccccCCCC
Q 040109          392 ILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQI-TPRIGQLKSLDFLDLSINHFFGGIP---SSLSRLRL  467 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~-p~~l~~l~~L~~L~Ls~N~l~~~~p---~~l~~l~~  467 (598)
                      .+++|++|++++|++++.+|..+..+++|++|++++|++++.. +..+..+++|++|++++|.+++..+   ..+..+++
T Consensus        69 ~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~  148 (168)
T 2ell_A           69 KLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQ  148 (168)
T ss_dssp             CCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSS
T ss_pred             cCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCcc
Confidence            3556788888888888768888888999999999999998532 2788899999999999999986655   47889999


Q ss_pred             CCEEeCCCCcceecCCC
Q 040109          468 LSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       468 L~~L~ls~N~l~~~~p~  484 (598)
                      |++|++++|.+. .+|.
T Consensus       149 L~~L~l~~n~~~-~~~~  164 (168)
T 2ell_A          149 LTYLDGYDREDQ-EAPD  164 (168)
T ss_dssp             CCEETTEETTSC-BCCS
T ss_pred             CcEecCCCCChh-hccc
Confidence            999999999886 4554

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.61  E-value=3.6e-15  Score=136.15  Aligned_cols=92  Identities=23%  Similarity=0.223  Sum_probs=68.3

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEe
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD  472 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  472 (598)
                      +++|++|++++|++++..+..+..+++|++|++++|++++..+..+..+++|++|++++|++++..+..+..+++|++|+
T Consensus        51 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~  130 (177)
T 2o6r_A           51 LTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIW  130 (177)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEE
T ss_pred             cccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEE
Confidence            34456666666666645555667788888888888888866666678888888888888888866555677888888888


Q ss_pred             CCCCcceecCCC
Q 040109          473 LSYNNFSGKIPK  484 (598)
Q Consensus       473 ls~N~l~~~~p~  484 (598)
                      +++|++.+.+|.
T Consensus       131 l~~N~~~~~~~~  142 (177)
T 2o6r_A          131 LHTNPWDCSCPR  142 (177)
T ss_dssp             CCSSCBCCCHHH
T ss_pred             ecCCCeeccCcc
Confidence            888888876653

>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=99.61  E-value=2.8e-15  Score=135.60  Aligned_cols=130  Identities=25%  Similarity=0.278  Sum_probs=75.5

Q ss_pred             ccEEEccCCccc-cccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLH-GSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL  345 (598)
Q Consensus       267 L~~L~L~~n~l~-~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L  345 (598)
                      ++.|++++|.++ +.+|..+..+++|++|++++|.++++ ..+..+++|++|++++|.+.+.+|..+..++       +|
T Consensus        26 L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~-------~L   97 (168)
T 2ell_A           26 VRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLP-------NL   97 (168)
T ss_dssp             CSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCT-------TC
T ss_pred             CCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCC-------CC
Confidence            555555555555 44555555566666666666666655 4555566666666666666655555554444       45


Q ss_pred             CEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCc-CchhhhcccCCcEEE
Q 040109          346 EWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGE-VPEEIMDLVGLVALN  424 (598)
Q Consensus       346 ~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~p~~l~~l~~L~~L~  424 (598)
                      +.|++++|.++                                                   +. .+..+..+++|+.|+
T Consensus        98 ~~L~Ls~N~l~---------------------------------------------------~~~~~~~l~~l~~L~~L~  126 (168)
T 2ell_A           98 THLNLSGNKLK---------------------------------------------------DISTLEPLKKLECLKSLD  126 (168)
T ss_dssp             CEEECBSSSCC---------------------------------------------------SSGGGGGGSSCSCCCEEE
T ss_pred             CEEeccCCccC---------------------------------------------------cchhHHHHhcCCCCCEEE
Confidence            55555554443                                                   21 114566666677777


Q ss_pred             CcCCcCcccCC---cccCCCCCCCeeeCCCCccC
Q 040109          425 LSNNNLTGQIT---PRIGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       425 Ls~N~l~~~~p---~~l~~l~~L~~L~Ls~N~l~  455 (598)
                      +++|.+++..+   ..+..+++|++|++++|.+.
T Consensus       127 l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~  160 (168)
T 2ell_A          127 LFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQ  160 (168)
T ss_dssp             CCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSC
T ss_pred             eeCCcCcchHHHHHHHHHhCccCcEecCCCCChh
Confidence            77776664433   35666777777777777664

>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=99.59  E-value=5.4e-16  Score=156.68  Aligned_cols=283  Identities=14%  Similarity=0.095  Sum_probs=139.4

Q ss_pred             CCCCCEEECCCCCCCCCCccccCC-CCCCCEEEccCCCCCC-CCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcC---
Q 040109          136 LSKLSELALSSAQLAGPIPHQLGN-LSRLQVLDLRFNNLFS-SGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN---  210 (598)
Q Consensus       136 l~~L~~L~Ls~n~l~~~~p~~l~~-l~~L~~L~Ls~n~l~~-~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~---  210 (598)
                      +.++++|.++++ +.......+.. +++|++|||++|++.. ...   -+.++.++.+.+..|.+..     ..|.+   
T Consensus        24 ~~~l~~L~l~g~-i~~~~~~~l~~~l~~L~~LdLs~n~i~~~~~~---~~~~~~~~~~~~~~~~I~~-----~aF~~~~~   94 (329)
T 3sb4_A           24 ANSITHLTLTGK-LNAEDFRHLRDEFPSLKVLDISNAEIKMYSGK---AGTYPNGKFYIYMANFVPA-----YAFSNVVN   94 (329)
T ss_dssp             HHHCSEEEEEEE-ECHHHHHHHHHSCTTCCEEEEEEEEECCEEES---SSSSGGGCCEEECTTEECT-----TTTEEEET
T ss_pred             hCceeEEEEecc-ccHHHHHHHHHhhccCeEEecCcceeEEecCc---cccccccccccccccccCH-----HHhccccc
Confidence            567888888764 22111122333 7788888888888731 111   1112224445555553332     45556   


Q ss_pred             -----CCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCcc----cccc
Q 040109          211 -----LRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRL----HGSI  281 (598)
Q Consensus       211 -----l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l----~~~~  281 (598)
                           +++|+.+++.+ .++.+...+|...   ++|+.+++++|.+....+..|.++..  +..+....+..    ....
T Consensus        95 ~~~~g~~~L~~l~L~~-~i~~I~~~aF~~~---~~L~~l~l~~n~i~~i~~~aF~~~~~--l~~l~~~~~~~~~~~~~i~  168 (329)
T 3sb4_A           95 GVTKGKQTLEKVILSE-KIKNIEDAAFKGC---DNLKICQIRKKTAPNLLPEALADSVT--AIFIPLGSSDAYRFKNRWE  168 (329)
T ss_dssp             TEEEECTTCCC-CBCT-TCCEECTTTTTTC---TTCCEEEBCCSSCCEECTTSSCTTTC--EEEECTTCTHHHHTSTTTT
T ss_pred             ccccccCCCcEEECCc-cccchhHHHhhcC---cccceEEcCCCCccccchhhhcCCCc--eEEecCcchhhhhcccccc
Confidence                 77777777776 6666555444433   66677777666665444444544443  44444333211    1111


Q ss_pred             chhhcCCCCcc-EEeeccCCCCCcchhh----cCCCCCcEEEcccCcCccchhhhhh-hcCCCCCCCCCCCEEEccCccc
Q 040109          282 PVAFGHMASLR-YLGLLSNRLREVPKFL----GNMSSLKMLVLSYNELRGELSEFIQ-NVSSGSTKNSSLEWLYLASNEI  355 (598)
Q Consensus       282 p~~l~~l~~L~-~L~Ls~n~l~~lp~~l----~~l~~L~~L~Ls~n~l~~~~~~~l~-~l~~g~~~~~~L~~L~Ls~N~l  355 (598)
                      ...|.++..|+ .+.+...  ..++..+    ....+++.+.+.++-.. .....+. .++       +|+.+++++|.+
T Consensus       169 ~~~f~~~~~L~~~i~~~~~--~~l~~~~~~~~~~~~~~~~l~~~~~l~~-~~~~~l~~~~~-------~L~~l~L~~n~i  238 (329)
T 3sb4_A          169 HFAFIEGEPLETTIQVGAM--GKLEDEIMKAGLQPRDINFLTIEGKLDN-ADFKLIRDYMP-------NLVSLDISKTNA  238 (329)
T ss_dssp             TSCEEESCCCEEEEEECTT--CCHHHHHHHTTCCGGGCSEEEEEECCCH-HHHHHHHHHCT-------TCCEEECTTBCC
T ss_pred             ccccccccccceeEEecCC--CcHHHHHhhcccCccccceEEEeeeecH-HHHHHHHHhcC-------CCeEEECCCCCc
Confidence            22333444444 3333221  1122211    12344455555444221 1111111 233       566666666555


Q ss_pred             cccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCc-EEECcCCcCcccC
Q 040109          356 TGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLV-ALNLSNNNLTGQI  434 (598)
Q Consensus       356 ~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~-~L~Ls~N~l~~~~  434 (598)
                      +. +|.                          ..+..+.+|+.++|.+| +....+.+|.++++|+ .+++.+ +++...
T Consensus       239 ~~-I~~--------------------------~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~  289 (329)
T 3sb4_A          239 TT-IPD--------------------------FTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIE  289 (329)
T ss_dssp             CE-ECT--------------------------TTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEEC
T ss_pred             ce-ecH--------------------------hhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEc
Confidence            42 111                          12334555666666655 5444455566666666 666665 555444


Q ss_pred             CcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEe
Q 040109          435 TPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD  472 (598)
Q Consensus       435 p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  472 (598)
                      +.+|.++++|+.+++++|+++...+.+|.++++|+.++
T Consensus       290 ~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          290 FGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             TTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEE
T ss_pred             hhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhhc
Confidence            55666666666666666666555555666666666554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.59  E-value=2.6e-15  Score=132.94  Aligned_cols=83  Identities=24%  Similarity=0.229  Sum_probs=67.5

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCccc-CCcccCCCCCCCeeeCCCCccCCCCc---ccccCCCCC
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ-ITPRIGQLKSLDFLDLSINHFFGGIP---SSLSRLRLL  468 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~-~p~~l~~l~~L~~L~Ls~N~l~~~~p---~~l~~l~~L  468 (598)
                      +++|++|++++|.+++.+|..+..+++|++|++++|++++. .+..+..+++|++|++++|++++..+   ..+..+++|
T Consensus        63 l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L  142 (149)
T 2je0_A           63 LNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQL  142 (149)
T ss_dssp             CTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTC
T ss_pred             CCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCc
Confidence            55678888888888866888888889999999999998863 34778889999999999999886655   578888999


Q ss_pred             CEEeCCC
Q 040109          469 SVMDLSY  475 (598)
Q Consensus       469 ~~L~ls~  475 (598)
                      +.|++++
T Consensus       143 ~~L~l~d  149 (149)
T 2je0_A          143 TYLDGYD  149 (149)
T ss_dssp             CEETTBC
T ss_pred             ccccCCC
Confidence            9998864

>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=99.58  E-value=5.4e-16  Score=156.68  Aligned_cols=283  Identities=13%  Similarity=0.070  Sum_probs=160.4

Q ss_pred             CCCCCEEECcCCCCCCCCcchhcCC-CCCCCEEECCCCCCC--CCCccccCCCCCCCEEEccCCCCCCCCCcccccC---
Q 040109          111 LQHLTYLDLSWNNFSGSPIPEFIGS-LSKLSELALSSAQLA--GPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSY---  184 (598)
Q Consensus       111 l~~L~~L~Ls~n~l~~~~~p~~l~~-l~~L~~L~Ls~n~l~--~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~---  184 (598)
                      +.+++.|.++++ +... --..+.. +++|++|||++|++.  ...+   +.++.++.+.+..|.+    +...|.+   
T Consensus        24 ~~~l~~L~l~g~-i~~~-~~~~l~~~l~~L~~LdLs~n~i~~~~~~~---~~~~~~~~~~~~~~~I----~~~aF~~~~~   94 (329)
T 3sb4_A           24 ANSITHLTLTGK-LNAE-DFRHLRDEFPSLKVLDISNAEIKMYSGKA---GTYPNGKFYIYMANFV----PAYAFSNVVN   94 (329)
T ss_dssp             HHHCSEEEEEEE-ECHH-HHHHHHHSCTTCCEEEEEEEEECCEEESS---SSSGGGCCEEECTTEE----CTTTTEEEET
T ss_pred             hCceeEEEEecc-ccHH-HHHHHHHhhccCeEEecCcceeEEecCcc---cccccccccccccccc----CHHHhccccc
Confidence            567778887764 2211 1122333 677888888888776  1111   1222244455554433    2233555   


Q ss_pred             -----CCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCC----CCCCc
Q 040109          185 -----LSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNY----LTNSI  255 (598)
Q Consensus       185 -----l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~----l~~~~  255 (598)
                           +++|+.+++.+ .++.+++  .+|.++++|+.+++++|.+..+.+.+|...   .++..+....+.    .....
T Consensus        95 ~~~~g~~~L~~l~L~~-~i~~I~~--~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~---~~l~~l~~~~~~~~~~~~~i~  168 (329)
T 3sb4_A           95 GVTKGKQTLEKVILSE-KIKNIED--AAFKGCDNLKICQIRKKTAPNLLPEALADS---VTAIFIPLGSSDAYRFKNRWE  168 (329)
T ss_dssp             TEEEECTTCCC-CBCT-TCCEECT--TTTTTCTTCCEEEBCCSSCCEECTTSSCTT---TCEEEECTTCTHHHHTSTTTT
T ss_pred             ccccccCCCcEEECCc-cccchhH--HHhhcCcccceEEcCCCCccccchhhhcCC---CceEEecCcchhhhhcccccc
Confidence                 77777777776 6666544  567777777777777777666555444331   444444443311    11111


Q ss_pred             chhhhhcCccCcc-EEEccCCccccccchhh----cCCCCccEEeeccCCCCC-cchhhcCCCCCcEEEcccCcCccchh
Q 040109          256 YPWLLNVSSNLVD-HIDLGSNRLHGSIPVAF----GHMASLRYLGLLSNRLRE-VPKFLGNMSSLKMLVLSYNELRGELS  329 (598)
Q Consensus       256 ~~~l~~~~~~~L~-~L~L~~n~l~~~~p~~l----~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L~~L~Ls~n~l~~~~~  329 (598)
                      ...+.++..  ++ .+.+....   .++..+    ....+++.+.+.++-... .......+++|+.+++++|.++...+
T Consensus       169 ~~~f~~~~~--L~~~i~~~~~~---~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~  243 (329)
T 3sb4_A          169 HFAFIEGEP--LETTIQVGAMG---KLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPD  243 (329)
T ss_dssp             TSCEEESCC--CEEEEEECTTC---CHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECT
T ss_pred             ccccccccc--cceeEEecCCC---cHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecH
Confidence            122223333  33 33332211   112111    124455666666543222 11112236777777777777776666


Q ss_pred             hhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccc-eEeccCCcCCC
Q 040109          330 EFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIK-IIDLSSNKLGG  408 (598)
Q Consensus       330 ~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~-~L~Ls~n~l~~  408 (598)
                      ..|..+.       +|+.+++.+| ++. ++.                          ..+..+.+|+ .+++.+ +++.
T Consensus       244 ~aF~~~~-------~L~~l~l~~n-i~~-I~~--------------------------~aF~~~~~L~~~l~l~~-~l~~  287 (329)
T 3sb4_A          244 FTFAQKK-------YLLKIKLPHN-LKT-IGQ--------------------------RVFSNCGRLAGTLELPA-SVTA  287 (329)
T ss_dssp             TTTTTCT-------TCCEEECCTT-CCE-ECT--------------------------TTTTTCTTCCEEEEECT-TCCE
T ss_pred             hhhhCCC-------CCCEEECCcc-cce-ehH--------------------------HHhhCChhccEEEEEcc-cceE
Confidence            6677666       7777777776 331 221                          2344566777 888877 6665


Q ss_pred             cCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeC
Q 040109          409 EVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDL  449 (598)
Q Consensus       409 ~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L  449 (598)
                      ..+.+|.++++|+.|++++|+++...+.+|.++++|+.++.
T Consensus       288 I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          288 IEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             ECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEEC
T ss_pred             EchhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhhcc
Confidence            66788999999999999999998777778999999998864

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.57  E-value=8.1e-15  Score=129.70  Aligned_cols=82  Identities=26%  Similarity=0.378  Sum_probs=54.7

Q ss_pred             ccEEEccCCccc-cccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCC
Q 040109          267 VDHIDLGSNRLH-GSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSL  345 (598)
Q Consensus       267 L~~L~L~~n~l~-~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L  345 (598)
                      ++.|++++|.++ +.+|..+..+++|++|++++|.++++ ..+..+++|++|++++|.+++.+|..+..++       +|
T Consensus        19 l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~-------~L   90 (149)
T 2je0_A           19 VKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCP-------NL   90 (149)
T ss_dssp             CSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCT-------TC
T ss_pred             CeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCC-------CC
Confidence            666666666666 56666666777777777777777766 5566677777777777777766666665555       55


Q ss_pred             CEEEccCcccc
Q 040109          346 EWLYLASNEIT  356 (598)
Q Consensus       346 ~~L~Ls~N~l~  356 (598)
                      ++|++++|.++
T Consensus        91 ~~L~ls~N~i~  101 (149)
T 2je0_A           91 THLNLSGNKIK  101 (149)
T ss_dssp             CEEECTTSCCC
T ss_pred             CEEECCCCcCC
Confidence            55555555554

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.56  E-value=1.6e-14  Score=131.78  Aligned_cols=114  Identities=22%  Similarity=0.190  Sum_probs=100.5

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEe
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD  472 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  472 (598)
                      .++|+.|++++|++++..+..+..+++|++|++++|++++..+..+..+++|++|++++|++++..+..+..+++|++|+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~  106 (177)
T 2o6r_A           27 PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELA  106 (177)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEE
Confidence            35799999999999977777789999999999999999977777789999999999999999987777889999999999


Q ss_pred             CCCCcceecCCCC-CccCccCCCccCCCCCCCCCC
Q 040109          473 LSYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       473 ls~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      +++|++++..+.. ..++++..+.+.+||+.|+|+
T Consensus       107 l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  141 (177)
T 2o6r_A          107 LDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  141 (177)
T ss_dssp             CCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCHH
T ss_pred             CcCCcceEeCHHHhcCCcccCEEEecCCCeeccCc
Confidence            9999998544433 457889999999999999876

>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=99.51  E-value=2.3e-14  Score=130.65  Aligned_cols=85  Identities=21%  Similarity=0.239  Sum_probs=63.0

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCc--ccCCCCCCCeeeCCCCccCCCCccc----ccCCC
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITP--RIGQLKSLDFLDLSINHFFGGIPSS----LSRLR  466 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~--~l~~l~~L~~L~Ls~N~l~~~~p~~----l~~l~  466 (598)
                      +++|++|++++|.+++..+..+..+++|++|++++|+++ .+|.  .+..+++|++|++++|.++ .+|..    +..++
T Consensus        63 l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~-~~~~~~~l~~l~~L~~L~l~~N~i~-~~~~~~~~~~~~l~  140 (176)
T 1a9n_A           63 LRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLV-ELGDLDPLASLKSLTYLCILRNPVT-NKKHYRLYVIYKVP  140 (176)
T ss_dssp             CSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCC-CGGGGGGGGGCTTCCEEECCSSGGG-GSTTHHHHHHHHCT
T ss_pred             CCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCcCC-cchhhHhhhcCCCCCEEEecCCCCC-CcHhHHHHHHHHCC
Confidence            445677777777777544455578888888888888886 5555  6778888888888888886 45553    77888


Q ss_pred             CCCEEeCCCCcce
Q 040109          467 LLSVMDLSYNNFS  479 (598)
Q Consensus       467 ~L~~L~ls~N~l~  479 (598)
                      +|+.||+++|...
T Consensus       141 ~L~~Ld~~~n~~~  153 (176)
T 1a9n_A          141 QVRVLDFQKVKLK  153 (176)
T ss_dssp             TCSEETTEECCHH
T ss_pred             ccceeCCCcCCHH
Confidence            8888888888765

>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=99.51  E-value=3.2e-16  Score=145.98  Aligned_cols=135  Identities=24%  Similarity=0.307  Sum_probs=83.8

Q ss_pred             cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEc
Q 040109          304 VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWK  383 (598)
Q Consensus       304 lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~  383 (598)
                      +|..+..+++|++|++++|.+.+ +| .+..++       +|+.|++++|.++ .+|                       
T Consensus        40 l~~~~~~l~~L~~L~ls~n~l~~-l~-~~~~l~-------~L~~L~l~~n~l~-~l~-----------------------   86 (198)
T 1ds9_A           40 MDATLSTLKACKHLALSTNNIEK-IS-SLSGME-------NLRILSLGRNLIK-KIE-----------------------   86 (198)
T ss_dssp             CHHHHHHTTTCSEEECSEEEESC-CC-CHHHHT-------TCCEEEEEEEEEC-SCS-----------------------
T ss_pred             hhHHHhcCCCCCEEECCCCCCcc-cc-ccccCC-------CCCEEECCCCCcc-ccc-----------------------
Confidence            44455556666666666666555 23 455555       5666666666555 222                       


Q ss_pred             CCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCC-cccCCCCCCCeeeCCCCccCCCCccc-
Q 040109          384 GGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQIT-PRIGQLKSLDFLDLSINHFFGGIPSS-  461 (598)
Q Consensus       384 ~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~L~Ls~N~l~~~~p~~-  461 (598)
                          .....+++|+.|++++|++++ +| .+..+++|++|++++|++++..+ ..+..+++|++|++++|.+++.+|.. 
T Consensus        87 ----~~~~~~~~L~~L~L~~N~l~~-l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~  160 (198)
T 1ds9_A           87 ----NLDAVADTLEELWISYNQIAS-LS-GIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENN  160 (198)
T ss_dssp             ----SHHHHHHHCSEEEEEEEECCC-HH-HHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTT
T ss_pred             ----chhhcCCcCCEEECcCCcCCc-CC-ccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCcccccccccc
Confidence                122334567777777777764 44 57777778888888887774322 36777778888888888776655542 


Q ss_pred             ---------ccCCCCCCEEeCCCCcce
Q 040109          462 ---------LSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       462 ---------l~~l~~L~~L~ls~N~l~  479 (598)
                               +..+++|+.||  +|+++
T Consensus       161 ~~~~~~~~~~~~l~~L~~Ld--~~~i~  185 (198)
T 1ds9_A          161 ATSEYRIEVVKRLPNLKKLD--GMPVD  185 (198)
T ss_dssp             THHHHHHHHHHHCSSCSEEC--CGGGT
T ss_pred             chHHHHHHHHHhCCCcEEEC--CcccC
Confidence                     67778888776  56554

>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=99.47  E-value=1.3e-13  Score=124.88  Aligned_cols=108  Identities=22%  Similarity=0.198  Sum_probs=75.8

Q ss_pred             cceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCC
Q 040109          396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSY  475 (598)
Q Consensus       396 L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~  475 (598)
                      .+.+++++|.++ .+|..+.  ++|++|+|++|+|++..|..|..+++|++|+|++|++++..+..|.++++|++|+|++
T Consensus        11 ~~~l~~s~n~l~-~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~   87 (170)
T 3g39_A           11 GTTVDCSGKSLA-SVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND   87 (170)
T ss_dssp             TTEEECTTSCCS-SCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEeCCCCcC-ccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC
Confidence            466777777777 4565542  6777777777777766677777777777777777777766666677777777777777


Q ss_pred             CcceecCCC-CCccCccCCCccCCCCCCCCCC
Q 040109          476 NNFSGKIPK-GTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       476 N~l~~~~p~-~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      |++++..|. -..++++..+.+.+||+.|+|+
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~  119 (170)
T 3g39_A           88 NQLKSIPRGAFDNLKSLTHIWLLNNPWDCACS  119 (170)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCBCTTBG
T ss_pred             CccCEeCHHHhcCCCCCCEEEeCCCCCCCCch
Confidence            777754443 2456677777777777777764

>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=99.47  E-value=1.9e-13  Score=123.63  Aligned_cols=111  Identities=21%  Similarity=0.198  Sum_probs=96.4

Q ss_pred             CCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEE
Q 040109          344 SLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL  423 (598)
Q Consensus       344 ~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L  423 (598)
                      +.+.+++++|.++. +|.                             ...++|++|+|++|+|++..|..|.++++|++|
T Consensus        10 ~~~~l~~s~n~l~~-ip~-----------------------------~~~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L   59 (170)
T 3g39_A           10 SGTTVDCSGKSLAS-VPT-----------------------------GIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRL   59 (170)
T ss_dssp             ETTEEECTTSCCSS-CCS-----------------------------CCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEE
T ss_pred             CCCEEEeCCCCcCc-cCc-----------------------------cCCCCCcEEEcCCCcCCccChhhhcCcccCCEE
Confidence            46788888888874 332                             113578999999999998889999999999999


Q ss_pred             ECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCC
Q 040109          424 NLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       424 ~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~  484 (598)
                      +|++|++++..+..|..+++|++|+|++|++++..+..|.++++|++|+|++|++.+..+.
T Consensus        60 ~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~~  120 (170)
T 3g39_A           60 DLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWLLNNPWDCACSD  120 (170)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCBCTTBGG
T ss_pred             ECCCCCcCccChhhccCCCCCCEEECCCCccCEeCHHHhcCCCCCCEEEeCCCCCCCCchh
Confidence            9999999977777789999999999999999987777899999999999999999977664

>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=99.44  E-value=2.8e-15  Score=139.58  Aligned_cols=62  Identities=23%  Similarity=0.196  Sum_probs=39.7

Q ss_pred             cccccceEeccCCcCCCcCc-hhhhcccCCcEEECcCCcCcccCCcc----------cCCCCCCCeeeCCCCccC
Q 040109          392 ILGLIKIIDLSSNKLGGEVP-EEIMDLVGLVALNLSNNNLTGQITPR----------IGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~~~~p-~~l~~l~~L~~L~Ls~N~l~~~~p~~----------l~~l~~L~~L~Ls~N~l~  455 (598)
                      .+++|+.|++++|++++..+ ..+..+++|++|++++|.+++.+|..          +..+++|+.||  +|.++
T Consensus       113 ~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld--~~~i~  185 (198)
T 1ds9_A          113 KLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD--GMPVD  185 (198)
T ss_dssp             HHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC--CGGGT
T ss_pred             cCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC--CcccC
Confidence            34556666666666653222 36677777888888888777655542          66777888776  55554

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.44  E-value=2.9e-13  Score=122.96  Aligned_cols=107  Identities=21%  Similarity=0.207  Sum_probs=70.8

Q ss_pred             ceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCC
Q 040109          397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYN  476 (598)
Q Consensus       397 ~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N  476 (598)
                      +.+++++|+++ .+|..+.  ++|+.|+|++|++++..|..|..+++|++|+|++|++++..+..|.++++|++|+|++|
T Consensus        15 ~~l~~~~n~l~-~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           15 TLVNCQNIRLA-SVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SEEECCSSCCS-SCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             cEEEeCCCCCC-ccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC
Confidence            56677777775 5565543  66777777777777666667777777777777777776555555667777777777777


Q ss_pred             cceecCCC-CCccCccCCCccCCCCCCCCCC
Q 040109          477 NFSGKIPK-GTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       477 ~l~~~~p~-~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      ++++..+. ...++++..+.+.+||+.|.|+
T Consensus        92 ~l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~  122 (174)
T 2r9u_A           92 HLKSIPRGAFDNLKSLTHIYLYNNPWDCECR  122 (174)
T ss_dssp             CCCCCCTTTTTTCTTCSEEECCSSCBCTTBG
T ss_pred             ccceeCHHHhccccCCCEEEeCCCCcccccc
Confidence            77643332 2346666667777777777654

>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=99.44  E-value=2.9e-13  Score=123.30  Aligned_cols=106  Identities=19%  Similarity=0.177  Sum_probs=59.5

Q ss_pred             CccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcch--hhcCCCCCcEE
Q 040109          240 SLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK--FLGNMSSLKML  317 (598)
Q Consensus       240 ~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~--~l~~l~~L~~L  317 (598)
                      +|+.|++++|.+++.  +.+..++.  |++|++++|.+++..+..+..+++|++|++++|.++.+|.  .+..+++|+.|
T Consensus        43 ~L~~L~Ls~N~l~~~--~~l~~l~~--L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L  118 (176)
T 1a9n_A           43 QFDAIDFSDNEIRKL--DGFPLLRR--LKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYL  118 (176)
T ss_dssp             CCSEEECCSSCCCEE--CCCCCCSS--CCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEE
T ss_pred             CCCEEECCCCCCCcc--cccccCCC--CCEEECCCCcccccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEE
Confidence            444555555544432  33444444  5666666666654433444566666666666666666554  56666666666


Q ss_pred             EcccCcCccchhh---hhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          318 VLSYNELRGELSE---FIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       318 ~Ls~n~l~~~~~~---~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      ++++|++....+.   .+..++       +|+.||+++|...
T Consensus       119 ~l~~N~i~~~~~~~~~~~~~l~-------~L~~Ld~~~n~~~  153 (176)
T 1a9n_A          119 CILRNPVTNKKHYRLYVIYKVP-------QVRVLDFQKVKLK  153 (176)
T ss_dssp             ECCSSGGGGSTTHHHHHHHHCT-------TCSEETTEECCHH
T ss_pred             EecCCCCCCcHhHHHHHHHHCC-------ccceeCCCcCCHH
Confidence            6666666543222   355555       6666666666554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.41  E-value=7.4e-12  Score=129.26  Aligned_cols=86  Identities=5%  Similarity=-0.067  Sum_probs=57.8

Q ss_pred             ccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCC-CCC
Q 040109          391 SILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR-LLS  469 (598)
Q Consensus       391 ~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~-~L~  469 (598)
                      ..+++|+.++|. ++++......|.++++|+.++|..| ++..-..+|.++ +|+.+++++|.+....+..|.+++ .++
T Consensus       297 ~~c~~L~~l~l~-~~i~~I~~~aF~~c~~L~~l~lp~~-l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l~  373 (401)
T 4fdw_A          297 EGCPKLARFEIP-ESIRILGQGLLGGNRKVTQLTIPAN-VTQINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDIT  373 (401)
T ss_dssp             TTCTTCCEECCC-TTCCEECTTTTTTCCSCCEEEECTT-CCEECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTCC
T ss_pred             hCCccCCeEEeC-CceEEEhhhhhcCCCCccEEEECcc-ccEEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCcc
Confidence            345566666666 3355455567777888888888554 654556677777 888888888877655556677664 677


Q ss_pred             EEeCCCCcce
Q 040109          470 VMDLSYNNFS  479 (598)
Q Consensus       470 ~L~ls~N~l~  479 (598)
                      .|.+..+.+.
T Consensus       374 ~l~vp~~~~~  383 (401)
T 4fdw_A          374 VIRVPAESVE  383 (401)
T ss_dssp             EEEECGGGHH
T ss_pred             EEEeCHHHHH
Confidence            7777766543

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.41  E-value=8.2e-13  Score=119.92  Aligned_cols=90  Identities=24%  Similarity=0.218  Sum_probs=81.8

Q ss_pred             cccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeC
Q 040109          394 GLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL  473 (598)
Q Consensus       394 ~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  473 (598)
                      ++|+.|+|++|+|++..|..|.++++|++|+|++|+|++..+..|..+++|++|+|++|++++..+..|..+++|++|++
T Consensus        33 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  112 (174)
T 2r9u_A           33 TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL  112 (174)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeCHHHhccccCCCEEEe
Confidence            57999999999999888999999999999999999999766667899999999999999999766667999999999999


Q ss_pred             CCCcceecCC
Q 040109          474 SYNNFSGKIP  483 (598)
Q Consensus       474 s~N~l~~~~p  483 (598)
                      ++|++.+..+
T Consensus       113 ~~N~~~c~~~  122 (174)
T 2r9u_A          113 YNNPWDCECR  122 (174)
T ss_dssp             CSSCBCTTBG
T ss_pred             CCCCcccccc
Confidence            9999986544

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.39  E-value=1.2e-11  Score=127.61  Aligned_cols=263  Identities=11%  Similarity=0.105  Sum_probs=129.4

Q ss_pred             CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEE
Q 040109          112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYL  191 (598)
Q Consensus       112 ~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L  191 (598)
                      ..++.+.+..+ ++.. -...|.++ +|+.+.+..+ ++..-..+|.++ +|+.+.+.. .+ .......|.++++|+.+
T Consensus       113 ~~l~~i~ip~~-i~~I-~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~~-~L~~i~lp~-~l-~~I~~~aF~~c~~L~~l  185 (401)
T 4fdw_A          113 KGYNEIILPNS-VKSI-PKDAFRNS-QIAKVVLNEG-LKSIGDMAFFNS-TVQEIVFPS-TL-EQLKEDIFYYCYNLKKA  185 (401)
T ss_dssp             SSCSEEECCTT-CCEE-CTTTTTTC-CCSEEECCTT-CCEECTTTTTTC-CCCEEECCT-TC-CEECSSTTTTCTTCCEE
T ss_pred             CCccEEEECCc-cCEe-hHhhcccC-CccEEEeCCC-ccEECHHhcCCC-CceEEEeCC-Cc-cEehHHHhhCcccCCee
Confidence            44555555432 3321 22334442 4666665544 443334445443 455555553 22 22233345555555555


Q ss_pred             EcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEE
Q 040109          192 DLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID  271 (598)
Q Consensus       192 ~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~  271 (598)
                      ++.+|.++.++.  ..|. ..+|+.+.+..+ +..+..                           ..|.++.+  |+.++
T Consensus       186 ~l~~n~l~~I~~--~aF~-~~~L~~l~lp~~-l~~I~~---------------------------~aF~~~~~--L~~l~  232 (401)
T 4fdw_A          186 DLSKTKITKLPA--STFV-YAGIEEVLLPVT-LKEIGS---------------------------QAFLKTSQ--LKTIE  232 (401)
T ss_dssp             ECTTSCCSEECT--TTTT-TCCCSEEECCTT-CCEECT---------------------------TTTTTCTT--CCCEE
T ss_pred             ecCCCcceEech--hhEe-ecccCEEEeCCc-hheehh---------------------------hHhhCCCC--CCEEe
Confidence            555555554433  2333 345555555422 333333                           33334444  44444


Q ss_pred             ccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEcccCcCc-----cchhhhhhhcCCCCCCCCCC
Q 040109          272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELR-----GELSEFIQNVSSGSTKNSSL  345 (598)
Q Consensus       272 L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls~n~l~-----~~~~~~l~~l~~g~~~~~~L  345 (598)
                      +..+ ++..-..+|.+ .+|+.+.+ .+.++.++ ..|.++++|+.+++.+|.+.     ...+..|..+.       +|
T Consensus       233 l~~~-l~~I~~~aF~~-~~L~~i~l-p~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~-------~L  302 (401)
T 4fdw_A          233 IPEN-VSTIGQEAFRE-SGITTVKL-PNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCP-------KL  302 (401)
T ss_dssp             CCTT-CCEECTTTTTT-CCCSEEEE-ETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCT-------TC
T ss_pred             cCCC-ccCcccccccc-CCccEEEe-CCCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCc-------cC
Confidence            4432 22222333433 44555555 23344432 34555555555555554443     23334444444       56


Q ss_pred             CEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEEC
Q 040109          346 EWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNL  425 (598)
Q Consensus       346 ~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~L  425 (598)
                      +.+++.++ ++. ++.                          ..+..+.+|+.++|.++ ++.....+|.++ +|+.+++
T Consensus       303 ~~l~l~~~-i~~-I~~--------------------------~aF~~c~~L~~l~lp~~-l~~I~~~aF~~~-~L~~l~l  352 (401)
T 4fdw_A          303 ARFEIPES-IRI-LGQ--------------------------GLLGGNRKVTQLTIPAN-VTQINFSAFNNT-GIKEVKV  352 (401)
T ss_dssp             CEECCCTT-CCE-ECT--------------------------TTTTTCCSCCEEEECTT-CCEECTTSSSSS-CCCEEEE
T ss_pred             CeEEeCCc-eEE-Ehh--------------------------hhhcCCCCccEEEECcc-ccEEcHHhCCCC-CCCEEEE
Confidence            66655532 221 110                          12334556666666443 554556677777 8888888


Q ss_pred             cCCcCcccCCcccCCCC-CCCeeeCCCCcc
Q 040109          426 SNNNLTGQITPRIGQLK-SLDFLDLSINHF  454 (598)
Q Consensus       426 s~N~l~~~~p~~l~~l~-~L~~L~Ls~N~l  454 (598)
                      ++|.+....+..|.+++ +++.|.+..+.+
T Consensus       353 ~~n~~~~l~~~~F~~~~~~l~~l~vp~~~~  382 (401)
T 4fdw_A          353 EGTTPPQVFEKVWYGFPDDITVIRVPAESV  382 (401)
T ss_dssp             CCSSCCBCCCSSCCCSCTTCCEEEECGGGH
T ss_pred             cCCCCcccccccccCCCCCccEEEeCHHHH
Confidence            88887765666677763 678888877664

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.34  E-value=8.3e-14  Score=142.48  Aligned_cols=44  Identities=23%  Similarity=0.201  Sum_probs=20.6

Q ss_pred             CCccEEeeccCCCCC--cchhhcCCCCCcEEEcccCcCccchhhhh
Q 040109          289 ASLRYLGLLSNRLRE--VPKFLGNMSSLKMLVLSYNELRGELSEFI  332 (598)
Q Consensus       289 ~~L~~L~Ls~n~l~~--lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l  332 (598)
                      ++|++|+|++|.++.  +......+++|+.|+|++|.++......+
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L  146 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDL  146 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHH
Confidence            355555555555543  22222233455555666555554433333

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=99.33  E-value=2.2e-11  Score=125.96  Aligned_cols=311  Identities=10%  Similarity=0.019  Sum_probs=166.6

Q ss_pred             ccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCC
Q 040109          106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYL  185 (598)
Q Consensus       106 ~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l  185 (598)
                      .+|.++++|+.+.+..+ ++.. -...|.++++|+.+++..+ ++..-..+|.++.+|+.+.+..+-  .......|.++
T Consensus        65 ~AF~~c~~L~~i~lp~~-i~~I-~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~l--~~i~~~aF~~~  139 (394)
T 4fs7_A           65 AAFQGCRKVTEIKIPST-VREI-GEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLML--KSIGVEAFKGC  139 (394)
T ss_dssp             TTTTTCTTEEEEECCTT-CCEE-CTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTTC--CEECTTTTTTC
T ss_pred             HHhhCCCCceEEEeCCC-ccCc-chhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCce--eeecceeeecc
Confidence            45777788888888643 5532 3456777888888888654 443445667777777776665442  12222334444


Q ss_pred             CCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCcc
Q 040109          186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSN  265 (598)
Q Consensus       186 ~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~  265 (598)
                      ..++.......  ..+..  .+|.++++|+.+.+.++. ......+|...   .+|+.+.+..+ ++......+.++.. 
T Consensus       140 ~~~~~~~~~~~--~~i~~--~aF~~c~~L~~i~l~~~~-~~I~~~~F~~c---~~L~~i~l~~~-~~~I~~~~F~~~~~-  209 (394)
T 4fs7_A          140 DFKEITIPEGV--TVIGD--EAFATCESLEYVSLPDSM-ETLHNGLFSGC---GKLKSIKLPRN-LKIIRDYCFAECIL-  209 (394)
T ss_dssp             CCSEEECCTTC--CEECT--TTTTTCTTCCEEECCTTC-CEECTTTTTTC---TTCCBCCCCTT-CCEECTTTTTTCTT-
T ss_pred             cccccccCccc--cccch--hhhcccCCCcEEecCCcc-ceeccccccCC---CCceEEEcCCC-ceEeCchhhccccc-
Confidence            43333222222  11111  456666666666665432 22222222222   45555555443 22222333444444 


Q ss_pred             CccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCC
Q 040109          266 LVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSS  344 (598)
Q Consensus       266 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~  344 (598)
                       |+.+.+..+...  +.+......+|+.+.+... ++.+. ..+.++..|+.+.+..+.. ......+....       .
T Consensus       210 -L~~i~~~~~~~~--i~~~~~~~~~l~~i~ip~~-~~~i~~~~f~~~~~l~~~~~~~~~~-~i~~~~F~~~~-------~  277 (394)
T 4fs7_A          210 -LENMEFPNSLYY--LGDFALSKTGVKNIIIPDS-FTELGKSVFYGCTDLESISIQNNKL-RIGGSLFYNCS-------G  277 (394)
T ss_dssp             -CCBCCCCTTCCE--ECTTTTTTCCCCEEEECTT-CCEECSSTTTTCSSCCEEEECCTTC-EECSCTTTTCT-------T
T ss_pred             -cceeecCCCceE--eehhhcccCCCceEEECCC-ceecccccccccccceeEEcCCCcc-eeecccccccc-------c
Confidence             555544433322  1222233345555555432 22222 2445555666666554432 12223333333       4


Q ss_pred             CCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEE
Q 040109          345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALN  424 (598)
Q Consensus       345 L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~  424 (598)
                      ++.+....+.+..                              ..+..+.+|+.+.+.++ +......+|.++++|+.++
T Consensus       278 l~~~~~~~~~i~~------------------------------~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~  326 (394)
T 4fs7_A          278 LKKVIYGSVIVPE------------------------------KTFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSID  326 (394)
T ss_dssp             CCEEEECSSEECT------------------------------TTTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEEC
T ss_pred             cceeccCceeecc------------------------------ccccccccccccccccc-cceechhhhcCCCCCCEEE
Confidence            5554444332210                              12334567777777654 5545556788888888888


Q ss_pred             CcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCC
Q 040109          425 LSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYN  476 (598)
Q Consensus       425 Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N  476 (598)
                      |.++ ++..-..+|.++++|+.+++..+ ++..-..+|.++++|+.+++..+
T Consensus       327 lp~~-v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          327 LPYL-VEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKKVELPKR  376 (394)
T ss_dssp             CCTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCEEEEEGG
T ss_pred             eCCc-ccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCEEEECCC
Confidence            8654 66455677888888888888776 65455568888888888887644

>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=99.32  E-value=2.4e-12  Score=130.86  Aligned_cols=107  Identities=19%  Similarity=0.173  Sum_probs=76.3

Q ss_pred             eEeccCC-cCCCcCchhhhcccCCcEEECcC-CcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCC
Q 040109          398 IIDLSSN-KLGGEVPEEIMDLVGLVALNLSN-NNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSY  475 (598)
Q Consensus       398 ~L~Ls~n-~l~~~~p~~l~~l~~L~~L~Ls~-N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~  475 (598)
                      .++++++ +++ .+|. +..+++|+.|+|++ |+|++..+..|.++++|+.|+|++|+|++..|..|.++++|+.|+|++
T Consensus        12 ~v~~~~~n~l~-~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           12 GLRCTRDGALD-SLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             CEECCSSCCCT-TTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS
T ss_pred             EEEcCCCCCCC-ccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC
Confidence            4577776 677 4666 77777788888875 777766667777778888888888887777777777778888888888


Q ss_pred             CcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          476 NNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       476 N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      |+|++..|.......+..+.+.+|++.|+|.
T Consensus        90 N~l~~~~~~~~~~~~L~~l~l~~N~~~c~c~  120 (347)
T 2ifg_A           90 NALESLSWKTVQGLSLQELVLSGNPLHCSCA  120 (347)
T ss_dssp             SCCSCCCSTTTCSCCCCEEECCSSCCCCCGG
T ss_pred             CccceeCHHHcccCCceEEEeeCCCccCCCc
Confidence            8777443333332336777777788777765

>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=99.23  E-value=1.4e-11  Score=125.13  Aligned_cols=92  Identities=16%  Similarity=0.049  Sum_probs=82.1

Q ss_pred             ccccccceEeccC-CcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCC
Q 040109          391 SILGLIKIIDLSS-NKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLS  469 (598)
Q Consensus       391 ~~l~~L~~L~Ls~-n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~  469 (598)
                      ..+++|+.|+|++ |+|++..+..|.++++|+.|+|++|+|++..|..|.++++|++|+|++|+|++..+..+..++ |+
T Consensus        28 ~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~-L~  106 (347)
T 2ifg_A           28 PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLS-LQ  106 (347)
T ss_dssp             CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCC-CC
T ss_pred             CCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccceeCHHHcccCC-ce
Confidence            3456799999996 999988888999999999999999999999999999999999999999999977666777776 99


Q ss_pred             EEeCCCCcceecCC
Q 040109          470 VMDLSYNNFSGKIP  483 (598)
Q Consensus       470 ~L~ls~N~l~~~~p  483 (598)
                      .|+|.+|++.+.+.
T Consensus       107 ~l~l~~N~~~c~c~  120 (347)
T 2ifg_A          107 ELVLSGNPLHCSCA  120 (347)
T ss_dssp             EEECCSSCCCCCGG
T ss_pred             EEEeeCCCccCCCc
Confidence            99999999986544

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=99.21  E-value=4.4e-10  Score=116.17  Aligned_cols=322  Identities=14%  Similarity=0.075  Sum_probs=211.4

Q ss_pred             cEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCC
Q 040109           83 HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR  162 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~  162 (598)
                      .++++.+..       .++..-..+|.++++|+.+++..+ ++.. -...|..+.+|+.+.+..+ +......+|.++..
T Consensus        72 ~L~~i~lp~-------~i~~I~~~aF~~c~~L~~i~lp~~-l~~I-~~~aF~~c~~L~~i~~p~~-l~~i~~~aF~~~~~  141 (394)
T 4fs7_A           72 KVTEIKIPS-------TVREIGEFAFENCSKLEIINIPDS-VKMI-GRCTFSGCYALKSILLPLM-LKSIGVEAFKGCDF  141 (394)
T ss_dssp             TEEEEECCT-------TCCEECTTTTTTCTTCCEECCCTT-CCEE-CTTTTTTCTTCCCCCCCTT-CCEECTTTTTTCCC
T ss_pred             CceEEEeCC-------CccCcchhHhhCCCCCcEEEeCCC-ceEc-cchhhcccccchhhcccCc-eeeecceeeecccc
Confidence            467777753       354333467899999999999865 5532 3456888999998887654 44344566777654


Q ss_pred             CCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCcc
Q 040109          163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLE  242 (598)
Q Consensus       163 L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~  242 (598)
                      ++........   ......|.++++|+.+.+.++ +..++.  ..|.++.+|+.+.+..+ ++.....++...   ..|+
T Consensus       142 ~~~~~~~~~~---~i~~~aF~~c~~L~~i~l~~~-~~~I~~--~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~---~~L~  211 (394)
T 4fs7_A          142 KEITIPEGVT---VIGDEAFATCESLEYVSLPDS-METLHN--GLFSGCGKLKSIKLPRN-LKIIRDYCFAEC---ILLE  211 (394)
T ss_dssp             SEEECCTTCC---EECTTTTTTCTTCCEEECCTT-CCEECT--TTTTTCTTCCBCCCCTT-CCEECTTTTTTC---TTCC
T ss_pred             cccccCcccc---ccchhhhcccCCCcEEecCCc-cceecc--ccccCCCCceEEEcCCC-ceEeCchhhccc---cccc
Confidence            4443333222   223356888899999998765 333433  67888889998888765 444444333332   6677


Q ss_pred             EEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccC
Q 040109          243 VIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYN  322 (598)
Q Consensus       243 ~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n  322 (598)
                      .+.+..+...  +.........  ++.+.+... ++......+..+..++.+.+..+...--...+..++.++.+....+
T Consensus       212 ~i~~~~~~~~--i~~~~~~~~~--l~~i~ip~~-~~~i~~~~f~~~~~l~~~~~~~~~~~i~~~~F~~~~~l~~~~~~~~  286 (394)
T 4fs7_A          212 NMEFPNSLYY--LGDFALSKTG--VKNIIIPDS-FTELGKSVFYGCTDLESISIQNNKLRIGGSLFYNCSGLKKVIYGSV  286 (394)
T ss_dssp             BCCCCTTCCE--ECTTTTTTCC--CCEEEECTT-CCEECSSTTTTCSSCCEEEECCTTCEECSCTTTTCTTCCEEEECSS
T ss_pred             eeecCCCceE--eehhhcccCC--CceEEECCC-ceecccccccccccceeEEcCCCcceeeccccccccccceeccCce
Confidence            6666554322  2233333445  788877544 3334445678889999999987654434456788888988887765


Q ss_pred             cCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEecc
Q 040109          323 ELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLS  402 (598)
Q Consensus       323 ~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls  402 (598)
                      .+.   ...+..+.       +|+.+.+..+ ++ .++.                          ..+..+.+|+.+++.
T Consensus       287 ~i~---~~~F~~~~-------~L~~i~l~~~-i~-~I~~--------------------------~aF~~c~~L~~i~lp  328 (394)
T 4fs7_A          287 IVP---EKTFYGCS-------SLTEVKLLDS-VK-FIGE--------------------------EAFESCTSLVSIDLP  328 (394)
T ss_dssp             EEC---TTTTTTCT-------TCCEEEECTT-CC-EECT--------------------------TTTTTCTTCCEECCC
T ss_pred             eec---cccccccc-------cccccccccc-cc-eech--------------------------hhhcCCCCCCEEEeC
Confidence            432   23444444       8999888765 22 1111                          234557788999997


Q ss_pred             CCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEE
Q 040109          403 SNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVM  471 (598)
Q Consensus       403 ~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L  471 (598)
                      ++ ++.....+|.++++|+.+++..+ ++..-..+|.++++|+.+++..+ ++ .+..+|.++++|+.+
T Consensus       329 ~~-v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~lp~~-~~-~~~~~F~~c~~L~~I  393 (394)
T 4fs7_A          329 YL-VEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKKVELPKR-LE-QYRYDFEDTTKFKWI  393 (394)
T ss_dssp             TT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCEEEEEGG-GG-GGGGGBCTTCEEEEE
T ss_pred             Cc-ccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCEEEECCC-CE-EhhheecCCCCCcEE
Confidence            54 66455678999999999999877 76566778999999999999865 32 345678888888764

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.21  E-value=5.3e-12  Score=129.02  Aligned_cols=109  Identities=22%  Similarity=0.216  Sum_probs=55.2

Q ss_pred             CCccEEEccCCCCCCCcchhhhh-----cCccCccEEEccCCccccc----cchhhcCCCCccEEeeccCCCCC-----c
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLN-----VSSNLVDHIDLGSNRLHGS----IPVAFGHMASLRYLGLLSNRLRE-----V  304 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~-----~~~~~L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~n~l~~-----l  304 (598)
                      ++|+.|+|++|.++......+..     .+.  |++|++++|.++..    ++..+...++|++|+|++|.+++     +
T Consensus       126 ~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~--L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L  203 (372)
T 3un9_A          126 LRARKLGLQLNSLGPEACKDLRDLLLHDQCQ--ITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELL  203 (372)
T ss_dssp             HTEEEEECCSSCCCHHHHHHHHHHHHSTTCC--CCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHH
T ss_pred             HhccHhhcCCCCCCHHHHHHHHHHHHhcCCc--cceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHH
Confidence            34555555555554332222221     223  55666666655432    23333455666666666666653     2


Q ss_pred             chhhcCCCCCcEEEcccCcCccchhhh----hhhcCCCCCCCCCCCEEEccCcccc
Q 040109          305 PKFLGNMSSLKMLVLSYNELRGELSEF----IQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       305 p~~l~~l~~L~~L~Ls~n~l~~~~~~~----l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      +..+...++|+.|+|++|.+++.....    +...+       +|++|+|++|.++
T Consensus       204 ~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~-------~L~~L~Ls~N~i~  252 (372)
T 3un9_A          204 AAQLDRNRQLQELNVAYNGAGDTAALALARAAREHP-------SLELLHLYFNELS  252 (372)
T ss_dssp             HHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCS-------SCCEEECTTSSCC
T ss_pred             HHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCC-------CCCEEeccCCCCC
Confidence            344555566666666666665433222    22223       5666666666655

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=99.03  E-value=8.4e-09  Score=106.50  Aligned_cols=316  Identities=11%  Similarity=0.061  Sum_probs=176.2

Q ss_pred             ccccCCC-CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCC---CCCCCccccCCCCCCCEEEccCCCCCCCCCccc
Q 040109          106 PSLLKLQ-HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQ---LAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDW  181 (598)
Q Consensus       106 ~~l~~l~-~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~---l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~  181 (598)
                      .+|.+++ .|+.+.+..+ ++.. -...|.++.+|+.+.+..|.   ++..-..+|.++.+|+.+.+..+-  .......
T Consensus        57 ~aF~~~~~~L~sI~iP~s-vt~I-g~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~~--~~I~~~a  132 (394)
T 4gt6_A           57 RVFCNYKYVLTSVQIPDT-VTEI-GSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDSV--TEIDSEA  132 (394)
T ss_dssp             TTTTTCCSCCCEEEECTT-CCEE-CTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTTC--SEECTTT
T ss_pred             hhccCCCCcCEEEEECCC-eeEE-hHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCcc--ceehhhh
Confidence            3566664 5888888754 5543 34568888899998887663   554445678888888888776552  2334456


Q ss_pred             ccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhh
Q 040109          182 LSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLN  261 (598)
Q Consensus       182 l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~  261 (598)
                      |.++.+|+.+.+..+ +..+..  ..+..+.+|+.+.+..+ ++.....+|..    ..|+.+.+..+-. ......+.+
T Consensus       133 F~~c~~L~~i~lp~~-~~~I~~--~~F~~c~~L~~i~~~~~-~~~I~~~aF~~----~~l~~i~ip~~~~-~i~~~af~~  203 (394)
T 4gt6_A          133 FHHCEELDTVTIPEG-VTSVAD--GMFSYCYSLHTVTLPDS-VTAIEERAFTG----TALTQIHIPAKVT-RIGTNAFSE  203 (394)
T ss_dssp             TTTCTTCCEEECCTT-CCEECT--TTTTTCTTCCEEECCTT-CCEECTTTTTT----CCCSEEEECTTCC-EECTTTTTT
T ss_pred             hhhhcccccccccce-eeeecc--cceecccccccccccce-eeEeccccccc----cceeEEEECCccc-ccccchhhh
Confidence            788888888888653 333333  56778888888888654 44444333422    5677777664422 122344455


Q ss_pred             cCccCccEEEccCCccccccchhh-------------cCCCCccEEeeccCCCCCc-chhhcCCCCCcEEEcccCcCccc
Q 040109          262 VSSNLVDHIDLGSNRLHGSIPVAF-------------GHMASLRYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGE  327 (598)
Q Consensus       262 ~~~~~L~~L~L~~n~l~~~~p~~l-------------~~l~~L~~L~Ls~n~l~~l-p~~l~~l~~L~~L~Ls~n~l~~~  327 (598)
                      +..  ++......+.........+             .....+..+.+. +.++.+ ...|.++++|+.+.+..+.. ..
T Consensus       204 c~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip-~~v~~i~~~aF~~c~~L~~i~lp~~~~-~I  279 (394)
T 4gt6_A          204 CFA--LSTITSDSESYPAIDNVLYEKSANGDYALIRYPSQREDPAFKIP-NGVARIETHAFDSCAYLASVKMPDSVV-SI  279 (394)
T ss_dssp             CTT--CCEEEECCSSSCBSSSCEEEECTTSCEEEEECCTTCCCSEEECC-TTEEEECTTTTTTCSSCCEEECCTTCC-EE
T ss_pred             ccc--cceecccccccccccceeecccccccccccccccccccceEEcC-CcceEcccceeeecccccEEecccccc-ee
Confidence            555  5555544433221100000             111222223222 112222 23677888889888875533 34


Q ss_pred             hhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCC
Q 040109          328 LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLG  407 (598)
Q Consensus       328 ~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~  407 (598)
                      ....|.++.       +|+.+.+..+ ++ .++.                          ..+..+.+|+.++|..+ ++
T Consensus       280 ~~~aF~~c~-------~L~~i~l~~~-i~-~I~~--------------------------~aF~~c~~L~~i~lp~~-v~  323 (394)
T 4gt6_A          280 GTGAFMNCP-------ALQDIEFSSR-IT-ELPE--------------------------SVFAGCISLKSIDIPEG-IT  323 (394)
T ss_dssp             CTTTTTTCT-------TCCEEECCTT-CC-EECT--------------------------TTTTTCTTCCEEECCTT-CC
T ss_pred             cCccccccc-------ccccccCCCc-cc-ccCc--------------------------eeecCCCCcCEEEeCCc-cc
Confidence            444555555       7888877532 22 1111                          22344566777777653 44


Q ss_pred             CcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          408 GEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       408 ~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      .....+|.++++|+.+.|..+ ++..-..+|.++++|+.+++.++...   -..+..+..|+.+.+..|.+
T Consensus       324 ~I~~~aF~~C~~L~~i~ip~s-v~~I~~~aF~~C~~L~~i~~~~~~~~---~~~~~~~~~L~~i~i~~~~~  390 (394)
T 4gt6_A          324 QILDDAFAGCEQLERIAIPSS-VTKIPESAFSNCTALNNIEYSGSRSQ---WNAISTDSGLQNLPVAPGSI  390 (394)
T ss_dssp             EECTTTTTTCTTCCEEEECTT-CCBCCGGGGTTCTTCCEEEESSCHHH---HHTCBCCCCC----------
T ss_pred             EehHhHhhCCCCCCEEEECcc-cCEEhHhHhhCCCCCCEEEECCceee---hhhhhccCCCCEEEeCCCCE
Confidence            344566777777887777544 55344567777777887777776542   13556667777777665543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.98  E-value=1e-09  Score=111.15  Aligned_cols=166  Identities=19%  Similarity=0.210  Sum_probs=93.7

Q ss_pred             cchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhh--hcCCCCCCCCCCCEEEccC--cccc
Q 040109          281 IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQ--NVSSGSTKNSSLEWLYLAS--NEIT  356 (598)
Q Consensus       281 ~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~--~l~~g~~~~~~L~~L~Ls~--N~l~  356 (598)
                      +...+..+++|+.|++++|.-..++. +. +++|+.|++..|.+.......+.  .++       +|+.|+|+.  |...
T Consensus       164 L~~ll~~~P~L~~L~L~g~~~l~l~~-~~-~~~L~~L~L~~~~l~~~~l~~l~~~~lp-------~L~~L~L~~~~~~~~  234 (362)
T 2ra8_A          164 LSPVLDAMPLLNNLKIKGTNNLSIGK-KP-RPNLKSLEIISGGLPDSVVEDILGSDLP-------NLEKLVLYVGVEDYG  234 (362)
T ss_dssp             CHHHHHTCTTCCEEEEECCBTCBCCS-CB-CTTCSEEEEECSBCCHHHHHHHHHSBCT-------TCCEEEEECBCGGGT
T ss_pred             HHHHHhcCCCCcEEEEeCCCCceecc-cc-CCCCcEEEEecCCCChHHHHHHHHccCC-------CCcEEEEeccccccc
Confidence            44555677888888887763223443 33 67888888888877655554554  344       888888753  2211


Q ss_pred             ccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhh---cccCCcEEECcCCcCccc
Q 040109          357 GTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIM---DLVGLVALNLSNNNLTGQ  433 (598)
Q Consensus       357 ~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~---~l~~L~~L~Ls~N~l~~~  433 (598)
                      +. +.+..+..                  . .....+++|+.|+|++|.+.+..+..+.   .+++|++|+|+.|.+++.
T Consensus       235 ~~-~~~~~l~~------------------~-l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~  294 (362)
T 2ra8_A          235 FD-GDMNVFRP------------------L-FSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDE  294 (362)
T ss_dssp             CC-SCGGGTGG------------------G-SCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHH
T ss_pred             cc-hhHHHHHH------------------H-HhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChH
Confidence            11 00000000                  0 0002356778888877777654444443   366777777777777653


Q ss_pred             ----CCcccCCCCCCCeeeCCCCccCCCCcccccC-CCCCCEEeCCCCc
Q 040109          434 ----ITPRIGQLKSLDFLDLSINHFFGGIPSSLSR-LRLLSVMDLSYNN  477 (598)
Q Consensus       434 ----~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~-l~~L~~L~ls~N~  477 (598)
                          ++..+..+++|+.|+|++|.++...-..+.. +  ...+++++++
T Consensus       295 G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~al--g~~~~~~~~~  341 (362)
T 2ra8_A          295 GARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQKSL--PMKIDVSDSQ  341 (362)
T ss_dssp             HHHHHHTTHHHHTTCSEEECCSBBCCHHHHHHHHHHC--CSEEECCSBC
T ss_pred             HHHHHHhhcccCCcceEEECCCCcCCHHHHHHHHHHc--CCEEEecCCc
Confidence                2333345677777777777765443333332 2  3446666654

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.94  E-value=4.7e-08  Score=100.81  Aligned_cols=297  Identities=10%  Similarity=0.089  Sum_probs=186.3

Q ss_pred             hhcCCCC-CCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCC--CCCCCcccccCCCCCCEEEcCCCcCCCCCchhHh
Q 040109          131 EFIGSLS-KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL--FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQV  207 (598)
Q Consensus       131 ~~l~~l~-~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l--~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~  207 (598)
                      ..|.+++ .|+.+.+..+ ++..-..+|.+|.+|+.+.+..|.-  ........|.++.+|+.+.+..+ ++.++.  ..
T Consensus        57 ~aF~~~~~~L~sI~iP~s-vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~--~a  132 (394)
T 4gt6_A           57 RVFCNYKYVLTSVQIPDT-VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDS--EA  132 (394)
T ss_dssp             TTTTTCCSCCCEEEECTT-CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECT--TT
T ss_pred             hhccCCCCcCEEEEECCC-eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehh--hh
Confidence            3466664 5999999754 6656678899999999999987641  12223456888889988877654 444433  67


Q ss_pred             hcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcC
Q 040109          208 LSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGH  287 (598)
Q Consensus       208 l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~  287 (598)
                      |..+.+|+.+.+..+ +.......|...   ..|+.+.+..+ ++..-...+. ...  |+.+.+..+... .....|..
T Consensus       133 F~~c~~L~~i~lp~~-~~~I~~~~F~~c---~~L~~i~~~~~-~~~I~~~aF~-~~~--l~~i~ip~~~~~-i~~~af~~  203 (394)
T 4gt6_A          133 FHHCEELDTVTIPEG-VTSVADGMFSYC---YSLHTVTLPDS-VTAIEERAFT-GTA--LTQIHIPAKVTR-IGTNAFSE  203 (394)
T ss_dssp             TTTCTTCCEEECCTT-CCEECTTTTTTC---TTCCEEECCTT-CCEECTTTTT-TCC--CSEEEECTTCCE-ECTTTTTT
T ss_pred             hhhhcccccccccce-eeeecccceecc---cccccccccce-eeEecccccc-ccc--eeEEEECCcccc-cccchhhh
Confidence            888899999988643 333333223332   77888888654 3322222332 344  777877654332 34456777


Q ss_pred             CCCccEEeeccCCCCCcchhh--------------cCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCc
Q 040109          288 MASLRYLGLLSNRLREVPKFL--------------GNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASN  353 (598)
Q Consensus       288 l~~L~~L~Ls~n~l~~lp~~l--------------~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N  353 (598)
                      +.+++......+....+...+              .....+..+.+.. .+.......|..+.       .|+.+.+..+
T Consensus       204 c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~-~v~~i~~~aF~~c~-------~L~~i~lp~~  275 (394)
T 4gt6_A          204 CFALSTITSDSESYPAIDNVLYEKSANGDYALIRYPSQREDPAFKIPN-GVARIETHAFDSCA-------YLASVKMPDS  275 (394)
T ss_dssp             CTTCCEEEECCSSSCBSSSCEEEECTTSCEEEEECCTTCCCSEEECCT-TEEEECTTTTTTCS-------SCCEEECCTT
T ss_pred             ccccceecccccccccccceeecccccccccccccccccccceEEcCC-cceEcccceeeecc-------cccEEecccc
Confidence            778877776655443322111              1112233333321 12222233344433       6777777654


Q ss_pred             cccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCccc
Q 040109          354 EITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQ  433 (598)
Q Consensus       354 ~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  433 (598)
                      ..+  +.                          ...+..+.+|+.+.+. +.++......|.++.+|+.++|..+ ++..
T Consensus       276 ~~~--I~--------------------------~~aF~~c~~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~lp~~-v~~I  325 (394)
T 4gt6_A          276 VVS--IG--------------------------TGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDIPEG-ITQI  325 (394)
T ss_dssp             CCE--EC--------------------------TTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEECCTT-CCEE
T ss_pred             cce--ec--------------------------CcccccccccccccCC-CcccccCceeecCCCCcCEEEeCCc-ccEe
Confidence            332  10                          1233456778888886 4455455678889999999999765 6645


Q ss_pred             CCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcce
Q 040109          434 ITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       434 ~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~  479 (598)
                      -..+|.++.+|+.+.+..+ ++..-..+|.+|++|+.+++.+|...
T Consensus       326 ~~~aF~~C~~L~~i~ip~s-v~~I~~~aF~~C~~L~~i~~~~~~~~  370 (394)
T 4gt6_A          326 LDDAFAGCEQLERIAIPSS-VTKIPESAFSNCTALNNIEYSGSRSQ  370 (394)
T ss_dssp             CTTTTTTCTTCCEEEECTT-CCBCCGGGGTTCTTCCEEEESSCHHH
T ss_pred             hHhHhhCCCCCCEEEECcc-cCEEhHhHhhCCCCCCEEEECCceee
Confidence            5678999999999999755 66555678999999999999988543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.84  E-value=9.7e-10  Score=111.35  Aligned_cols=81  Identities=14%  Similarity=0.242  Sum_probs=52.2

Q ss_pred             CCccEEEccCCCCCCCcchhhh---hcCccCccEEEccCCccccc----cchhhcCCCCccEEeeccCCCCC-cchhhcC
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLL---NVSSNLVDHIDLGSNRLHGS----IPVAFGHMASLRYLGLLSNRLRE-VPKFLGN  310 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~---~~~~~~L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~  310 (598)
                      ++|++|++.+|.+.+..+..+.   .++.  |+.|+|+.|.+++.    ++..+..+++|+.|++++|.+++ .-..+..
T Consensus       252 p~Lr~L~L~~~~i~~~~~~~la~a~~~~~--L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~  329 (362)
T 2ra8_A          252 PNLKWLGIVDAEEQNVVVEMFLESDILPQ--LETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQK  329 (362)
T ss_dssp             TTCCEEEEESCTTHHHHHHHHHHCSSGGG--CSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCCHHHHHHHHH
T ss_pred             CCcCEEeCCCCCCchHHHHHHHhCccCCC--CCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCCHHHHHHHHH
Confidence            6777777777777644433333   2445  88888888887754    33334556888888888888775 2223332


Q ss_pred             -CCCCcEEEcccCc
Q 040109          311 -MSSLKMLVLSYNE  323 (598)
Q Consensus       311 -l~~L~~L~Ls~n~  323 (598)
                       +  ...+++++++
T Consensus       330 al--g~~~~~~~~~  341 (362)
T 2ra8_A          330 SL--PMKIDVSDSQ  341 (362)
T ss_dssp             HC--CSEEECCSBC
T ss_pred             Hc--CCEEEecCCc
Confidence             2  3568888876

>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=98.66  E-value=1.6e-06  Score=88.69  Aligned_cols=81  Identities=9%  Similarity=-0.008  Sum_probs=47.2

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEe
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD  472 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  472 (598)
                      +.+|+.+++..+ +.......|.++++|+.+.+.++.++..-..+|.++.+|+.++|..+ ++..-..+|.++++|+.+.
T Consensus       262 ~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~  339 (379)
T 4h09_A          262 CTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPTA-LKTIQVYAFKNCKALSTIS  339 (379)
T ss_dssp             CTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCCCC
T ss_pred             eehhcccccccc-ceeccccccccccccccccccccccceehhhhhcCCCCCCEEEcCcc-ccEEHHHHhhCCCCCCEEE
Confidence            344555555432 33233445666677777777666666444556677777777777644 4433345677777777666


Q ss_pred             CCC
Q 040109          473 LSY  475 (598)
Q Consensus       473 ls~  475 (598)
                      +..
T Consensus       340 ip~  342 (379)
T 4h09_A          340 YPK  342 (379)
T ss_dssp             CCT
T ss_pred             ECC
Confidence            543

>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=98.59  E-value=2.4e-06  Score=87.44  Aligned_cols=302  Identities=13%  Similarity=0.111  Sum_probs=146.1

Q ss_pred             ccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          108 LLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       108 l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      +....+|+.+.+.. .++.. -...|.++.+|+.++|..+ ++..-..+|.++ +|+.+.+..+ + .......|.+. +
T Consensus        42 ~~~~~~i~~v~ip~-~vt~I-g~~aF~~C~~L~~I~lp~~-v~~Ig~~aF~~c-~l~~i~~~~~-l-~~I~~~aF~~~-~  114 (379)
T 4h09_A           42 YKDRDRISEVRVNS-GITSI-GEANFNSCYNMTKVTVAST-VTSIGDGAFADT-KLQSYTGMER-V-KKFGDYVFQGT-D  114 (379)
T ss_dssp             GGGGGGCSEEEECT-TEEEE-CTTTTTTCTTCCEEEECTT-CCEECTTTTTTC-CCCEEEECTT-C-CEECTTTTTTC-C
T ss_pred             cccccCCEEEEeCC-CccCh-HHHHhhCCCCCCEEEeCCc-ceEechhhhcCC-CCceEECCce-e-eEeccceeccC-C
Confidence            34456677777764 24432 2345777888888888644 554445667666 5777766544 2 22222334443 6


Q ss_pred             CCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCC------------c
Q 040109          188 LRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNS------------I  255 (598)
Q Consensus       188 L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~------------~  255 (598)
                      |+.+.+..+ +..+..  ..|... +|+.+.+..+ ++......+...   ..++...+..+.....            .
T Consensus       115 L~~i~lp~~-~~~i~~--~~F~~~-~l~~~~~~~~-v~~i~~~~f~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (379)
T 4h09_A          115 LDDFEFPGA-TTEIGN--YIFYNS-SVKRIVIPKS-VTTIKDGIGYKA---ENLEKIEVSSNNKNYVAENYVLYNKNKTI  186 (379)
T ss_dssp             CSEEECCTT-CCEECT--TTTTTC-CCCEEEECTT-CCEECSCTTTTC---TTCCEEEECTTCSSEEEETTEEEETTSSE
T ss_pred             cccccCCCc-cccccc--cccccc-eeeeeeccce-eeccccchhccc---ccccccccccccceeecccceecccccce
Confidence            777777654 222211  233333 4555444332 222222222221   4555555544332210            0


Q ss_pred             chhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCc-chhhcCCCCCcEEEcccCcCccchhhhhhh
Q 040109          256 YPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGELSEFIQN  334 (598)
Q Consensus       256 ~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~l-p~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~  334 (598)
                      ...+.....  +..+.+.... .......+....+|+.+.+..+ +..+ ...+.++..|+.+.+..+ ++......+..
T Consensus       187 ~~~~~~~~~--~~~~~~~~~~-~~i~~~~f~~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~  261 (379)
T 4h09_A          187 LESYPAAKT--GTEFTIPSTV-KTVTAYGFSYGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQN  261 (379)
T ss_dssp             EEECCTTCC--CSEEECCTTC-CEECTTTTTTCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTT
T ss_pred             ecccccccc--ccccccccce-eEEeecccccccccceeeeccc-eeEEccccccCCccceEEEcCCC-ccEeCccccce
Confidence            011111111  2222222211 1122233444555555555433 2222 234555566666665543 33333334444


Q ss_pred             cCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhh
Q 040109          335 VSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI  414 (598)
Q Consensus       335 l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l  414 (598)
                      +.       +|+.+.+..+ ++ .++                          ...+..+.+|+.+++.++.++......|
T Consensus       262 ~~-------~l~~i~l~~~-i~-~i~--------------------------~~aF~~c~~L~~i~l~~~~i~~I~~~aF  306 (379)
T 4h09_A          262 CT-------ALKTLNFYAK-VK-TVP--------------------------YLLCSGCSNLTKVVMDNSAIETLEPRVF  306 (379)
T ss_dssp             CT-------TCCEEEECCC-CS-EEC--------------------------TTTTTTCTTCCEEEECCTTCCEECTTTT
T ss_pred             ee-------hhcccccccc-ce-ecc--------------------------ccccccccccccccccccccceehhhhh
Confidence            43       5555555432 11 000                          1223456677777777777765555667


Q ss_pred             hcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCC
Q 040109          415 MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR  466 (598)
Q Consensus       415 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~  466 (598)
                      .++++|+.+.|..+ ++..-..+|.++++|+.+.+..+ ++..-..+|.+++
T Consensus       307 ~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~ip~~-v~~I~~~aF~~c~  356 (379)
T 4h09_A          307 MDCVKLSSVTLPTA-LKTIQVYAFKNCKALSTISYPKS-ITLIESGAFEGSS  356 (379)
T ss_dssp             TTCTTCCEEECCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTSS
T ss_pred             cCCCCCCEEEcCcc-ccEEHHHHhhCCCCCCEEEECCc-cCEEchhHhhCCC
Confidence            77777777777644 55344556777777777777544 4433344555543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.58  E-value=2.8e-08  Score=90.73  Aligned_cols=42  Identities=10%  Similarity=0.016  Sum_probs=20.6

Q ss_pred             hcCCCCccEEeeccC-CCCC-----cchhhcCCCCCcEEEcccCcCcc
Q 040109          285 FGHMASLRYLGLLSN-RLRE-----VPKFLGNMSSLKMLVLSYNELRG  326 (598)
Q Consensus       285 l~~l~~L~~L~Ls~n-~l~~-----lp~~l~~l~~L~~L~Ls~n~l~~  326 (598)
                      +...++|++|+|++| .+..     +...+...++|++|+|++|.+..
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~   79 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSND   79 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCCh
Confidence            344455555555555 5543     22334444555555555555543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.56  E-value=3.1e-08  Score=90.42  Aligned_cols=67  Identities=16%  Similarity=0.149  Sum_probs=38.9

Q ss_pred             hhhcccCCcEEECcCCcCccc----CCcccCCCCCCCeeeC--CCCccCCC----CcccccCCCCCCEEeCCCCcce
Q 040109          413 EIMDLVGLVALNLSNNNLTGQ----ITPRIGQLKSLDFLDL--SINHFFGG----IPSSLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       413 ~l~~l~~L~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~L--s~N~l~~~----~p~~l~~l~~L~~L~ls~N~l~  479 (598)
                      .+...++|++|+|++|.|++.    +...+...++|++|+|  ++|.+...    +.+.+...++|++|++++|.+.
T Consensus        88 ~L~~n~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A           88 MLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHhCCCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCC
Confidence            344445666666666666543    3344555566777777  66666533    2334455567777777777663

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.38  E-value=2.9e-07  Score=88.41  Aligned_cols=39  Identities=28%  Similarity=0.359  Sum_probs=18.2

Q ss_pred             ccccceEeccCCcCCC--cCchhhhcccCCcEEECcCCcCc
Q 040109          393 LGLIKIIDLSSNKLGG--EVPEEIMDLVGLVALNLSNNNLT  431 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~--~~p~~l~~l~~L~~L~Ls~N~l~  431 (598)
                      +++|+.|+|++|+|++  .+|..+..+++|+.|+|++|+|+
T Consensus       169 l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~  209 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELK  209 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCC
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccC
Confidence            3444555555555443  22334444445555555555444

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.31  E-value=1.8e-07  Score=89.86  Aligned_cols=88  Identities=23%  Similarity=0.274  Sum_probs=67.0

Q ss_pred             ccce--EeccCCcCC---CcCchhhhcccCCcEEECcCCcCcc--cCCcccCCCCCCCeeeCCCCccCCCCcccccCCC-
Q 040109          395 LIKI--IDLSSNKLG---GEVPEEIMDLVGLVALNLSNNNLTG--QITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLR-  466 (598)
Q Consensus       395 ~L~~--L~Ls~n~l~---~~~p~~l~~l~~L~~L~Ls~N~l~~--~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~-  466 (598)
                      .|..  ++++.|...   +.++....++++|+.|+|++|+|++  .+|..+..+++|+.|+|++|++++.  ..+..++ 
T Consensus       142 ~L~~~~l~l~~N~~~~~~~~l~i~~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~  219 (267)
T 3rw6_A          142 DLVAQNIDVVLNRRSCMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKG  219 (267)
T ss_dssp             HHHHTTCCCCTTSHHHHHHHHHHHHHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTT
T ss_pred             chhhcCccccCCHHHHHHHHHHHHHhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhccc
Confidence            3444  677777543   2222233578999999999999997  5567778899999999999999865  3344444 


Q ss_pred             -CCCEEeCCCCcceecCCC
Q 040109          467 -LLSVMDLSYNNFSGKIPK  484 (598)
Q Consensus       467 -~L~~L~ls~N~l~~~~p~  484 (598)
                       +|++|+|++|++++.+|.
T Consensus       220 l~L~~L~L~~Npl~~~~~~  238 (267)
T 3rw6_A          220 LKLEELWLDGNSLCDTFRD  238 (267)
T ss_dssp             SCCSEEECTTSTTGGGCSS
T ss_pred             CCcceEEccCCcCccccCc
Confidence             999999999999987774

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.09  E-value=5.4e-07  Score=80.26  Aligned_cols=83  Identities=18%  Similarity=0.093  Sum_probs=70.1

Q ss_pred             ccceEeccCCcCCCcCchhhhcccCCcEEECcCCc-CcccCCcccCCC----CCCCeeeCCCCc-cCCCCcccccCCCCC
Q 040109          395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNN-LTGQITPRIGQL----KSLDFLDLSINH-FFGGIPSSLSRLRLL  468 (598)
Q Consensus       395 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~~~p~~l~~l----~~L~~L~Ls~N~-l~~~~p~~l~~l~~L  468 (598)
                      .|+.||+++|.++..--..+..+++|++|+|++|. +++.--..+..+    ++|++|+|++|. ++..--..+.++++|
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L  141 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNL  141 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTTC
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCCC
Confidence            69999999999987777788899999999999995 887655666665    479999999985 876555678889999


Q ss_pred             CEEeCCCCc
Q 040109          469 SVMDLSYNN  477 (598)
Q Consensus       469 ~~L~ls~N~  477 (598)
                      ++|++++++
T Consensus       142 ~~L~L~~c~  150 (176)
T 3e4g_A          142 KYLFLSDLP  150 (176)
T ss_dssp             CEEEEESCT
T ss_pred             CEEECCCCC
Confidence            999999986

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.95  E-value=2.5e-06  Score=75.91  Aligned_cols=83  Identities=13%  Similarity=0.164  Sum_probs=39.1

Q ss_pred             CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCC-CCCCCccccCCC----CCCCEEEccCCCCCCCCCcccccCCCC
Q 040109          113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQ-LAGPIPHQLGNL----SRLQVLDLRFNNLFSSGNLDWLSYLSS  187 (598)
Q Consensus       113 ~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~-l~~~~p~~l~~l----~~L~~L~Ls~n~l~~~~~~~~l~~l~~  187 (598)
                      .|+.||++++.++.. --..+..+++|++|+|++|. ++..--..+..+    ++|++|+|++|.-.+......+..+++
T Consensus        62 ~L~~LDLs~~~Itd~-GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~  140 (176)
T 3e4g_A           62 KIQAIDATDSCIMSI-GFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRN  140 (176)
T ss_dssp             CEEEEEEESCCCCGG-GGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTT
T ss_pred             eEeEEeCcCCCccHH-HHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCC
Confidence            566666666666543 22334556666666666653 443222233332    245555555553112222223344444


Q ss_pred             CCEEEcCCC
Q 040109          188 LRYLDLGDC  196 (598)
Q Consensus       188 L~~L~L~~n  196 (598)
                      |++|++++|
T Consensus       141 L~~L~L~~c  149 (176)
T 3e4g_A          141 LKYLFLSDL  149 (176)
T ss_dssp             CCEEEEESC
T ss_pred             CCEEECCCC
Confidence            444444444

>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=97.43  E-value=9e-05  Score=67.16  Aligned_cols=66  Identities=15%  Similarity=0.081  Sum_probs=31.4

Q ss_pred             hhhcccCCcEEECcCCcCccc----CCcccCCCCCCCeeeCCCC---ccCC----CCcccccCCCCCCEEeCCCCcc
Q 040109          413 EIMDLVGLVALNLSNNNLTGQ----ITPRIGQLKSLDFLDLSIN---HFFG----GIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       413 ~l~~l~~L~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~Ls~N---~l~~----~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      .+..-+.|++|+|++|.|++.    +-+.+..-+.|++|+|++|   .+..    .+.+.+..-++|+.|+++.|..
T Consensus        93 aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A           93 LIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             HHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             HHhcCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCCCc
Confidence            334444555555555555432    2223444455666666543   2221    1233444555666666665543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=97.30  E-value=0.00018  Score=60.83  Aligned_cols=59  Identities=19%  Similarity=0.160  Sum_probs=45.5

Q ss_pred             cEEECcCCcCc-ccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceec
Q 040109          421 VALNLSNNNLT-GQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGK  481 (598)
Q Consensus       421 ~~L~Ls~N~l~-~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~  481 (598)
                      ..++.+++.++ ..+|..+.  ++|++|+|++|+|+..-+..|..+++|+.|+|++|++.+.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~Cd   70 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWRCD   70 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCBCS
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCeecc
Confidence            47888888886 46676543  4789999999999866667788888898888887777643

>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=97.29  E-value=0.00021  Score=64.76  Aligned_cols=56  Identities=18%  Similarity=0.148  Sum_probs=30.0

Q ss_pred             ccEEEccCCccccc----cchhhcCCCCccEEeeccCCCCC-----cchhhcCCCCCcEEEcccC
Q 040109          267 VDHIDLGSNRLHGS----IPVAFGHMASLRYLGLLSNRLRE-----VPKFLGNMSSLKMLVLSYN  322 (598)
Q Consensus       267 L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L~~L~Ls~n  322 (598)
                      |+.|+|++|.+.+.    +...+..-+.|++|+|+.|.++.     +-..+..-+.|+.|+|++|
T Consensus        72 L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A           72 IEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             CCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             cCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECCCC
Confidence            55555555555432    22233344556666666666654     3344555566777777654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=97.03  E-value=0.0012  Score=55.76  Aligned_cols=57  Identities=25%  Similarity=0.301  Sum_probs=38.8

Q ss_pred             ceEeccCCcCC-CcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccC
Q 040109          397 KIIDLSSNKLG-GEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF  455 (598)
Q Consensus       397 ~~L~Ls~n~l~-~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  455 (598)
                      ..++.+++.++ ..+|..+.  ++|+.|+|++|+|+...+..|..+++|+.|+|++|.+.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCee
Confidence            46777777775 34554332  35778888888887555566777778888888888764

---

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	598
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	7e-20
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	8e-17
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	3e-08
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	1e-05
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	3e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-19
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-16
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-17
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	3e-12
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-11
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	4e-09
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	7e-08
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.002
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.003
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	2e-10
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	5e-05
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	1e-04
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	4e-09
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	8e-04
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	0.001
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	9e-08
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	1e-07
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	2e-06
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	1e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	1e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	4e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	8e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.001
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.002
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.002
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.002
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.004
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	1e-07
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	1e-07
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	5e-07
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	6e-06
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	1e-07
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	5e-07
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	7e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	8e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	0.002
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	2e-06
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.004
d2omxa2	199	c.10.2.1 (A:37-235) Internalin B {Listeria monocyt	3e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	5e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	2e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	2e-05
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	1e-05
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	2e-04
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	2e-05
d2ifga3	156	c.10.2.7 (A:36-191) High affinity nerve growth fac	9e-05
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	1e-04
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	0.001
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	2e-04
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	0.004
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.003
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.004

>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 = 88.7 bits (218), Expect = 7e-20
 Identities = 65/307 (21%), Positives = 107/307 (34%), Gaps = 27/307 (8%)

Query: 35  CLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCC--KWRGVRCSNKTG--HVLGLDLR 90
           C  ++K+ALL  K+ L +    LSSW       +CC   W GV C   T    V  LDL 
Sbjct: 3   CNPQDKQALLQIKKDLGN-PTTLSSW---LPTTDCCNRTWLGVLCDTDTQTYRVNNLDLS 58

Query: 91  ALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLA 150
            L+          I  SL  L +L +L +   N    PIP  I  L++L  L ++   ++
Sbjct: 59  GLNLP----KPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS 114

Query: 151 GPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSN 210
           G IP  L  +  L  LD  +N L  +      S  + +     G+       + +   S 
Sbjct: 115 GAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSK 174

Query: 211 L---------------RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSI 255
           L                               +           S +     +    +  
Sbjct: 175 LFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLA 234

Query: 256 YPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLK 315
           +       S  ++ +DL +NR++G++P     +  L  L +  N L       GN+    
Sbjct: 235 FDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFD 294

Query: 316 MLVLSYN 322
           +   + N
Sbjct: 295 VSAYANN 301

>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 = 79.4 bits (194), Expect = 8e-17
 Identities = 58/263 (22%), Positives = 104/263 (39%), Gaps = 25/263 (9%)

Query: 267 VDHIDLGSNRLHG--SIPVAFGHMASLRYLGLLS--NRLREVPKFLGNMSSLKMLVLSYN 322
           V+++DL    L     IP +  ++  L +L +    N +  +P  +  ++ L  L +++ 
Sbjct: 52  VNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT 111

Query: 323 ELRGELSE-----------------FIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGF 365
            + G + +                     +    +   +L  +    N I+G IP+  G 
Sbjct: 112 NVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGS 171

Query: 366 PGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNL 425
              L   +   +  +T         +   L       S  +       +           
Sbjct: 172 FSKLFTSMTISRNRLTG----KIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIH 227

Query: 426 SNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKG 485
              N       ++G  K+L+ LDL  N  +G +P  L++L+ L  +++S+NN  G+IP+G
Sbjct: 228 LAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG 287

Query: 486 TQLQRFGASTYAGNPELCGLPLP 508
             LQRF  S YA N  LCG PLP
Sbjct: 288 GNLQRFDVSAYANNKCLCGSPLP 310

>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 = 53.6 bits (127), Expect = 3e-08
 Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 2/68 (2%)

Query: 112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFN 171
           ++L  LDL  N   G+ +P+ +  L  L  L +S   L G IP Q GNL R  V     N
Sbjct: 244 KNLNGLDLRNNRIYGT-LPQGLTQLKFLHSLNVSFNNLCGEIP-QGGNLQRFDVSAYANN 301

Query: 172 NLFSSGNL 179
                  L
Sbjct: 302 KCLCGSPL 309

>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 = 45.5 bits (106), Expect = 1e-05
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 2/55 (3%)

Query: 144 LSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKL 198
           L + ++ G +P  L  L  L  L++ FNNL   G +     L         + K 
Sbjct: 251 LRNNRIYGTLPQGLTQLKFLHSLNVSFNNL--CGEIPQGGNLQRFDVSAYANNKC 303

>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 = 44.0 bits (102), Expect = 3e-05
 Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 4/58 (6%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQL--AGPIPH 155
           + GT+   L +L+ L  L++S+NN  G  IP+  G+L +    A ++ +     P+P 
Sbjct: 256 IYGTLPQGLTQLKFLHSLNVSFNNLCG-EIPQG-GNLQRFDVSAYANNKCLCGSPLPA 311

>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 = 88.9 bits (219), Expect = 1e-19
 Identities = 64/376 (17%), Positives = 131/376 (34%), Gaps = 35/376 (9%)

Query: 106 PSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV 165
            S   L  +T L             + +  L+ L+++  S+ QL    P  L NL++L  
Sbjct: 38  VSQTDLDQVTTLQADRLGIKS---IDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVD 92

Query: 166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP 225
           + +  N +     L  L+ L+ L   +     +    N   +     S  T+        
Sbjct: 93  ILMNNNQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSG 152

Query: 226 PISTPSLLHLNYSKSLEVIDL-----SNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
             S   L   N    L+ +         +  +N +    +      ++ +   +N++   
Sbjct: 153 LTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDI 212

Query: 281 IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGST 340
            P   G + +L  L L  N+L+++   L ++++L  L L+ N++               +
Sbjct: 213 TP--LGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANNQISNLAPL---------S 260

Query: 341 KNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIID 400
             + L  L L +N+I+   P      G+                      S L  +  + 
Sbjct: 261 GLTKLTELKLGANQISNISP----LAGLTALTNLELNENQLE---DISPISNLKNLTYLT 313

Query: 401 LSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS 460
           L  N +    P  +  L  L  L  +NN ++      +  L ++++L    N      P 
Sbjct: 314 LYFNNISDISP--VSSLTKLQRLFFANNKVSD--VSSLANLTNINWLSAGHNQISDLTP- 368

Query: 461 SLSRLRLLSVMDLSYN 476
            L+ L  ++ + L+  
Sbjct: 369 -LANLTRITQLGLNDQ 383

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 79.7 bits (195), Expect = 1e-16
 Identities = 57/374 (15%), Positives = 125/374 (33%), Gaps = 32/374 (8%)

Query: 127 SPIPEFI--GSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSY 184
           +PI +     +L++  +  L    +   +     +L ++  L      + S   +D + Y
Sbjct: 10  TPINQIFTDTALAEKMKTVLGKTNVTDTVS--QTDLDQVTTLQADRLGIKS---IDGVEY 64

Query: 185 LSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVI 244
           L++L  ++  + +L+  +     L NL  L  + + +  +  I+  + L      +L   
Sbjct: 65  LNNLTQINFSNNQLTDITP----LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNN 120

Query: 245 DLSNNYLTNSIYPWLLNVS-SNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE 303
            +++     ++         SN +  I   S             +  L+ L  L+   R 
Sbjct: 121 QITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERL 180

Query: 304 VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLG 363
                       +  L+  E     +  I +++      ++L+ L L  N++   I  L 
Sbjct: 181 DISSNKVSDISVLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLKD-IGTLA 238

Query: 364 GFPGMLMPLIYFDKITVTWKGGQY--------EYKSILGLIKIIDLSSNKLGGEV----- 410
               +    +  ++I+                    I  +  +  L++            
Sbjct: 239 SLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLE 298

Query: 411 -PEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLS 469
               I +L  L  L L  NN++      +  L  L  L  + N       SSL+ L  ++
Sbjct: 299 DISPISNLKNLTYLTLYFNNISD--ISPVSSLTKLQRLFFANNKVSD--VSSLANLTNIN 354

Query: 470 VMDLSYNNFSGKIP 483
            +   +N  S   P
Sbjct: 355 WLSAGHNQISDLTP 368

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 81.6 bits (200), Expect = 1e-17
 Identities = 47/265 (17%), Positives = 90/265 (33%), Gaps = 30/265 (11%)

Query: 112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFN 171
                LDL  N  +         +L  L  L L + +++   P     L +L+ L L  N
Sbjct: 31  PDTALLDLQNNKITEIK-DGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN 89

Query: 172 NL--------------------FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNL 211
            L                     +       + L+ +  ++LG   L            +
Sbjct: 90  QLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGM 149

Query: 212 RSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHID 271
           + L+ + +   ++  I            SL  + L  N +T      L  +  N +  + 
Sbjct: 150 KKLSYIRIADTNITTIPQ------GLPPSLTELHLDGNKITKVDAASLKGL--NNLAKLG 201

Query: 272 LGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEF 331
           L  N +      +  +   LR L L +N+L +VP  L +   ++++ L  N +   +   
Sbjct: 202 LSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNIS-AIGSN 260

Query: 332 IQNVSSGSTKNSSLEWLYLASNEIT 356
                  +TK +S   + L SN + 
Sbjct: 261 DFCPPGYNTKKASYSGVSLFSNPVQ 285

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 65.4 bits (158), Expect = 3e-12
 Identities = 48/277 (17%), Positives = 93/277 (33%), Gaps = 28/277 (10%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
               +LDL+ N + +         L +L  L L + K+SK S      + L  L  LYL 
Sbjct: 31  PDTALLDLQNNKI-TEIKDGDFKNLKNLHTLILINNKISKISP--GAFAPLVKLERLYLS 87

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
              L        L     K+L+ + +  N +T         ++  +V  +     +  G 
Sbjct: 88  KNQL------KELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGI 141

Query: 281 IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGST 340
              AF  M  L Y+ +    +  +P+  G   SL  L L  N++    +  ++ +++ + 
Sbjct: 142 ENGAFQGMKKLSYIRIADTNITTIPQ--GLPPSLTELHLDGNKITKVDAASLKGLNNLAK 199

Query: 341 KNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIID 400
              S   +    N      P+L         L+                 +    I+++ 
Sbjct: 200 LGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKV-----------PGGLADHKYIQVVY 248

Query: 401 LSSNKLGG------EVPEEIMDLVGLVALNLSNNNLT 431
           L +N +          P           ++L +N + 
Sbjct: 249 LHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ 285

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 63.9 bits (154), Expect = 1e-11
 Identities = 50/246 (20%), Positives = 90/246 (36%), Gaps = 18/246 (7%)

Query: 236 NYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLG 295
           +      ++DL NN +T  I         NL   + L +N++    P AF  +  L  L 
Sbjct: 28  DLPPDTALLDLQNNKIT-EIKDGDFKNLKNLH-TLILINNKISKISPGAFAPLVKLERLY 85

Query: 296 LLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEI 355
           L  N+L+E+P+ +      + L +  NE+       ++           +  L     + 
Sbjct: 86  LSKNQLKELPEKMPKTL--QELRVHENEITK-----VRKSVFNGLNQMIVVELGTNPLKS 138

Query: 356 TGTIPN-LGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEI 414
           +G       G   +    I    IT   +G       +   +  + L  NK+       +
Sbjct: 139 SGIENGAFQGMKKLSYIRIADTNITTIPQG-------LPPSLTELHLDGNKITKVDAASL 191

Query: 415 MDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLS 474
             L  L  L LS N+++      +     L  L L+ N+    +P  L+  + + V+ L 
Sbjct: 192 KGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLN-NNKLVKVPGGLADHKYIQVVYLH 250

Query: 475 YNNFSG 480
            NN S 
Sbjct: 251 NNNISA 256

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 55.8 bits (133), Expect = 4e-09
 Identities = 40/223 (17%), Positives = 84/223 (37%), Gaps = 15/223 (6%)

Query: 269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV-PKFLGNMSSLKMLVLSYNELRGE 327
            +DL +N++       F ++ +L  L L++N++ ++ P     +  L+ L LS N+L+  
Sbjct: 35  LLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKEL 94

Query: 328 LSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQY 387
             +  + +          + L +  NEIT    ++       M ++      +   G + 
Sbjct: 95  PEKMPKTL----------QELRVHENEITKVRKSVFNGLNQ-MIVVELGTNPLKSSGIEN 143

Query: 388 EYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFL 447
                +  +  I ++   +   +P+ +     L  L+L  N +T      +  L +L  L
Sbjct: 144 GAFQGMKKLSYIRIADTNIT-TIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKL 200

Query: 448 DLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQR 490
            LS N        SL+    L  + L+ N            + 
Sbjct: 201 GLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKY 243

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 52.3 bits (124), Expect = 7e-08
 Identities = 42/240 (17%), Positives = 74/240 (30%), Gaps = 17/240 (7%)

Query: 274 SNRLHGSIPVAFGHMASLRYLGLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFI 332
           S+     +P           L L +N++ E+      N+ +L  L+L  N++        
Sbjct: 18  SDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAF 75

Query: 333 QNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSI 392
             +         LE LYL+ N++      +      L                      +
Sbjct: 76  APLVK-------LERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIV 128

Query: 393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSIN 452
           + L         K  G        +  L  + +++ N+T   T   G   SL  L L  N
Sbjct: 129 VELGTN----PLKSSGIENGAFQGMKKLSYIRIADTNIT---TIPQGLPPSLTELHLDGN 181

Query: 453 HFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCL 512
                  +SL  L  L+ + LS+N+ S                +  N +L  +P      
Sbjct: 182 KITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADH 241

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 44.3 bits (103), Expect = 2e-05
 Identities = 21/84 (25%), Positives = 34/84 (40%), Gaps = 3/84 (3%)

Query: 397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFG 456
           +++  S   L  +VP+++        L+L NN +T         LK+L  L L  N    
Sbjct: 13  RVVQCSDLGLE-KVPKDLPP--DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISK 69

Query: 457 GIPSSLSRLRLLSVMDLSYNNFSG 480
             P + + L  L  + LS N    
Sbjct: 70  ISPGAFAPLVKLERLYLSKNQLKE 93

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 38.5 bits (88), Expect = 0.002
 Identities = 26/185 (14%), Positives = 44/185 (23%)

Query: 396 IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFF 455
             ++DL +NK+      +  +L  L  L L NN ++         L  L+ L LS N   
Sbjct: 33  TALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK 92

Query: 456 GGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKCLDEE 515
                    L+ L V +         +  G                        + + + 
Sbjct: 93  ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKL 152

Query: 516 SAPSPSRDDAYNTPDDDGDQFITLGFYMSMILGFFVGFWGVCGTLLVKSSWRCGYYNFLT 575
           S    +  +    P         L    + I             L               
Sbjct: 153 SYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDN 212

Query: 576 GVKDW 580
           G    
Sbjct: 213 GSLAN 217

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 37.7 bits (86), Expect = 0.003
 Identities = 25/125 (20%), Positives = 49/125 (39%), Gaps = 7/125 (5%)

Query: 100 LKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGN 159
           +      SL  L +L  L LS+N+ S       + +   L EL L++ +L   +P  L +
Sbjct: 183 ITKVDAASLKGLNNLAKLGLSFNSISA-VDNGSLANTPHLRELHLNNNKL-VKVPGGLAD 240

Query: 160 LSRLQVLDLRFNNLFSSGN-----LDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSL 214
              +QV+ L  NN+ + G+       + +  +S   + L    +  +         +   
Sbjct: 241 HKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVR 300

Query: 215 TTLYL 219
             + L
Sbjct: 301 AAVQL 305

>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 = 59.7 bits (143), Expect = 2e-10
 Identities = 41/253 (16%), Positives = 83/253 (32%), Gaps = 11/253 (4%)

Query: 72  WRGVRCSNKT------GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFS 125
           W+ +  + K       G +L   + A       +              + ++DLS +   
Sbjct: 2   WQTLDLTGKNLHPDVTGRLLSQGVIAFRCP--RSFMDQPLAEHFSPFRVQHMDLSNSVIE 59

Query: 126 GSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFN-NLFSSGNLDWLSY 184
            S +   +   SKL  L+L   +L+ PI + L   S L  L+L              LS 
Sbjct: 60  VSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSS 119

Query: 185 LSSLRYLDLGDCKLSKFSNWFQVLSN-LRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEV 243
            S L  L+L  C      +    +++   ++T L L         +     +    +L  
Sbjct: 120 CSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVH 179

Query: 244 IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN-RLR 302
           +DLS++ +  +         + L          +     +  G + +L+ L +       
Sbjct: 180 LDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGIVPDG 239

Query: 303 EVPKFLGNMSSLK 315
            +      +  L+
Sbjct: 240 TLQLLKEALPHLQ 252

>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 = 43.2 bits (100), Expect = 5e-05
 Identities = 17/91 (18%), Positives = 33/91 (36%), Gaps = 3/91 (3%)

Query: 395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHF 454
           L + +DL+   L  +V   ++   G++A     + +  Q          +  +DLS +  
Sbjct: 1   LWQTLDLTGKNLHPDVTGRLLSQ-GVIAFRCPRSFMD-QPLAEHFSPFRVQHMDLSNSVI 58

Query: 455 -FGGIPSSLSRLRLLSVMDLSYNNFSGKIPK 484
               +   LS+   L  + L     S  I  
Sbjct: 59  EVSTLHGILSQCSKLQNLSLEGLRLSDPIVN 89

>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 = 42.0 bits (97), Expect = 1e-04
 Identities = 49/301 (16%), Positives = 91/301 (30%), Gaps = 36/301 (11%)

Query: 191 LDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNY 250
           LDL    L        +   + +         D P     S         ++ +DLSN+ 
Sbjct: 5   LDLTGKNLHPDVTGRLLSQGVIAFR-CPRSFMDQPLAEHFSPF------RVQHMDLSNSV 57

Query: 251 LTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGN 310
           +  S    +L+  S L  ++ L   RL   I       ++L  L L              
Sbjct: 58  IEVSTLHGILSQCSKLQ-NLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL 116

Query: 311 MSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLM 370
           +SS   L         + +E                 + +A    T T  NL G+   L 
Sbjct: 117 LSSCSRLDELNLSWCFDFTEKHV-------------QVAVAHVSETITQLNLSGYRKNLQ 163

Query: 371 PLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSN-NN 429
                  +                L+ +    S  L  +  +E   L  L  L+LS   +
Sbjct: 164 KSDLSTLVRRCPN-----------LVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYD 212

Query: 430 LTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQ 489
           +  +    +G++ +L  L +      G +      L  L    ++ ++F+         +
Sbjct: 213 IIPETLLELGEIPTLKTLQVFGIVPDGTLQLLKEALPHL---QINCSHFTTIARPTIGNK 269

Query: 490 R 490
           +
Sbjct: 270 K 270

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 55.5 bits (132), Expect = 4e-09
 Identities = 37/212 (17%), Positives = 57/212 (26%), Gaps = 15/212 (7%)

Query: 114 LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNL 173
              ++    N +   +P  +      + L LS   L       L   +RL  L+L    L
Sbjct: 12  HLEVNCDKRNLTA--LPPDLPKD--TTILHLSENLLYTFSLATLMPYTRLTQLNLDRAEL 67

Query: 174 FSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLL 233
                   L  L +L         L                    L   D+      SL 
Sbjct: 68  TKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLP-----------ALTVLDVSFNRLTSLP 116

Query: 234 HLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRY 293
                   E+ +L          P  L   +  ++ + L +N L          + +L  
Sbjct: 117 LGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDT 176

Query: 294 LGLLSNRLREVPKFLGNMSSLKMLVLSYNELR 325
           L L  N L  +PK       L    L  N   
Sbjct: 177 LLLQENSLYTIPKGFFGSHLLPFAFLHGNPWL 208

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 39.3 bits (90), Expect = 8e-04
 Identities = 41/219 (18%), Positives = 68/219 (31%), Gaps = 15/219 (6%)

Query: 285 FGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSS 344
              +AS   +      L  +P  L       +L LS N L       +   +        
Sbjct: 6   VSKVASHLEVNCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTR------- 56

Query: 345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSN 404
           L  L L   E+T    +        +P++    ++             L  + ++D+S N
Sbjct: 57  LTQLNLDRAELTKLQVD------GTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFN 110

Query: 405 KLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSR 464
           +L       +  L  L  L L  N L       +     L+ L L+ N+        L+ 
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG 170

Query: 465 LRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELC 503
           L  L  + L  N+                +   GNP LC
Sbjct: 171 LENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWLC 209

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 38.9 bits (89), Expect = 0.001
 Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 3/66 (4%)

Query: 413 EIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD 472
           E+  +   + +N    NLT  + P +   K    L LS N  +    ++L     L+ ++
Sbjct: 5   EVSKVASHLEVNCDKRNLT-ALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLN 61

Query: 473 LSYNNF 478
           L     
Sbjct: 62  LDRAEL 67

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.7 bits (124), Expect = 9e-08
 Identities = 21/100 (21%), Positives = 39/100 (39%), Gaps = 4/100 (4%)

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSK--FSNWFQVLSNLRSLTTLYLG 220
           +Q LD++   L  +   + L  L   + + L DC L++    +    L    +L  L L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 221 HCDLPPISTPSLLHL--NYSKSLEVIDLSNNYLTNSIYPW 258
             +L  +    +L      S  ++ + L N  LT +    
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGV 103

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.3 bits (123), Expect = 1e-07
 Identities = 21/91 (23%), Positives = 32/91 (35%), Gaps = 8/91 (8%)

Query: 114 LTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQL----AGPIPHQLGNLSRLQVLDLR 169
           +  LD+     S +   E +  L +   + L    L       I   L     L  L+LR
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 170 FNNLFSSGNLDWLSYLSS----LRYLDLGDC 196
            N L   G    L  L +    ++ L L +C
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQNC 94

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.0 bits (112), Expect = 2e-06
 Identities = 16/76 (21%), Positives = 33/76 (43%), Gaps = 2/76 (2%)

Query: 187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLL-HLNYSKSLEVID 245
            ++ LD+   +LS  + W ++L  L+    + L  C L       +   L  + +L  ++
Sbjct: 3   DIQSLDIQCEELSD-ARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 61

Query: 246 LSNNYLTNSIYPWLLN 261
           L +N L +     +L 
Sbjct: 62  LRSNELGDVGVHCVLQ 77

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (98), Expect = 1e-04
 Identities = 21/89 (23%), Positives = 31/89 (34%), Gaps = 4/89 (4%)

Query: 181 WLSYLSSLRYLDLGDCKLSK--FSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHL--N 236
                S LR L L DC +S    S+    L    SL  L L +  L       L+     
Sbjct: 364 LGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQ 423

Query: 237 YSKSLEVIDLSNNYLTNSIYPWLLNVSSN 265
               LE + L + Y +  +   L  +  +
Sbjct: 424 PGCLLEQLVLYDIYWSEEMEDRLQALEKD 452

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.3 bits (97), Expect = 1e-04
 Identities = 13/90 (14%), Positives = 29/90 (32%), Gaps = 5/90 (5%)

Query: 396 IKIIDLSSNKLGGEVPEEIMD-LVGLVALNLSNNNLTGQ----ITPRIGQLKSLDFLDLS 450
           I+ +D+   +L      E++  L     + L +  LT      I+  +    +L  L+L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 451 INHFFGGIPSSLSRLRLLSVMDLSYNNFSG 480
            N         + +        +   +   
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQN 93

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (93), Expect = 4e-04
 Identities = 10/70 (14%), Positives = 22/70 (31%), Gaps = 5/70 (7%)

Query: 420 LVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHF----FGGIPSSLSRLRLLSVMDLS 474
           + +L++    L+      +   L+    + L            I S+L     L+ ++L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 475 YNNFSGKIPK 484
            N        
Sbjct: 64  SNELGDVGVH 73

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (90), Expect = 8e-04
 Identities = 21/127 (16%), Positives = 37/127 (29%), Gaps = 10/127 (7%)

Query: 83  HVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSG---SPIPEFIGSLSKL 139
             L +    LSD+    L       L  LQ    + L     +      I   +     L
Sbjct: 5   QSLDIQCEELSDARWAEL-------LPLLQQCQVVRLDDCGLTEARCKDISSALRVNPAL 57

Query: 140 SELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLS 199
           +EL L S +L     H +    +     ++  +L +         + S     L   +  
Sbjct: 58  AELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQEL 117

Query: 200 KFSNWFQ 206
             S+   
Sbjct: 118 HLSDNLL 124

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (90), Expect = 0.001
 Identities = 17/116 (14%), Positives = 38/116 (32%), Gaps = 22/116 (18%)

Query: 238 SKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLL 297
           S  ++ +D+    L+++ +  LL +       + L    L  +                 
Sbjct: 1   SLDIQSLDIQCEELSDARWAELLPLLQQC-QVVRLDDCGLTEAR---------------- 43

Query: 298 SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASN 353
               +++   L    +L  L L  NEL       +  +    T +  ++ L L + 
Sbjct: 44  ---CKDISSALRVNPALAELNLRSNELGDVGVHCV--LQGLQTPSCKIQKLSLQNC 94

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.8 bits (88), Expect = 0.002
 Identities = 13/108 (12%), Positives = 34/108 (31%), Gaps = 9/108 (8%)

Query: 368 MLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVG----LVAL 423
           + + +          +           +++++ L+   +       +   +     L  L
Sbjct: 343 LELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLREL 402

Query: 424 NLSNNNLTGQITPRIGQ-----LKSLDFLDLSINHFFGGIPSSLSRLR 466
           +LSNN L      ++ +        L+ L L   ++   +   L  L 
Sbjct: 403 DLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIYWSEEMEDRLQALE 450

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (87), Expect = 0.002
 Identities = 20/85 (23%), Positives = 32/85 (37%), Gaps = 4/85 (4%)

Query: 202 SNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLH-LNYSKSLEVIDLSNNYLTNSIYPWL- 259
                +      L  L+L  CD+   S  SL   L  + SL  +DLSNN L ++    L 
Sbjct: 359 ELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLV 418

Query: 260 --LNVSSNLVDHIDLGSNRLHGSIP 282
             +     L++ + L        + 
Sbjct: 419 ESVRQPGCLLEQLVLYDIYWSEEME 443

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (87), Expect = 0.002
 Identities = 15/74 (20%), Positives = 26/74 (35%), Gaps = 9/74 (12%)

Query: 420 LVALNLSNNNLTGQ----ITPRIGQLKSLDFLDLSINHFFGGIPSSLSR-----LRLLSV 470
           L  L L++ +++      +   +    SL  LDLS N         L         LL  
Sbjct: 371 LRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQ 430

Query: 471 MDLSYNNFSGKIPK 484
           + L    +S ++  
Sbjct: 431 LVLYDIYWSEEMED 444

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.6 bits (85), Expect = 0.004
 Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 8/93 (8%)

Query: 72  WRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPE 131
            +G+        VL L    +SDS   +L      +LL    L  LDLS N    + I +
Sbjct: 361 CQGLGQPGSVLRVLWLADCDVSDSSCSSLA----ATLLANHSLRELDLSNNCLGDAGILQ 416

Query: 132 FIGSL----SKLSELALSSAQLAGPIPHQLGNL 160
            + S+      L +L L     +  +  +L  L
Sbjct: 417 LVESVRQPGCLLEQLVLYDIYWSEEMEDRLQAL 449

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {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: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (121), Expect = 1e-07
 Identities = 52/297 (17%), Positives = 92/297 (30%), Gaps = 47/297 (15%)

Query: 186 SSLRYLDLGDCKLSKF-SNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVI 244
           ++ + + L   ++S   +  F+   NL  L         +   +   L  L      +  
Sbjct: 32  AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNA 91

Query: 245 DLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV 304
            L +      + P   +    L   + L    L    P  F  +A+L+YL L  N L+ +
Sbjct: 92  QLRS------VDPATFHGLGRLH-TLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQAL 144

Query: 305 -PKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLG 363
                 ++ +L  L L  N +        + + S       L+ L L  N +    P+  
Sbjct: 145 PDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHS-------LDRLLLHQNRVAHVHPHAF 197

Query: 364 GFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVAL 423
                                        LG +  + L +N L     E +  L  L  L
Sbjct: 198 RD---------------------------LGRLMTLYLFANNLSALPTEALAPLRALQYL 230

Query: 424 NLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSG 480
            L++N        R      L     S +     +P  L+   L     L+ N+  G
Sbjct: 231 RLNDNPWVCDCRAR-PLWAWLQKFRGSSSEVPCSLPQRLAGRDLK---RLAANDLQG 283

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {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: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (121), Expect = 1e-07
 Identities = 51/267 (19%), Positives = 85/267 (31%), Gaps = 38/267 (14%)

Query: 113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNN 172
               + L  N  S  P      +   L+ L L S  LA         L+ L+ LDL  N 
Sbjct: 33  ASQRIFLHGNRISHVP-AASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNA 91

Query: 173 LFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQ----------------------VLSN 210
              S +      L  L  L L  C L +                               +
Sbjct: 92  QLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRD 151

Query: 211 LRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHI 270
           L +LT L+L    +  +   +   L    SL+ + L  N     ++P         +  +
Sbjct: 152 LGNLTHLFLHGNRISSVPERAFRGL---HSLDRLLLHQNR-VAHVHPHAFRDLGR-LMTL 206

Query: 271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSE 330
            L +N L      A   + +L+YL L  N      +     + L+    S +E+   L +
Sbjct: 207 YLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEVPCSLPQ 266

Query: 331 FIQNVSSGSTKNSSLEWLYLASNEITG 357
            +             +   LA+N++ G
Sbjct: 267 RLAG----------RDLKRLAANDLQG 283

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {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: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (116), Expect = 5e-07
 Identities = 37/249 (14%), Positives = 72/249 (28%), Gaps = 11/249 (4%)

Query: 236 NYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLG 295
               + + I L  N +++          +  +  +         +       +     L 
Sbjct: 29  GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLS 88

Query: 296 LLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEI 355
             +      P     +  L  L L             +         ++L++LYL  N +
Sbjct: 89  DNAQLRSVDPATFHGLGRLHTLHLDRCG-------LQELGPGLFRGLAALQYLYLQDNAL 141

Query: 356 TGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIM 415
                +     G L  L                    L  +  + L  N++    P    
Sbjct: 142 QALPDDTFRDLGNLTHLFLHGN---RISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFR 198

Query: 416 DLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSY 475
           DL  L+ L L  NNL+   T  +  L++L +L L+ N +      +      L     S 
Sbjct: 199 DLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCR-ARPLWAWLQKFRGSS 257

Query: 476 NNFSGKIPK 484
           +     +P+
Sbjct: 258 SEVPCSLPQ 266

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {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: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.0 bits (107), Expect = 6e-06
 Identities = 37/226 (16%), Positives = 60/226 (26%), Gaps = 18/226 (7%)

Query: 298 SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITG 357
              L+ VP  +   ++ + + L  N +    +   +   + +        L         
Sbjct: 20  QQGLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFT 77

Query: 358 TIPNLGGFP---------------GMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLS 402
            +  L                     L  L          +         L  ++ + L 
Sbjct: 78  GLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQ 137

Query: 403 SNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSL 462
            N L     +   DL  L  L L  N ++         L SLD L L  N      P + 
Sbjct: 138 DNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAF 197

Query: 463 SRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTY-AGNPELCGLPL 507
             L  L  + L  NN S    +     R         NP +C    
Sbjct: 198 RDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRA 243

>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 = 48.6 bits (115), Expect = 1e-07
 Identities = 32/116 (27%), Positives = 48/116 (41%), Gaps = 5/116 (4%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
           T+   L +L  +T+LDLS N      +P  + +L  L  L  S   L         NL R
Sbjct: 11  TVLCHLEQLLLVTHLDLSHNRLRA--LPPALAALRCLEVLQASDNALENVDGVA--NLPR 66

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWF-QVLSNLRSLTTL 217
           LQ L L  N L  S  +  L     L  L+L    L +      ++   L S++++
Sbjct: 67  LQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 122

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.6 bits (110), Expect = 5e-07
 Identities = 26/116 (22%), Positives = 38/116 (32%), Gaps = 12/116 (10%)

Query: 164 QVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCD 223
           +VL L   +L     L  L  L  + +LDL   +L         L  L  L        +
Sbjct: 1   RVLHLAHKDLTV---LCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN 57

Query: 224 LPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG 279
           +  +             L+ + L NN L  S     L     LV  ++L  N L  
Sbjct: 58  VDGV--------ANLPRLQELLLCNNRLQQSAAIQPLVSCPRLV-LLNLQGNSLCQ 104

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 37.8 bits (87), Expect = 7e-04
 Identities = 19/108 (17%), Positives = 36/108 (33%), Gaps = 26/108 (24%)

Query: 397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDF---------- 446
           +++ L+   L   V   +  L+ +  L+LS+N L     P +  L+ L+           
Sbjct: 1   RVLHLAHKDL--TVLCHLEQLLLVTHLDLSHNRLRALP-PALAALRCLEVLQASDNALEN 57

Query: 447 ------------LDLSINHFFGG-IPSSLSRLRLLSVMDLSYNNFSGK 481
                       L L  N          L     L +++L  N+   +
Sbjct: 58  VDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQE 105

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 37.4 bits (86), Expect = 8e-04
 Identities = 20/119 (16%), Positives = 39/119 (32%), Gaps = 16/119 (13%)

Query: 315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIY 374
           ++L L++ +L   L            +   +  L L+ N +    P L     + +    
Sbjct: 1   RVLHLAHKDLT-VLCHL--------EQLLLVTHLDLSHNRLRALPPALAALRCLEVLQAS 51

Query: 375 FDKITVTWKGGQYEYKSILGLIKIIDLSSNKL-GGEVPEEIMDLVGLVALNLSNNNLTG 432
            + +              L       L +N+L      + ++    LV LNL  N+L  
Sbjct: 52  DNALENVDGVANLPRLQEL------LLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQ 104

>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 = 36.2 bits (83), Expect = 0.002
 Identities = 29/114 (25%), Positives = 45/114 (39%), Gaps = 12/114 (10%)

Query: 216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSN 275
            L+L H DL       L HL     +  +DLS+N L       L    + L     L ++
Sbjct: 2   VLHLAHKDLT-----VLCHLEQLLLVTHLDLSHNRLR-----ALPPALAALRCLEVLQAS 51

Query: 276 RLHGSIPVAFGHMASLRYLGLLSNRLREVP--KFLGNMSSLKMLVLSYNELRGE 327
                      ++  L+ L L +NRL++    + L +   L +L L  N L  E
Sbjct: 52  DNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQE 105

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 47.3 bits (111), Expect = 2e-06
 Identities = 30/237 (12%), Positives = 78/237 (32%), Gaps = 25/237 (10%)

Query: 127 SPIPEFI--GSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSY 184
           + I       +L+   ++A   + +   +     +L  +  L      + +   ++ + Y
Sbjct: 7   TAINVIFPDPALANAIKIAAGKSNVTDTVT--QADLDGITTLSAFGTGVTT---IEGVQY 61

Query: 185 LSSLRYLDLGDCKLSKFSN----WFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKS 240
           L++L  L+L D +++  +            L       +             L       
Sbjct: 62  LNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITD 121

Query: 241 LEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHG---SIPVAFGHMASLRYLGLL 297
           +  +   +N     +    +   S L    +L    +     S      +++ L  L   
Sbjct: 122 VTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKAD 181

Query: 298 SNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNE 354
            N++ ++   L ++ +L  + L  N++   +S             S+L  + L +N+
Sbjct: 182 DNKISDIS-PLASLPNLIEVHLKNNQISD-VSPL--------ANTSNLFIVTL-TNQ 227

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 36.9 bits (84), Expect = 0.004
 Identities = 19/85 (22%), Positives = 36/85 (42%), Gaps = 5/85 (5%)

Query: 111 LQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRF 170
           L  LT L       +       + +LSKL+ L     +++   P  L +L  L  + L+ 
Sbjct: 147 LAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISP--LASLPNLIEVHLKN 204

Query: 171 NNLFSSGNLDWLSYLSSLRYLDLGD 195
           N +    ++  L+  S+L  + L +
Sbjct: 205 NQI---SDVSPLANTSNLFIVTLTN 226

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 199

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 45.8 bits (107), Expect = 3e-06
 Identities = 28/202 (13%), Positives = 70/202 (34%), Gaps = 19/202 (9%)

Query: 127 SPIPEFI--GSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSY 184
           +PI +     +L++  +  L    +   +     +L ++  L      + S   +D + Y
Sbjct: 6   TPINQIFTDTALAEKMKTVLGKTNVTDTVS--QTDLDQVTTLQADRLGIKS---IDGVEY 60

Query: 185 LSSLRYLDL------GDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYS 238
           L++L  ++           L   +    +L N   +  +                +    
Sbjct: 61  LNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITD 120

Query: 239 KSLEVIDLSNNYLT---NSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLG 295
                   + N L    N+I           +  ++  SN++    P    ++ +L  L 
Sbjct: 121 IDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSNQVTDLKP--LANLTTLERLD 178

Query: 296 LLSNRLREVPKFLGNMSSLKML 317
           + SN++ ++   L  +++L+ L
Sbjct: 179 ISSNKVSDIS-VLAKLTNLESL 199

>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 = 46.7 bits (109), Expect = 5e-06
 Identities = 22/92 (23%), Positives = 38/92 (41%), Gaps = 9/92 (9%)

Query: 121 WNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLD 180
           + N S + I         L EL +S+ +L   +P       RL+ L   FN+L     L 
Sbjct: 268 YLNASSNEIRSLCDLPPSLEELNVSNNKLIE-LP---ALPPRLERLIASFNHLAEVPEL- 322

Query: 181 WLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLR 212
                 +L+ L +    L +F +  + + +LR
Sbjct: 323 ----PQNLKQLHVEYNPLREFPDIPESVEDLR 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 = 45.6 bits (106), Expect = 1e-05
 Identities = 48/320 (15%), Positives = 85/320 (26%), Gaps = 19/320 (5%)

Query: 161 SRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLG 220
            +   L+L    L S   L        L  L      L++         +L+SL      
Sbjct: 38  RQAHELELNNLGLSSLPEL-----PPHLESLVASCNSLTELPEL---PQSLKSLLVDNNN 89

Query: 221 HCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGS 280
              L  +  P L +L  S +           +      + N   +L    DL  +    +
Sbjct: 90  LKALSDL-PPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNN--SLKKLPDLPPSLEFIA 146

Query: 281 IPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGST 340
                               +      L  +  L + + S       L E  +  +    
Sbjct: 147 AGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFL 206

Query: 341 KNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIID 400
                +   L +                 +  +     ++T+        S L  +    
Sbjct: 207 TTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNL 266

Query: 401 LSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS 460
              N    E+         L  LN+SNN L  ++     +L+    L  S NH    +P 
Sbjct: 267 YYLNASSNEIRSLCDLPPSLEELNVSNNKLI-ELPALPPRLER---LIASFNH-LAEVPE 321

Query: 461 SLSRLRLLSVMDLSYNNFSG 480
               L+ L    + YN    
Sbjct: 322 LPQNLKQL---HVEYNPLRE 338

>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 = 44.8 bits (104), Expect = 2e-05
 Identities = 30/160 (18%), Positives = 51/160 (31%), Gaps = 15/160 (9%)

Query: 203 NWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV 262
              Q L  L ++         LP +             L  +      LT       +  
Sbjct: 198 PELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFS 257

Query: 263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYN 322
             + +       N     I        SL  L + +N+L E+P        L+ L+ S+N
Sbjct: 258 GLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPR---LERLIASFN 314

Query: 323 ELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNL 362
            L  E+ E  QN          L+ L++  N +    P++
Sbjct: 315 HL-AEVPELPQN----------LKQLHVEYNPLR-EFPDI 342

>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 = 44.4 bits (103), Expect = 2e-05
 Identities = 54/331 (16%), Positives = 108/331 (32%), Gaps = 17/331 (5%)

Query: 137 SKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDC 196
            +  EL L++  L+  +P    +L   + L    N+L     L       SL+ L + + 
Sbjct: 38  RQAHELELNNLGLSS-LPELPPHL---ESLVASCNSLTELPEL-----PQSLKSLLVDNN 88

Query: 197 KLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIY 256
            L   S+   +L  L           +L   S   ++ ++ +   ++ DL  +    +  
Sbjct: 89  NLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAG 148

Query: 257 PWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKM 316
              L     L +   L +     +       +       +  N + E    L N+  L  
Sbjct: 149 NNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTT 208

Query: 317 LVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFD 376
           +    N L+          +     N   +   L  +     +          +P   + 
Sbjct: 209 IYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYY 268

Query: 377 KITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITP 436
               + +        +   ++ +++S+NKL  E+P        L  L  S N+L  ++  
Sbjct: 269 LNASSNE--IRSLCDLPPSLEELNVSNNKL-IELPALPP---RLERLIASFNHLA-EVPE 321

Query: 437 RIGQLKSLDFLDLSINHFFGGIPSSLSRLRL 467
               LK L      +   F  IP S+  LR+
Sbjct: 322 LPQNLKQLHVEYNPLRE-FPDIPESVEDLRM 351

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 44.2 bits (103), Expect = 1e-05
 Identities = 26/193 (13%), Positives = 61/193 (31%), Gaps = 13/193 (6%)

Query: 135 SLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG 194
           + ++  +  L    +   +      L+ +  +    +++ S   +  + YL ++  L L 
Sbjct: 22  AFAETIKDNLKKKSVTDAVT--QNELNSIDQIIANNSDIKS---VQGIQYLPNVTKLFLN 76

Query: 195 DCKLSKF-------SNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLS 247
             KL+         +  +  L   +      L         +     ++    L  +   
Sbjct: 77  GNKLTDIKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQL 136

Query: 248 NNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKF 307
            +    +     + V S L     L       S  V    +  L+ L L  N + ++   
Sbjct: 137 ESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLR-A 195

Query: 308 LGNMSSLKMLVLS 320
           L  + +L +L L 
Sbjct: 196 LAGLKNLDVLELF 208

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 40.8 bits (94), Expect = 2e-04
 Identities = 26/186 (13%), Positives = 61/186 (32%), Gaps = 13/186 (6%)

Query: 271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSE 330
           +L    +  ++      + S+  +   ++ ++ V   +  + ++  L L+ N+L     +
Sbjct: 30  NLKKKSVTDAVTQN--ELNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGNKLTDI--K 84

Query: 331 FIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYK 390
            + N+ +          +   S+                +  I         +       
Sbjct: 85  PLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNN 144

Query: 391 SILGLIKIIDLSSNKLGGEVPEEIMD------LVGLVALNLSNNNLTGQITPRIGQLKSL 444
            I  +  +  L+          +I D      L  L  L LS N+++      +  LK+L
Sbjct: 145 KITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISD--LRALAGLKNL 202

Query: 445 DFLDLS 450
           D L+L 
Sbjct: 203 DVLELF 208

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.9 bits (100), Expect = 2e-05
 Identities = 20/127 (15%), Positives = 43/127 (33%), Gaps = 7/127 (5%)

Query: 129 IPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSL 188
           +   +      S+ AL    L       L   +   VL+ R +   +   +     +  L
Sbjct: 12  LKLIMSKRYDGSQQALDLKGL--RSDPDLVAQNIDVVLNRRSSMAATLRII--EENIPEL 67

Query: 189 RYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSN 248
             L+L + +L +  +   ++    +L  L L   +L        +     + L    L  
Sbjct: 68  LSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEEL---WLDG 124

Query: 249 NYLTNSI 255
           N L+++ 
Sbjct: 125 NSLSDTF 131

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 156

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]

 Score = 40.9 bits (94), Expect = 9e-05
 Identities = 20/110 (18%), Positives = 34/110 (30%), Gaps = 2/110 (1%)

Query: 399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRI-GQLKSLDFLDLSINHFFGG 457
           +  + +    +    +     L  L + N      +  R    L  L  L +  +     
Sbjct: 13  LRCTRDGAL-DSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFV 71

Query: 458 IPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPL 507
            P +      LS ++LS+N       K  Q         +GNP  C   L
Sbjct: 72  APDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLHCSCAL 121

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

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]

 Score = 42.6 bits (98), Expect = 1e-04
 Identities = 33/328 (10%), Positives = 81/328 (24%), Gaps = 27/328 (8%)

Query: 163 LQVLDLRFNNLFSSG---NLDWLSYLSSLRYLDLGDCKLS-----KFSNWFQVLSNLRSL 214
           ++   L+ + + +         L    S++ + L    +        S       +L   
Sbjct: 5   IEGKSLKLDAITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIA 64

Query: 215 TTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGS 274
               +    +      +L  L  +     +     +            +   +       
Sbjct: 65  EFSDIFTGRVKDEIPEALRLLLQAL----LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKH 120

Query: 275 NRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQN 334
             L        G           + +   V K   N   L+ ++   N L     +    
Sbjct: 121 TPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAK 180

Query: 335 VSSGSTK---NSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKS 391
                        ++            +  L     + +  +  +  T            
Sbjct: 181 TFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALK 240

Query: 392 ILGLIKIIDLSSNKLGGEVPEEIMD------LVGLVALNLSNNNLTGQITPRI-----GQ 440
               ++ + L+   L       ++D       +GL  L L  N +       +      +
Sbjct: 241 SWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEK 300

Query: 441 LKSLDFLDLSINHFFGGIPSSLSRLRLL 468
           +  L FL+L+ N  F      +  +R +
Sbjct: 301 MPDLLFLELNGNR-FSEEDDVVDEIREV 327

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

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]

 Score = 38.7 bits (88), Expect = 0.001
 Identities = 43/356 (12%), Positives = 91/356 (25%), Gaps = 40/356 (11%)

Query: 85  LGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSG---SPIPEFIGSLSKLSE 141
             L L A++     +    +   LL+   +  + LS N         + E I S   L  
Sbjct: 8   KSLKLDAITTEDEKS----VFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEI 63

Query: 142 LALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFS--------SGNLDWLSYLSSLRYLDL 193
              S              L  L    L+   L +                     ++  L
Sbjct: 64  AEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPL 123

Query: 194 GDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLP-PISTPSLLHLNYSKSLEVIDLSNNYLT 252
               L       Q  + +         +          S++          +        
Sbjct: 124 EHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQ 183

Query: 253 NSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMS 312
           +      + +  N +    +    L G        +  L+           +   L +  
Sbjct: 184 SHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWP 243

Query: 313 SLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPL 372
           +L+ L L+   L    +  + +  S   +N  L+ L L  NEI             L  +
Sbjct: 244 NLRELGLNDCLLSARGAAAVVDAFS-KLENIGLQTLRLQYNEIELDAVR------TLKTV 296

Query: 373 IYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNN 428
           I                   +  +  ++L+ N+   E  + + ++  + +      
Sbjct: 297 I----------------DEKMPDLLFLELNGNRFSEE-DDVVDEIREVFSTRGRGE 335

>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 = 39.9 bits (92), Expect = 2e-04
 Identities = 25/116 (21%), Positives = 44/116 (37%), Gaps = 4/116 (3%)

Query: 103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSR 162
            I      L     +D S N        +    L +L  L +++ ++          L  
Sbjct: 32  VIENLGATLDQFDAIDFSDNEI---RKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPD 88

Query: 163 LQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNW-FQVLSNLRSLTTL 217
           L  L L  N+L   G+LD L+ L SL YL +    ++   ++   V+  +  +  L
Sbjct: 89  LTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVL 144

>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 = 36.1 bits (82), Expect = 0.004
 Identities = 17/99 (17%), Positives = 26/99 (26%), Gaps = 3/99 (3%)

Query: 413 EIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMD 472
           +  + V    L+L    +   I      L   D +D S N            LR L  + 
Sbjct: 13  QYTNAVRDRELDLRGYKIP-VIENLGATLDQFDAIDFSDNEIR--KLDGFPLLRRLKTLL 69

Query: 473 LSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLPLPNKC 511
           ++ N          Q           N  L  L   +  
Sbjct: 70  VNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPL 108

>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 = 0.003
 Identities = 30/256 (11%), Positives = 62/256 (24%), Gaps = 28/256 (10%)

Query: 67  RNC-CKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFS 125
           R C C  R   C              +++ P D  +           +   L        
Sbjct: 4   RICHCSNRVFLCQE----------SKVTEIPSDLPR-----------NAIELRFVLTKLR 42

Query: 126 GSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYL 185
                        L ++ +S   +   I   + +             +  + NL +++  
Sbjct: 43  VIQ-KGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKL----HEIRIEKANNLLYINPE 97

Query: 186 SSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVID 245
           +     +L    +S          +        L              +     S E + 
Sbjct: 98  AFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVI 157

Query: 246 LSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP 305
           L  N              + L +     +N L       F   +    L +   R+  +P
Sbjct: 158 LWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLP 217

Query: 306 KF-LGNMSSLKMLVLS 320
            + L N+  L+     
Sbjct: 218 SYGLENLKKLRARSTY 233

>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 = 36.8 bits (83), Expect = 0.004
 Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 3/49 (6%)

Query: 180 DWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHC-DLPPI 227
           D     S    LD+   ++    ++   L NL+ L      +   LP +
Sbjct: 195 DVFHGASGPVILDISRTRIHSLPSY--GLENLKKLRARSTYNLKKLPTL 241

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	598
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.96
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.95
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.93
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.92
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.9
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.9
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.9
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.89
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.88
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.84
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.8
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.78
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.77
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.77
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.73
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.72
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.71
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.7
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.7
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.69
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.68
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.68
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.66
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.6
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.57
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.53
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.52
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.51
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.48
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.45
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.45
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.42
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.32
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.19
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.11
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.2
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.16
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.83
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.75
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.27
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.92

>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=100.00  E-value=1.3e-41  Score=340.76  Aligned_cols=302  Identities=34%  Similarity=0.616  Sum_probs=203.4

Q ss_pred             CCcHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCCC--ccCeeeCCCC--CcEEEEEcCCCCCCCCCCCce--ecCcc
Q 040109           34 SCLDEEKEALLAFKQGLIDESGILSSWGREDEKRNCCK--WRGVRCSNKT--GHVLGLDLRALSDSPVDALKG--TINPS  107 (598)
Q Consensus        34 ~~~~~~~~~l~~~k~~~~~~~~~l~~W~~~~~~~~~c~--w~gv~C~~~~--~~v~~l~l~~~~~~~~~~l~g--~l~~~  107 (598)
                      -|.++|++||++||+++.+|. .+++|.   .+.|||.  |.||+|+...  +||++|||++      +.+.|  .+|++
T Consensus         2 ~c~~~e~~aLl~~k~~~~~~~-~l~sW~---~~~d~C~~~w~gv~C~~~~~~~~v~~L~L~~------~~l~g~~~lp~~   71 (313)
T d1ogqa_           2 LCNPQDKQALLQIKKDLGNPT-TLSSWL---PTTDCCNRTWLGVLCDTDTQTYRVNNLDLSG------LNLPKPYPIPSS   71 (313)
T ss_dssp             CSCHHHHHHHHHHHHHTTCCG-GGTTCC---TTSCTTTTCSTTEEECCSSSCCCEEEEEEEC------CCCSSCEECCGG
T ss_pred             CCCHHHHHHHHHHHHHCCCCC-cCCCCC---CCCCCCCCcCCCeEEeCCCCcEEEEEEECCC------CCCCCCCCCChH
Confidence            399999999999999999875 689997   4779994  9999998643  3788888887      55655  35555


Q ss_pred             ccCCCCCCEEECcC-CCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCC
Q 040109          108 LLKLQHLTYLDLSW-NNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLS  186 (598)
Q Consensus       108 l~~l~~L~~L~Ls~-n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~  186 (598)
                      ++++++|++|+|++ |.+++. +|..|+++++|++|+|++|++.+..+..+..+.+|+++++++|               
T Consensus        72 l~~L~~L~~L~Ls~~N~l~g~-iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N---------------  135 (313)
T d1ogqa_          72 LANLPYLNFLYIGGINNLVGP-IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYN---------------  135 (313)
T ss_dssp             GGGCTTCSEEEEEEETTEESC-CCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSS---------------
T ss_pred             HhcCccccccccccccccccc-cccccccccccchhhhccccccccccccccchhhhcccccccc---------------
Confidence            55555555555553 444442 4444444444444444444444333333322222222222222               


Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccC
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNL  266 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~  266 (598)
                                                                                                      
T Consensus       136 --------------------------------------------------------------------------------  135 (313)
T d1ogqa_         136 --------------------------------------------------------------------------------  135 (313)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             ccEEEccCCccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCC-cEEEcccCcCccchhhhhhhcCCCCCCCCC
Q 040109          267 VDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSL-KMLVLSYNELRGELSEFIQNVSSGSTKNSS  344 (598)
Q Consensus       267 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L-~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~  344 (598)
                               .+.+.+|..+.++++++++++++|.+.+ +|..+..+.++ +.+++++|++++..|..+..+.        
T Consensus       136 ---------~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~--------  198 (313)
T d1ogqa_         136 ---------ALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN--------  198 (313)
T ss_dssp             ---------EEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCC--------
T ss_pred             ---------cccccCchhhccCcccceeeccccccccccccccccccccccccccccccccccccccccccc--------
Confidence                     2222233333333333444444444333 44444444443 5566666666665555544432        


Q ss_pred             CCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEE
Q 040109          345 LEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALN  424 (598)
Q Consensus       345 L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~  424 (598)
                                                                         ...++++++...+.+|..+..+++++.++
T Consensus       199 ---------------------------------------------------~~~l~l~~~~~~~~~~~~~~~~~~l~~l~  227 (313)
T d1ogqa_         199 ---------------------------------------------------LAFVDLSRNMLEGDASVLFGSDKNTQKIH  227 (313)
T ss_dssp             ---------------------------------------------------CSEEECCSSEEEECCGGGCCTTSCCSEEE
T ss_pred             ---------------------------------------------------ccccccccccccccccccccccccccccc
Confidence                                                               23455555666667777888889999999


Q ss_pred             CcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCC
Q 040109          425 LSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCG  504 (598)
Q Consensus       425 Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~  504 (598)
                      +++|.+.+.+| .++.+++|+.|+|++|+++|.+|+.|.++++|++|+|++|+++|.+|....+++++.+++.||+.+||
T Consensus       228 ~~~~~l~~~~~-~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~~~L~~L~~l~l~~N~~l~g  306 (313)
T d1ogqa_         228 LAKNSLAFDLG-KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             CCSSEECCBGG-GCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCSSSEEES
T ss_pred             ccccccccccc-ccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccCCCcccCCCCCHHHhCCCccccC
Confidence            99999987655 68889999999999999999999999999999999999999999999988899999999999999999


Q ss_pred             CCCCCCC
Q 040109          505 LPLPNKC  511 (598)
Q Consensus       505 ~~~~~~c  511 (598)
                      .|++ .|
T Consensus       307 ~plp-~c  312 (313)
T d1ogqa_         307 SPLP-AC  312 (313)
T ss_dssp             TTSS-CC
T ss_pred             CCCC-CC
Confidence            9875 66

>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=99.96  E-value=2.6e-27  Score=242.92  Aligned_cols=187  Identities=21%  Similarity=0.320  Sum_probs=100.3

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV  318 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  318 (598)
                      ++++.+++++|.+++..+  ....+.  +++|++++|.+++ + ..+..+++|+.|++++|.+++++. +..+++|+.|+
T Consensus       197 ~~~~~l~l~~n~i~~~~~--~~~~~~--L~~L~l~~n~l~~-~-~~l~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~  269 (384)
T d2omza2         197 TNLESLIATNNQISDITP--LGILTN--LDELSLNGNQLKD-I-GTLASLTNLTDLDLANNQISNLAP-LSGLTKLTELK  269 (384)
T ss_dssp             TTCSEEECCSSCCCCCGG--GGGCTT--CCEEECCSSCCCC-C-GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCSEEE
T ss_pred             cccceeeccCCccCCCCc--ccccCC--CCEEECCCCCCCC-c-chhhcccccchhccccCccCCCCc-ccccccCCEee
Confidence            444455555554443322  222333  4555555554442 1 134444455555555555444332 44444555555


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +++|++.+..+  +..+.       .++.++++.|.+++.                             .....+++++.
T Consensus       270 l~~~~l~~~~~--~~~~~-------~l~~l~~~~n~l~~~-----------------------------~~~~~~~~l~~  311 (384)
T d2omza2         270 LGANQISNISP--LAGLT-------ALTNLELNENQLEDI-----------------------------SPISNLKNLTY  311 (384)
T ss_dssp             CCSSCCCCCGG--GTTCT-------TCSEEECCSSCCSCC-----------------------------GGGGGCTTCSE
T ss_pred             ccCcccCCCCc--ccccc-------ccccccccccccccc-----------------------------cccchhcccCe
Confidence            55554443322  22222       444555554444321                             12344566777


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCC
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYN  476 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N  476 (598)
                      |++++|++++. + .+..+++|++|++++|++++ ++ .+.++++|++|++++|++++..|  +.++++|+.|+|++|
T Consensus       312 L~ls~n~l~~l-~-~l~~l~~L~~L~L~~n~l~~-l~-~l~~l~~L~~L~l~~N~l~~l~~--l~~l~~L~~L~L~~N  383 (384)
T d2omza2         312 LTLYFNNISDI-S-PVSSLTKLQRLFFANNKVSD-VS-SLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQ  383 (384)
T ss_dssp             EECCSSCCSCC-G-GGGGCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEECCSSCCCBCGG--GTTCTTCSEEECCCE
T ss_pred             EECCCCCCCCC-c-ccccCCCCCEEECCCCCCCC-Ch-hHcCCCCCCEEECCCCcCCCChh--hccCCCCCEeeCCCC
Confidence            77777777643 2 36677777777777777763 33 46777777777777777765543  667777777777776

>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=99.95  E-value=2.2e-25  Score=228.33  Aligned_cols=301  Identities=24%  Similarity=0.327  Sum_probs=232.7

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      ..++.|++++      ++++. + +.+..+++|++|++++|.+++  +| .++++++|++|++++|.+.+..  .+++++
T Consensus        44 ~~l~~L~l~~------~~I~~-l-~gl~~L~nL~~L~Ls~N~l~~--l~-~l~~L~~L~~L~L~~n~i~~i~--~l~~l~  110 (384)
T d2omza2          44 DQVTTLQADR------LGIKS-I-DGVEYLNNLTQINFSNNQLTD--IT-PLKNLTKLVDILMNNNQIADIT--PLANLT  110 (384)
T ss_dssp             TTCCEEECCS------SCCCC-C-TTGGGCTTCCEEECCSSCCCC--CG-GGTTCTTCCEEECCSSCCCCCG--GGTTCT
T ss_pred             CCCCEEECCC------CCCCC-c-cccccCCCCCEEeCcCCcCCC--Cc-cccCCccccccccccccccccc--cccccc
Confidence            3578899887      44442 3 347789999999999999986  44 3899999999999999998543  388999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCC---------------------------------------C
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKF---------------------------------------S  202 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~---------------------------------------~  202 (598)
                      +|+.|+++++.+...   ........+.......|.+...                                       .
T Consensus       111 ~L~~L~~~~~~~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (384)
T d2omza2         111 NLTGLTLFNNQITDI---DPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKV  187 (384)
T ss_dssp             TCCEEECCSSCCCCC---GGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCC
T ss_pred             ccccccccccccccc---ccccccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccccc
Confidence            999999998876221   1122233333333322221110                                       0


Q ss_pred             chhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccc
Q 040109          203 NWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIP  282 (598)
Q Consensus       203 ~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p  282 (598)
                      ........+++++.+++++|.+++..+  ...   .++|+.|++++|.++.  ++.+..++.  ++.|++++|.+++..+
T Consensus       188 ~~~~~~~~l~~~~~l~l~~n~i~~~~~--~~~---~~~L~~L~l~~n~l~~--~~~l~~l~~--L~~L~l~~n~l~~~~~  258 (384)
T d2omza2         188 SDISVLAKLTNLESLIATNNQISDITP--LGI---LTNLDELSLNGNQLKD--IGTLASLTN--LTDLDLANNQISNLAP  258 (384)
T ss_dssp             CCCGGGGGCTTCSEEECCSSCCCCCGG--GGG---CTTCCEEECCSSCCCC--CGGGGGCTT--CSEEECCSSCCCCCGG
T ss_pred             ccccccccccccceeeccCCccCCCCc--ccc---cCCCCEEECCCCCCCC--cchhhcccc--cchhccccCccCCCCc
Confidence            012456778899999999999988654  222   2899999999999985  346778888  9999999999986543


Q ss_pred             hhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCC
Q 040109          283 VAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNL  362 (598)
Q Consensus       283 ~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l  362 (598)
                        +..+++|++|++++|.+++++. +..++.++.++++.|.+.+..  .+..+.       +++.|++++|++++..   
T Consensus       259 --~~~~~~L~~L~l~~~~l~~~~~-~~~~~~l~~l~~~~n~l~~~~--~~~~~~-------~l~~L~ls~n~l~~l~---  323 (384)
T d2omza2         259 --LSGLTKLTELKLGANQISNISP-LAGLTALTNLELNENQLEDIS--PISNLK-------NLTYLTLYFNNISDIS---  323 (384)
T ss_dssp             --GTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCSCCG--GGGGCT-------TCSEEECCSSCCSCCG---
T ss_pred             --ccccccCCEeeccCcccCCCCc-ccccccccccccccccccccc--ccchhc-------ccCeEECCCCCCCCCc---
Confidence              7889999999999999998764 778899999999999998743  356666       8999999999998532   


Q ss_pred             CCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCC
Q 040109          363 GGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLK  442 (598)
Q Consensus       363 ~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~  442 (598)
                                                .+..+++|++|++++|++++ ++ .+.++++|++|++++|++++..|  +.+++
T Consensus       324 --------------------------~l~~l~~L~~L~L~~n~l~~-l~-~l~~l~~L~~L~l~~N~l~~l~~--l~~l~  373 (384)
T d2omza2         324 --------------------------PVSSLTKLQRLFFANNKVSD-VS-SLANLTNINWLSAGHNQISDLTP--LANLT  373 (384)
T ss_dssp             --------------------------GGGGCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEECCSSCCCBCGG--GTTCT
T ss_pred             --------------------------ccccCCCCCEEECCCCCCCC-Ch-hHcCCCCCCEEECCCCcCCCChh--hccCC
Confidence                                      13557889999999999984 54 68999999999999999996554  89999


Q ss_pred             CCCeeeCCCC
Q 040109          443 SLDFLDLSIN  452 (598)
Q Consensus       443 ~L~~L~Ls~N  452 (598)
                      +|++|+|++|
T Consensus       374 ~L~~L~L~~N  383 (384)
T d2omza2         374 RITQLGLNDQ  383 (384)
T ss_dssp             TCSEEECCCE
T ss_pred             CCCEeeCCCC
Confidence            9999999998

>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=99.93  E-value=4.7e-24  Score=211.35  Aligned_cols=267  Identities=21%  Similarity=0.214  Sum_probs=161.4

Q ss_pred             CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEE
Q 040109          113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLD  192 (598)
Q Consensus       113 ~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~  192 (598)
                      ..+.+|-+++.++  .+|..+.  +++++|+|++|+|+...+.+|.++++|++|++++|.+ ....+..|.++++|++|+
T Consensus        11 ~~~~~~C~~~~L~--~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~-~~i~~~~f~~l~~L~~L~   85 (305)
T d1xkua_          11 HLRVVQCSDLGLE--KVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKI-SKISPGAFAPLVKLERLY   85 (305)
T ss_dssp             ETTEEECTTSCCC--SCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC-CCBCTTTTTTCTTCCEEE
T ss_pred             cCCEEEecCCCCC--ccCCCCC--CCCCEEECcCCcCCCcChhHhhccccccccccccccc-cccchhhhhCCCccCEec
Confidence            5677888888887  3677663  6788888888888855555788888888888888876 334445567777777777


Q ss_pred             cCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEc
Q 040109          193 LGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDL  272 (598)
Q Consensus       193 L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L  272 (598)
                      +++|+++.++.     ...                           ..++.|++.+|.+.+..+..+.....  ...++.
T Consensus        86 l~~n~l~~l~~-----~~~---------------------------~~l~~L~~~~n~l~~l~~~~~~~~~~--~~~l~~  131 (305)
T d1xkua_          86 LSKNQLKELPE-----KMP---------------------------KTLQELRVHENEITKVRKSVFNGLNQ--MIVVEL  131 (305)
T ss_dssp             CCSSCCSBCCS-----SCC---------------------------TTCCEEECCSSCCCBBCHHHHTTCTT--CCEEEC
T ss_pred             ccCCccCcCcc-----chh---------------------------hhhhhhhccccchhhhhhhhhhcccc--cccccc
Confidence            77777666432     112                           34444555555544333333333333  555555


Q ss_pred             cCCccc--cccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEc
Q 040109          273 GSNRLH--GSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL  350 (598)
Q Consensus       273 ~~n~l~--~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~L  350 (598)
                      ..|...  ...+..+..+++|+.+++++|.+..+|..+  +++|+.|++++|...+..+..+..++       .++.|++
T Consensus       132 ~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~~--~~~L~~L~l~~n~~~~~~~~~~~~~~-------~l~~L~~  202 (305)
T d1xkua_         132 GTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLN-------NLAKLGL  202 (305)
T ss_dssp             CSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSC--CTTCSEEECTTSCCCEECTGGGTTCT-------TCCEEEC
T ss_pred             ccccccccCCCccccccccccCccccccCCccccCccc--CCccCEEECCCCcCCCCChhHhhccc-------ccccccc
Confidence            555332  233445666777777777777777766433  46677777777776666665555544       4555555


Q ss_pred             cCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcC
Q 040109          351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNL  430 (598)
Q Consensus       351 s~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l  430 (598)
                      ++|.++                                                   +..+..+.++++|++|+|++|++
T Consensus       203 s~n~l~---------------------------------------------------~~~~~~~~~l~~L~~L~L~~N~L  231 (305)
T d1xkua_         203 SFNSIS---------------------------------------------------AVDNGSLANTPHLRELHLNNNKL  231 (305)
T ss_dssp             CSSCCC---------------------------------------------------EECTTTGGGSTTCCEEECCSSCC
T ss_pred             cccccc---------------------------------------------------ccccccccccccceeeecccccc
Confidence            555444                                                   34444555556666666666666


Q ss_pred             cccCCcccCCCCCCCeeeCCCCccCCCCcc------cccCCCCCCEEeCCCCcce
Q 040109          431 TGQITPRIGQLKSLDFLDLSINHFFGGIPS------SLSRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       431 ~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~------~l~~l~~L~~L~ls~N~l~  479 (598)
                      + .+|+++..+++|++|+|++|+|+..-..      ....+++|+.|++++|++.
T Consensus       232 ~-~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         232 V-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             S-SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             c-ccccccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCcCc
Confidence            5 4455566666666666666665532221      2234556666777777664

>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=99.92  E-value=1.2e-23  Score=208.32  Aligned_cols=244  Identities=23%  Similarity=0.301  Sum_probs=195.3

Q ss_pred             CCccCeeeCCCCCcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcc-hhcCCCCCCCEEECCCCC
Q 040109           70 CKWRGVRCSNKTGHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIP-EFIGSLSKLSELALSSAQ  148 (598)
Q Consensus        70 c~w~gv~C~~~~~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p-~~l~~l~~L~~L~Ls~n~  148 (598)
                      |.|.++.|.+                  .+++ ++|+.+.  +++++|+|++|+++.  +| ..|.++++|++|++++|.
T Consensus        10 c~~~~~~C~~------------------~~L~-~lP~~l~--~~l~~L~Ls~N~i~~--l~~~~f~~l~~L~~L~l~~n~   66 (305)
T d1xkua_          10 CHLRVVQCSD------------------LGLE-KVPKDLP--PDTALLDLQNNKITE--IKDGDFKNLKNLHTLILINNK   66 (305)
T ss_dssp             EETTEEECTT------------------SCCC-SCCCSCC--TTCCEEECCSSCCCC--BCTTTTTTCTTCCEEECCSSC
T ss_pred             ecCCEEEecC------------------CCCC-ccCCCCC--CCCCEEECcCCcCCC--cChhHhhcccccccccccccc
Confidence            6788888863                  2233 4566553  689999999999985  55 479999999999999999


Q ss_pred             CCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCC
Q 040109          149 LAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIS  228 (598)
Q Consensus       149 l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~  228 (598)
                      +....|..|.++++|++|++++|++.. .+ .  .....++.|++.+|.+..++.  ..+.....++.++...|......
T Consensus        67 ~~~i~~~~f~~l~~L~~L~l~~n~l~~-l~-~--~~~~~l~~L~~~~n~l~~l~~--~~~~~~~~~~~l~~~~n~~~~~~  140 (305)
T d1xkua_          67 ISKISPGAFAPLVKLERLYLSKNQLKE-LP-E--KMPKTLQELRVHENEITKVRK--SVFNGLNQMIVVELGTNPLKSSG  140 (305)
T ss_dssp             CCCBCTTTTTTCTTCCEEECCSSCCSB-CC-S--SCCTTCCEEECCSSCCCBBCH--HHHTTCTTCCEEECCSSCCCGGG
T ss_pred             ccccchhhhhCCCccCEecccCCccCc-Cc-c--chhhhhhhhhccccchhhhhh--hhhhccccccccccccccccccC
Confidence            998888899999999999999999732 22 1  334689999999999998754  66778888899998888655433


Q ss_pred             CChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCc-chh
Q 040109          229 TPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREV-PKF  307 (598)
Q Consensus       229 ~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~l-p~~  307 (598)
                      ........ .++|+.+++++|.++. ++..+  .++  ++.|++++|..++..+..+..++.+++|++++|.++++ +..
T Consensus       141 ~~~~~~~~-l~~L~~l~l~~n~l~~-l~~~~--~~~--L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~  214 (305)
T d1xkua_         141 IENGAFQG-MKKLSYIRIADTNITT-IPQGL--PPS--LTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGS  214 (305)
T ss_dssp             BCTTGGGG-CTTCCEEECCSSCCCS-CCSSC--CTT--CSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTT
T ss_pred             CCcccccc-ccccCccccccCCccc-cCccc--CCc--cCEEECCCCcCCCCChhHhhcccccccccccccccccccccc
Confidence            22122222 3889999999999874 44432  345  99999999999999999999999999999999999995 568


Q ss_pred             hcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCcccc
Q 040109          308 LGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEIT  356 (598)
Q Consensus       308 l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~  356 (598)
                      +.++++|++|+|++|+++.. |..+..++       +|+.|++++|+++
T Consensus       215 ~~~l~~L~~L~L~~N~L~~l-p~~l~~l~-------~L~~L~Ls~N~i~  255 (305)
T d1xkua_         215 LANTPHLRELHLNNNKLVKV-PGGLADHK-------YIQVVYLHNNNIS  255 (305)
T ss_dssp             GGGSTTCCEEECCSSCCSSC-CTTTTTCS-------SCCEEECCSSCCC
T ss_pred             ccccccceeeeccccccccc-cccccccc-------CCCEEECCCCccC
Confidence            88999999999999999865 66777777       8999999999887

>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=99.90  E-value=3.3e-23  Score=202.93  Aligned_cols=215  Identities=24%  Similarity=0.247  Sum_probs=156.8

Q ss_pred             ecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccc
Q 040109          103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL  182 (598)
Q Consensus       103 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l  182 (598)
                      .+|..+.  +.+++|+|++|+|+.. .+..|.++++|++|++++|.+....+..+..+..++.++...+.......+..+
T Consensus        25 ~iP~~ip--~~~~~L~Ls~N~i~~i-~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~  101 (284)
T d1ozna_          25 AVPVGIP--AASQRIFLHGNRISHV-PAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATF  101 (284)
T ss_dssp             SCCTTCC--TTCSEEECTTSCCCEE-CTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTT
T ss_pred             ccCCCCC--CCCCEEECcCCcCCCC-CHHHhhccccccccccccccccccccccccccccccccccccccccccccchhh
Confidence            4555443  5689999999999853 345789999999999999999988888888899999988765543355556678


Q ss_pred             cCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhc
Q 040109          183 SYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNV  262 (598)
Q Consensus       183 ~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  262 (598)
                      .++++|++|++++|.+..++.  ..+...++|+.+++++|.+++.++..+...   ++|+.|++++|.+++..+..+.++
T Consensus       102 ~~l~~L~~L~l~~n~~~~~~~--~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~---~~L~~L~l~~N~l~~l~~~~f~~l  176 (284)
T d1ozna_         102 HGLGRLHTLHLDRCGLQELGP--GLFRGLAALQYLYLQDNALQALPDDTFRDL---GNLTHLFLHGNRISSVPERAFRGL  176 (284)
T ss_dssp             TTCTTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECCSSCCCCCCTTTTTTC---TTCCEEECCSSCCCEECTTTTTTC
T ss_pred             cccccCCEEecCCcccccccc--cccchhcccchhhhccccccccChhHhccc---cchhhcccccCcccccchhhhccc
Confidence            888899999998888877633  566777788888888888877666444333   667777777777776556666666


Q ss_pred             CccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcc-hhhcCCCCCcEEEcccCcCccc
Q 040109          263 SSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVP-KFLGNMSSLKMLVLSYNELRGE  327 (598)
Q Consensus       263 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp-~~l~~l~~L~~L~Ls~n~l~~~  327 (598)
                      ++  |+.+++++|++++..|..|..+++|++|++++|.+.+++ ..+..+++|++|++++|++...
T Consensus       177 ~~--L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~C~  240 (284)
T d1ozna_         177 HS--LDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCD  240 (284)
T ss_dssp             TT--CCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEECS
T ss_pred             cc--cchhhhhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEecCCCCCCC
Confidence            66  777777777777666677777777777777777776633 4566677777777777766544

>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=99.90  E-value=1.2e-23  Score=209.10  Aligned_cols=225  Identities=27%  Similarity=0.402  Sum_probs=199.3

Q ss_pred             CCccEEEccCCCCCC--CcchhhhhcCccCccEEEccC-CccccccchhhcCCCCccEEeeccCCCCC-cchhhcCCCCC
Q 040109          239 KSLEVIDLSNNYLTN--SIYPWLLNVSSNLVDHIDLGS-NRLHGSIPVAFGHMASLRYLGLLSNRLRE-VPKFLGNMSSL  314 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~--~~~~~l~~~~~~~L~~L~L~~-n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~-lp~~l~~l~~L  314 (598)
                      .+++.|+|+++.+++  .+|+.+++++.  |++|++++ |.++|.+|..++++++|++|++++|++.+ .+..+..+.+|
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l~~L~~--L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L  127 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPY--LNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTT--CSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCcc--ccccccccccccccccccccccccccchhhhccccccccccccccchhhh
Confidence            368899999999988  47899999999  99999987 89999999999999999999999999998 56678899999


Q ss_pred             cEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCccccccccc
Q 040109          315 KMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILG  394 (598)
Q Consensus       315 ~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~  394 (598)
                      +.+++++|.+.+.+|..+..++       .++.+++++|.+++.+|.                           ....+.
T Consensus       128 ~~l~l~~N~~~~~~p~~l~~l~-------~L~~l~l~~n~l~~~ip~---------------------------~~~~l~  173 (313)
T d1ogqa_         128 VTLDFSYNALSGTLPPSISSLP-------NLVGITFDGNRISGAIPD---------------------------SYGSFS  173 (313)
T ss_dssp             CEEECCSSEEESCCCGGGGGCT-------TCCEEECCSSCCEEECCG---------------------------GGGCCC
T ss_pred             cccccccccccccCchhhccCc-------ccceeecccccccccccc---------------------------cccccc
Confidence            9999999999999999999988       899999999999988774                           122233


Q ss_pred             c-cceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeC
Q 040109          395 L-IKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL  473 (598)
Q Consensus       395 ~-L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  473 (598)
                      . ++.+++++|++++..|..+..+..+ .++++++...+.+|..+..+++|+.+++++|.+++.+| .+..+++|+.|++
T Consensus       174 ~l~~~l~~~~n~l~~~~~~~~~~l~~~-~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~-~~~~~~~L~~L~L  251 (313)
T d1ogqa_         174 KLFTSMTISRNRLTGKIPPTFANLNLA-FVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDL  251 (313)
T ss_dssp             TTCCEEECCSSEEEEECCGGGGGCCCS-EEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG-GCCCCTTCCEEEC
T ss_pred             ccccccccccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccc-ccccccccccccC
Confidence            3 4889999999999999998887654 79999999999999999999999999999999987765 6888999999999


Q ss_pred             CCCcceecCCCC-CccCccCCCccCCCCC
Q 040109          474 SYNNFSGKIPKG-TQLQRFGASTYAGNPE  501 (598)
Q Consensus       474 s~N~l~~~~p~~-~~~~~l~~~~~~gnp~  501 (598)
                      ++|+++|.+|.. ..+++++.+++++|..
T Consensus       252 s~N~l~g~iP~~l~~L~~L~~L~Ls~N~l  280 (313)
T d1ogqa_         252 RNNRIYGTLPQGLTQLKFLHSLNVSFNNL  280 (313)
T ss_dssp             CSSCCEECCCGGGGGCTTCCEEECCSSEE
T ss_pred             ccCeecccCChHHhCCCCCCEEECcCCcc
Confidence            999999999975 5678888899999853

>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=99.90  E-value=1.9e-23  Score=204.71  Aligned_cols=211  Identities=22%  Similarity=0.199  Sum_probs=162.6

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeec-cCCCCCc-chhhcCCCCCcE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLL-SNRLREV-PKFLGNMSSLKM  316 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls-~n~l~~l-p~~l~~l~~L~~  316 (598)
                      +++++|+|++|+++...+..+.+++.  |++|++++|.+....+..+..+..++.+... .+.++.+ |..+.++++|++
T Consensus        32 ~~~~~L~Ls~N~i~~i~~~~f~~l~~--L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~  109 (284)
T d1ozna_          32 AASQRIFLHGNRISHVPAASFRACRN--LTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHT  109 (284)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTT--CCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCE
T ss_pred             CCCCEEECcCCcCCCCCHHHhhcccc--ccccccccccccccccccccccccccccccccccccccccchhhcccccCCE
Confidence            45677777777776544456667776  7777777777777777777777777777664 4555554 456777888888


Q ss_pred             EEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCccccccccccc
Q 040109          317 LVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLI  396 (598)
Q Consensus       317 L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L  396 (598)
                      |++++|.+....+..+....       +|+.+++++|++++..+.                           .+..+++|
T Consensus       110 L~l~~n~~~~~~~~~~~~~~-------~L~~l~l~~N~l~~i~~~---------------------------~f~~~~~L  155 (284)
T d1ozna_         110 LHLDRCGLQELGPGLFRGLA-------ALQYLYLQDNALQALPDD---------------------------TFRDLGNL  155 (284)
T ss_dssp             EECTTSCCCCCCTTTTTTCT-------TCCEEECCSSCCCCCCTT---------------------------TTTTCTTC
T ss_pred             EecCCcccccccccccchhc-------ccchhhhccccccccChh---------------------------Hhccccch
Confidence            88888887766666666655       788888888887743321                           23345678


Q ss_pred             ceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCC
Q 040109          397 KIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYN  476 (598)
Q Consensus       397 ~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N  476 (598)
                      +.|++++|++++..+..|.++++|+.+++++|++++..|..|..+++|++||+++|.+.+..|..|..+++|++|++++|
T Consensus       156 ~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N  235 (284)
T d1ozna_         156 THLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDN  235 (284)
T ss_dssp             CEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSS
T ss_pred             hhcccccCcccccchhhhccccccchhhhhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEecCC
Confidence            88888888888777888889999999999999999888999999999999999999999888888999999999999999


Q ss_pred             cceecCCCC
Q 040109          477 NFSGKIPKG  485 (598)
Q Consensus       477 ~l~~~~p~~  485 (598)
                      ++.+.++..
T Consensus       236 ~l~C~C~~~  244 (284)
T d1ozna_         236 PWVCDCRAR  244 (284)
T ss_dssp             CEECSGGGH
T ss_pred             CCCCCccch
Confidence            998776643

>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=99.89  E-value=6.6e-23  Score=198.62  Aligned_cols=199  Identities=25%  Similarity=0.207  Sum_probs=111.8

Q ss_pred             CCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEE
Q 040109          239 KSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLV  318 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  318 (598)
                      ..+.+.+.++++++ .+|+.+.  +.  +++|+|++|.+++..+..|.++++|++|+|++|+++.+|. +..+++|++|+
T Consensus        10 ~~~~~v~C~~~~L~-~iP~~lp--~~--l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~   83 (266)
T d1p9ag_          10 ASHLEVNCDKRNLT-ALPPDLP--KD--TTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLD   83 (266)
T ss_dssp             TTCCEEECTTSCCS-SCCSCCC--TT--CCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEE
T ss_pred             CCCeEEEccCCCCC-eeCcCcC--cC--CCEEECcCCcCCCcCHHHhhcccccccccccccccccccc-ccccccccccc
Confidence            45555677777776 3555443  23  6777777777776555667777777777777777766653 45566677777


Q ss_pred             cccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccce
Q 040109          319 LSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKI  398 (598)
Q Consensus       319 Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~  398 (598)
                      +++|++.+. +..+..++       +|+.|++++|.+.+..+                           .....+.+++.
T Consensus        84 Ls~N~l~~~-~~~~~~l~-------~L~~L~l~~~~~~~~~~---------------------------~~~~~l~~l~~  128 (266)
T d1p9ag_          84 LSHNQLQSL-PLLGQTLP-------ALTVLDVSFNRLTSLPL---------------------------GALRGLGELQE  128 (266)
T ss_dssp             CCSSCCSSC-CCCTTTCT-------TCCEEECCSSCCCCCCS---------------------------STTTTCTTCCE
T ss_pred             ccccccccc-cccccccc-------ccccccccccccceeec---------------------------ccccccccccc
Confidence            777666543 33344444       56666666665543211                           11223444555


Q ss_pred             EeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcc
Q 040109          399 IDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       399 L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      |++++|.++...+..+..+++|+.|++++|++++..+..|..+++|++|+|++|+|+ .+|+.+..+++|+.|+|++|++
T Consensus       129 L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~-~lp~~~~~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPW  207 (266)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCB
T ss_pred             ccccccccceeccccccccccchhcccccccccccCccccccccccceeecccCCCc-ccChhHCCCCCCCEEEecCCCC
Confidence            555555555444444455555555555555555444445555555555555555554 4555555555555555555544


Q ss_pred             e
Q 040109          479 S  479 (598)
Q Consensus       479 ~  479 (598)
                      .
T Consensus       208 ~  208 (266)
T d1p9ag_         208 L  208 (266)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.88  E-value=6.7e-22  Score=191.41  Aligned_cols=177  Identities=24%  Similarity=0.178  Sum_probs=101.3

Q ss_pred             CCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEE
Q 040109          138 KLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTL  217 (598)
Q Consensus       138 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L  217 (598)
                      ++++|+|++|.|++..+..|.++++|++|+|++|++.   ..+.+..+++|++|++++|+++..+   ..+..+++|+.|
T Consensus        32 ~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~---~l~~~~~l~~L~~L~Ls~N~l~~~~---~~~~~l~~L~~L  105 (266)
T d1p9ag_          32 DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT---KLQVDGTLPVLGTLDLSHNQLQSLP---LLGQTLPALTVL  105 (266)
T ss_dssp             TCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC---EEECCSCCTTCCEEECCSSCCSSCC---CCTTTCTTCCEE
T ss_pred             CCCEEECcCCcCCCcCHHHhhcccccccccccccccc---ccccccccccccccccccccccccc---cccccccccccc
Confidence            3444444444444333333444444444444444431   1112334444444444444444321   234444555555


Q ss_pred             eccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeec
Q 040109          218 YLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLL  297 (598)
Q Consensus       218 ~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls  297 (598)
                      ++++|.+.......+...   .++++|++++|.++...+..+..++.  ++.+++++|++++..+..|..+++|++|+|+
T Consensus       106 ~l~~~~~~~~~~~~~~~l---~~l~~L~l~~n~l~~l~~~~~~~l~~--l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls  180 (266)
T d1p9ag_         106 DVSFNRLTSLPLGALRGL---GELQELYLKGNELKTLPPGLLTPTPK--LEKLSLANNNLTELPAGLLNGLENLDTLLLQ  180 (266)
T ss_dssp             ECCSSCCCCCCSSTTTTC---TTCCEEECTTSCCCCCCTTTTTTCTT--CCEEECTTSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             cccccccceeeccccccc---cccccccccccccceecccccccccc--chhcccccccccccCccccccccccceeecc
Confidence            555555544443222222   56666666666666554555555666  7777777777777777777788888888888


Q ss_pred             cCCCCCcchhhcCCCCCcEEEcccCcCc
Q 040109          298 SNRLREVPKFLGNMSSLKMLVLSYNELR  325 (598)
Q Consensus       298 ~n~l~~lp~~l~~l~~L~~L~Ls~n~l~  325 (598)
                      +|+++.+|..+..+++|+.|+|++|++.
T Consensus       181 ~N~L~~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         181 ENSLYTIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             SSCCCCCCTTTTTTCCCSEEECCSCCBC
T ss_pred             cCCCcccChhHCCCCCCCEEEecCCCCC
Confidence            8888888877777888888888888765

>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=99.84  E-value=7e-19  Score=176.96  Aligned_cols=302  Identities=25%  Similarity=0.282  Sum_probs=154.4

Q ss_pred             EEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCC
Q 040109           84 VLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRL  163 (598)
Q Consensus        84 v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L  163 (598)
                      +++||+++      ++++ .+|+.   .++|++|++++|.++  .+|+.   +.+|++|++++|+++ .++. +  .+.|
T Consensus        40 l~~LdLs~------~~L~-~lp~~---~~~L~~L~Ls~N~l~--~lp~~---~~~L~~L~l~~n~l~-~l~~-l--p~~L  100 (353)
T d1jl5a_          40 AHELELNN------LGLS-SLPEL---PPHLESLVASCNSLT--ELPEL---PQSLKSLLVDNNNLK-ALSD-L--PPLL  100 (353)
T ss_dssp             CSEEECTT------SCCS-CCCSC---CTTCSEEECCSSCCS--SCCCC---CTTCCEEECCSSCCS-CCCS-C--CTTC
T ss_pred             CCEEEeCC------CCCC-CCCCC---CCCCCEEECCCCCCc--ccccc---hhhhhhhhhhhcccc-hhhh-h--cccc
Confidence            45566665      4444 35532   345666666666666  25543   345666666666665 2222 1  1346


Q ss_pred             CEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccE
Q 040109          164 QVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEV  243 (598)
Q Consensus       164 ~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~  243 (598)
                      ++|++++|.+..   .+.+..+++|++|+++++.+...+.      ....+..+.+..+.......  +..   .+.++.
T Consensus       101 ~~L~L~~n~l~~---lp~~~~l~~L~~L~l~~~~~~~~~~------~~~~l~~l~~~~~~~~~~~~--l~~---l~~l~~  166 (353)
T d1jl5a_         101 EYLGVSNNQLEK---LPELQNSSFLKIIDVDNNSLKKLPD------LPPSLEFIAAGNNQLEELPE--LQN---LPFLTA  166 (353)
T ss_dssp             CEEECCSSCCSS---CCCCTTCTTCCEEECCSSCCSCCCC------CCTTCCEEECCSSCCSSCCC--CTT---CTTCCE
T ss_pred             cccccccccccc---ccchhhhccceeecccccccccccc------ccccccchhhcccccccccc--ccc---ccccee
Confidence            666666666521   1224556666666666666554322      13344455554444333221  111   155566


Q ss_pred             EEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCc
Q 040109          244 IDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNE  323 (598)
Q Consensus       244 L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~  323 (598)
                      +++++|...... ..   ...  .+.+...++.+. .++ .+..++.|+.+++++|....+|..   ..++..+.+.++.
T Consensus       167 L~l~~n~~~~~~-~~---~~~--~~~l~~~~~~~~-~~~-~~~~l~~L~~l~l~~n~~~~~~~~---~~~l~~~~~~~~~  235 (353)
T d1jl5a_         167 IYADNNSLKKLP-DL---PLS--LESIVAGNNILE-ELP-ELQNLPFLTTIYADNNLLKTLPDL---PPSLEALNVRDNY  235 (353)
T ss_dssp             EECCSSCCSSCC-CC---CTT--CCEEECCSSCCS-SCC-CCTTCTTCCEEECCSSCCSSCCSC---CTTCCEEECCSSC
T ss_pred             cccccccccccc-cc---ccc--cccccccccccc-ccc-cccccccccccccccccccccccc---ccccccccccccc
Confidence            666665554211 11   011  333444443333 222 234555666666666655554432   2345555555555


Q ss_pred             CccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccC
Q 040109          324 LRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSS  403 (598)
Q Consensus       324 l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~  403 (598)
                      +..... .   .       +.+...++..+.+.+..                               .........++..
T Consensus       236 ~~~~~~-~---~-------~~l~~~~~~~~~~~~l~-------------------------------~l~~~~~~~~~~~  273 (353)
T d1jl5a_         236 LTDLPE-L---P-------QSLTFLDVSENIFSGLS-------------------------------ELPPNLYYLNASS  273 (353)
T ss_dssp             CSCCCC-C---C-------TTCCEEECCSSCCSEES-------------------------------CCCTTCCEEECCS
T ss_pred             cccccc-c---c-------ccccccccccccccccc-------------------------------cccchhccccccc
Confidence            442211 0   0       14445555544443210                               0112344556666


Q ss_pred             CcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCC
Q 040109          404 NKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       404 n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                      +.+.+. +   ..+++|++|+|++|+++ .+|..   +++|+.|+|++|+++ .+|+.   +++|++|++++|+++ .+|
T Consensus       274 ~~~~~~-~---~~~~~L~~L~Ls~N~l~-~lp~~---~~~L~~L~L~~N~L~-~l~~~---~~~L~~L~L~~N~L~-~lp  340 (353)
T d1jl5a_         274 NEIRSL-C---DLPPSLEELNVSNNKLI-ELPAL---PPRLERLIASFNHLA-EVPEL---PQNLKQLHVEYNPLR-EFP  340 (353)
T ss_dssp             SCCSEE-C---CCCTTCCEEECCSSCCS-CCCCC---CTTCCEEECCSSCCS-CCCCC---CTTCCEEECCSSCCS-SCC
T ss_pred             Cccccc-c---ccCCCCCEEECCCCccC-ccccc---cCCCCEEECCCCcCC-ccccc---cCCCCEEECcCCcCC-CCC
Confidence            665522 2   23567888888888887 56643   467888888888876 55543   456888888888876 566


Q ss_pred             C
Q 040109          484 K  484 (598)
Q Consensus       484 ~  484 (598)
                      .
T Consensus       341 ~  341 (353)
T d1jl5a_         341 D  341 (353)
T ss_dssp             C
T ss_pred             c
Confidence            5

>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=99.80  E-value=2.4e-21  Score=202.39  Aligned_cols=112  Identities=24%  Similarity=0.261  Sum_probs=69.5

Q ss_pred             cEEEEEcCCCCCCCCCCCceec-CccccCCCCCCEEECcCCCCCCC---CcchhcCCCCCCCEEECCCCCCCCC----Cc
Q 040109           83 HVLGLDLRALSDSPVDALKGTI-NPSLLKLQHLTYLDLSWNNFSGS---PIPEFIGSLSKLSELALSSAQLAGP----IP  154 (598)
Q Consensus        83 ~v~~l~l~~~~~~~~~~l~g~l-~~~l~~l~~L~~L~Ls~n~l~~~---~~p~~l~~l~~L~~L~Ls~n~l~~~----~p  154 (598)
                      .++.||+++      +.+++.- ..-+..++++++|+|++|.++..   .+...+..+++|++|||++|.++..    +.
T Consensus         3 ~l~~ld~~~------~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~   76 (460)
T d1z7xw1           3 DIQSLDIQC------EELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVL   76 (460)
T ss_dssp             EEEEEEEES------CCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHH
T ss_pred             CCCEEEeeC------CcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHH
Confidence            467777777      5665421 23345577788888888877631   1344566778888888888877521    22


Q ss_pred             cccC-CCCCCCEEEccCCCCCCCCC---cccccCCCCCCEEEcCCCcCCC
Q 040109          155 HQLG-NLSRLQVLDLRFNNLFSSGN---LDWLSYLSSLRYLDLGDCKLSK  200 (598)
Q Consensus       155 ~~l~-~l~~L~~L~Ls~n~l~~~~~---~~~l~~l~~L~~L~L~~n~l~~  200 (598)
                      ..+. ...+|++|++++|.+.....   ...+..+++|++|++++|.+..
T Consensus        77 ~~l~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~  126 (460)
T d1z7xw1          77 QGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGD  126 (460)
T ss_dssp             HTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHH
T ss_pred             HHHhcCCCCCCEEECCCCCccccccccccchhhccccccccccccccchh
Confidence            2232 23468888888887622211   1345677788888888887654

>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=99.78  E-value=2.2e-17  Score=165.85  Aligned_cols=299  Identities=27%  Similarity=0.308  Sum_probs=216.1

Q ss_pred             CCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCC-CCCCE
Q 040109          112 QHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYL-SSLRY  190 (598)
Q Consensus       112 ~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l-~~L~~  190 (598)
                      .++++|||+++.++.  +|+.   .++|++|++++|+|+ .+|+.   ..+|+.|++++|.+...      ..+ +.|++
T Consensus        38 ~~l~~LdLs~~~L~~--lp~~---~~~L~~L~Ls~N~l~-~lp~~---~~~L~~L~l~~n~l~~l------~~lp~~L~~  102 (353)
T d1jl5a_          38 RQAHELELNNLGLSS--LPEL---PPHLESLVASCNSLT-ELPEL---PQSLKSLLVDNNNLKAL------SDLPPLLEY  102 (353)
T ss_dssp             HTCSEEECTTSCCSC--CCSC---CTTCSEEECCSSCCS-SCCCC---CTTCCEEECCSSCCSCC------CSCCTTCCE
T ss_pred             cCCCEEEeCCCCCCC--CCCC---CCCCCEEECCCCCCc-ccccc---hhhhhhhhhhhcccchh------hhhcccccc
Confidence            478999999999984  7863   579999999999999 67765   45899999999987322      223 46999


Q ss_pred             EEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEE
Q 040109          191 LDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHI  270 (598)
Q Consensus       191 L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L  270 (598)
                      |++++|.+..+|.    +..+++|+.|+++++.+...+..       ...+..+.+..+....  ...+..++.  ++.+
T Consensus       103 L~L~~n~l~~lp~----~~~l~~L~~L~l~~~~~~~~~~~-------~~~l~~l~~~~~~~~~--~~~l~~l~~--l~~L  167 (353)
T d1jl5a_         103 LGVSNNQLEKLPE----LQNSSFLKIIDVDNNSLKKLPDL-------PPSLEFIAAGNNQLEE--LPELQNLPF--LTAI  167 (353)
T ss_dssp             EECCSSCCSSCCC----CTTCTTCCEEECCSSCCSCCCCC-------CTTCCEEECCSSCCSS--CCCCTTCTT--CCEE
T ss_pred             ccccccccccccc----hhhhccceeeccccccccccccc-------cccccchhhccccccc--ccccccccc--ceec
Confidence            9999999998753    56789999999999988765541       1567788887766543  334555666  8889


Q ss_pred             EccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEc
Q 040109          271 DLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL  350 (598)
Q Consensus       271 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~L  350 (598)
                      ++++|..... +.   .....+.+...++.+..++. +..++.|+.+++++|..... +..   ..       ++..+++
T Consensus       168 ~l~~n~~~~~-~~---~~~~~~~l~~~~~~~~~~~~-~~~l~~L~~l~l~~n~~~~~-~~~---~~-------~l~~~~~  231 (353)
T d1jl5a_         168 YADNNSLKKL-PD---LPLSLESIVAGNNILEELPE-LQNLPFLTTIYADNNLLKTL-PDL---PP-------SLEALNV  231 (353)
T ss_dssp             ECCSSCCSSC-CC---CCTTCCEEECCSSCCSSCCC-CTTCTTCCEEECCSSCCSSC-CSC---CT-------TCCEEEC
T ss_pred             cccccccccc-cc---cccccccccccccccccccc-cccccccccccccccccccc-ccc---cc-------ccccccc
Confidence            9998887632 22   22345677777777766654 56788999999999876543 221   12       6888888


Q ss_pred             cCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcc-cCCcEEECcCCc
Q 040109          351 ASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDL-VGLVALNLSNNN  429 (598)
Q Consensus       351 s~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l-~~L~~L~Ls~N~  429 (598)
                      .++.+.....                               ....+...++..+.+.+.     ..+ ......++..+.
T Consensus       232 ~~~~~~~~~~-------------------------------~~~~l~~~~~~~~~~~~l-----~~l~~~~~~~~~~~~~  275 (353)
T d1jl5a_         232 RDNYLTDLPE-------------------------------LPQSLTFLDVSENIFSGL-----SELPPNLYYLNASSNE  275 (353)
T ss_dssp             CSSCCSCCCC-------------------------------CCTTCCEEECCSSCCSEE-----SCCCTTCCEEECCSSC
T ss_pred             cccccccccc-------------------------------cccccccccccccccccc-----ccccchhcccccccCc
Confidence            8887763221                               133566677776665521     112 345677888887


Q ss_pred             CcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCC
Q 040109          430 LTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELC  503 (598)
Q Consensus       430 l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC  503 (598)
                      +.+ ++   ..+++|++|+|++|+++ .+|..   +++|+.|++++|+++ .+|.  .+++++.+.+++|+...
T Consensus       276 ~~~-~~---~~~~~L~~L~Ls~N~l~-~lp~~---~~~L~~L~L~~N~L~-~l~~--~~~~L~~L~L~~N~L~~  338 (353)
T d1jl5a_         276 IRS-LC---DLPPSLEELNVSNNKLI-ELPAL---PPRLERLIASFNHLA-EVPE--LPQNLKQLHVEYNPLRE  338 (353)
T ss_dssp             CSE-EC---CCCTTCCEEECCSSCCS-CCCCC---CTTCCEEECCSSCCS-CCCC--CCTTCCEEECCSSCCSS
T ss_pred             ccc-cc---ccCCCCCEEECCCCccC-ccccc---cCCCCEEECCCCcCC-cccc--ccCCCCEEECcCCcCCC
Confidence            773 22   34679999999999998 66754   678999999999998 6775  35678888999998543

>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=99.77  E-value=4.8e-18  Score=159.82  Aligned_cols=188  Identities=23%  Similarity=0.319  Sum_probs=94.6

Q ss_pred             cCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCC
Q 040109          109 LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSL  188 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L  188 (598)
                      ..+.+|++|++++|+++.  ++ .+..+++|++|++++|.+++..|  +..+++|+++++++|.+.   ..+.+.++++|
T Consensus        38 ~~l~~L~~L~l~~~~i~~--l~-~l~~l~~L~~L~ls~n~i~~~~~--l~~l~~l~~l~~~~n~~~---~i~~l~~l~~L  109 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTT--IE-GVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNPLK---NVSAIAGLQSI  109 (227)
T ss_dssp             HHHHTCCEEECTTSCCCC--CT-TGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCCCS---CCGGGTTCTTC
T ss_pred             HHcCCcCEEECCCCCCCc--ch-hHhcCCCCcEeecCCceeecccc--cccccccccccccccccc---ccccccccccc
Confidence            344555555555555542  32 34455555555555555543222  455555555555555431   12234444555


Q ss_pred             CEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCcc
Q 040109          189 RYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD  268 (598)
Q Consensus       189 ~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~  268 (598)
                      ++++++++.....    ..+...                           +.++.+.++++.+....  .+...+.  ++
T Consensus       110 ~~l~l~~~~~~~~----~~~~~~---------------------------~~~~~l~~~~~~~~~~~--~~~~~~~--L~  154 (227)
T d1h6ua2         110 KTLDLTSTQITDV----TPLAGL---------------------------SNLQVLYLDLNQITNIS--PLAGLTN--LQ  154 (227)
T ss_dssp             CEEECTTSCCCCC----GGGTTC---------------------------TTCCEEECCSSCCCCCG--GGGGCTT--CC
T ss_pred             ccccccccccccc----chhccc---------------------------cchhhhhchhhhhchhh--hhccccc--cc
Confidence            5555554444432    123333                           44455555555444321  2334444  55


Q ss_pred             EEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEE
Q 040109          269 HIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWL  348 (598)
Q Consensus       269 ~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L  348 (598)
                      +|++++|.+.+..  .++++++|++|++++|++++++. +.++++|++|++++|++++..|  +..++       +|+.|
T Consensus       155 ~L~l~~n~~~~~~--~l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L~~L~Ls~N~lt~i~~--l~~l~-------~L~~L  222 (227)
T d1h6ua2         155 YLSIGNAQVSDLT--PLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISDVSP--LANTS-------NLFIV  222 (227)
T ss_dssp             EEECCSSCCCCCG--GGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECTTSCCCBCGG--GTTCT-------TCCEE
T ss_pred             cccccccccccch--hhcccccceecccCCCccCCChh-hcCCCCCCEEECcCCcCCCCcc--cccCC-------CCCEE
Confidence            5666555554322  25556666666666666666543 5566666666666666665433  44444       66666


Q ss_pred             Ecc
Q 040109          349 YLA  351 (598)
Q Consensus       349 ~Ls  351 (598)
                      +++
T Consensus       223 ~ls  225 (227)
T d1h6ua2         223 TLT  225 (227)
T ss_dssp             EEE
T ss_pred             Eee
Confidence            665

>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=99.77  E-value=7.4e-18  Score=158.55  Aligned_cols=185  Identities=23%  Similarity=0.351  Sum_probs=129.8

Q ss_pred             CcEEEEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCC
Q 040109           82 GHVLGLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLS  161 (598)
Q Consensus        82 ~~v~~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~  161 (598)
                      ..++.+++.+      +.++. + +.+.++++|++|++++|.+++.  + .+..+++|+++++++|.++ .++ .+.+++
T Consensus        41 ~~L~~L~l~~------~~i~~-l-~~l~~l~~L~~L~ls~n~i~~~--~-~l~~l~~l~~l~~~~n~~~-~i~-~l~~l~  107 (227)
T d1h6ua2          41 DGITTLSAFG------TGVTT-I-EGVQYLNNLIGLELKDNQITDL--A-PLKNLTKITELELSGNPLK-NVS-AIAGLQ  107 (227)
T ss_dssp             HTCCEEECTT------SCCCC-C-TTGGGCTTCCEEECCSSCCCCC--G-GGTTCCSCCEEECCSCCCS-CCG-GGTTCT
T ss_pred             CCcCEEECCC------CCCCc-c-hhHhcCCCCcEeecCCceeecc--c-ccccccccccccccccccc-ccc-cccccc
Confidence            3578899988      56653 4 3588999999999999999863  3 3889999999999999988 443 588999


Q ss_pred             CCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCc
Q 040109          162 RLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSL  241 (598)
Q Consensus       162 ~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L  241 (598)
                      +|++++++++..   .....+...+.++.+.++++.+...    ..+..+++|++|++++|.+....+  +..  + ++|
T Consensus       108 ~L~~l~l~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~----~~~~~~~~L~~L~l~~n~~~~~~~--l~~--l-~~L  175 (227)
T d1h6ua2         108 SIKTLDLTSTQI---TDVTPLAGLSNLQVLYLDLNQITNI----SPLAGLTNLQYLSIGNAQVSDLTP--LAN--L-SKL  175 (227)
T ss_dssp             TCCEEECTTSCC---CCCGGGTTCTTCCEEECCSSCCCCC----GGGGGCTTCCEEECCSSCCCCCGG--GTT--C-TTC
T ss_pred             cccccccccccc---cccchhccccchhhhhchhhhhchh----hhhccccccccccccccccccchh--hcc--c-ccc
Confidence            999999999975   2344577889999999999988764    335667777777777777654322  211  1 555


Q ss_pred             cEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccCCCCCcchhhcCCCCCcEEEcc
Q 040109          242 EVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSNRLREVPKFLGNMSSLKMLVLS  320 (598)
Q Consensus       242 ~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls  320 (598)
                      ++|++++|++++                           ++ .+.++++|++|++++|++++++. +.++++|+.|+++
T Consensus       176 ~~L~Ls~n~l~~---------------------------l~-~l~~l~~L~~L~Ls~N~lt~i~~-l~~l~~L~~L~ls  225 (227)
T d1h6ua2         176 TTLKADDNKISD---------------------------IS-PLASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLT  225 (227)
T ss_dssp             CEEECCSSCCCC---------------------------CG-GGGGCTTCCEEECTTSCCCBCGG-GTTCTTCCEEEEE
T ss_pred             eecccCCCccCC---------------------------Ch-hhcCCCCCCEEECcCCcCCCCcc-cccCCCCCEEEee
Confidence            555555555443                           21 24455566666666666655542 5566666666654

>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=99.73  E-value=9.3e-18  Score=159.52  Aligned_cols=143  Identities=17%  Similarity=0.225  Sum_probs=89.5

Q ss_pred             ecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCC-ccccCCCCCCCEEEccC-CCCCCCCCcc
Q 040109          103 TINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPI-PHQLGNLSRLQVLDLRF-NNLFSSGNLD  180 (598)
Q Consensus       103 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~-p~~l~~l~~L~~L~Ls~-n~l~~~~~~~  180 (598)
                      .+|+.+.  +++++|++++|.++.. .+..|.++++|++|++++|.+...+ +..|.++++++++++.. |.+ ......
T Consensus        22 ~iP~~l~--~~l~~L~Ls~n~i~~l-~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l-~~~~~~   97 (242)
T d1xwdc1          22 EIPSDLP--RNAIELRFVLTKLRVI-QKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNL-LYINPE   97 (242)
T ss_dssp             SCCSCSC--SCCSEEEEESCCCCEE-CTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTC-CEECTT
T ss_pred             CcCCCCC--CCCCEEECcCCcCCcc-ChhHhhccchhhhhhhccccccceeeccccccccccccccccccccc-cccccc
Confidence            4665543  5788899998888753 2346788888999999888877544 44677888888888765 343 344445


Q ss_pred             cccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCC
Q 040109          181 WLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLT  252 (598)
Q Consensus       181 ~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~  252 (598)
                      .+.++++|+++++++|.+...+. ...+..++.+..+...++.+.......+...  ...++.|++++|+++
T Consensus        98 ~~~~l~~L~~l~l~~~~l~~~~~-~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~--~~~l~~L~l~~n~l~  166 (242)
T d1xwdc1          98 AFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQKVLLDIQDNINIHTIERNSFVGL--SFESVILWLNKNGIQ  166 (242)
T ss_dssp             SEECCTTCCEEEEESCCCCSCCC-CTTTCBSSCEEEEEESCTTCCEECTTSSTTS--BSSCEEEECCSSCCC
T ss_pred             cccccccccccccchhhhccccc-ccccccccccccccccccccccccccccccc--cccceeeeccccccc
Confidence            67778888888888887766532 2234445555555555555554443222221  134555555555554

>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=99.72  E-value=7.5e-17  Score=149.42  Aligned_cols=163  Identities=23%  Similarity=0.353  Sum_probs=77.4

Q ss_pred             CCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCcE
Q 040109          137 SKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLTT  216 (598)
Q Consensus       137 ~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~  216 (598)
                      .+|++|++++|.++.. + .+..+++|++|++++|++..   ...+..+++|++|++++|+++++    ..+..+++|+.
T Consensus        46 ~~L~~L~l~~~~i~~l-~-~l~~l~~L~~L~L~~n~i~~---l~~~~~l~~L~~L~l~~n~i~~l----~~l~~l~~L~~  116 (210)
T d1h6ta2          46 NSIDQIIANNSDIKSV-Q-GIQYLPNVTKLFLNGNKLTD---IKPLANLKNLGWLFLDENKVKDL----SSLKDLKKLKS  116 (210)
T ss_dssp             HTCCEEECTTSCCCCC-T-TGGGCTTCCEEECCSSCCCC---CGGGTTCTTCCEEECCSSCCCCG----GGGTTCTTCCE
T ss_pred             cCccEEECcCCCCCCc-h-hHhhCCCCCEEeCCCccccC---ccccccCcccccccccccccccc----ccccccccccc
Confidence            3444444444444421 1 23444444444444444311   11234444455555544444442    12444455555


Q ss_pred             EeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEee
Q 040109          217 LYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGL  296 (598)
Q Consensus       217 L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  296 (598)
                      |++++|.+.....  +..   ++.++.+++++|.+++  +..+..+++  |+.+++++|++++. + .+.++++|++|++
T Consensus       117 L~l~~~~~~~~~~--l~~---l~~l~~l~~~~n~l~~--~~~~~~l~~--L~~l~l~~n~l~~i-~-~l~~l~~L~~L~L  185 (210)
T d1h6ta2         117 LSLEHNGISDING--LVH---LPQLESLYLGNNKITD--ITVLSRLTK--LDTLSLEDNQISDI-V-PLAGLTKLQNLYL  185 (210)
T ss_dssp             EECTTSCCCCCGG--GGG---CTTCCEEECCSSCCCC--CGGGGGCTT--CSEEECCSSCCCCC-G-GGTTCTTCCEEEC
T ss_pred             ccccccccccccc--ccc---cccccccccccccccc--ccccccccc--cccccccccccccc-c-cccCCCCCCEEEC
Confidence            5555544433211  111   1445555555555443  122334444  55566666655532 2 2556666666666


Q ss_pred             ccCCCCCcchhhcCCCCCcEEEcc
Q 040109          297 LSNRLREVPKFLGNMSSLKMLVLS  320 (598)
Q Consensus       297 s~n~l~~lp~~l~~l~~L~~L~Ls  320 (598)
                      ++|+++++| .+.++++|++|+|+
T Consensus       186 s~N~i~~l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         186 SKNHISDLR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             CSSCCCBCG-GGTTCTTCSEEEEE
T ss_pred             CCCCCCCCh-hhcCCCCCCEEEcc
Confidence            666666665 35666666666665

>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=99.71  E-value=1e-17  Score=153.00  Aligned_cols=176  Identities=21%  Similarity=0.213  Sum_probs=105.7

Q ss_pred             cEEeeccCCCCCcchhhcCCCCCcEEEcccCcCcc-chhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCcc
Q 040109          292 RYLGLLSNRLREVPKFLGNMSSLKMLVLSYNELRG-ELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLM  370 (598)
Q Consensus       292 ~~L~Ls~n~l~~lp~~l~~l~~L~~L~Ls~n~l~~-~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~  370 (598)
                      ++++.++++++.+|..+.  +++++|+|++|++++ ..+..|..++       +|+.|++++|.+.+..+.         
T Consensus        11 ~~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~-------~L~~L~L~~N~i~~~~~~---------   72 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLP-------HLVKLELKRNQLTGIEPN---------   72 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCT-------TCCEEECCSSCCCCBCTT---------
T ss_pred             CEEEEeCCCcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCc-------eEeeeecccccccccccc---------
Confidence            456666677766665442  466667777776654 3344455555       666666666666543321         


Q ss_pred             ccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCC
Q 040109          371 PLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLS  450 (598)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls  450 (598)
                                        .+..+++|++|+|++|+|++..|..|.++++|++|+|++|+|++..|..|..+++|++|+|+
T Consensus        73 ------------------~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~  134 (192)
T d1w8aa_          73 ------------------AFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLA  134 (192)
T ss_dssp             ------------------TTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECT
T ss_pred             ------------------ccccccccceeeeccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCccccccccc
Confidence                              22334556666777777665666667777777777777777776666677777777777777


Q ss_pred             CCccCCCCcccccCCCCCCEEeCCCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          451 INHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       451 ~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      +|.+....+..+ -...++.+.+..|.+.+..|.  .+..+...++..|...|.++
T Consensus       135 ~N~~~~~~~~~~-~~~~l~~~~l~~~~~~c~~p~--~l~~~~l~~L~~n~l~C~~~  187 (192)
T d1w8aa_         135 SNPFNCNCHLAW-FAEWLRKKSLNGGAARCGAPS--KVRDVQIKDLPHSEFKCSSE  187 (192)
T ss_dssp             TCCBCCSGGGHH-HHHHHHHHCCSGGGCBBCSST--TTTTSBGGGSCTTTCCCCCC
T ss_pred             ccccccccchHH-HhhhhhhhcccCCCeEeCCCh--hhcCCEeeecCHhhCcCCCC
Confidence            777764332211 112345556666666665554  23444455566666666544

>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=99.70  E-value=3.5e-17  Score=155.42  Aligned_cols=220  Identities=15%  Similarity=0.125  Sum_probs=164.9

Q ss_pred             CEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcC
Q 040109          115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG  194 (598)
Q Consensus       115 ~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~  194 (598)
                      +.++.++.+++  .+|..+.  +++++|++++|+++...+..|.++++|++|++++|.+........|.++++++++.+.
T Consensus        11 ~~i~c~~~~l~--~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~   86 (242)
T d1xwdc1          11 RVFLCQESKVT--EIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   86 (242)
T ss_dssp             SEEEEESCSCS--SCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEE
T ss_pred             CEEEEeCCCCC--CcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccc
Confidence            45666777777  3776653  6899999999999966566799999999999999987554556678999999999986


Q ss_pred             C-CcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcC-ccCccEEEc
Q 040109          195 D-CKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVS-SNLVDHIDL  272 (598)
Q Consensus       195 ~-n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~-~~~L~~L~L  272 (598)
                      . |.+...+  +..+.++++|+++++++|.+.....  .........+..+...++.+....+..+..++ .  ++.|++
T Consensus        87 ~~n~l~~~~--~~~~~~l~~L~~l~l~~~~l~~~~~--~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~--l~~L~l  160 (242)
T d1xwdc1          87 KANNLLYIN--PEAFQNLPNLQYLLISNTGIKHLPD--VHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFE--SVILWL  160 (242)
T ss_dssp             CCTTCCEEC--TTSEECCTTCCEEEEESCCCCSCCC--CTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSS--CEEEEC
T ss_pred             ccccccccc--cccccccccccccccchhhhccccc--cccccccccccccccccccccccccccccccccc--ceeeec
Confidence            5 5666653  3678999999999999999987655  33333336677777777777754445555543 4  889999


Q ss_pred             cCCccccccchhhcCCCCccEE-eeccCCCCCcch-hhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEc
Q 040109          273 GSNRLHGSIPVAFGHMASLRYL-GLLSNRLREVPK-FLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYL  350 (598)
Q Consensus       273 ~~n~l~~~~p~~l~~l~~L~~L-~Ls~n~l~~lp~-~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~L  350 (598)
                      ++|+++...+..+ ..++++++ ++++|+++.+|. .|.++++|++|++++|+++...+..+.++.       +|+.+++
T Consensus       161 ~~n~l~~i~~~~~-~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~-------~L~~l~~  232 (242)
T d1xwdc1         161 NKNGIQEIHNCAF-NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLK-------KLRARST  232 (242)
T ss_dssp             CSSCCCEECTTTT-TTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCC-------EEESSSE
T ss_pred             ccccccccccccc-cchhhhccccccccccccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCc-------ccccCcC
Confidence            9999986544444 44555554 578889999875 588999999999999999977666666555       5666555


Q ss_pred             cC
Q 040109          351 AS  352 (598)
Q Consensus       351 s~  352 (598)
                      .+
T Consensus       233 ~~  234 (242)
T d1xwdc1         233 YN  234 (242)
T ss_dssp             ES
T ss_pred             CC
Confidence            43

>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=99.70  E-value=3.2e-19  Score=186.03  Aligned_cols=341  Identities=21%  Similarity=0.171  Sum_probs=212.8

Q ss_pred             CCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCC----CCccccCCCCCCCEEEccCCCCCCCCCc---cccc-C
Q 040109          113 HLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAG----PIPHQLGNLSRLQVLDLRFNNLFSSGNL---DWLS-Y  184 (598)
Q Consensus       113 ~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~----~~p~~l~~l~~L~~L~Ls~n~l~~~~~~---~~l~-~  184 (598)
                      +|+.||+++|++++..+...+..++++++|+|++|+++.    .++..+..+++|++|||++|.+...+..   ..+. .
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~   82 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   82 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcC
Confidence            467777777777754344555667777777777777662    2344556777777777777765211100   1111 2


Q ss_pred             CCCCCEEEcCCCcCCCC--CchhHhhcCCCCCcEEeccCcCCCCCCCCh------------------------------h
Q 040109          185 LSSLRYLDLGDCKLSKF--SNWFQVLSNLRSLTTLYLGHCDLPPISTPS------------------------------L  232 (598)
Q Consensus       185 l~~L~~L~L~~n~l~~~--~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~------------------------------~  232 (598)
                      ..+|++|++++|.+++.  ..++..+..+++|++|++++|.+.......                              .
T Consensus        83 ~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (460)
T d1z7xw1          83 SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLA  162 (460)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHH
T ss_pred             CCCCCEEECCCCCccccccccccchhhccccccccccccccchhhhhhhhhhcccccccccccccccccccchhhhcccc
Confidence            34677777777777643  123345666777777777777643210000                              0


Q ss_pred             hhccccCCcc-----------------------------EEEccCCCCCCCc----chhhhhcCccCccEEEccCCcccc
Q 040109          233 LHLNYSKSLE-----------------------------VIDLSNNYLTNSI----YPWLLNVSSNLVDHIDLGSNRLHG  279 (598)
Q Consensus       233 ~~~~~~~~L~-----------------------------~L~Ls~n~l~~~~----~~~l~~~~~~~L~~L~L~~n~l~~  279 (598)
                      ........++                             .+++..+.+....    ...+.....  ++.+++++|.+..
T Consensus       163 ~~l~~~~~~~~~~ls~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~--~~~l~~~~n~~~~  240 (460)
T d1z7xw1         163 SVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKAS--LRELALGSNKLGD  240 (460)
T ss_dssp             HHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTT--CCEEECCSSBCHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccchhhhccccccccccc--ccccchhhccccc
Confidence            0000012334                             4444444333211    122334455  8999999998653


Q ss_pred             c-----cchhhcCCCCccEEeeccCCCCC-----cchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEE
Q 040109          280 S-----IPVAFGHMASLRYLGLLSNRLRE-----VPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLY  349 (598)
Q Consensus       280 ~-----~p~~l~~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~  349 (598)
                      .     .+........++.+++++|.+..     ....+...+.++.+++++|.+.......+....  ......|+.++
T Consensus       241 ~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l--~~~~~~L~~l~  318 (460)
T d1z7xw1         241 VGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETL--LEPGCQLESLW  318 (460)
T ss_dssp             HHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHH--TSTTCCCCEEE
T ss_pred             cccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccccchhhccc--ccccccccccc
Confidence            2     23344567789999999999875     233566789999999999998765444443210  01123799999


Q ss_pred             ccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccccccceEeccCCcCCCc----Cchhhh-cccCCcEEE
Q 040109          350 LASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGE----VPEEIM-DLVGLVALN  424 (598)
Q Consensus       350 Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~----~p~~l~-~l~~L~~L~  424 (598)
                      +++|.++....                       ...........+|++|+|++|++++.    ++..+. ..+.|++|+
T Consensus       319 l~~~~l~~~~~-----------------------~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~  375 (460)
T d1z7xw1         319 VKSCSFTAACC-----------------------SHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLW  375 (460)
T ss_dssp             CTTSCCBGGGH-----------------------HHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEE
T ss_pred             ccccchhhhhh-----------------------hhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEE
Confidence            99998873210                       00112234456899999999999753    333443 456799999


Q ss_pred             CcCCcCccc----CCcccCCCCCCCeeeCCCCccCCCCccc----cc-CCCCCCEEeCCCCccee
Q 040109          425 LSNNNLTGQ----ITPRIGQLKSLDFLDLSINHFFGGIPSS----LS-RLRLLSVMDLSYNNFSG  480 (598)
Q Consensus       425 Ls~N~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~~p~~----l~-~l~~L~~L~ls~N~l~~  480 (598)
                      |++|++++.    +++.+...++|++|||++|+++......    +. +...|+.|++.+|.+..
T Consensus       376 Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~l~l~~~~~~~  440 (460)
T d1z7xw1         376 LADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIYWSE  440 (460)
T ss_dssp             CTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCHHHHHHHHHHHTSTTCCCCEEECTTCCCCH
T ss_pred             CCCCCCChHHHHHHHHHHhcCCCCCEEECCCCcCCHHHHHHHHHHHHhCCCccCEEECCCCCCCH
Confidence            999999853    4556677899999999999997543333    32 34579999999998874

>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=99.69  E-value=3.3e-16  Score=144.98  Aligned_cols=166  Identities=24%  Similarity=0.334  Sum_probs=133.5

Q ss_pred             CCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCC
Q 040109          110 KLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLR  189 (598)
Q Consensus       110 ~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~  189 (598)
                      .+..|++|++++|.++.  ++ .+..+++|++|++++|.+++. + .++.+++|++|++++|++.   ..+.+.++++|+
T Consensus        44 ~L~~L~~L~l~~~~i~~--l~-~l~~l~~L~~L~L~~n~i~~l-~-~~~~l~~L~~L~l~~n~i~---~l~~l~~l~~L~  115 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIKS--VQ-GIQYLPNVTKLFLNGNKLTDI-K-PLANLKNLGWLFLDENKVK---DLSSLKDLKKLK  115 (210)
T ss_dssp             HHHTCCEEECTTSCCCC--CT-TGGGCTTCCEEECCSSCCCCC-G-GGTTCTTCCEEECCSSCCC---CGGGGTTCTTCC
T ss_pred             HhcCccEEECcCCCCCC--ch-hHhhCCCCCEEeCCCccccCc-c-ccccCcccccccccccccc---cccccccccccc
Confidence            46788999999999885  33 477899999999999999853 3 3688999999999999872   234588899999


Q ss_pred             EEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccE
Q 040109          190 YLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDH  269 (598)
Q Consensus       190 ~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~  269 (598)
                      .|++++|.+..+    ..+..+++++.+++++|.+++...  +.   .+++|+++++++|++++. + .+.++++  |+.
T Consensus       116 ~L~l~~~~~~~~----~~l~~l~~l~~l~~~~n~l~~~~~--~~---~l~~L~~l~l~~n~l~~i-~-~l~~l~~--L~~  182 (210)
T d1h6ta2         116 SLSLEHNGISDI----NGLVHLPQLESLYLGNNKITDITV--LS---RLTKLDTLSLEDNQISDI-V-PLAGLTK--LQN  182 (210)
T ss_dssp             EEECTTSCCCCC----GGGGGCTTCCEEECCSSCCCCCGG--GG---GCTTCSEEECCSSCCCCC-G-GGTTCTT--CCE
T ss_pred             cccccccccccc----cccccccccccccccccccccccc--cc---cccccccccccccccccc-c-cccCCCC--CCE
Confidence            999999988775    357788999999999999876433  22   238999999999999863 3 3778888  999


Q ss_pred             EEccCCccccccchhhcCCCCccEEeecc
Q 040109          270 IDLGSNRLHGSIPVAFGHMASLRYLGLLS  298 (598)
Q Consensus       270 L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~  298 (598)
                      |++++|.+++ ++ .+.++++|++|+|++
T Consensus       183 L~Ls~N~i~~-l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         183 LYLSKNHISD-LR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             EECCSSCCCB-CG-GGTTCTTCSEEEEEE
T ss_pred             EECCCCCCCC-Ch-hhcCCCCCCEEEccC
Confidence            9999999984 45 589999999999975

>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=99.68  E-value=4.3e-16  Score=142.93  Aligned_cols=161  Identities=22%  Similarity=0.371  Sum_probs=71.4

Q ss_pred             CCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchhHhhcCCCCCc
Q 040109          136 LSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWFQVLSNLRSLT  215 (598)
Q Consensus       136 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~l~~l~~L~  215 (598)
                      +.++++|++++|.++. + +.+..+++|++|++++|++..   ...+.++++|++|++++|.+..++    .+.++++|+
T Consensus        39 l~~l~~L~l~~~~i~~-l-~~l~~l~nL~~L~Ls~N~l~~---~~~l~~l~~L~~L~l~~n~~~~~~----~l~~l~~L~  109 (199)
T d2omxa2          39 LDQVTTLQADRLGIKS-I-DGVEYLNNLTQINFSNNQLTD---ITPLKNLTKLVDILMNNNQIADIT----PLANLTNLT  109 (199)
T ss_dssp             HTTCCEEECTTSCCCC-C-TTGGGCTTCCEEECCSSCCCC---CGGGTTCTTCCEEECCSSCCCCCG----GGTTCTTCS
T ss_pred             hcCCCEEECCCCCCCC-c-cccccCCCcCcCccccccccC---cccccCCccccccccccccccccc----ccccccccc
Confidence            3444444444444442 1 123444444444444444311   112444444444444444444431    244444444


Q ss_pred             EEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhhcCCCCccEEe
Q 040109          216 TLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLG  295 (598)
Q Consensus       216 ~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~  295 (598)
                      .|++++|.+....+  +..   +++|+.|++++|.+.. + +.+..++.  ++.|++.+|.+++. + .++++++|++|+
T Consensus       110 ~L~l~~~~~~~~~~--~~~---l~~L~~L~l~~n~l~~-~-~~l~~~~~--L~~L~l~~n~l~~l-~-~l~~l~~L~~L~  178 (199)
T d2omxa2         110 GLTLFNNQITDIDP--LKN---LTNLNRLELSSNTISD-I-SALSGLTS--LQQLNFSSNQVTDL-K-PLANLTTLERLD  178 (199)
T ss_dssp             EEECCSSCCCCCGG--GTT---CTTCSEEECCSSCCCC-C-GGGTTCTT--CSEEECCSSCCCCC-G-GGTTCTTCCEEE
T ss_pred             cccccccccccccc--cch---hhhhHHhhhhhhhhcc-c-cccccccc--ccccccccccccCC-c-cccCCCCCCEEE
Confidence            44444444433221  111   1444555555544432 1 22334444  55555555555432 1 255556666666


Q ss_pred             eccCCCCCcchhhcCCCCCcEE
Q 040109          296 LLSNRLREVPKFLGNMSSLKML  317 (598)
Q Consensus       296 Ls~n~l~~lp~~l~~l~~L~~L  317 (598)
                      +++|++++++ .+.++++|+.|
T Consensus       179 ls~N~i~~i~-~l~~L~~L~~L  199 (199)
T d2omxa2         179 ISSNKVSDIS-VLAKLTNLESL  199 (199)
T ss_dssp             CCSSCCCCCG-GGGGCTTCSEE
T ss_pred             CCCCCCCCCc-cccCCCCCCcC
Confidence            6666665554 34555555544

>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=99.68  E-value=8.5e-16  Score=140.93  Aligned_cols=163  Identities=26%  Similarity=0.375  Sum_probs=127.0

Q ss_pred             cCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCC
Q 040109          109 LKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSL  188 (598)
Q Consensus       109 ~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L  188 (598)
                      ..+.++++|++++|.++.  + +.++.+++|++|++++|++++..|  ++++++|++|++++|.+.   ..+.+.++++|
T Consensus        37 ~~l~~l~~L~l~~~~i~~--l-~~l~~l~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~n~~~---~~~~l~~l~~L  108 (199)
T d2omxa2          37 TDLDQVTTLQADRLGIKS--I-DGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQIA---DITPLANLTNL  108 (199)
T ss_dssp             HHHTTCCEEECTTSCCCC--C-TTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC---CCGGGTTCTTC
T ss_pred             HHhcCCCEEECCCCCCCC--c-cccccCCCcCcCccccccccCccc--ccCCcccccccccccccc---ccccccccccc
Confidence            356788899999998874  3 347788999999999998885433  888999999999998762   23357888999


Q ss_pred             CEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCcc
Q 040109          189 RYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVD  268 (598)
Q Consensus       189 ~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~  268 (598)
                      ++|++++|.+...    ..+..+++|+.|++++|++.....  +..   .++|+.|++++|.+++.  +.+.++++  |+
T Consensus       109 ~~L~l~~~~~~~~----~~~~~l~~L~~L~l~~n~l~~~~~--l~~---~~~L~~L~l~~n~l~~l--~~l~~l~~--L~  175 (199)
T d2omxa2         109 TGLTLFNNQITDI----DPLKNLTNLNRLELSSNTISDISA--LSG---LTSLQQLNFSSNQVTDL--KPLANLTT--LE  175 (199)
T ss_dssp             SEEECCSSCCCCC----GGGTTCTTCSEEECCSSCCCCCGG--GTT---CTTCSEEECCSSCCCCC--GGGTTCTT--CC
T ss_pred             ccccccccccccc----cccchhhhhHHhhhhhhhhccccc--ccc---cccccccccccccccCC--ccccCCCC--CC
Confidence            9999998888775    347788999999999998876432  222   28899999999998863  24778888  99


Q ss_pred             EEEccCCccccccchhhcCCCCccEE
Q 040109          269 HIDLGSNRLHGSIPVAFGHMASLRYL  294 (598)
Q Consensus       269 ~L~L~~n~l~~~~p~~l~~l~~L~~L  294 (598)
                      +|++++|++++ ++ .++.+++|++|
T Consensus       176 ~L~ls~N~i~~-i~-~l~~L~~L~~L  199 (199)
T d2omxa2         176 RLDISSNKVSD-IS-VLAKLTNLESL  199 (199)
T ss_dssp             EEECCSSCCCC-CG-GGGGCTTCSEE
T ss_pred             EEECCCCCCCC-Cc-cccCCCCCCcC
Confidence            99999999885 43 57888888876

>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=99.66  E-value=4.5e-17  Score=148.71  Aligned_cols=157  Identities=20%  Similarity=0.207  Sum_probs=123.1

Q ss_pred             CcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcCccccccccceEEEEcCCcccccccc
Q 040109          314 LKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYKSIL  393 (598)
Q Consensus       314 L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~l  393 (598)
                      .+.++.++++++.. |..+.         +++++|+|++|++++.++.                          ..+..+
T Consensus        10 ~~~v~Cs~~~L~~i-P~~lp---------~~l~~L~Ls~N~i~~~~~~--------------------------~~f~~l   53 (192)
T d1w8aa_          10 GTTVDCTGRGLKEI-PRDIP---------LHTTELLLNDNELGRISSD--------------------------GLFGRL   53 (192)
T ss_dssp             TTEEECTTSCCSSC-CSCCC---------TTCSEEECCSCCCCSBCCS--------------------------CSGGGC
T ss_pred             CCEEEEeCCCcCcc-CCCCC---------CCCCEEEeCCCCCcccccc--------------------------cccCCC
Confidence            46788999998854 43332         2799999999999854432                          334567


Q ss_pred             cccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeC
Q 040109          394 GLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL  473 (598)
Q Consensus       394 ~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  473 (598)
                      ++|+.|+|++|++.+..+..+..+++|++|+|++|++++..|..|.++++|++|+|++|+|++..|+.|..+++|++|+|
T Consensus        54 ~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L  133 (192)
T d1w8aa_          54 PHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNL  133 (192)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEEC
T ss_pred             ceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccc
Confidence            88999999999999888899999999999999999999878888999999999999999999888888999999999999


Q ss_pred             CCCcceecCCCCCccCccCCCccCCCCCCCCCC
Q 040109          474 SYNNFSGKIPKGTQLQRFGASTYAGNPELCGLP  506 (598)
Q Consensus       474 s~N~l~~~~p~~~~~~~l~~~~~~gnp~lC~~~  506 (598)
                      ++|++.+..+.......+....+.+|...|..|
T Consensus       134 ~~N~~~~~~~~~~~~~~l~~~~l~~~~~~c~~p  166 (192)
T d1w8aa_         134 ASNPFNCNCHLAWFAEWLRKKSLNGGAARCGAP  166 (192)
T ss_dssp             TTCCBCCSGGGHHHHHHHHHHCCSGGGCBBCSS
T ss_pred             cccccccccchHHHhhhhhhhcccCCCeEeCCC
Confidence            999998655443333334444555565556543

>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=99.60  E-value=1.9e-15  Score=146.68  Aligned_cols=180  Identities=21%  Similarity=0.222  Sum_probs=115.2

Q ss_pred             CCccEEEccCCCCCCCc-chhhhhcCccCccEEEccCCccccccchhhcCCCCccEEeeccC-CCCC--cchhhcCCCCC
Q 040109          239 KSLEVIDLSNNYLTNSI-YPWLLNVSSNLVDHIDLGSNRLHGSIPVAFGHMASLRYLGLLSN-RLRE--VPKFLGNMSSL  314 (598)
Q Consensus       239 ~~L~~L~Ls~n~l~~~~-~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n-~l~~--lp~~l~~l~~L  314 (598)
                      .+|++|+++++.++... ...+..+++  |++|++++|.+++..+..+..+++|++|+++++ .+++  +.....++++|
T Consensus        46 ~~L~~LdLs~~~i~~~~l~~l~~~c~~--L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L  123 (284)
T d2astb2          46 FRVQHMDLSNSVIEVSTLHGILSQCSK--LQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRL  123 (284)
T ss_dssp             BCCCEEECTTCEECHHHHHHHHTTBCC--CSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTC
T ss_pred             CCCCEEECCCCccCHHHHHHHHHhCCC--cccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhc
Confidence            57888888887766432 334556667  888888888887777777778888888888874 5654  44445667888


Q ss_pred             cEEEcccCc-Cccc-hhhhhhhcCCCCCCCCCCCEEEccCcc--ccccCCCCCCCCcCccccccccceEEEEcCCccccc
Q 040109          315 KMLVLSYNE-LRGE-LSEFIQNVSSGSTKNSSLEWLYLASNE--ITGTIPNLGGFPGMLMPLIYFDKITVTWKGGQYEYK  390 (598)
Q Consensus       315 ~~L~Ls~n~-l~~~-~~~~l~~l~~g~~~~~~L~~L~Ls~N~--l~~~~p~l~~l~~l~~~~~~~~~~~~~~~~~~~~~~  390 (598)
                      ++|++++|. ++.. ....+....      ++|+.|+++++.  ++.                          .......
T Consensus       124 ~~L~ls~c~~~~~~~~~~~~~~~~------~~L~~L~l~~~~~~i~~--------------------------~~l~~l~  171 (284)
T d2astb2         124 DELNLSWCFDFTEKHVQVAVAHVS------ETITQLNLSGYRKNLQK--------------------------SDLSTLV  171 (284)
T ss_dssp             CEEECCCCTTCCHHHHHHHHHHSC------TTCCEEECCSCGGGSCH--------------------------HHHHHHH
T ss_pred             cccccccccccccccchhhhcccc------cccchhhhccccccccc--------------------------ccccccc
Confidence            888888763 3322 222233332      267888877642  221                          1111223


Q ss_pred             ccccccceEeccCC-cCCCcCchhhhcccCCcEEECcCC-cCcccCCcccCCCCCCCeeeCCCC
Q 040109          391 SILGLIKIIDLSSN-KLGGEVPEEIMDLVGLVALNLSNN-NLTGQITPRIGQLKSLDFLDLSIN  452 (598)
Q Consensus       391 ~~l~~L~~L~Ls~n-~l~~~~p~~l~~l~~L~~L~Ls~N-~l~~~~p~~l~~l~~L~~L~Ls~N  452 (598)
                      ..+++|++|++++| .+++..+..+.++++|++|++++| .+++.....++++++|+.|+++++
T Consensus       172 ~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         172 RRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             HHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             cccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            44667777777765 366666666777777777777774 566555566667777777777766

>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=99.57  E-value=5.3e-16  Score=150.72  Aligned_cols=82  Identities=21%  Similarity=0.231  Sum_probs=48.6

Q ss_pred             CCccEEEccCC--CCCCC-cchhhhhcCccCccEEEccCC-ccccccchhhcCCCCccEEeeccC-CCCC-cchhhcCCC
Q 040109          239 KSLEVIDLSNN--YLTNS-IYPWLLNVSSNLVDHIDLGSN-RLHGSIPVAFGHMASLRYLGLLSN-RLRE-VPKFLGNMS  312 (598)
Q Consensus       239 ~~L~~L~Ls~n--~l~~~-~~~~l~~~~~~~L~~L~L~~n-~l~~~~p~~l~~l~~L~~L~Ls~n-~l~~-lp~~l~~l~  312 (598)
                      ++|+.|+++++  .++.. +......+++  |++|++++| .+++.....+..+++|++|++++| .+++ ....+.+++
T Consensus       148 ~~L~~L~l~~~~~~i~~~~l~~l~~~~~~--L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~  225 (284)
T d2astb2         148 ETITQLNLSGYRKNLQKSDLSTLVRRCPN--LVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIP  225 (284)
T ss_dssp             TTCCEEECCSCGGGSCHHHHHHHHHHCTT--CSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCT
T ss_pred             cccchhhhccccccccccccccccccccc--ccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHHhcCC
Confidence            45666666543  23321 2222344555  777777665 355555666667777777777774 4554 334566777


Q ss_pred             CCcEEEcccC
Q 040109          313 SLKMLVLSYN  322 (598)
Q Consensus       313 ~L~~L~Ls~n  322 (598)
                      +|+.|+++++
T Consensus       226 ~L~~L~l~~~  235 (284)
T d2astb2         226 TLKTLQVFGI  235 (284)
T ss_dssp             TCCEEECTTS
T ss_pred             CCCEEeeeCC
Confidence            7777777776

>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=99.53  E-value=2.3e-14  Score=119.99  Aligned_cols=106  Identities=25%  Similarity=0.259  Sum_probs=77.3

Q ss_pred             CEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCCCCCEEEcC
Q 040109          115 TYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLSSLRYLDLG  194 (598)
Q Consensus       115 ~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~  194 (598)
                      |+|+|++|+++.  ++ .++.+++|++|++++|.++ .+|+.++.+++|++|++++|.+..   .+.+..+++|++|+++
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~   73 (124)
T d1dcea3           1 RVLHLAHKDLTV--LC-HLEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALEN---VDGVANLPRLQELLLC   73 (124)
T ss_dssp             SEEECTTSCCSS--CC-CGGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCC---CGGGTTCSSCCEEECC
T ss_pred             CEEEcCCCCCCC--Cc-ccccCCCCCEEECCCCccC-cchhhhhhhhcccccccccccccc---cCccccccccCeEECC
Confidence            568888888873  44 3677888888888888887 566677888888888888887732   2347778888888888


Q ss_pred             CCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCC
Q 040109          195 DCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPIS  228 (598)
Q Consensus       195 ~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~  228 (598)
                      +|+++.++.+ ..+..+++|+.|++++|+++...
T Consensus        74 ~N~i~~~~~~-~~l~~~~~L~~L~l~~N~i~~~~  106 (124)
T d1dcea3          74 NNRLQQSAAI-QPLVSCPRLVLLNLQGNSLCQEE  106 (124)
T ss_dssp             SSCCCSSSTT-GGGGGCTTCCEEECTTSGGGGSS
T ss_pred             CCccCCCCCc-hhhcCCCCCCEEECCCCcCCcCc
Confidence            8888776542 45677777788888777776543

>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=99.52  E-value=6.6e-15  Score=147.27  Aligned_cols=86  Identities=20%  Similarity=0.244  Sum_probs=46.4

Q ss_pred             cccceEeccCCcCCCc----CchhhhcccCCcEEECcCCcCcccCCc----ccC--CCCCCCeeeCCCCccCCC----Cc
Q 040109          394 GLIKIIDLSSNKLGGE----VPEEIMDLVGLVALNLSNNNLTGQITP----RIG--QLKSLDFLDLSINHFFGG----IP  459 (598)
Q Consensus       394 ~~L~~L~Ls~n~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~~p~----~l~--~l~~L~~L~Ls~N~l~~~----~p  459 (598)
                      ++|+.|+|++|.++..    +...+..+++|++|+|++|.+++....    .+.  ..+.|++|++++|+++..    +.
T Consensus       215 ~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~  294 (344)
T d2ca6a1         215 QELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLK  294 (344)
T ss_dssp             TTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHH
T ss_pred             hhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHH
Confidence            3444455555444321    233445566666666666666543222    222  235677777777776532    22


Q ss_pred             ccc-cCCCCCCEEeCCCCcce
Q 040109          460 SSL-SRLRLLSVMDLSYNNFS  479 (598)
Q Consensus       460 ~~l-~~l~~L~~L~ls~N~l~  479 (598)
                      ..+ .+++.|+.|++++|++.
T Consensus       295 ~~l~~~~~~L~~L~l~~N~~~  315 (344)
T d2ca6a1         295 TVIDEKMPDLLFLELNGNRFS  315 (344)
T ss_dssp             HHHHHHCTTCCEEECTTSBSC
T ss_pred             HHHHccCCCCCEEECCCCcCC
Confidence            233 24667777777777764

>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=99.51  E-value=8.1e-15  Score=146.58  Aligned_cols=42  Identities=24%  Similarity=0.133  Sum_probs=19.9

Q ss_pred             cccCCCCCCEEECcCCCCCCC---CcchhcCCCCCCCEEECCCCC
Q 040109          107 SLLKLQHLTYLDLSWNNFSGS---PIPEFIGSLSKLSELALSSAQ  148 (598)
Q Consensus       107 ~l~~l~~L~~L~Ls~n~l~~~---~~p~~l~~l~~L~~L~Ls~n~  148 (598)
                      ++.+...|+.|+|++|.+...   .+...+...++|+.|+++++.
T Consensus        26 ~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~   70 (344)
T d2ca6a1          26 VLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIF   70 (344)
T ss_dssp             HHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCC
T ss_pred             HHhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCc
Confidence            344455566666665555321   012233444555555555443

>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=99.48  E-value=2.2e-14  Score=126.23  Aligned_cols=133  Identities=19%  Similarity=0.174  Sum_probs=95.1

Q ss_pred             cccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccccCCC
Q 040109          107 SLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWLSYLS  186 (598)
Q Consensus       107 ~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~l~  186 (598)
                      .+.+...+++|||++|+|+.  ++..+..+++|++|+|++|.++ .++ .|..+++|++|++++|++ .......+..++
T Consensus        13 ~~~n~~~lr~L~L~~n~I~~--i~~~~~~l~~L~~L~Ls~N~i~-~l~-~~~~l~~L~~L~ls~N~i-~~l~~~~~~~l~   87 (162)
T d1a9na_          13 QYTNAVRDRELDLRGYKIPV--IENLGATLDQFDAIDFSDNEIR-KLD-GFPLLRRLKTLLVNNNRI-CRIGEGLDQALP   87 (162)
T ss_dssp             EEECTTSCEEEECTTSCCCS--CCCGGGGTTCCSEEECCSSCCC-EEC-CCCCCSSCCEEECCSSCC-CEECSCHHHHCT
T ss_pred             hccCcCcCcEEECCCCCCCc--cCccccccccCCEEECCCCCCC-ccC-CcccCcchhhhhcccccc-cCCCcccccccc
Confidence            45677788999999999884  5666677889999999999888 443 578888999999999987 333334466788


Q ss_pred             CCCEEEcCCCcCCCCCchhHhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEE
Q 040109          187 SLRYLDLGDCKLSKFSNWFQVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVID  245 (598)
Q Consensus       187 ~L~~L~L~~n~l~~~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~  245 (598)
                      +|++|++++|++..++++ ..+..+++|++|++++|.++..+.........+++|+.||
T Consensus        88 ~L~~L~L~~N~i~~~~~l-~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          88 DLTELILTNNSLVELGDL-DPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             TCCEEECCSCCCCCGGGG-GGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             ccccceeccccccccccc-cccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            888888888888876442 4577788888888888877655431111122226666655

>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=99.45  E-value=1.9e-13  Score=114.29  Aligned_cols=120  Identities=28%  Similarity=0.297  Sum_probs=97.4

Q ss_pred             EEEcCCCCCCCCCCCceecCccccCCCCCCEEECcCCCCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCE
Q 040109           86 GLDLRALSDSPVDALKGTINPSLLKLQHLTYLDLSWNNFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQV  165 (598)
Q Consensus        86 ~l~l~~~~~~~~~~l~g~l~~~l~~l~~L~~L~Ls~n~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~  165 (598)
                      .+++++      +.++ .++ .+..+++|++|++++|.++.  +|..++.+++|++|++++|.++. +| .++++++|++
T Consensus         2 ~L~Ls~------n~l~-~l~-~l~~l~~L~~L~ls~N~l~~--lp~~~~~l~~L~~L~l~~N~i~~-l~-~~~~l~~L~~   69 (124)
T d1dcea3           2 VLHLAH------KDLT-VLC-HLEQLLLVTHLDLSHNRLRA--LPPALAALRCLEVLQASDNALEN-VD-GVANLPRLQE   69 (124)
T ss_dssp             EEECTT------SCCS-SCC-CGGGGTTCCEEECCSSCCCC--CCGGGGGCTTCCEEECCSSCCCC-CG-GGTTCSSCCE
T ss_pred             EEEcCC------CCCC-CCc-ccccCCCCCEEECCCCccCc--chhhhhhhhcccccccccccccc-cC-ccccccccCe
Confidence            467777      7776 344 48899999999999999984  78889999999999999999994 45 5899999999


Q ss_pred             EEccCCCCCCCCCcccccCCCCCCEEEcCCCcCCCCCchh-HhhcCCCCCcEE
Q 040109          166 LDLRFNNLFSSGNLDWLSYLSSLRYLDLGDCKLSKFSNWF-QVLSNLRSLTTL  217 (598)
Q Consensus       166 L~Ls~n~l~~~~~~~~l~~l~~L~~L~L~~n~l~~~~~~~-~~l~~l~~L~~L  217 (598)
                      |++++|++........+..+++|++|++++|.++..+... .....+|+|+.+
T Consensus        70 L~l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          70 LLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             EECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             EECCCCccCCCCCchhhcCCCCCCEEECCCCcCCcCccHHHHHHHHCcCcceE
Confidence            9999999855555567899999999999999988664433 334446776655

>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=99.45  E-value=8.6e-14  Score=122.36  Aligned_cols=79  Identities=23%  Similarity=0.228  Sum_probs=48.4

Q ss_pred             ccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCC--cccCCCCCCCeeeCCCCccCCCC---cccccCCCC
Q 040109          393 LGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQIT--PRIGQLKSLDFLDLSINHFFGGI---PSSLSRLRL  467 (598)
Q Consensus       393 l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p--~~l~~l~~L~~L~Ls~N~l~~~~---p~~l~~l~~  467 (598)
                      +++|++|++++|+++...+..+..+++|+.|++++|+++. ++  ..+..+++|++|++++|.++...   +..+..+++
T Consensus        62 l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~i~~-~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~  140 (162)
T d1a9na_          62 LRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVE-LGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQ  140 (162)
T ss_dssp             CSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCC-GGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTT
T ss_pred             CcchhhhhcccccccCCCccccccccccccceeccccccc-cccccccccccccchhhcCCCccccccchHHHHHHHCCC
Confidence            3445666666666654444445567777777777777763 22  35666777777777777775321   124666777


Q ss_pred             CCEEe
Q 040109          468 LSVMD  472 (598)
Q Consensus       468 L~~L~  472 (598)
                      |++||
T Consensus       141 L~~LD  145 (162)
T d1a9na_         141 VRVLD  145 (162)
T ss_dssp             CSEET
T ss_pred             cCeeC
Confidence            77776

>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=99.42  E-value=3e-13  Score=117.97  Aligned_cols=112  Identities=17%  Similarity=0.136  Sum_probs=94.4

Q ss_pred             ccceEeccCCcCCCcCchhhhcccCCcEEECcCCc-CcccCCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeC
Q 040109          395 LIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNN-LTGQITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDL  473 (598)
Q Consensus       395 ~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  473 (598)
                      ..+.++.+++++. ..|..+..+++|++|++++|+ ++...+..|.++++|+.|++++|+|+...|.+|..+++|++|+|
T Consensus         9 ~~~~l~c~~~~~~-~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L   87 (156)
T d2ifga3           9 GSSGLRCTRDGAL-DSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNL   87 (156)
T ss_dssp             SSSCEECCSSCCC-TTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEEC
T ss_pred             CCCeEEecCCCCc-cCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceec
Confidence            4567888998888 678888899999999998764 88666678999999999999999999887889999999999999


Q ss_pred             CCCcceecCCCC-CccCccCCCccCCCCCCCCCCCC
Q 040109          474 SYNNFSGKIPKG-TQLQRFGASTYAGNPELCGLPLP  508 (598)
Q Consensus       474 s~N~l~~~~p~~-~~~~~l~~~~~~gnp~lC~~~~~  508 (598)
                      ++|+++ .+|.. ....++..+.+.|||+.|+|.+.
T Consensus        88 s~N~l~-~l~~~~~~~~~l~~L~L~~Np~~C~C~~~  122 (156)
T d2ifga3          88 SFNALE-SLSWKTVQGLSLQELVLSGNPLHCSCALR  122 (156)
T ss_dssp             CSSCCS-CCCSTTTCSCCCCEEECCSSCCCCCGGGH
T ss_pred             cCCCCc-ccChhhhccccccccccCCCcccCCchHH
Confidence            999998 55554 44556888899999999988653

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.32  E-value=9.4e-14  Score=126.56  Aligned_cols=143  Identities=24%  Similarity=0.294  Sum_probs=90.2

Q ss_pred             ccEEeeccC--CCCCcchhhcCCCCCcEEEcccCcCccchhhhhhhcCCCCCCCCCCCEEEccCccccccCCCCCCCCcC
Q 040109          291 LRYLGLLSN--RLREVPKFLGNMSSLKMLVLSYNELRGELSEFIQNVSSGSTKNSSLEWLYLASNEITGTIPNLGGFPGM  368 (598)
Q Consensus       291 L~~L~Ls~n--~l~~lp~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~g~~~~~~L~~L~Ls~N~l~~~~p~l~~l~~l  368 (598)
                      ++.+++.++  .++.+|..+..+++|++|++++|+++.. + .+..++       +|+.|++++|.++. +|        
T Consensus        25 ~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~I~~i-~-~l~~l~-------~L~~L~Ls~N~i~~-i~--------   86 (198)
T d1m9la_          25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKI-S-SLSGME-------NLRILSLGRNLIKK-IE--------   86 (198)
T ss_dssp             CSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEEESCC-C-CHHHHT-------TCCEEECCEEEECS-CS--------
T ss_pred             cceeeeecccCchhhhhhHHhcccccceeECcccCCCCc-c-cccCCc-------cccChhhccccccc-cc--------
Confidence            344444443  3445666677777777777777777643 2 355665       67777777777652 21        


Q ss_pred             ccccccccceEEEEcCCcccccccccccceEeccCCcCCCcCchhhhcccCCcEEECcCCcCcccCC-cccCCCCCCCee
Q 040109          369 LMPLIYFDKITVTWKGGQYEYKSILGLIKIIDLSSNKLGGEVPEEIMDLVGLVALNLSNNNLTGQIT-PRIGQLKSLDFL  447 (598)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~L  447 (598)
                                         .....+++|+.|++++|+++. + ..+..+++|+.|++++|++++... ..+..+++|+.|
T Consensus        87 -------------------~~~~~~~~L~~L~l~~N~i~~-l-~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L  145 (198)
T d1m9la_          87 -------------------NLDAVADTLEELWISYNQIAS-L-SGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDL  145 (198)
T ss_dssp             -------------------SHHHHHHHCCEEECSEEECCC-H-HHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEE
T ss_pred             -------------------ccccccccccccccccccccc-c-ccccccccccccccccchhccccccccccCCCcccee
Confidence                               112234567777888877773 3 357777888888888888873221 457778888888


Q ss_pred             eCCCCccCCCCccc----------ccCCCCCCEEe
Q 040109          448 DLSINHFFGGIPSS----------LSRLRLLSVMD  472 (598)
Q Consensus       448 ~Ls~N~l~~~~p~~----------l~~l~~L~~L~  472 (598)
                      ++++|.+....+..          +..+++|+.||
T Consensus       146 ~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         146 LLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             EECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCEES
T ss_pred             ecCCCccccCcccccchhhHHHHHHHHCCCcCEeC
Confidence            88888775433221          45677777775

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.19  E-value=1.8e-12  Score=117.94  Aligned_cols=113  Identities=20%  Similarity=0.315  Sum_probs=63.5

Q ss_pred             HhhcCCCCCcEEeccCcCCCCCCCChhhhccccCCccEEEccCCCCCCCcchhhhhcCccCccEEEccCCccccccchhh
Q 040109          206 QVLSNLRSLTTLYLGHCDLPPISTPSLLHLNYSKSLEVIDLSNNYLTNSIYPWLLNVSSNLVDHIDLGSNRLHGSIPVAF  285 (598)
Q Consensus       206 ~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~L~~L~L~~n~l~~~~p~~l  285 (598)
                      ..+..+++|++|++++|+++....  +..+   ++|+.|++++|.++ .++......+.  |+.|++++|.++. + ..+
T Consensus        42 ~sl~~L~~L~~L~Ls~n~I~~i~~--l~~l---~~L~~L~Ls~N~i~-~i~~~~~~~~~--L~~L~l~~N~i~~-l-~~~  111 (198)
T d1m9la_          42 ATLSTLKACKHLALSTNNIEKISS--LSGM---ENLRILSLGRNLIK-KIENLDAVADT--LEELWISYNQIAS-L-SGI  111 (198)
T ss_dssp             HHHHHTTTCCEEECSEEEESCCCC--HHHH---TTCCEEECCEEEEC-SCSSHHHHHHH--CCEEECSEEECCC-H-HHH
T ss_pred             hHHhcccccceeECcccCCCCccc--ccCC---ccccChhhcccccc-ccccccccccc--ccccccccccccc-c-ccc
Confidence            445555555555555555554322  2222   55556666655554 23333333344  6666666666653 2 235


Q ss_pred             cCCCCccEEeeccCCCCCcc--hhhcCCCCCcEEEcccCcCccch
Q 040109          286 GHMASLRYLGLLSNRLREVP--KFLGNMSSLKMLVLSYNELRGEL  328 (598)
Q Consensus       286 ~~l~~L~~L~Ls~n~l~~lp--~~l~~l~~L~~L~Ls~n~l~~~~  328 (598)
                      ..+++|++|++++|++++++  ..+..+++|+.|++++|++....
T Consensus       112 ~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~  156 (198)
T d1m9la_         112 EKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDY  156 (198)
T ss_dssp             HHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHH
T ss_pred             cccccccccccccchhccccccccccCCCccceeecCCCccccCc
Confidence            56667777777777776654  35667777777777777665443

>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=99.11  E-value=1.9e-10  Score=99.76  Aligned_cols=93  Identities=25%  Similarity=0.188  Sum_probs=47.4

Q ss_pred             cCccccCCCCCCEEECcCC-CCCCCCcchhcCCCCCCCEEECCCCCCCCCCccccCCCCCCCEEEccCCCCCCCCCcccc
Q 040109          104 INPSLLKLQHLTYLDLSWN-NFSGSPIPEFIGSLSKLSELALSSAQLAGPIPHQLGNLSRLQVLDLRFNNLFSSGNLDWL  182 (598)
Q Consensus       104 l~~~l~~l~~L~~L~Ls~n-~l~~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~~~~~l  182 (598)
                      .|..+..+++|++|++++| .++.. -+..|.++++|++|+|++|+|+...+.+|..+++|++|+|++|++ .......+
T Consensus        23 ~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~~~~~  100 (156)
T d2ifga3          23 SLHHLPGAENLTELYIENQQHLQHL-ELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNAL-ESLSWKTV  100 (156)
T ss_dssp             TTTTSCSCSCCSEEECCSCSSCCEE-CGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCC-SCCCSTTT
T ss_pred             CcccccCccccCeeecCCCcccccc-CchhhccccccCcceeeccccCCcccccccccccccceeccCCCC-cccChhhh
Confidence            3444555556666666544 35432 234455566666666666666554455555555666666665555 22222223


Q ss_pred             cCCCCCCEEEcCCCcCC
Q 040109          183 SYLSSLRYLDLGDCKLS  199 (598)
Q Consensus       183 ~~l~~L~~L~L~~n~l~  199 (598)
                      ..+ +|++|+|++|.+.
T Consensus       101 ~~~-~l~~L~L~~Np~~  116 (156)
T d2ifga3         101 QGL-SLQELVLSGNPLH  116 (156)
T ss_dssp             CSC-CCCEEECCSSCCC
T ss_pred             ccc-cccccccCCCccc
Confidence            322 3555555555443

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=3.4e-07  Score=79.30  Aligned_cols=81  Identities=22%  Similarity=0.127  Sum_probs=52.4

Q ss_pred             cccccceEeccCCcCCCc--CchhhhcccCCcEEECcCCcCcccCCcccCCCCCCCeeeCCCCccCCCCcc-------cc
Q 040109          392 ILGLIKIIDLSSNKLGGE--VPEEIMDLVGLVALNLSNNNLTGQITPRIGQLKSLDFLDLSINHFFGGIPS-------SL  462 (598)
Q Consensus       392 ~l~~L~~L~Ls~n~l~~~--~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~-------~l  462 (598)
                      .+++|++|+|++|+|+..  ++..+..+++|+.|++++|+++...+-.+.....|+.|++++|.+.....+       .+
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~  142 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIR  142 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHH
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHHH
Confidence            466778888888887743  234566777888888888887743322333445677788888877654432       24


Q ss_pred             cCCCCCCEEe
Q 040109          463 SRLRLLSVMD  472 (598)
Q Consensus       463 ~~l~~L~~L~  472 (598)
                      ..+|+|+.||
T Consensus       143 ~~~P~L~~LD  152 (162)
T d1koha1         143 ERFPKLLRLD  152 (162)
T ss_dssp             TTSTTCCEET
T ss_pred             HHCCCCCEEC
Confidence            5677777765

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.16  E-value=8.4e-08  Score=83.24  Aligned_cols=75  Identities=23%  Similarity=0.167  Sum_probs=57.1

Q ss_pred             cCchhhhcccCCcEEECcCCcCccc--CCcccCCCCCCCeeeCCCCccCCCCcccccCCCCCCEEeCCCCcceecCC
Q 040109          409 EVPEEIMDLVGLVALNLSNNNLTGQ--ITPRIGQLKSLDFLDLSINHFFGGIPSSLSRLRLLSVMDLSYNNFSGKIP  483 (598)
Q Consensus       409 ~~p~~l~~l~~L~~L~Ls~N~l~~~--~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~ls~N~l~~~~p  483 (598)
                      .++..+..+++|++|+|++|+|+..  ++..+..+++|+.|+|++|.++...+-.+.+...|+.|++++|++++...
T Consensus        56 ~l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~  132 (162)
T d1koha1          56 TLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFR  132 (162)
T ss_dssp             HHHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSS
T ss_pred             hhHHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcc
Confidence            4455556789999999999999853  24556788999999999999985443344455679999999999975444

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.83  E-value=9.9e-06  Score=70.08  Aligned_cols=66  Identities=15%  Similarity=0.041  Sum_probs=34.2

Q ss_pred             hhhcccCCcEEECcCCcCccc----CCcccCCCCCCCeeeCCCCccCCC-------CcccccCCCCCCEEeCCCCcc
Q 040109          413 EIMDLVGLVALNLSNNNLTGQ----ITPRIGQLKSLDFLDLSINHFFGG-------IPSSLSRLRLLSVMDLSYNNF  478 (598)
Q Consensus       413 ~l~~l~~L~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~-------~p~~l~~l~~L~~L~ls~N~l  478 (598)
                      .+...+.|++|+|++|.+++.    +-..+...++|++|++++|.+...       +.+.+...++|+.|+++++..
T Consensus        67 ~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~~~  143 (167)
T d1pgva_          67 LIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFASM  143 (167)
T ss_dssp             HHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             hhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCCCc
Confidence            334445555555555555532    122344455666666666644321       233445556677777766543

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.75  E-value=7.4e-06  Score=70.93  Aligned_cols=59  Identities=17%  Similarity=0.133  Sum_probs=31.1

Q ss_pred             ccEEEccCCccccc----cchhhcCCCCccEEeeccCCCCC-----cchhhcCCCCCcEEEcccCcCc
Q 040109          267 VDHIDLGSNRLHGS----IPVAFGHMASLRYLGLLSNRLRE-----VPKFLGNMSSLKMLVLSYNELR  325 (598)
Q Consensus       267 L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L~~L~Ls~n~l~  325 (598)
                      |++|++++|.+...    +...+...+.|++|++++|.++.     +-..+...++|++|++++|.+.
T Consensus        46 L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~~  113 (167)
T d1pgva_          46 IEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQS  113 (167)
T ss_dssp             CCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSC
T ss_pred             cceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcCC
Confidence            55555555544421    22233344566666666666654     2234555566777777666544

>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=97.27  E-value=5.4e-05  Score=65.19  Aligned_cols=41  Identities=10%  Similarity=0.035  Sum_probs=20.6

Q ss_pred             CCCCccEEeecc-CCCCC-----cchhhcCCCCCcEEEcccCcCccc
Q 040109          287 HMASLRYLGLLS-NRLRE-----VPKFLGNMSSLKMLVLSYNELRGE  327 (598)
Q Consensus       287 ~l~~L~~L~Ls~-n~l~~-----lp~~l~~l~~L~~L~Ls~n~l~~~  327 (598)
                      +.++|++|++++ +.++.     +-..+...++|++|++++|.+...
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~   61 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDP   61 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHH
Confidence            445555666655 33432     223344555566666666655433

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.92  E-value=0.00048  Score=58.92  Aligned_cols=34  Identities=24%  Similarity=0.175  Sum_probs=16.6

Q ss_pred             cCCCCccEEeeccCCCCC-----cchhhcCCCCCcEEEc
Q 040109          286 GHMASLRYLGLLSNRLRE-----VPKFLGNMSSLKMLVL  319 (598)
Q Consensus       286 ~~l~~L~~L~Ls~n~l~~-----lp~~l~~l~~L~~L~L  319 (598)
                      ...+.++.+++++|.++.     +...+...++|+.++|
T Consensus        71 ~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L  109 (166)
T d1io0a_          71 KVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRI  109 (166)
T ss_dssp             HHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEEC
T ss_pred             hhcccchhhhhccccccchhHHHHHHHHHhCccccEEee
Confidence            334555555555555543     2234455555655444