Citrus Sinensis ID: 040876

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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---
Protein Sequence
MSVVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccccccccccccccccccccccEEEccccccEEEEEccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccHHHcccccccccccccccccccccccccccccccccEEEccccEEEEcccHHHcccccccEEEcccccEEccccHHccccccccEEEcccccccccccHHHHcccccccEEEccccccccccEEccccccEEccccccccccccEEcccccccccccccccccccEEEccccccccccccHHHHcccccccccEEEccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccccccccccccccccccEEEEEEccccccEEEccccccHHHccccccEEEEcccccccccccHHHcccccccEEEEccccccccccccccccHHHcccccccEEEcccccccccccHHHHccHHHccEEEcccccccccccHHHcccccccEEEcccccccccHHHcHcccccccEEEcccccccccccHHHHcccccccEEEccccccEEEEEEcccccccccccccccccccEEEEccccccccccccccccccEEEcccccccccccHHHHccccccccccEEEccccccccc
Coil and Loop (DISEMBL)
MSVVLVFALFLFELLVISISFcngssdhmgcLESEREALLRFKQdlqdpsnrlaswniggdcctwagivcdnvTGHIielnlrnpftyyrrsrykanprsmlvgkgpipswlyrlthleqlsvadrpslasredQDLLSNIRQRLSKcrtgakssqEISDIFDIFSGCVSKGLEILVLRSssisghlteqighfknldtldlgnnsivglvplslnELSKLRILHlsdnklngtlseIHFVNLTKLSVFSvnennltlkfldlgenqihgemtnltnATQLWYLRLhsnnfsgplslissnlvyldlfnnsflgsISHFWCYRSNETKRLRALSlgdnylqge
Flexible Loop (DISEMBL)
MSVVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSrykanprsmlvgKGPIPSWLYRLTHLEQLSvadrpslasredqdLLSNIRQRLSkcrtgakssqeiSDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRalslgdnylqge
Low Complexity Region (SEG)
MSvvlvfalflfellvISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE
Disordered region (IsUnstruct)
**VVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLS***********************************ISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRAL**********
Disordered Region (DISOPRED)
*SVVLVFALFLFELLVISISFCN**********SEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASRE******NIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ**
Disordered Region (DISEMBL)
MSVVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLS*********QEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE
Disordered Region (DISPRO)
*SVVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSVVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE
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	343	2.2.26 [Sep-21-2011]
Q9C9H7	847	Receptor-like protein 12	no	no	0.880	0.356	0.285	1e-18
O82318	960	Probably inactive leucine	no	no	0.816	0.291	0.285	5e-17
Q00874	372	DNA-damage-repair/tolerat	no	no	0.781	0.720	0.277	8e-15
Q6XAT2	967	LRR receptor-like serine/	no	no	0.752	0.266	0.286	3e-14
C0LGQ5	1249	LRR receptor-like serine/	no	no	0.822	0.225	0.306	1e-13
Q9S7I6	1151	LRR receptor-like serine/	no	no	0.527	0.157	0.308	2e-13
Q9FL28	1173	LRR receptor-like serine/	no	no	0.906	0.265	0.268	4e-13
Q05091	330	Polygalacturonase inhibit	N/A	no	0.688	0.715	0.264	1e-12
Q9FL51	872	Probably inactive leucine	no	no	0.755	0.297	0.296	3e-12
Q9M5J9	330	Polygalacturonase inhibit	no	no	0.705	0.733	0.251	4e-12

>sp|Q9C9H7|RLP12_ARATH Receptor-like protein 12 OS=Arabidopsis thaliana GN=RLP12 PE=2 SV=2

 Score = 94.4 bits (233), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 109/382 (28%), Positives = 166/382 (43%), Gaps = 80/382 (20%)

Query: 9   LFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNR--------LASWNIGG 60
           +    LLV S++    SS H  C + +R+ALL F+ +   P N            WN   
Sbjct: 16  IIFLSLLVHSLA---SSSPHF-CRDDQRDALLEFRGEF--PINASWHIMNQWRGPWNKST 69

Query: 61  DCCTWAGIVCDNVTGHIIELNLRNPF--------------TYYRR------SRYKANPRS 100
           DCC W G+ C++ +G +I L++ N F               Y R       + Y   P S
Sbjct: 70  DCCLWNGVTCNDKSGQVISLDIPNTFLNNYLKTNSSLFKLQYLRHLDLTNCNLYGEIPSS 129

Query: 101 M-------LVG------KGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQ---- 143
           +       LV        G IP+ +  L  L  L +A+  ++ + E    L N+ +    
Sbjct: 130 LGNLSHLTLVNLYFNKFVGEIPASIGNLNQLRHLILAN--NVLTGEIPSSLGNLSRLVNL 187

Query: 144 RLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLG 203
            L   R   K    I D+         K L  L L S+++ G +   +G+  NL  L L 
Sbjct: 188 ELFSNRLVGKIPDSIGDL---------KQLRNLSLASNNLIGEIPSSLGNLSNLVHLVLT 238

Query: 204 NNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDL 263
           +N +VG VP S+  L +LR++   +N L+G +  I F NLTKLS+F ++ NN T  F   
Sbjct: 239 HNQLVGEVPASIGNLIELRVMSFENNSLSGNI-PISFANLTKLSIFVLSSNNFTSTF--- 294

Query: 264 GENQIHGEMTNLTNATQLWYLRLHSNNFSGPLS---LISSNLVYLDLFNNSFLGSISHFW 320
                  +M+   N   L Y  +  N+FSGP     L+  +L  + L  N F G I    
Sbjct: 295 -----PFDMSIFHN---LEYFDVSYNSFSGPFPKSLLLIPSLESIYLQENQFTGPIEF-- 344

Query: 321 CYRSNETKRLRALSLGDNYLQG 342
              ++ + +L+ L LG N L G
Sbjct: 345 -ANTSSSTKLQDLILGRNRLHG 365

Involved in the perception of CLV3 and CLV3-like peptides, that act as extracellular signals regulating meristems maintenance.
Arabidopsis thaliana (taxid: 3702)

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

 Score = 89.0 bits (219), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 96/336 (28%), Positives = 153/336 (45%), Gaps = 56/336 (16%)

Query: 31  CLES-EREALLRFKQDLQDPSNRLASWNIGG--DCCTWAGIVCDNVTGHIIELNLRNPFT 87
           CL + E E LL FK  +QDP   L+SW+     D C W+G+VC+N++  ++ L+L     
Sbjct: 26  CLHANELELLLSFKSSIQDPLKHLSSWSYSSTNDVCLWSGVVCNNIS-RVVSLDLSG--- 81

Query: 88  YYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSK 147
                  K     +L          +RL  L+ +++++  +L+     D+ +        
Sbjct: 82  -------KNMSGQILTAAT------FRLPFLQTINLSNN-NLSGPIPHDIFT-------- 119

Query: 148 CRTGAKSSQEISDIFDIFSGCVSKG----LEILVLRSSSISGHLTEQIGHFKNLDTLDLG 203
             T + S + ++   + FSG + +G    L  L L ++  +G +   IG F NL  LDLG
Sbjct: 120 --TSSPSLRYLNLSNNNFSGSIPRGFLPNLYTLDLSNNMFTGEIYNDIGVFSNLRVLDLG 177

Query: 204 NNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNL------- 256
            N + G VP  L  LS+L  L L+ N+L G +  +    +  L    +  NNL       
Sbjct: 178 GNVLTGHVPGYLGNLSRLEFLTLASNQLTGGV-PVELGKMKNLKWIYLGYNNLSGEIPYQ 236

Query: 257 -----TLKFLDLGENQIHGEM-TNLTNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDL 307
                +L  LDL  N + G +  +L +  +L Y+ L+ N  SG  P S+ S  NL+ LD 
Sbjct: 237 IGGLSSLNHLDLVYNNLSGPIPPSLGDLKKLEYMFLYQNKLSGQIPPSIFSLQNLISLDF 296

Query: 308 FNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
            +NS  G I         + + L  L L  N L G+
Sbjct: 297 SDNSLSGEIPELVA----QMQSLEILHLFSNNLTGK 328

Arabidopsis thaliana (taxid: 3702)

>sp|Q00874|DR100_ARATH DNA-damage-repair/toleration protein DRT100 OS=Arabidopsis thaliana GN=DRT100 PE=2 SV=2

 Score = 81.6 bits (200), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 93/335 (27%), Positives = 137/335 (40%), Gaps = 67/335 (20%)

Query: 31  CLESEREALLRFKQDLQDPS-NRLASWNIGGDCCT-WAGIVCDNVTGHIIELNLRNP--- 85
           C   ++ AL  FK  L +P+     +W+   DCC  W GI CD  +G + +++LR     
Sbjct: 27  CSPKDQTALNAFKSSLSEPNLGIFNTWSENTDCCKEWYGISCDPDSGRVTDISLRGESED 86

Query: 86  --FTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQ 143
             F    RS Y +         G I   +  LT L  L +AD               I  
Sbjct: 87  AIFQKAGRSGYMS---------GSIDPAVCDLTALTSLVLAD------------WKGITG 125

Query: 144 RLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLG 203
            +  C T   S                  L IL L  + I+G +  +IG    L  L+L 
Sbjct: 126 EIPPCITSLAS------------------LRILDLAGNKITGEIPAEIGKLSKLAVLNLA 167

Query: 204 NNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------ 257
            N + G +P SL  L +L+ L L++N + G +    F +L  LS   +  N LT      
Sbjct: 168 ENQMSGEIPASLTSLIELKHLELTENGITGVIPA-DFGSLKMLSRVLLGRNELTGSIPES 226

Query: 258 ------LKFLDLGENQIHGEMTN-LTNATQLWYLRLHSNNFSGPL--SLIS-SNLVYLDL 307
                 L  LDL +N I G +   + N   L  L L  N+ +GP+  SL+S S L   +L
Sbjct: 227 ISGMERLADLDLSKNHIEGPIPEWMGNMKVLSLLNLDCNSLTGPIPGSLLSNSGLDVANL 286

Query: 308 FNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG 342
             N+  G+I   +  ++     L +L L  N L G
Sbjct: 287 SRNALEGTIPDVFGSKT----YLVSLDLSHNSLSG 317

This protein is able to complement bacterial recA mutations, but its native function in the plant is not known.

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 = 79.3 bits (194), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 87/304 (28%), Positives = 127/304 (41%), Gaps = 46/304 (15%)

Query: 32  LESEREALLRFKQDLQDPSNRLASWNI--GGDCCTWAGIVCDNVTGHIIELNLRNPFTYY 89
           + +E +AL+  K    + +N L  W+     D C+W G+ CDNV+ +++ LNL N     
Sbjct: 28  MNNEGKALMAIKASFSNVANMLLDWDDVHNHDFCSWRGVFCDNVSLNVVSLNLSN----- 82

Query: 90  RRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCR 149
                       L   G I S L  L +L+ + +         +   L   I   +  C 
Sbjct: 83  ------------LNLGGEISSALGDLMNLQSIDL---------QGNKLGGQIPDEIGNCV 121

Query: 150 TGAKSSQEISDIF-DI-FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSI 207
           + A      + +F DI FS    K LE L L+++ ++G +   +    NL TLDL  N +
Sbjct: 122 SLAYVDFSTNLLFGDIPFSISKLKQLEFLNLKNNQLTGPIPATLTQIPNLKTLDLARNQL 181

Query: 208 VGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------- 257
            G +P  L     L+ L L  N L GTLS      LT L  F V  NNLT          
Sbjct: 182 TGEIPRLLYWNEVLQYLGLRGNMLTGTLSP-DMCQLTGLWYFDVRGNNLTGTIPESIGNC 240

Query: 258 --LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSF 312
              + LD+  NQI G +       Q+  L L  N  +G +  +      L  LDL +N  
Sbjct: 241 TSFEILDVSYNQITGVIPYNIGFLQVATLSLQGNKLTGRIPEVIGLMQALAVLDLSDNEL 300

Query: 313 LGSI 316
            G I
Sbjct: 301 TGPI 304

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

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 103/336 (30%), Positives = 151/336 (44%), Gaps = 54/336 (16%)

Query: 30  GCLESEREALLRFKQDL------QDPSNRLASWNIGGDCCTWAGIVCDNVTG--HIIELN 81
           G + ++ + LL  K+ L       DP  +  S NI  + C+W G+ CDN TG   +I LN
Sbjct: 21  GIINNDLQTLLEVKKSLVTNPQEDDPLRQWNSDNI--NYCSWTGVTCDN-TGLFRVIALN 77

Query: 82  LR--------NP-FTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASR 132
           L         +P F  +    +     + LV  GPIP+ L  LT LE L +         
Sbjct: 78  LTGLGLTGSISPWFGRFDNLIHLDLSSNNLV--GPIPTALSNLTSLESLFLFSNQLTGEI 135

Query: 133 EDQ-DLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQI 191
             Q   L NIR      R G   ++ + DI +     V+  L++L L S  ++G +  Q+
Sbjct: 136 PSQLGSLVNIR----SLRIG--DNELVGDIPETLGNLVN--LQMLALASCRLTGPIPSQL 187

Query: 192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSV 251
           G    + +L L +N + G +P  L   S L +   ++N LNGT+       L +L     
Sbjct: 188 GRLVRVQSLILQDNYLEGPIPAELGNCSDLTVFTAAENMLNGTIP----AELGRL----- 238

Query: 252 NENNLTLKFLDLGENQIHGEM-TNLTNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDL 307
            EN   L+ L+L  N + GE+ + L   +QL YL L +N   G  P SL    NL  LDL
Sbjct: 239 -EN---LEILNLANNSLTGEIPSQLGEMSQLQYLSLMANQLQGLIPKSLADLGNLQTLDL 294

Query: 308 FNNSFLGSIS-HFWCYRSNETKRLRALSLGDNYLQG 342
             N+  G I   FW        +L  L L +N+L G
Sbjct: 295 SANNLTGEIPEEFW-----NMSQLLDLVLANNHLSG 325

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|Q9S7I6|RPK2_ARATH LRR receptor-like serine/threonine-protein kinase RPK2 OS=Arabidopsis thaliana GN=RPK2 PE=1 SV=1

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 65/211 (30%), Positives = 106/211 (50%), Gaps = 30/211 (14%)

Query: 33  ESEREALLRFKQDLQDPSNRLASW-NIGGDCCTWAGIVCDNVTGHIIELN-LRNPFTYYR 90
           +S++  LLRFK+ + DP + LASW     D C+W G+ CD+ +  ++ LN   +  +   
Sbjct: 44  DSDKSVLLRFKKTVSDPGSILASWVEESEDYCSWFGVSCDS-SSRVMALNISGSGSSEIS 102

Query: 91  RSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRT 150
           R+R+        +GK P+  +  R     +    +  +LA       L ++   L+  R 
Sbjct: 103 RNRFTCGD----IGKFPLYGFGVR-----RDCTGNHGALAGN-----LPSVIMSLTGLRV 148

Query: 151 GAKSSQEISDIFDIFSGCVSKG------LEILVLRSSSISGHLTEQIGHFKNLDTLDLGN 204
                  +S  F+ FSG +  G      LE+L L  + ++G L +Q    +NL  ++LG 
Sbjct: 149 -------LSLPFNSFSGEIPVGIWGMEKLEVLDLEGNLMTGSLPDQFTGLRNLRVMNLGF 201

Query: 205 NSIVGLVPLSLNELSKLRILHLSDNKLNGTL 235
           N + G +P SL  L+KL IL+L  NKLNGT+
Sbjct: 202 NRVSGEIPNSLQNLTKLEILNLGGNKLNGTV 232

Key regulator of anther development (e.g. lignification pattern), including tapetum degradation during pollen maturation (e.g. germination capacity). Together with RPK1, required for pattern formation along the radial axis (e.g. the apical embryonic domain cell types that generate cotyledon primordia), and the apical-basal axis (e.g. differentiation of the basal pole during early embryogenesis).

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9FL28|FLS2_ARATH LRR receptor-like serine/threonine-protein kinase FLS2 OS=Arabidopsis thaliana GN=FLS2 PE=1 SV=1

 Score = 75.9 bits (185), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 100/373 (26%), Positives = 152/373 (40%), Gaps = 62/373 (16%)

Query: 3   VVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQ-DPSNRLASWNIGGD 61
           ++L    F F + +   SF           E E EAL  FK  +  DP   L+ W I G 
Sbjct: 9   LILTLTFFFFGIALAKQSF-----------EPEIEALKSFKNGISNDPLGVLSDWTIIGS 57

Query: 62  C--CTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLV-------GKGPIPSWL 112
              C W GI CD+ TGH++ ++L         S   AN   + V         G IP+ +
Sbjct: 58  LRHCNWTGITCDS-TGHVVSVSLLEKQLEGVLSPAIANLTYLQVLDLTSNSFTGKIPAEI 116

Query: 113 YRLTHLEQLSV------ADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFS 166
            +LT L QL +         PS           ++R  L          +EI        
Sbjct: 117 GKLTELNQLILYLNYFSGSIPSGIWELKNIFYLDLRNNL----LSGDVPEEI-------- 164

Query: 167 GCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHL 226
            C +  L ++    ++++G + E +G   +L       N + G +P+S+  L+ L  L L
Sbjct: 165 -CKTSSLVLIGFDYNNLTGKIPECLGDLVHLQMFVAAGNHLTGSIPVSIGTLANLTDLDL 223

Query: 227 SDNKLNGTLSEIHFVNLTKLSVFSVNENNL------------TLKFLDLGENQIHGEM-T 273
           S N+L G +    F NL  L    + EN L            +L  L+L +NQ+ G++  
Sbjct: 224 SGNQLTGKIPR-DFGNLLNLQSLVLTENLLEGDIPAEIGNCSSLVQLELYDNQLTGKIPA 282

Query: 274 NLTNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRL 330
            L N  QL  LR++ N  +   P SL   + L +L L  N  +G IS    +     + L
Sbjct: 283 ELGNLVQLQALRIYKNKLTSSIPSSLFRLTQLTHLGLSENHLVGPISEEIGF----LESL 338

Query: 331 RALSLGDNYLQGE 343
             L+L  N   GE
Sbjct: 339 EVLTLHSNNFTGE 351

Constitutes the pattern-recognition receptor (PPR) that determines the specific perception of flagellin (flg22), a potent elicitor of the defense response to pathogen-associated molecular patterns (PAMPs). Flagellin-binding to the receptor is the first step to initiate the innate immune MAP kinase signaling cascade (MEKK1, MKK4/MKK5 and MPK3/MPK6), resulting in enhanced resistance against pathogens. Binding to the effector AvrPto1 from Pseudomonas syringae blocks the downstream plant immune response.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q05091|PGIP_PYRCO Polygalacturonase inhibitor OS=Pyrus communis GN=PGIP PE=1 SV=1

 Score = 74.3 bits (181), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 80/302 (26%), Positives = 125/302 (41%), Gaps = 66/302 (21%)

Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYR 90
           C   +++ LL+ K+   DP   LASW    DCC W  + CD+ T  I             
Sbjct: 27  CNPDDKKVLLQIKKAFGDPY-VLASWKSDTDCCDWYCVTCDSTTNRI------------- 72

Query: 91  RSRYKANPRSMLVGK--GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKC 148
                 N  ++  G+  G IP+ +  L +LE L    +P+L           I+  ++K 
Sbjct: 73  ------NSLTIFAGQVSGQIPALVGDLPYLETLEFHKQPNLTGP--------IQPAIAKL 118

Query: 149 RTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV 208
                                 KGL+ L L  +++SG + + +   KNL  LDL  N++ 
Sbjct: 119 ----------------------KGLKSLRLSWTNLSGSVPDFLSQLKNLTFLDLSFNNLT 156

Query: 209 GLVPLSLNELSKLRILHLSDNKLNG--TLSEIHFVNLTKLSVFSVNE--NNLTLKF---- 260
           G +P SL+EL  L  L L  NKL G   +S   F+        S N+   N+   F    
Sbjct: 157 GAIPSSLSELPNLGALRLDRNKLTGHIPISFGQFIGNVPDLYLSHNQLSGNIPTSFAQMD 216

Query: 261 ---LDLGENQIHGEMT---NLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLG 314
              +DL  N++ G+ +    L   TQ+  L  +   F+       ++L  LD+ +N   G
Sbjct: 217 FTSIDLSRNKLEGDASVIFGLNKTTQIVDLSRNLLEFNLSKVEFPTSLTSLDINHNKIYG 276

Query: 315 SI 316
           SI
Sbjct: 277 SI 278

Inhibitor of fungal polygalacturonase. It is an important factor for plant resistance to phytopathogenic fungi.

Pyrus communis (taxid: 23211)

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

 Score = 72.8 bits (177), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 94/317 (29%), Positives = 135/317 (42%), Gaps = 58/317 (18%)

Query: 39  LLRFKQDLQDPSNRLASW--NIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKA 96
           LLRFK    DP   L+ W        C W GI C            R P  Y      ++
Sbjct: 36  LLRFKASFDDPKGSLSGWFNTSSSHHCNWTGITCT-----------RAPTLYVSSINLQS 84

Query: 97  NPRSMLVGKGPIPSWLYRLTHLEQLSVA----DRPSLASREDQDLLSNIRQRLSKCRTGA 152
                L   G I   +  L +L  L ++    ++P             I  +LS+C T  
Sbjct: 85  -----LNLSGEISDSICDLPYLTHLDLSLNFFNQP-------------IPLQLSRCVTLE 126

Query: 153 KSSQEISDIFDIFSGCVSK--GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL 210
             +   + I+      +S+   L+++   S+ + G + E +G   NL  L+LG+N + G+
Sbjct: 127 TLNLSSNLIWGTIPDQISEFSSLKVIDFSSNHVEGMIPEDLGLLFNLQVLNLGSNLLTGI 186

Query: 211 VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG 270
           VP ++ +LS+L +L LS+N     +SEI    L KL           L+ L L  +  HG
Sbjct: 187 VPPAIGKLSELVVLDLSENSY--LVSEIPSF-LGKLD---------KLEQLLLHRSGFHG 234

Query: 271 EM-TNLTNATQLWYLRLHSNNFSG--PLSLISS--NLVYLDLFNNSFLGSISHFWCYRSN 325
           E+ T+    T L  L L  NN SG  P SL  S  NLV LD+  N   GS     C    
Sbjct: 235 EIPTSFVGLTSLRTLDLSLNNLSGEIPRSLGPSLKNLVSLDVSQNKLSGSFPSGIC---- 290

Query: 326 ETKRLRALSLGDNYLQG 342
             KRL  LSL  N+ +G
Sbjct: 291 SGKRLINLSLHSNFFEG 307

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M5J9|PGIP1_ARATH Polygalacturonase inhibitor 1 OS=Arabidopsis thaliana GN=PGIP1 PE=2 SV=1

 Score = 72.4 bits (176), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 77/306 (25%), Positives = 131/306 (42%), Gaps = 64/306 (20%)

Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYR 90
           C ++++  LL+ K+ L +P + LASW+   DCC+W  + C + T                
Sbjct: 25  CNQNDKNTLLKIKKSLNNPYH-LASWDPQTDCCSWYCLECGDAT---------------- 67

Query: 91  RSRYKANPRSMLVGK--GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKC 148
              ++    ++  G+  G IP+ +  L +LE        +L  R+  +L   I+  ++K 
Sbjct: 68  -VNHRVTALTIFSGQISGQIPAEVGDLPYLE--------TLVFRKLSNLTGTIQPTIAKL 118

Query: 149 RTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV 208
                                 K L +L L  ++++G + + I   KNL+ L+L  N + 
Sbjct: 119 ----------------------KNLRMLRLSWTNLTGPIPDFISQLKNLEFLELSFNDLS 156

Query: 209 GLVPLSLNELSKLRILHLSDNKLNGTLSEI--HFVNLTKLSVFSVNE---------NNLT 257
           G +P SL+ L K+  L LS NKL G++ E    F         S N+          N+ 
Sbjct: 157 GSIPSSLSTLPKILALELSRNKLTGSIPESFGSFPGTVPDLRLSHNQLSGPIPKSLGNID 216

Query: 258 LKFLDLGENQIHGEMTNLTNATQ-LWYLRLHSNNFSGPLSL--ISSNLVYLDLFNNSFLG 314
              +DL  N++ G+ + L  + +  W + L  N F   +S   I   L  LDL +N   G
Sbjct: 217 FNRIDLSRNKLQGDASMLFGSNKTTWSIDLSRNMFQFDISKVDIPKTLGILDLNHNGITG 276

Query: 315 SISHFW 320
           +I   W
Sbjct: 277 NIPVQW 282

Inhibitor of fungal polygalacturonase. It is an important factor for plant resistance to phytopathogenic fungi.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	343
359473590	780	PREDICTED: LRR receptor-like serine/thre	0.586	0.257	0.367	2e-23
359473582	781	PREDICTED: LRR receptor-like serine/thre	0.530	0.233	0.372	2e-22
359473578	777	PREDICTED: LRR receptor-like serine/thre	0.527	0.232	0.368	9e-22
224095212	594	predicted protein [Populus trichocarpa]	0.804	0.464	0.314	2e-21
302143762	965	unnamed protein product [Vitis vinifera]	0.941	0.334	0.294	2e-21
147865941	781	hypothetical protein VITISV_037334 [Viti	0.530	0.233	0.368	2e-21
350284769	1041	receptor-like protein [Malus x domestica	0.982	0.323	0.312	1e-20
255581850	1082	leucine-rich repeat receptor protein kin	0.548	0.173	0.312	1e-20
147843339	969	hypothetical protein VITISV_034464 [Viti	0.839	0.297	0.302	1e-20
225466101	1035	PREDICTED: LRR receptor-like serine/thre	0.787	0.260	0.307	2e-20

>gi|359473590|ref|XP_003631330.1| PREDICTED: LRR receptor-like serine/threonine-protein kinase GSO1-like [Vitis vinifera]

 Score =  116 bits (290), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 89/242 (36%), Positives = 125/242 (51%), Gaps = 41/242 (16%)

Query: 9   LFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGI 68
            FL E LVI+ +  +G  D + C+E ER+ALL+FK  L+DPS RL+SW +GGDCC W G+
Sbjct: 22  FFLLEALVINST--DGDRDVV-CIEMERKALLKFKGGLEDPSGRLSSW-VGGDCCKWQGV 77

Query: 69  VCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPS 128
            C+N TGH+I+L+L+NP+    +S   A P S L+G+  I   L  L +L  L +     
Sbjct: 78  DCNNGTGHVIKLDLKNPY----QSDEAAFPLSRLIGQ--ISDSLLDLKYLNYLDL----- 126

Query: 129 LASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLT 188
                                    S  E+S +     G +   L  L L  +SISG + 
Sbjct: 127 -------------------------SKNELSGLIPDSIGNLDN-LRYLDLSDNSISGSIP 160

Query: 189 EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV 248
             IG    L+ LDL +N + G +P S+ +L +L  L    N   G +SEIHF+ L KL  
Sbjct: 161 ASIGRLLLLEELDLSHNGMNGTIPESIGQLKELLTLTFDWNPWKGRVSEIHFMGLIKLEY 220

Query: 249 FS 250
           FS
Sbjct: 221 FS 222

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473582|ref|XP_003631326.1| PREDICTED: LRR receptor-like serine/threonine-protein kinase ERL1-like [Vitis vinifera]

 Score =  113 bits (282), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 82/220 (37%), Positives = 115/220 (52%), Gaps = 38/220 (17%)

Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYR 90
           C+E E++ALL+FK  L+DPS RL+SW +GGDCC W G+ C+N TGH+I+L+L+NP+    
Sbjct: 41  CIEMEQKALLKFKGGLEDPSGRLSSW-VGGDCCKWRGVDCNNETGHVIKLDLKNPY---- 95

Query: 91  RSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRT 150
           +S   A P S L+G+  I   L  L +L  L +                           
Sbjct: 96  QSDEAAFPLSRLIGQ--ISDSLLDLKYLNYLDL--------------------------- 126

Query: 151 GAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL 210
              S  E+S +     G +   L  L LR +SISG +   IG    L+ LDL +N + G 
Sbjct: 127 ---SKNELSGLIPDSIGNLDH-LRYLDLRDNSISGSIPASIGRLLLLEELDLSHNGMNGT 182

Query: 211 VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS 250
           +P S+ +L +L  L L  N   G +SEIHF+ L KL  FS
Sbjct: 183 IPESIGQLKELLSLTLDWNPWKGRVSEIHFMGLIKLEYFS 222

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473578|ref|XP_002264037.2| PREDICTED: LRR receptor-like serine/threonine-protein kinase ERL1 [Vitis vinifera]

 Score =  110 bits (275), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 81/220 (36%), Positives = 114/220 (51%), Gaps = 39/220 (17%)

Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYR 90
           C+E ER+ALL+FK  L+DPS RL+SW +GGDCC W G+ C+N TGH+I+L+L+NP+    
Sbjct: 41  CIEMERKALLKFKGGLEDPSGRLSSW-VGGDCCKWRGVDCNNETGHVIKLDLKNPY---- 95

Query: 91  RSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRT 150
           +S   A P  ++   G I   L  L +L  L +                           
Sbjct: 96  QSDEAAFPLRLI---GQISDSLLDLKYLNYLDL--------------------------- 125

Query: 151 GAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL 210
              S+ E+S +     G +   L  L LR +SISG +   IG    L+ LDL +N + G 
Sbjct: 126 ---SNNELSGLIPDSIGNLDH-LRYLDLRDNSISGSIPASIGRLLLLEELDLSHNGMNGT 181

Query: 211 VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS 250
           +P S+ +L +L  L L  N   G +SEIHF+ L KL  FS
Sbjct: 182 IPESIGQLKELLSLTLDWNPWKGRVSEIHFMGLIKLEYFS 221

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224095212|ref|XP_002310361.1| predicted protein [Populus trichocarpa] gi|222853264|gb|EEE90811.1| predicted protein [Populus trichocarpa]

 Score =  109 bits (273), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 103/328 (31%), Positives = 158/328 (48%), Gaps = 52/328 (15%)

Query: 31  CLESEREALLRFK-QDLQDPSNRLASWNIGGDCC--TWAGIVCDNVTGHIIELNLRNPF- 86
           C E++R ALL FK + L+D ++ L+SW IG DCC   W G+ C+  TG + +L L+ P  
Sbjct: 37  CSEADRVALLGFKARILKDATDILSSW-IGKDCCGGDWEGVQCNPATGRVTDLVLQGPAR 95

Query: 87  --TYYRRSRYKANPRS------MLVG-----KGPIPSWLYRLTHLEQLSVADR------- 126
               Y R     +  S      M++       GPIP     LTHL QL + D        
Sbjct: 96  DSGIYMRGTLSPSLGSLAFLEVMVISGMKHIAGPIPESFSSLTHLTQLVLEDNSLEGNIP 155

Query: 127 PSLASREDQDLLS----NIRQRLSKCRTGAKSSQEISDIFDIFSGCVSK------GLEIL 176
           P L      ++LS    ++R ++       K  Q++S   ++ SG +         L+ L
Sbjct: 156 PGLGRLPLLNILSLNGNHLRGQIPPSLGNFKKLQQLSLARNLLSGPIPTTFQNFLSLQSL 215

Query: 177 VLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLS 236
            L  + +SG + + +GHF+NL  +DL NN + GL+P SL  L KL+ L L  N+L G + 
Sbjct: 216 DLSFNLLSGLIPDILGHFQNLTFIDLSNNQLSGLLPPSLFSLVKLQDLSLDHNQLTGRIP 275

Query: 237 EIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLS 296
                 L  L+  S++ N LT         QI   +++L N   LWYL L  N  S P  
Sbjct: 276 N-QIAGLKSLTHLSLSSNRLT--------GQIPSSISSLQN---LWYLNLSRNGLSDPFP 323

Query: 297 LIS----SNLVYLDL-FNNSFLGSISHF 319
           +I      +L+ +DL +N+  LG++  +
Sbjct: 324 VIEGRGLPSLLSIDLSYNHLSLGTVPAW 351

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143762|emb|CBI22623.3| unnamed protein product [Vitis vinifera]

 Score =  109 bits (273), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 107/363 (29%), Positives = 162/363 (44%), Gaps = 40/363 (11%)

Query: 1   MSVVLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGG 60
           M  ++V +L+    L      C+G      C E EREALL FK+ + DPSNRL+SW    
Sbjct: 5   MRGLVVLSLYFLFTLATKFGCCDGHGSKALCREEEREALLSFKRGIHDPSNRLSSW-ASE 63

Query: 61  DCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLE- 119
           +CC W G+ C N TGH+++LNLR     Y  S             G I S L  L HL+ 
Sbjct: 64  ECCNWEGVCCHNTTGHVLKLNLRWDLYQYHGSL-----------GGEISSSLLDLKHLQY 112

Query: 120 -QLSVADRPSLASREDQDLLSNIRQ-RLSKCRTGAKSSQEISDI------------FDIF 165
             LS  D  SL   +    LSN+R   LS    G     ++ ++            +D  
Sbjct: 113 LDLSCNDFGSLNIPKFLGSLSNLRYLNLSTASFGGVIPHQLGNLSKLHYLDIGNSYYDHR 172

Query: 166 SGCVSKGLE-ILVLRSSSISGHLTEQIGHFKNLD---TLDLGNNSIVGLVPLSLNELSKL 221
           +   ++ LE I ++   SI+  ++     F NL+   TL+L ++ I G +P  L  ++ L
Sbjct: 173 NSLNAEDLEWISIILDLSINYFMSSSFDWFANLNSLVTLNLASSYIQGPIPSGLRNMTSL 232

Query: 222 RILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTN-LTNATQ 280
           R L LS N    ++ +  + ++T L        +L L  LD+  N+  G++ N + N T 
Sbjct: 233 RFLDLSYNNFASSIPDWLY-HITSLE-------HLDLGSLDIVSNKFQGKLPNDIGNLTS 284

Query: 281 LWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
           + YL L  N   G +     NL    L N S+      +      + K L  LS+  N  
Sbjct: 285 ITYLDLSYNALEGEILRSLGNLCTFQLSNLSYDRPQKGYLPSEIGQFKSLSYLSIDRNLF 344

Query: 341 QGE 343
            G+
Sbjct: 345 SGQ 347

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865941|emb|CAN78838.1| hypothetical protein VITISV_037334 [Vitis vinifera]

 Score =  109 bits (272), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 81/220 (36%), Positives = 113/220 (51%), Gaps = 38/220 (17%)

Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYR 90
           C+E E +ALL+FK  L+DPS RL+SW +GGDCC W G+ C+N TGH+I+L+L+NP+    
Sbjct: 41  CIEMEXKALLKFKGGLEDPSGRLSSW-VGGDCCKWRGVDCNNETGHVIKLDLKNPY---- 95

Query: 91  RSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRT 150
           +S   A P S L+G+  I   L  L +L  L +                           
Sbjct: 96  QSDEAAFPLSRLIGQ--ISDSLLDLKYLNYLDL--------------------------- 126

Query: 151 GAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL 210
              S  E+S +     G +   L  L L  +SISG +   IG    L+ LDL +N + G 
Sbjct: 127 ---SKNELSGLIPDSIGNLDH-LRYLDLXDNSISGSIPASIGRLLLLEELDLSHNGMNGT 182

Query: 211 VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS 250
           +P S+ +L +L  L L  N   G +SEIHF+ L KL  FS
Sbjct: 183 IPESIGQLKELLSLTLDWNPWKGRVSEIHFMGLIKLEYFS 222

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350284769|gb|AEQ27756.1| receptor-like protein [Malus x domestica]

 Score =  107 bits (266), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 119/381 (31%), Positives = 176/381 (46%), Gaps = 44/381 (11%)

Query: 1   MSVVLVFALFL-FELLVISISFCNGSSDHMG-CLESEREALLRFKQDLQDPSNRLASW-- 56
           M VVL+   FL F  +  SI+ CNG+      C ESER+ALL FKQDL+DP+NRLASW  
Sbjct: 5   MRVVLLLIRFLAFATITFSIALCNGNPGWPPLCKESERQALLMFKQDLKDPANRLASWVA 64

Query: 57  NIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYR-RSRY--KANPRSMLVGK-------- 105
               DCC+W G+VCD++TGHI EL+L N   Y+  +S +  + NP S+L  K        
Sbjct: 65  EEDSDCCSWTGVVCDHITGHIHELHLNNTDRYFGFKSSFGGRINP-SLLSLKHLNYLDLS 123

Query: 106 ------GPIPSWLYRLTHLEQLSVADRP--SLASREDQDLLSNIRQRLSKCRTGAKSSQE 157
                   IPS+   +T L  L++       +   +  +L S     L+      +S+ +
Sbjct: 124 YNNFSTTQIPSFFGSMTSLTHLNLGQSKFYGIIPHKLGNLSSLRYLNLNSSFNFYRSTLQ 183

Query: 158 ISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNE 217
           + ++  I    + K L++  +  S  S  L +      +L  L +    +  + PL    
Sbjct: 184 VENLQWISGLSLLKHLDLSYVNLSKASDWL-QVTNMLPSLVELYMSECELYQIPPLPTPN 242

Query: 218 LSKLRILHLSDNKLNGTLSEIHFV--NLTKL---------SVFSVNENNLTLKFLDLGEN 266
            + L +L LSDN  N  +    F   NL  L          + S+++N  +L+ +DL  N
Sbjct: 243 FTSLVVLDLSDNLFNSLMPRWVFSLKNLVSLRLIDCDFRGPIPSISQNITSLREIDLSLN 302

Query: 267 QIHGEMTNLTNATQLWY-LRLHSNNFSGPLSLISSNLV---YLDLFNNSFLGSISHFWCY 322
            I  +       TQ +  L L SN  +G L     N+     LDL  N F  +I   W Y
Sbjct: 303 SISLDPIPKWLFTQKFLELSLESNQLTGQLPRSIQNMTGLKVLDLGGNDFNSTIPE-WLY 361

Query: 323 RSNETKRLRALSLGDNYLQGE 343
                  L +L L DN L+GE
Sbjct: 362 ---SLTNLESLLLFDNALRGE 379

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255581850|ref|XP_002531725.1| leucine-rich repeat receptor protein kinase exs precursor, putative [Ricinus communis] gi|223528628|gb|EEF30645.1| leucine-rich repeat receptor protein kinase exs precursor, putative [Ricinus communis]

 Score =  107 bits (266), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 87/278 (31%), Positives = 123/278 (44%), Gaps = 90/278 (32%)

Query: 153 KSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLD-------------- 198
           K SQEI+++F+I SGCVS  LE L+L SS +SGHL++++  FKNL               
Sbjct: 434 KLSQEINEVFEILSGCVSDILESLILPSSQLSGHLSDRLVKFKNLAYLDLNDNLISGPIP 493

Query: 199 ----------TLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV 248
                     +LDLGNN + G +P+    LSKL  + +S+N L G +SEIHF NLT L+ 
Sbjct: 494 ENLGELNFLISLDLGNNKLNGSLPIDFGMLSKLNYVDISNNSLEGEISEIHFANLTNLAT 553

Query: 249 FSVNENNLTLK-------------------------------------FLDLGENQIHGE 271
           F  + N L L+                                     +LDL  + I   
Sbjct: 554 FKASSNQLRLRVSPDWFPAFQRVSTISLKCWKVGPQFPTWIHSLKYLAYLDLSNSTISST 613

Query: 272 MTNLTN--ATQLWYLRLHSNNFSGP------------------------LSLISSNLVYL 305
           +    +  +++L+ + L  N   G                         +  ISSN   L
Sbjct: 614 LPTWFHNFSSRLYQINLSHNQMHGTIPYLSIDDSDYSLIDLSSNNFGGSMPFISSNPFGL 673

Query: 306 DLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
           DL NNSF GSIS F CY+    + +  L+LG+N   GE
Sbjct: 674 DLSNNSFSGSISSFLCYK---PRTINVLNLGENLFSGE 708

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147843339|emb|CAN80531.1| hypothetical protein VITISV_034464 [Vitis vinifera]

 Score =  106 bits (265), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 112/370 (30%), Positives = 164/370 (44%), Gaps = 82/370 (22%)

Query: 4   VLVFALFLFELLVISISFCNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCC 63
           ++ F L +  L+ I ++ CNG + H   L+S+REAL+ FKQ L+DP+NRL+SWN G + C
Sbjct: 6   IMGFILPILYLMTIQLA-CNGDT-HFDSLQSDREALIDFKQGLEDPNNRLSSWN-GSNYC 62

Query: 64  TWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSV 123
            W GI C+N TG +I ++L NP  Y     Y+ N  SM +G G I   L +L  L+ L +
Sbjct: 63  HWXGITCENDTGVVISIDLHNP--YSPEDAYE-NWSSMSLG-GEIRPSLVKLKFLKYLDL 118

Query: 124 ADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSI 183
               SL S ED                          +   F G + K L+ L L  +  
Sbjct: 119 ----SLNSFEDX-------------------------LIPPFFGSL-KNLQYLNLSXAGF 148

Query: 184 SGHLTEQIGHFKNLDTLDLGNNSI--------VGLVPLS-------------------LN 216
           SG ++  +G+  NL  LD+ +  +        VGL  L                    LN
Sbjct: 149 SGAISSNLGNLSNLQHLDISSXDLFVDNIEWMVGLXSLKHLBMNFVNLSLVGPQWVEVLN 208

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLT 276
           +   L  LHL++  L G++    F+N T L++ ++ +NN   KF +            L 
Sbjct: 209 KHPILTELHLTNCSLFGSIPMPSFLNFTSLAIITLXDNNFNSKFPEW-----------LV 257

Query: 277 NATQLWYLRLHSNNFSGPLSLIS---SNLVYLDLF-NNSFLGSISHFWCYRSNETKRLRA 332
           N + L  + +  N   G L L      NL YLDL  NN   GSI           K++  
Sbjct: 258 NVSSLVSIDISYNTLHGRLPLXJGELPNLXYLDLSGNNDLRGSIFQL---LKKSWKKIEV 314

Query: 333 LSLGDNYLQG 342
           L+ G N   G
Sbjct: 315 LNFGANNFHG 324

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225466101|ref|XP_002265750.1| PREDICTED: LRR receptor-like serine/threonine-protein kinase FLS2-like [Vitis vinifera]

 Score =  105 bits (263), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 110/358 (30%), Positives = 157/358 (43%), Gaps = 88/358 (24%)

Query: 22  CNGSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELN 81
           C G +  + CLE +REAL+  K+ L+DP +RL+SW+ G +CC W GI C+N TG +I ++
Sbjct: 23  CKGETQLVICLEYDREALIDLKRGLKDPEDRLSSWS-GSNCCQWRGIACENSTGAVIGID 81

Query: 82  LRNPFTYY---RRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPS---LASREDQ 135
           L NP+        SRY                W         LS   RPS   L S    
Sbjct: 82  LHNPYPLNFADSTSRYGY--------------W--------NLSGDIRPSLLKLKSLRHL 119

Query: 136 DLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFK 195
           DL  N  Q +   +               F G + K L+ L L ++  SG +   +G+  
Sbjct: 120 DLSFNKFQSIPVPK---------------FFGSL-KSLQYLNLSNAGFSGAIPSNLGNLS 163

Query: 196 NLDTLDLGNNSI--------VGLVPLS-------------------LNELSKLRILHLSD 228
           NL  LD+ + S+         GL  L                    LN+L  L  LHLS 
Sbjct: 164 NLQYLDVSSGSLTADDLEWMAGLGSLKHLEMNQVDLSMIGSNWLQILNKLPFLTDLHLSG 223

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHS 288
             L+G++S + +VN T L+V ++  NN   KF              L N + L  + + S
Sbjct: 224 CGLSGSISSLDYVNFTSLAVIAIGGNNFNSKF-----------PVWLVNISSLVSIDISS 272

Query: 289 NNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
           ++  G  PL L    NL YLDL  N+ L + S F  +R N  K++  L LG N L G+
Sbjct: 273 SSLYGRVPLGLSQLPNLKYLDLSMNNDL-TASCFQLFRGN-WKKIEFLELGSNKLHGK 328

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	343
TAIR|locus:2074633	943	RLP35 "AT3G11080" [Arabidopsis	0.784	0.285	0.318	3.4e-22
TAIR|locus:2044767	905	AT2G34930 "AT2G34930" [Arabido	0.868	0.329	0.322	6.6e-20
UNIPROTKB|Q40640	1025	Xa21 "Receptor kinase-like pro	0.883	0.295	0.293	8e-20
TAIR|locus:2182855	967	ERL2 "ERECTA-like 2" [Arabidop	0.571	0.202	0.334	1.5e-19
TAIR|locus:2040075	935	RLP21 "AT2G25470" [Arabidopsis	0.626	0.229	0.310	8.3e-19
TAIR|locus:2120362	1249	GSO1 "GASSHO1" [Arabidopsis th	0.851	0.233	0.301	1.2e-18
TAIR|locus:2043540	960	AT2G25790 [Arabidopsis thalian	0.507	0.181	0.321	2.1e-18
TAIR|locus:2180587	811	RLP52 "receptor like protein 5	0.833	0.352	0.299	5.8e-18
TAIR|locus:2180617	1005	AT5G25930 [Arabidopsis thalian	0.830	0.283	0.298	8.1e-18
TAIR|locus:2096349	860	RLP31 "receptor like protein 3	0.830	0.331	0.284	6e-17

TAIR|locus:2074633 RLP35 "AT3G11080" [Arabidopsis thaliana (taxid:3702)]

 Score = 253 (94.1 bits), Expect = 3.4e-22, Sum P(2) = 3.4e-22
 Identities = 98/308 (31%), Positives = 143/308 (46%)

Query:    49 PSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTY----YRRSRYKA-NPRSMLV 103
             P     SW    DCC W GI CD  +G +IEL+L   + Y       S ++  N R + +
Sbjct:    73 PHPTTESWRNNSDCCNWEGITCDTKSGEVIELDLSCSWLYGSFHSNSSLFRLQNLRVLDL 132

Query:   104 GK----GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEIS 159
              +    G IPS +  L+HL  L ++    L       L+ +  + LS+  +   SS + S
Sbjct:   133 TQNDLDGEIPSSIGNLSHLTSLHLSYNQFLG------LIPSSIENLSRLTSLHLSSNQFS 186

Query:   160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELS 219
                    G +S  L  L L S+  SG +   IG+  NL  L L +N   G +P S+  L+
Sbjct:   187 GQIPSSIGNLSH-LTSLELSSNQFSGQIPSSIGNLSNLTFLSLPSNDFFGQIPSSIGNLA 245

Query:   220 KLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT 279
             +L  L+LS N   G +    F NL +L V  V+ N L+      G   I     +L N T
Sbjct:   246 RLTYLYLSYNNFVGEIPS-SFGNLNQLIVLQVDSNKLS------GNVPI-----SLLNLT 293

Query:   280 QLWYLRLHSNNFSG--P--LSLISSNLVYLDLFNNSFLGSI-SHFWCYRSNETKRLRALS 334
             +L  L L  N F+G  P  +SL+S NL+  +  NN+F G++ S  +    N    +R L 
Sbjct:   294 RLSALLLSHNQFTGTIPNNISLLS-NLMDFEASNNAFTGTLPSSLF----NIPPLIR-LD 347

Query:   335 LGDNYLQG 342
             L DN L G
Sbjct:   348 LSDNQLNG 355

GO:0006952 "defense response" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IC

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

 Score = 248 (92.4 bits), Expect = 6.6e-20, P = 6.6e-20
 Identities = 107/332 (32%), Positives = 154/332 (46%)

Query:    24 GSSDHMGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLR 83
             GS+    C+ +ER+ALL F+  L D S+RL SW+ G DCC W G++CD  T H+++++LR
Sbjct:    26 GSAASPKCISTERQALLTFRAALTDLSSRLFSWS-GPDCCNWPGVLCDARTSHVVKIDLR 84

Query:    84 NPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDL-LSNIR 142
             NP    R   YK   R  L GK   PS    LT L+ LS  D   L+S +  +L +    
Sbjct:    85 NPSQDVRSDEYK---RGSLRGKIH-PS----LTQLKFLSYLD---LSSNDFNELEIPEFI 133

Query:   143 QRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSI--SGHLTEQIGHFKNLDTL 200
              ++   R    SS   S       G +SK LE L L + S   SG L+ +  + + L +L
Sbjct:   134 GQIVSLRYLNLSSSSFSGEIPTSLGNLSK-LESLDLYAESFGDSGTLSLRASNLRWLSSL 192

Query:   201 DLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVN--LTKLS-VFSVNENNLT 257
                 +S +  + +    LS      L D      L E+H  N  L  L    S + +   
Sbjct:   193 ----SSSLKYLNMGYVNLSGAGETWLQDFSRISALKELHLFNSELKNLPPTLSSSADLKL 248

Query:   258 LKFLDLGENQIHGEMTN----LTNATQLWYLRLHSNNFSGPLSLISSNLVY-LDLFNNSF 312
             L+ LDL EN ++  + N    LTN  +L +LR      S P    +  L+  LDL NN  
Sbjct:   249 LEVLDLSENSLNSPIPNWLFGLTNLRKL-FLRWDFLQGSIPTGFKNLKLLETLDLSNNLA 307

Query:   313 L-GSISHFWCYRSNETKRLRALSLGDNYLQGE 343
             L G I         +  +L+ L L  N L G+
Sbjct:   308 LQGEIPSVL----GDLPQLKFLDLSANELNGQ 335

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

UNIPROTKB|Q40640 Xa21 "Receptor kinase-like protein" [Oryza sativa (taxid:4530)]

 Score = 248 (92.4 bits), Expect = 8.0e-20, P = 8.0e-20
 Identities = 100/341 (29%), Positives = 152/341 (44%)

Query:    18 SISFCNGSSDHMGCLESEREALLRFKQDL-QDPSNRLASWNIGG--DCCTWAGIVCDNVT 74
             ++  C  SSD  G    +  ALL FK  L       LASWN  G    CTW G+VC    
Sbjct:    15 ALLLCPSSSDDDGDAAGDELALLSFKSSLLYQGGQSLASWNTSGHGQHCTWVGVVCGRRR 74

Query:    75 G-H---IIELNLRNPFTYYRRSRYKANP---RSMLVG----KGPIPSWLYRLTHLEQLSV 123
               H   +++L LR+       S    N    R + +G     G IP  L RL+ L+ L +
Sbjct:    75 RRHPHRVVKLLLRSSNLSGIISPSLGNLSFLRELDLGDNYLSGEIPPELSRLSRLQLLEL 134

Query:   124 ADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSI 183
             +D  S+     Q  +       +K  +   S  ++  +     G   K L  L L  + +
Sbjct:   135 SDN-SI-----QGSIPAAIGACTKLTSLDLSHNQLRGMIPREIGASLKHLSNLYLYKNGL 188

Query:   184 SGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL 243
             SG +   +G+  +L   DL  N + G +P SL +LS L  ++L  N L+G +    + NL
Sbjct:   189 SGEIPSALGNLTSLQEFDLSFNRLSGAIPSSLGQLSSLLTMNLGQNNLSGMIPNSIW-NL 247

Query:   244 TKLSVFSVNENNL----------TLKFL---DLGENQIHGEM-TNLTNATQLWYLRLHSN 289
             + L  FSV EN L          TL  L   D+G N+ HG++  ++ NA+ L  ++++ N
Sbjct:   248 SSLRAFSVRENKLGGMIPTNAFKTLHLLEVIDMGTNRFHGKIPASVANASHLTVIQIYGN 307

Query:   290 NFSGPLSLISS---NLVYLDLFNNSFLGSISHFWCYRSNET 327
              FSG ++       NL  L L+ N F       W + S+ T
Sbjct:   308 LFSGIITSGFGRLRNLTELYLWRNLFQTREQDDWGFISDLT 348

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2182855 ERL2 "ERECTA-like 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 201 (75.8 bits), Expect = 1.5e-19, Sum P(2) = 1.5e-19
 Identities = 78/233 (33%), Positives = 111/233 (47%)

Query:   102 LVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDI 161
             LVGK  IP  L +L  L +L++A+          +L+  I   +S C   A +   +   
Sbjct:   348 LVGK--IPPELGKLEQLFELNLANN---------NLVGLIPSNISSC--AALNQFNVHGN 394

Query:   162 FDIFSGCV-----SKG-LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSL 215
             F   SG V     + G L  L L S+S  G +  ++GH  NLDTLDL  N+  G +PL+L
Sbjct:   395 F--LSGAVPLEFRNLGSLTYLNLSSNSFKGKIPAELGHIINLDTLDLSGNNFSGSIPLTL 452

Query:   216 NELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDL 263
              +L  L IL+LS N LNGTL    F NL  + +  V+ N L             +  L L
Sbjct:   453 GDLEHLLILNLSRNHLNGTLPA-EFGNLRSIQIIDVSFNFLAGVIPTELGQLQNINSLIL 511

Query:   264 GENQIHGEMTN-LTNATQLWYLRLHSNNFSGPLSLISSNLVY--LDLFNNSFL 313
               N+IHG++ + LTN   L  L +  NN SG +  + +   +     F N FL
Sbjct:   512 NNNKIHGKIPDQLTNCFSLANLNISFNNLSGIIPPMKNFTRFSPASFFGNPFL 564

GO:0004672 "protein kinase activity" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0016301 "kinase activity" evidence=ISS

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

GO:0010103 "stomatal complex morphogenesis" evidence=IGI;RCA

GO:0009553 "embryo sac development" evidence=IGI

GO:0048481 "ovule development" evidence=IGI;RCA

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

GO:0007165 "signal transduction" evidence=RCA

GO:0009686 "gibberellin biosynthetic process" evidence=RCA

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0009886 "post-embryonic morphogenesis" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048507 "meristem development" evidence=RCA

GO:0048608 "reproductive structure development" evidence=RCA

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

 Score = 187 (70.9 bits), Expect = 8.3e-19, Sum P(2) = 8.3e-19
 Identities = 73/235 (31%), Positives = 105/235 (44%)

Query:   106 GPIP-SWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDI 164
             GP P   L  LT+LE L +       S ++   L  ++  L        SS E+ ++ ++
Sbjct:   162 GPFPIKGLKDLTNLELLDLRANKLNGSMQELIHLKKLKA-LDLSSNKFSSSMELQELQNL 220

Query:   165 FSGCVSKGLEILVLRSSSISGHLT-EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRI 223
              +      LE+L L  + + G +  E     KNL  LDL  N  VG +PL L  L KLR+
Sbjct:   221 IN------LEVLGLAQNHVDGPIPIEVFCKLKNLRDLDLKGNHFVGQIPLCLGSLKKLRV 274

Query:   224 LHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWY 283
             L LS N+L+G L    F +L  L   S+++NN    F  L        +TNLTN   +  
Sbjct:   275 LDLSSNQLSGDLPS-SFSSLESLEYLSLSDNNFDGSF-SLNP------LTNLTNLKFVVV 326

Query:   284 LRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
             LR  S        L    L  +DL +N+  G+I   W   +N    L  L L +N
Sbjct:   327 LRFCSLEKIPSFLLYQKKLRLVDLSSNNLSGNIPT-WLLTNNP--ELEVLQLQNN 378

GO:0007165 "signal transduction" evidence=IC

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2120362 GSO1 "GASSHO1" [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 1.2e-18, P = 1.2e-18
 Identities = 103/342 (30%), Positives = 152/342 (44%)

Query:    22 CNGSSDHMGCLESEREALLRFKQDL-QDPS--NRLASWNIGG-DCCTWAGIVCDNVTG-- 75
             C       G + ++ + LL  K+ L  +P   + L  WN    + C+W G+ CDN TG  
Sbjct:    13 CFSGLGQPGIINNDLQTLLEVKKSLVTNPQEDDPLRQWNSDNINYCSWTGVTCDN-TGLF 71

Query:    76 HIIELNLR--------NP-FTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADR 126
              +I LNL         +P F  +    +     + LVG  PIP+ L  LT LE L +   
Sbjct:    72 RVIALNLTGLGLTGSISPWFGRFDNLIHLDLSSNNLVG--PIPTALSNLTSLESLFLFSN 129

Query:   127 PSLASREDQ-DLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISG 185
                     Q   L NIR      R G   ++ + DI +     V+  L++L L S  ++G
Sbjct:   130 QLTGEIPSQLGSLVNIRS----LRIG--DNELVGDIPETLGNLVN--LQMLALASCRLTG 181

Query:   186 HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTK 245
              +  Q+G    + +L L +N + G +P  L   S L +   ++N LNGT+       L +
Sbjct:   182 PIPSQLGRLVRVQSLILQDNYLEGPIPAELGNCSDLTVFTAAENMLNGTIP----AELGR 237

Query:   246 LSVFSVNENNLTLKFLDLGENQIHGEM-TNLTNATQLWYLRLHSNNFSG--PLSLIS-SN 301
             L      EN   L+ L+L  N + GE+ + L   +QL YL L +N   G  P SL    N
Sbjct:   238 L------EN---LEILNLANNSLTGEIPSQLGEMSQLQYLSLMANQLQGLIPKSLADLGN 288

Query:   302 LVYLDLFNNSFLGSI-SHFWCYRSNETKRLRALSLGDNYLQG 342
             L  LDL  N+  G I   FW        +L  L L +N+L G
Sbjct:   289 LQTLDLSANNLTGEIPEEFW-----NMSQLLDLVLANNHLSG 325

GO:0004672 "protein kinase activity" evidence=IEA

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

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

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:0008544 "epidermis development" evidence=IGI

GO:0009790 "embryo development" evidence=IGI

TAIR|locus:2043540 AT2G25790 [Arabidopsis thaliana (taxid:3702)]

 Score = 176 (67.0 bits), Expect = 2.1e-18, Sum P(2) = 2.1e-18
 Identities = 64/199 (32%), Positives = 92/199 (46%)

Query:   165 FSGCVSKG----LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSK 220
             FSG + +G    L  L L ++  +G +   IG F NL  LDLG N + G VP  L  LS+
Sbjct:   135 FSGSIPRGFLPNLYTLDLSNNMFTGEIYNDIGVFSNLRVLDLGGNVLTGHVPGYLGNLSR 194

Query:   221 LRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQI 268
             L  L L+ N+L G +  +    +  L    +  NNL+            L  LDL  N +
Sbjct:   195 LEFLTLASNQLTGGVP-VELGKMKNLKWIYLGYNNLSGEIPYQIGGLSSLNHLDLVYNNL 253

Query:   269 HGEMT-NLTNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRS 324
              G +  +L +  +L Y+ L+ N  SG  P S+ S  NL+ LD  +NS  G I        
Sbjct:   254 SGPIPPSLGDLKKLEYMFLYQNKLSGQIPPSIFSLQNLISLDFSDNSLSGEIPELVA--- 310

Query:   325 NETKRLRALSLGDNYLQGE 343
              + + L  L L  N L G+
Sbjct:   311 -QMQSLEILHLFSNNLTGK 328

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:0009733 "response to auxin stimulus" evidence=RCA

GO:0009741 "response to brassinosteroid stimulus" evidence=RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2180587 RLP52 "receptor like protein 52" [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 5.8e-18, P = 5.8e-18
 Identities = 96/321 (29%), Positives = 142/321 (44%)

Query:    34 SEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRN-------PF 86
             ++R  LL  K+DL DP + L  WN     C W  I C    G++ E+N +N       P 
Sbjct:    25 NDRSTLLNLKRDLGDPLS-LRLWNDTSSPCNWPRITC--TAGNVTEINFQNQNFTGTVPT 81

Query:    87 TYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLS 146
             T       K+   S     G  P+ LY  T L+ L ++      S  D   ++ +  +L 
Sbjct:    82 TICNFPNLKSLNLSFNYFAGEFPTVLYNCTKLQYLDLSQNLFNGSLPDD--INRLAPKLK 139

Query:   147 KCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLG-NN 205
                  A S     DI     G +SK L++L L  S   G    +IG    L+ L L  N+
Sbjct:   140 YLDLAANSFA--GDIPKNI-GRISK-LKVLNLYMSEYDGTFPSEIGDLSELEELQLALND 195

Query:   206 SIVGL-VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLG 264
                 + +P    +L KL+ + L +  L G +S + F N+T L    ++ NNLT +  D+ 
Sbjct:   196 KFTPVKLPTEFGKLKKLKYMWLEEMNLIGEISAVVFENMTDLKHVDLSVNNLTGRIPDV- 254

Query:   265 ENQIHGEMTNLTNATQLWYLRLHSNNFSG--PLSLISSNLVYLDLFNNSFLGSISHFWCY 322
                    +  L N T+L+   L +N+ +G  P S+ + NLV+LDL  N+  GSI      
Sbjct:   255 -------LFGLKNLTELY---LFANDLTGEIPKSISAKNLVHLDLSANNLNGSIPESI-- 302

Query:   323 RSNETKRLRALSLGDNYLQGE 343
               N T  L  L L  N L GE
Sbjct:   303 -GNLTN-LELLYLFVNELTGE 321

GO:0005886 "plasma membrane" evidence=ISM

GO:0006952 "defense response" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IC;RCA

GO:0010200 "response to chitin" evidence=IEP

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

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

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

TAIR|locus:2180617 AT5G25930 [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 8.1e-18, P = 8.1e-18
 Identities = 96/322 (29%), Positives = 142/322 (44%)

Query:    34 SEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRN-------PF 86
             +++  LL  K+DL DP + L  WN     C W+ I C    G++  +N +N       P 
Sbjct:    25 NDQSTLLNLKRDLGDPPS-LRLWNNTSSPCNWSEITC--TAGNVTGINFKNQNFTGTVPT 81

Query:    87 TYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASRE-DQDLLSNIRQRL 145
             T    S       S     G  P+ LY  T L+ L ++      S   D D LS     L
Sbjct:    82 TICDLSNLNFLDLSFNYFAGEFPTVLYNCTKLQYLDLSQNLLNGSLPVDIDRLSPELDYL 141

Query:   146 SKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNN 205
                  G   S +I        G +SK L++L L  S   G    +IG    L+ L L  N
Sbjct:   142 DLAANGF--SGDIPKSL----GRISK-LKVLNLYQSEYDGTFPSEIGDLSELEELRLALN 194

Query:   206 S--IVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDL 263
                    +P+   +L KL+ + L +  L G +S + F N+T L    ++ NNLT +  D+
Sbjct:   195 DKFTPAKIPIEFGKLKKLKYMWLEEMNLIGEISPVVFENMTDLEHVDLSVNNLTGRIPDV 254

Query:   264 GENQIHGEMTNLTNATQLWYLRLHSNNFSG--PLSLISSNLVYLDLFNNSFLGSISHFWC 321
                     +  L N T+ +   L +N  +G  P S+ ++NLV+LDL  N+  GSI     
Sbjct:   255 --------LFGLKNLTEFY---LFANGLTGEIPKSISATNLVFLDLSANNLTGSIP---V 300

Query:   322 YRSNETKRLRALSLGDNYLQGE 343
                N TK L+ L+L +N L GE
Sbjct:   301 SIGNLTK-LQVLNLFNNKLTGE 321

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine 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:0016020 "membrane" evidence=IDA

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009723 "response to ethylene stimulus" evidence=RCA

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0052542 "defense response by callose deposition" evidence=RCA

TAIR|locus:2096349 RLP31 "receptor like protein 31" [Arabidopsis thaliana (taxid:3702)]

 Score = 231 (86.4 bits), Expect = 6.0e-17, P = 6.0e-17
 Identities = 96/338 (28%), Positives = 149/338 (44%)

Query:    31 CLESEREALLRFKQDLQ--DPSNR------LASWNIGGDCCTWAGIVCDNVTGHIIELNL 82
             C   +R ALL FK +    + SN+      L+SWN   DCC+W G+ CD ++  +I LNL
Sbjct:    30 CRHDQRNALLEFKHEFPRVNESNQIPYDVSLSSWNKSIDCCSWEGVTCDAISSEVISLNL 89

Query:    83 RNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIR 142
                      S    N  S+    G     L++L HL  L++++  SL       L +  R
Sbjct:    90 ---------SHVPLN-NSLKPNSG-----LFKLQHLHNLTLSNC-SLYGDIPSSLGNLFR 133

Query:   143 QRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDL 202
               L          Q    I     G +S+ L IL L  + + G L   IG+   L+ L  
Sbjct:   134 LTLLDLSYNYLVGQVPPSI-----GNLSR-LTILDLWDNKLVGQLPASIGNLTQLEYLIF 187

Query:   203 GNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----- 257
              +N   G +P++ + L+KL +++L +N     L  +       L  F+V EN+ +     
Sbjct:   188 SHNKFSGNIPVTFSNLTKLLVVNLYNNSFESMLP-LDMSGFQNLDYFNVGENSFSGTLPK 246

Query:   258 -------LKFLDLGENQIHG--EMTNLTN-ATQLWYLRLHSNNFSGPL-SLISS--NLVY 304
                    L++ +L  N   G  E  N+ + +T+L YL L  N F GP+   +S   NL+ 
Sbjct:   247 SLFTIPSLRWANLEGNMFKGPIEFRNMYSPSTRLQYLFLSQNKFDGPIPDTLSQYLNLIE 306

Query:   305 LDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG 342
             LDL  N+  GS   F          L  ++L  N+L+G
Sbjct:   307 LDLSFNNLTGSFPTFLF----TIPTLERVNLEGNHLKG 340

GO:0005886 "plasma membrane" evidence=ISM

GO:0006952 "defense response" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IC

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	343
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	3e-24
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-11
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	7e-11
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-09
pfam08263	42	pfam08263, LRRNT_2, Leucine rich repeat N-terminal	1e-08
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	3e-08
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	4e-07
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	8e-07
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	4e-05
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	4e-05
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	2e-04
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	0.004

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

 Score =  103 bits (258), Expect = 3e-24
 Identities = 100/349 (28%), Positives = 161/349 (46%), Gaps = 74/349 (21%)

Query: 9   LFLFELLVISISFCNGSSDHMGCLESER-EALLRFKQDLQDPSNRLASWNIGGDCCTWAG 67
             +F L  + ++F          L +E  E LL FK  + DP   L++WN   D C W G
Sbjct: 11  YLIFMLFFLFLNF--------SMLHAEELELLLSFKSSINDPLKYLSNWNSSADVCLWQG 62

Query: 68  IVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGK---GPIPSWLYRLTHLEQLSVA 124
           I C+N +  ++ ++L                     GK   G I S ++RL +++ ++++
Sbjct: 63  ITCNNSS-RVVSIDLS--------------------GKNISGKISSAIFRLPYIQTINLS 101

Query: 125 DRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKG----LEILVLRS 180
           +   L+     D+            T + S + ++   + F+G + +G    LE L L +
Sbjct: 102 NN-QLSGPIPDDIF-----------TTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSN 149

Query: 181 SSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHF 240
           + +SG +   IG F +L  LDLG N +VG +P SL  L+ L  L L+ N+L G +     
Sbjct: 150 NMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIP---- 205

Query: 241 VNLTKLSVFSVNENNLTLKFLDLGENQIHGEM-TNLTNATQLWYLRLHSNNFSGPL--SL 297
             L ++          +LK++ LG N + GE+   +   T L +L L  NN +GP+  SL
Sbjct: 206 RELGQMK---------SLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSL 256

Query: 298 IS-SNLVYLDLFNNSFLGSI--SHFWCYRSNETKRLRALSLGDNYLQGE 343
            +  NL YL L+ N   G I  S F        ++L +L L DN L GE
Sbjct: 257 GNLKNLQYLFLYQNKLSGPIPPSIF------SLQKLISLDLSDNSLSGE 299

Length = 968

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

 Score = 63.7 bits (155), Expect = 4e-11
 Identities = 56/186 (30%), Positives = 83/186 (44%), Gaps = 20/186 (10%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L +L L +++++G + E +    NL  L L +NS+ G +P SL     LR + L DN  +
Sbjct: 358 LTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFS 417

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNATQ 280
           G L    F  L  +    ++ NNL             L+ L L  N+  G + +   + +
Sbjct: 418 GELPS-EFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKR 476

Query: 281 LWYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGD 337
           L  L L  N FSG  P  L S S L+ L L  N   G I        +  K+L +L L  
Sbjct: 477 LENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPD----ELSSCKKLVSLDLSH 532

Query: 338 NYLQGE 343
           N L G+
Sbjct: 533 NQLSGQ 538

Length = 968

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

 Score = 63.3 bits (154), Expect = 7e-11
 Identities = 91/266 (34%), Positives = 122/266 (45%), Gaps = 46/266 (17%)

Query: 102 LVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDI 161
           LVGK  IP+ L  LT LE L+      LAS +   L+  I + L +     KS + I   
Sbjct: 176 LVGK--IPNSLTNLTSLEFLT------LASNQ---LVGQIPRELGQ----MKSLKWIYLG 220

Query: 162 FDIFSGCVSK------GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSL 215
           ++  SG +         L  L L  ++++G +   +G+ KNL  L L  N + G +P S+
Sbjct: 221 YNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSI 280

Query: 216 NELSKLRILHLSDNKLNGTLSE--IHFVNLTKLSVFSVNENNLT------------LKFL 261
             L KL  L LSDN L+G + E  I   NL  L +FS   NN T            L+ L
Sbjct: 281 FSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFS---NNFTGKIPVALTSLPRLQVL 337

Query: 262 DLGENQIHGEM-TNLTNATQLWYLRLHSNNFSG--PLSLISS-NLVYLDLFNNSFLGSIS 317
            L  N+  GE+  NL     L  L L +NN +G  P  L SS NL  L LF+NS  G I 
Sbjct: 338 QLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIP 397

Query: 318 HFWCYRSNETKRLRALSLGDNYLQGE 343
                     + LR + L DN   GE
Sbjct: 398 K----SLGACRSLRRVRLQDNSFSGE 419

Length = 968

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

 Score = 57.6 bits (139), Expect = 4e-09
 Identities = 57/191 (29%), Positives = 88/191 (46%), Gaps = 20/191 (10%)

Query: 168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLS 227
           C S  L  L+L S+S+ G + + +G  ++L  + L +NS  G +P    +L  +  L +S
Sbjct: 377 CSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDIS 436

Query: 228 DNKLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTN-L 275
           +N L G ++   + ++  L + S+  N              L+ LDL  NQ  G +   L
Sbjct: 437 NNNLQGRINSRKW-DMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKL 495

Query: 276 TNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRA 332
            + ++L  L+L  N  SG  P  L S   LV LDL +N   G I   +    +E   L  
Sbjct: 496 GSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPASF----SEMPVLSQ 551

Query: 333 LSLGDNYLQGE 343
           L L  N L GE
Sbjct: 552 LDLSQNQLSGE 562

Length = 968

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

 Score = 49.6 bits (119), Expect = 1e-08
 Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 2/42 (4%)

Query: 32 LESEREALLRFKQDLQ-DPSNRLASWNI-GGDCCTWAGIVCD 71
          L  +R+ALL FK  L  DPS  L+SWN    D C+W G+ CD
Sbjct: 1  LNDDRDALLAFKSSLNGDPSGALSSWNPSSSDPCSWTGVTCD 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|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 54.8 bits (132), Expect = 3e-08
 Identities = 32/103 (31%), Positives = 54/103 (52%), Gaps = 2/103 (1%)

Query: 176 LVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTL 235
           L L +  + G +   I   ++L +++L  NSI G +P SL  ++ L +L LS N  NG++
Sbjct: 423 LGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSI 482

Query: 236 SEIHFVNLTKLSVFSVNENNLTLKF-LDLGENQIHGEMTNLTN 277
            E     LT L + ++N N+L+ +    LG   +H    N T+
Sbjct: 483 PE-SLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTD 524

Length = 623

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

 Score = 51.4 bits (123), Expect = 4e-07
 Identities = 25/63 (39%), Positives = 40/63 (63%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L+ + L  +SI G++   +G   +L+ LDL  NS  G +P SL +L+ LRIL+L+ N L+
Sbjct: 444 LQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSLS 503

Query: 233 GTL 235
           G +
Sbjct: 504 GRV 506

Length = 623

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

 Score = 50.6 bits (121), Expect = 8e-07
 Identities = 41/127 (32%), Positives = 57/127 (44%), Gaps = 14/127 (11%)

Query: 170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN 229
           SK LE L L  +  SG +  ++G    L  L L  N + G +P  L+   KL  L LS N
Sbjct: 474 SKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHN 533

Query: 230 KLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM-TNLTNATQLWYLRLHS 288
           +L+G +           S   V      L  LDL +NQ+ GE+  NL N   L  + +  
Sbjct: 534 QLSGQIP-------ASFSEMPV------LSQLDLSQNQLSGEIPKNLGNVESLVQVNISH 580

Query: 289 NNFSGPL 295
           N+  G L
Sbjct: 581 NHLHGSL 587

Length = 968

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

 Score = 44.6 bits (105), Expect = 4e-05
 Identities = 44/143 (30%), Positives = 58/143 (40%), Gaps = 18/143 (12%)

Query: 170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN 229
              L+ L L  + I   L   + +  NL  LDL  N +  L  L  N LS L  L LS N
Sbjct: 139 KSNLKELDLSDNKIE-SLPSPLRNLPNLKNLDLSFNDLSDLPKLLSN-LSNLNNLDLSGN 196

Query: 230 KLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSN 289
           K++               +    E    L+ LDL  N I   +++L+N   L  L L +N
Sbjct: 197 KIS--------------DLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNN 242

Query: 290 NFSGPLSLIS--SNLVYLDLFNN 310
                   I   SNL  LDL NN
Sbjct: 243 KLEDLPESIGNLSNLETLDLSNN 265

Length = 394

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

 Score = 40.2 bits (95), Expect = 4e-05
 Identities = 18/60 (30%), Positives = 28/60 (46%)

Query: 172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
            L+ L L ++ ++           NL  LDL  N++  + P + + L  LR L LS N L
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           NL +LDL NN +  +   +   L  L++L LS N L  ++S   F  L  L    ++ NN
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLT-SISPEAFSGLPSLRSLDLSGNN 59

Query: 256 L 256
           L
Sbjct: 60  L 60

Length = 60

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

 Score = 38.4 bits (89), Expect = 0.004
 Identities = 41/138 (29%), Positives = 56/138 (40%), Gaps = 17/138 (12%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE 253
             NL +LDL NN+I  + PL     S L+ L LSDNK+    S +   NL  L    ++ 
Sbjct: 115 LTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLR--NLPNLKNLDLSF 172

Query: 254 NNLT-----------LKFLDLGENQI---HGEMTNLTNATQLWYLRLHSNNFSGPLSLIS 299
           N+L+           L  LDL  N+I     E+  L+   +L             LS   
Sbjct: 173 NDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLS-NL 231

Query: 300 SNLVYLDLFNNSFLGSIS 317
            NL  L+L NN       
Sbjct: 232 KNLSGLELSNNKLEDLPE 249

Length = 394

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	343
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.94
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.85
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.85
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.84
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.8
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.8
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.77
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.76
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.73
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.69
PLN03150	623	hypothetical protein; Provisional	99.66
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.64
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.62
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.61
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.61
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.6
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.59
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.55
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.52
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.51
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.51
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.29
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.28
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.26
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.24
PLN03150	623	hypothetical protein; Provisional	99.19
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.17
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.1
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.1
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.99
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.99
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.99
PF08263	43	LRRNT_2: Leucine rich repeat N-terminal domain; In	98.89
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.86
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.86
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.83
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.78
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.75
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.63
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.63
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.6
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.48
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.45
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.3
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.29
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.26
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.22
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.07
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.07
PRK15386	426	type III secretion protein GogB; Provisional	97.95
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.95
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.94
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.93
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.8
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.78
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.66
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.53
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.48
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.24
PRK15386	426	type III secretion protein GogB; Provisional	97.16
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.65
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.3
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.01
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.74
KOG4308	478	consensus LRR-containing protein [Function unknown	95.72
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.64
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.39
KOG4308	478	consensus LRR-containing protein [Function unknown	94.49
KOG2123	388	consensus Uncharacterized conserved protein [Funct	93.78
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	92.86
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.83
KOG0473	326	consensus Leucine-rich repeat protein [Function un	91.32
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	90.71
smart00370	26	LRR Leucine-rich repeats, outliers.	90.71
KOG0473	326	consensus Leucine-rich repeat protein [Function un	90.3
smart00370	26	LRR Leucine-rich repeats, outliers.	89.29
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	89.29
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	86.11
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	85.52
KOG1947	482	consensus Leucine rich repeat proteins, some prote	82.19

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

Probab=100.00  E-value=1.1e-36  Score=317.40  Aligned_cols=296  Identities=29%  Similarity=0.493  Sum_probs=206.7

Q ss_pred             HHHHHHHHHhhhhCCCCCCCCCCCCCCCCCccccceEeCCCCCcEEEEecCCCccccccccceeCCC-------------
Q 040876           33 ESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPR-------------   99 (343)
Q Consensus        33 ~~~~~~L~~~k~~~~~~~~~~~~W~~~~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~-------------   99 (343)
                      ++|++||++||+++.+|.+.+.+|+...+||.|.||+|++ .++|+.||+++.     ++.|.++..             
T Consensus        28 ~~~~~~l~~~~~~~~~~~~~~~~w~~~~~~c~w~gv~c~~-~~~v~~L~L~~~-----~i~~~~~~~~~~l~~L~~L~Ls  101 (968)
T PLN00113         28 AEELELLLSFKSSINDPLKYLSNWNSSADVCLWQGITCNN-SSRVVSIDLSGK-----NISGKISSAIFRLPYIQTINLS  101 (968)
T ss_pred             HHHHHHHHHHHHhCCCCcccCCCCCCCCCCCcCcceecCC-CCcEEEEEecCC-----CccccCChHHhCCCCCCEEECC
Confidence            4899999999999988887889998888999999999986 579999999986     555554432             


Q ss_pred             CCCCCCCCCCcccc-CCCCCCEecCCCCC--------CCCCCcccccchh-hccccccc-----CCCcc-ccC--cccch
Q 040876          100 SMLVGKGPIPSWLY-RLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRLSKC-----RTGAK-SSQ--EISDI  161 (343)
Q Consensus       100 ~n~~~~~~ip~~l~-~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l~~~-----~~~~~-~~~--~~~~i  161 (343)
                      +|++.+. +|..+. .+++|++|++++|.        .+++|++|++++| +.+.++..     ++..+ +.+  ..+.+
T Consensus       102 ~n~~~~~-ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~  180 (968)
T PLN00113        102 NNQLSGP-IPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKI  180 (968)
T ss_pred             CCccCCc-CChHHhccCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccC
Confidence            6777776 887765 88888888888886        4667888888888 66422110     00000 000  11455


Q ss_pred             hhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhh
Q 040876          162 FDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFV  241 (343)
Q Consensus       162 p~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~  241 (343)
                      |..++++  ++|++|++++|.+.+.+|..++++++|++|++++|.+++.+|..++++++|++|++++|.+++.+|. .++
T Consensus       181 p~~~~~l--~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~-~l~  257 (968)
T PLN00113        181 PNSLTNL--TSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPS-SLG  257 (968)
T ss_pred             ChhhhhC--cCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccCh-hHh
Confidence            6666666  6666666666666666666666666666666666666666666666666777777777666666666 666


Q ss_pred             cCCCCCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEE
Q 040876          242 NLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYL  305 (343)
Q Consensus       242 ~l~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L  305 (343)
                      ++++|+.|++++|.++            ++.|++++|.+.+.+|..+... +|++|++++|.+++.+|..   +++|+.|
T Consensus       258 ~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L  337 (968)
T PLN00113        258 NLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVL  337 (968)
T ss_pred             CCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEE
Confidence            6677777777666653            4456777777776666666555 7777777777777666654   5677777


Q ss_pred             EccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          306 DLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       306 ~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++++|.+++.+|    ..++.+++|+.|++++|+++|
T Consensus       338 ~L~~n~l~~~~p----~~l~~~~~L~~L~Ls~n~l~~  370 (968)
T PLN00113        338 QLWSNKFSGEIP----KNLGKHNNLTVLDLSTNNLTG  370 (968)
T ss_pred             ECcCCCCcCcCC----hHHhCCCCCcEEECCCCeeEe
Confidence            777777776554    445667788888888887765

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

Probab=99.94  E-value=1.9e-26  Score=240.63  Aligned_cols=223  Identities=30%  Similarity=0.419  Sum_probs=126.2

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGC  168 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l  168 (343)
                      +|.+++. +|..++++++|++|++++|.          .+++|++|++++| +.                +.+|+.++++
T Consensus       149 ~n~~~~~-~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~----------------~~~p~~l~~l  211 (968)
T PLN00113        149 NNMLSGE-IPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLV----------------GQIPRELGQM  211 (968)
T ss_pred             CCccccc-CChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCc----------------CcCChHHcCc
Confidence            4555554 66666677777777776665          3455666777666 55                3455555555


Q ss_pred             CCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCe
Q 040876          169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV  248 (343)
Q Consensus       169 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~  248 (343)
                        ++|++|++++|.+++.+|..++++++|++|++++|.+++.+|..++++++|++|++++|.+++.+|. .+.++++|++
T Consensus       212 --~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~-~l~~l~~L~~  288 (968)
T PLN00113        212 --KSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPP-SIFSLQKLIS  288 (968)
T ss_pred             --CCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCch-hHhhccCcCE
Confidence              5555555555555555555555555555555555555555555555555555555555555555554 4555555555


Q ss_pred             EEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcc
Q 040876          249 FSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSF  312 (343)
Q Consensus       249 L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l  312 (343)
                      |++++|.++            ++.|++++|.+++.+|..+... +|+.|++++|.+++.+|..   +++|+.|++++|.+
T Consensus       289 L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l  368 (968)
T PLN00113        289 LDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNL  368 (968)
T ss_pred             EECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCee
Confidence            555555543            3345555555555444444433 5555555555555444432   34445555555554


Q ss_pred             ccccCch--------------------hhccCCccccCceEecCCCcccc
Q 040876          313 LGSISHF--------------------WCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       313 ~~~~~~~--------------------l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++.+|..                    +|..+..+++|+.|++++|+++|
T Consensus       369 ~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~  418 (968)
T PLN00113        369 TGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSG  418 (968)
T ss_pred             EeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeee
Confidence            4443321                    23445667788888888888765

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

Probab=99.85  E-value=2.6e-23  Score=194.20  Aligned_cols=208  Identities=27%  Similarity=0.292  Sum_probs=161.0

Q ss_pred             CCCccccCCCCCCEecCCCCC---------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEE
Q 040876          107 PIPSWLYRLTHLEQLSVADRP---------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEIL  176 (343)
Q Consensus       107 ~ip~~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L  176 (343)
                      ++|+.++.+.+|++|.+++|+         .++.|+.+.+..| +..               ..||+.+..+  ..|++|
T Consensus        46 ~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKn---------------sGiP~diF~l--~dLt~l  108 (1255)
T KOG0444|consen   46 QVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKN---------------SGIPTDIFRL--KDLTIL  108 (1255)
T ss_pred             hChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhcccccc---------------CCCCchhccc--ccceee
Confidence            488999999999999999988         5677888888877 653               5789999999  999999


Q ss_pred             EeecCccccccchhccCCCCCCEEECcCCcccccCCcc-ccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCce
Q 040876          177 VLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLS-LNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN  255 (343)
Q Consensus       177 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~  255 (343)
                      |||+|++. ..|..+...+++-.|+||+|+|. .||.. +.+++.|-.|||++|++. .+|+ ....+..|++|+|++|.
T Consensus       109 DLShNqL~-EvP~~LE~AKn~iVLNLS~N~Ie-tIPn~lfinLtDLLfLDLS~NrLe-~LPP-Q~RRL~~LqtL~Ls~NP  184 (1255)
T KOG0444|consen  109 DLSHNQLR-EVPTNLEYAKNSIVLNLSYNNIE-TIPNSLFINLTDLLFLDLSNNRLE-MLPP-QIRRLSMLQTLKLSNNP  184 (1255)
T ss_pred             ecchhhhh-hcchhhhhhcCcEEEEcccCccc-cCCchHHHhhHhHhhhccccchhh-hcCH-HHHHHhhhhhhhcCCCh
Confidence            99999998 78999999999999999999997 67765 457889999999999997 8888 78888899999999987


Q ss_pred             ee-------------------------------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcccc
Q 040876          256 LT-------------------------------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSL  297 (343)
Q Consensus       256 l~-------------------------------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~  297 (343)
                      +.                                     +..+|+|.|.+. .+|+.+... +|+.|+||+|+++..-..
T Consensus       185 L~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp-~vPecly~l~~LrrLNLS~N~iteL~~~  263 (1255)
T KOG0444|consen  185 LNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLP-IVPECLYKLRNLRRLNLSGNKITELNMT  263 (1255)
T ss_pred             hhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCC-cchHHHhhhhhhheeccCcCceeeeecc
Confidence            63                                     222777777776 445544444 888888888888763322


Q ss_pred             c--CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          298 I--SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       298 ~--~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      .  +.+|+.|++|.|+++.     +|+.+.++++|+.|.+.+|+++
T Consensus       264 ~~~W~~lEtLNlSrNQLt~-----LP~avcKL~kL~kLy~n~NkL~  304 (1255)
T KOG0444|consen  264 EGEWENLETLNLSRNQLTV-----LPDAVCKLTKLTKLYANNNKLT  304 (1255)
T ss_pred             HHHHhhhhhhccccchhcc-----chHHHhhhHHHHHHHhccCccc
Confidence            2  6677788888888764     3455566666776666666653

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

Probab=99.85  E-value=8.3e-22  Score=182.82  Aligned_cols=217  Identities=26%  Similarity=0.267  Sum_probs=132.7

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhh-hhhc
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFD-IFSG  167 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~-~l~~  167 (343)
                      .|.++.  ||...+...+|+.|+|.+|.          .++.|+.|||+.| ++                 .+|. .+..
T Consensus       111 ~N~Lt~--IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is-----------------~i~~~sfp~  171 (873)
T KOG4194|consen  111 KNELTR--IPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLIS-----------------EIPKPSFPA  171 (873)
T ss_pred             cchhhh--cccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhh-----------------cccCCCCCC
Confidence            455554  66666666667777777775          3455777777777 54                 4442 3444


Q ss_pred             CCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCC
Q 040876          168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLS  247 (343)
Q Consensus       168 l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~  247 (343)
                      -  .++++|+|++|+|+..--..|..+.+|.+|.|+.|+++..-+..|.++++|+.|+|..|++. .+.-..|..+++|+
T Consensus       172 ~--~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~ir-ive~ltFqgL~Sl~  248 (873)
T KOG4194|consen  172 K--VNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIR-IVEGLTFQGLPSLQ  248 (873)
T ss_pred             C--CCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhcccccee-eehhhhhcCchhhh
Confidence            3  57888888888888666667888888888888888888444456666888888888888875 33233566677777


Q ss_pred             eEEecCceee------------EeEEeccCCccc------------------------ccCCCccccc-CCCeEeCcCCc
Q 040876          248 VFSVNENNLT------------LKFLDLGENQIH------------------------GEMTNLTNAT-QLWYLRLHSNN  290 (343)
Q Consensus       248 ~L~l~~n~l~------------l~~L~ls~n~l~------------------------~~~~~~~~~~-~L~~L~Ls~N~  290 (343)
                      .|.+..|.+.            ++.|+|..|+++                        ..-++.+... +|+.|+|++|+
T Consensus       249 nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~  328 (873)
T KOG4194|consen  249 NLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNR  328 (873)
T ss_pred             hhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccc
Confidence            7777666653            333455555544                        3333333333 45555555555


Q ss_pred             ccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          291 FSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       291 l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++...+..   +..|+.|.|++|.++....    ..|..+++|++|||+.|.|++
T Consensus       329 i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e----~af~~lssL~~LdLr~N~ls~  379 (873)
T KOG4194|consen  329 ITRLDEGSFRVLSQLEELNLSHNSIDHLAE----GAFVGLSSLHKLDLRSNELSW  379 (873)
T ss_pred             cccCChhHHHHHHHhhhhcccccchHHHHh----hHHHHhhhhhhhcCcCCeEEE
Confidence            44433332   3444555555555443211    234456777777777777664

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

Probab=99.84  E-value=9.7e-23  Score=188.98  Aligned_cols=236  Identities=26%  Similarity=0.214  Sum_probs=172.7

Q ss_pred             CCCCCCCCCccccCCCCCCEecCCCCC-------CC---CCCcccccchh-hcccccc--cCCCcc-----ccCcccchh
Q 040876          101 MLVGKGPIPSWLYRLTHLEQLSVADRP-------SL---ASREDQDLLSN-IRQRLSK--CRTGAK-----SSQEISDIF  162 (343)
Q Consensus       101 n~~~~~~ip~~l~~l~~L~~L~Ls~n~-------~l---~~L~~L~l~~n-l~~~l~~--~~~~~~-----~~~~~~~ip  162 (343)
                      |.++.. -.+.+..++.|+.||||.|.       .+   .++++|+|++| ++..-.+  ..+.+.     ....+..+|
T Consensus       135 N~I~sv-~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp  213 (873)
T KOG4194|consen  135 NLISSV-TSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLP  213 (873)
T ss_pred             cccccc-cHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCcccccC
Confidence            344433 33456667777777777766       12   23677777776 5422000  000000     112234666


Q ss_pred             h-hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhh
Q 040876          163 D-IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFV  241 (343)
Q Consensus       163 ~-~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~  241 (343)
                      . .|.++  ++|+.|+|..|+|.-.-.-.|.++++|+.|.+..|++...-...|..+.++++|+|..|+++ .+....+.
T Consensus       214 ~r~Fk~L--~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~-~vn~g~lf  290 (873)
T KOG4194|consen  214 QRSFKRL--PKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQ-AVNEGWLF  290 (873)
T ss_pred             HHHhhhc--chhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhh-hhhccccc
Confidence            5 45558  88888888888887433556788888888888888888666667888999999999999998 66665778


Q ss_pred             cCCCCCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEE
Q 040876          242 NLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYL  305 (343)
Q Consensus       242 ~l~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L  305 (343)
                      ++++|++|+++.|.|.            ++.|||++|+|+...+..+... .|++|+|+.|.++..-...   +++|+.|
T Consensus       291 gLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~L  370 (873)
T KOG4194|consen  291 GLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKL  370 (873)
T ss_pred             ccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhh
Confidence            8999999999999874            7889999999998878888777 9999999999998643322   7899999


Q ss_pred             EccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          306 DLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       306 ~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      ||++|.++..+-+ -...+..++.|+.|++.+|+|.
T Consensus       371 dLr~N~ls~~IED-aa~~f~gl~~LrkL~l~gNqlk  405 (873)
T KOG4194|consen  371 DLRSNELSWCIED-AAVAFNGLPSLRKLRLTGNQLK  405 (873)
T ss_pred             cCcCCeEEEEEec-chhhhccchhhhheeecCceee
Confidence            9999999886643 2455778999999999999874

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.80  E-value=6.3e-19  Score=175.68  Aligned_cols=294  Identities=17%  Similarity=0.183  Sum_probs=161.5

Q ss_pred             ccCCCCCCCCCcHHHHHHHHHhhhhCCCCCC---CCCCCCCCCCCccccc----------------eEeCCCCCcEEEEe
Q 040876           21 FCNGSSDHMGCLESEREALLRFKQDLQDPSN---RLASWNIGGDCCTWAG----------------IVCDNVTGHIIELN   81 (343)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~L~~~k~~~~~~~~---~~~~W~~~~~~c~w~g----------------v~c~~~~~~v~~l~   81 (343)
                      .|++   +.+..++|.+.+.++.+.+..|..   ..+.|+...++|.-..                |.|.  .+.||.+.
T Consensus        53 ~~~~---~~~~~~~~~~~~~~~~~~l~~p~~~~~~~~~~~~~~~fc~~~~~~~~~l~~~~~~~~~tv~~~--~~~vt~l~  127 (754)
T PRK15370         53 LCHP---PETASPEEIKSKFECLRMLAFPAYADNIQYSRGGADQYCILSENSQEILSIVFNTEGYTVEGG--GKSVTYTR  127 (754)
T ss_pred             HhCC---CCCCCHHHHHHHHHHHHHhcCCchhhccccccCCCCcccccCCcchhhheeeecCCceEEecC--CCcccccc
Confidence            3555   566778999999999999877642   2344988888895443                5563  24555555


Q ss_pred             cCCCccc-------------------ccc-c---------------------cceeCCCCCCCCCCCCCccccCCCCCCE
Q 040876           82 LRNPFTY-------------------YRR-S---------------------RYKANPRSMLVGKGPIPSWLYRLTHLEQ  120 (343)
Q Consensus        82 l~~~~~~-------------------~~~-~---------------------~g~~~~~~n~~~~~~ip~~l~~l~~L~~  120 (343)
                      .-|....                   ... -                     ...+-...+.++.  +|..+.  ++|+.
T Consensus       128 ~~g~~~~~~~~~~~~~~~~~~~w~~w~~~~~~~~~~~r~~a~~r~~~Cl~~~~~~L~L~~~~Lts--LP~~Ip--~~L~~  203 (754)
T PRK15370        128 VTESEQASSASGSKDAVNYELIWSEWVKEAPAKEAANREEAVQRMRDCLKNNKTELRLKILGLTT--IPACIP--EQITT  203 (754)
T ss_pred             cccccccccCCCCCChhhHHHHHHHHHhcCCCCccccHHHHHHHHHhhcccCceEEEeCCCCcCc--CCcccc--cCCcE
Confidence            5442100                   000 0                     0000000344443  565543  46778


Q ss_pred             ecCCCCC-------CCCCCcccccchh-hccccccc---CCC--ccccCcccchhhhhhcCCCCCccEEEeecCcccccc
Q 040876          121 LSVADRP-------SLASREDQDLLSN-IRQRLSKC---RTG--AKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHL  187 (343)
Q Consensus       121 L~Ls~n~-------~l~~L~~L~l~~n-l~~~l~~~---~~~--~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~  187 (343)
                      |++++|.       ...+|+.|++++| ++.. +..   .+.  .+....+..+|..+.    ++|+.|++++|+++ .+
T Consensus       204 L~Ls~N~LtsLP~~l~~nL~~L~Ls~N~LtsL-P~~l~~~L~~L~Ls~N~L~~LP~~l~----s~L~~L~Ls~N~L~-~L  277 (754)
T PRK15370        204 LILDNNELKSLPENLQGNIKTLYANSNQLTSI-PATLPDTIQEMELSINRITELPERLP----SALQSLDLFHNKIS-CL  277 (754)
T ss_pred             EEecCCCCCcCChhhccCCCEEECCCCccccC-ChhhhccccEEECcCCccCcCChhHh----CCCCEEECcCCccC-cc
Confidence            8888776       1235777777777 5510 000   000  000001123333332    34555555555555 34


Q ss_pred             chhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee---------E
Q 040876          188 TEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------L  258 (343)
Q Consensus       188 p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~---------l  258 (343)
                      |..+.  ++|++|++++|+++ .+|..+.  ++|+.|++++|.++ .+|. .+  .++|+.|++++|.++         +
T Consensus       278 P~~l~--~sL~~L~Ls~N~Lt-~LP~~lp--~sL~~L~Ls~N~Lt-~LP~-~l--~~sL~~L~Ls~N~Lt~LP~~l~~sL  348 (754)
T PRK15370        278 PENLP--EELRYLSVYDNSIR-TLPAHLP--SGITHLNVQSNSLT-ALPE-TL--PPGLKTLEAGENALTSLPASLPPEL  348 (754)
T ss_pred             ccccC--CCCcEEECCCCccc-cCcccch--hhHHHHHhcCCccc-cCCc-cc--cccceeccccCCccccCChhhcCcc
Confidence            44332  34555555555554 2333221  24555555555554 3443 11  246677777776653         5


Q ss_pred             eEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEccCCccccccCchhhccCCccccCceEecCCC
Q 040876          259 KFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       259 ~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      +.|++++|+|+. +|..+. .+|+.|++++|+++..++.....|++|++++|+++ .+|..++.....++.+..+++.+|
T Consensus       349 ~~L~Ls~N~L~~-LP~~lp-~~L~~LdLs~N~Lt~LP~~l~~sL~~LdLs~N~L~-~LP~sl~~~~~~~~~l~~L~L~~N  425 (754)
T PRK15370        349 QVLDVSKNQITV-LPETLP-PTITTLDVSRNALTNLPENLPAALQIMQASRNNLV-RLPESLPHFRGEGPQPTRIIVEYN  425 (754)
T ss_pred             cEEECCCCCCCc-CChhhc-CCcCEEECCCCcCCCCCHhHHHHHHHHhhccCCcc-cCchhHHHHhhcCCCccEEEeeCC
Confidence            667777777763 443221 26777888888777544333456777888888877 466667766667788899999999


Q ss_pred             ccc
Q 040876          339 YLQ  341 (343)
Q Consensus       339 ~l~  341 (343)
                      +|+
T Consensus       426 pls  428 (754)
T PRK15370        426 PFS  428 (754)
T ss_pred             Ccc
Confidence            875

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

Probab=99.80  E-value=2.3e-21  Score=181.25  Aligned_cols=213  Identities=25%  Similarity=0.288  Sum_probs=149.9

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC--C-------CCCCcccccchh-hcccccccCCCccccCcccchhhh-hhcC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP--S-------LASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDI-FSGC  168 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--~-------l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~-l~~l  168 (343)
                      .|++....||+.+.++..|+.||||+|+  .       -.++-+|+||+| +.                 .||.. +.++
T Consensus        87 ~N~LKnsGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~Ie-----------------tIPn~lfinL  149 (1255)
T KOG0444|consen   87 DNNLKNSGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIE-----------------TIPNSLFINL  149 (1255)
T ss_pred             ccccccCCCCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCccc-----------------cCCchHHHhh
Confidence            5677655599999999999999999998  2       234667888888 65                 55543 3345


Q ss_pred             CCCCccEEEeecCccccccchhccCCCCCCEEECcCCccc-------------------------ccCCccccCCCCCcE
Q 040876          169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV-------------------------GLVPLSLNELSKLRI  223 (343)
Q Consensus       169 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~-------------------------~~~p~~l~~l~~L~~  223 (343)
                        ..|-+||||+|++. .+|+.+.++..|++|+|++|.+.                         .-+|.++..+.+|..
T Consensus       150 --tDLLfLDLS~NrLe-~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~d  226 (1255)
T KOG0444|consen  150 --TDLLFLDLSNNRLE-MLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRD  226 (1255)
T ss_pred             --HhHhhhccccchhh-hcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhh
Confidence              55666666666666 55666666666666666666442                         236777888889999


Q ss_pred             EEccCccCccccChHhhhcCCCCCeEEecCceee-----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcc
Q 040876          224 LHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNF  291 (343)
Q Consensus       224 L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~-----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l  291 (343)
                      +|++.|.+. .+|+ .+.++++|+.|+|++|+|+           ++.|++|.|+++. +|+..-.. +|+.|.+.+|++
T Consensus       227 vDlS~N~Lp-~vPe-cly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~-LP~avcKL~kL~kLy~n~NkL  303 (1255)
T KOG0444|consen  227 VDLSENNLP-IVPE-CLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTV-LPDAVCKLTKLTKLYANNNKL  303 (1255)
T ss_pred             ccccccCCC-cchH-HHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhcc-chHHHhhhHHHHHHHhccCcc
Confidence            999999997 7888 8889999999999999987           5669999999984 45444444 888999999987


Q ss_pred             cC-ccccc---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcc
Q 040876          292 SG-PLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       292 ~~-~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      +- -+|..   +.+|+.+..++|.+.-     .|+.++++..|+.|.|+.|++
T Consensus       304 ~FeGiPSGIGKL~~Levf~aanN~LEl-----VPEglcRC~kL~kL~L~~NrL  351 (1255)
T KOG0444|consen  304 TFEGIPSGIGKLIQLEVFHAANNKLEL-----VPEGLCRCVKLQKLKLDHNRL  351 (1255)
T ss_pred             cccCCccchhhhhhhHHHHhhcccccc-----CchhhhhhHHHHHhcccccce
Confidence            62 23333   5556666666666542     234555566666666666654

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.77  E-value=2.6e-18  Score=170.57  Aligned_cols=212  Identities=20%  Similarity=0.221  Sum_probs=122.6

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC------CCCCCcccccchh-hcccccc-cCCCc--cccCcccchhhhhhcCC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP------SLASREDQDLLSN-IRQRLSK-CRTGA--KSSQEISDIFDIFSGCV  169 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~------~l~~L~~L~l~~n-l~~~l~~-~~~~~--~~~~~~~~ip~~l~~l~  169 (343)
                      .|+++.  +|..   .++|++|++++|+      ..++|+.|++++| +...-.. ..+..  +....+..+|..   . 
T Consensus       231 ~N~Lt~--LP~l---p~~Lk~LdLs~N~LtsLP~lp~sL~~L~Ls~N~L~~Lp~lp~~L~~L~Ls~N~Lt~LP~~---p-  301 (788)
T PRK15387        231 DNNLTS--LPAL---PPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVL---P-  301 (788)
T ss_pred             CCcCCC--CCCC---CCCCcEEEecCCccCcccCcccccceeeccCCchhhhhhchhhcCEEECcCCcccccccc---c-
Confidence            455554  5542   4667777777775      2234666777666 5420000 00000  000001223321   1 


Q ss_pred             CCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       170 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                       ++|++|++++|++++ +|...   ..|+.|++++|.++ .+|..   ..+|++|++++|+++ .+|. .   .++|+.|
T Consensus       302 -~~L~~LdLS~N~L~~-Lp~lp---~~L~~L~Ls~N~L~-~LP~l---p~~Lq~LdLS~N~Ls-~LP~-l---p~~L~~L  367 (788)
T PRK15387        302 -PGLQELSVSDNQLAS-LPALP---SELCKLWAYNNQLT-SLPTL---PSGLQELSVSDNQLA-SLPT-L---PSELYKL  367 (788)
T ss_pred             -cccceeECCCCcccc-CCCCc---ccccccccccCccc-ccccc---ccccceEecCCCccC-CCCC-C---Cccccee
Confidence             345555555555552 33211   23445555555554 23321   136777777777776 5664 2   3456667


Q ss_pred             EecCceee--------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEccCCccccccCchhh
Q 040876          250 SVNENNLT--------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWC  321 (343)
Q Consensus       250 ~l~~n~l~--------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~~l~  321 (343)
                      ++++|.++        ++.|++++|+|++ +|...  .+|+.|++++|++++ +|..+.+|+.|++++|+++.     +|
T Consensus       368 ~Ls~N~L~~LP~l~~~L~~LdLs~N~Lt~-LP~l~--s~L~~LdLS~N~Lss-IP~l~~~L~~L~Ls~NqLt~-----LP  438 (788)
T PRK15387        368 WAYNNRLTSLPALPSGLKELIVSGNRLTS-LPVLP--SELKELMVSGNRLTS-LPMLPSGLLSLSVYRNQLTR-----LP  438 (788)
T ss_pred             hhhccccccCcccccccceEEecCCcccC-CCCcc--cCCCEEEccCCcCCC-CCcchhhhhhhhhccCcccc-----cC
Confidence            77777663        5667888888774 44322  268888888888875 45556678888888888873     35


Q ss_pred             ccCCccccCceEecCCCccccC
Q 040876          322 YRSNETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       322 ~~l~~l~~L~~L~ls~N~l~g~  343 (343)
                      ..+.+++.|+.|++++|+|+|.
T Consensus       439 ~sl~~L~~L~~LdLs~N~Ls~~  460 (788)
T PRK15387        439 ESLIHLSSETTVNLEGNPLSER  460 (788)
T ss_pred             hHHhhccCCCeEECCCCCCCch
Confidence            6677899999999999999873

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

Probab=99.76  E-value=2.6e-20  Score=166.20  Aligned_cols=146  Identities=25%  Similarity=0.338  Sum_probs=90.0

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC---------CCCCCcccccchh-hcccccccCCC-------ccccCcccchh
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP---------SLASREDQDLLSN-IRQRLSKCRTG-------AKSSQEISDIF  162 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~n-l~~~l~~~~~~-------~~~~~~~~~ip  162 (343)
                      +|+++.  +|+.++++.+|..+++.+|.         .+..|+.+|...| ++. ++-.--+       ..-...+..+|
T Consensus       146 ~N~i~s--lp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~L~t-lP~~lg~l~~L~~LyL~~Nki~~lP  222 (565)
T KOG0472|consen  146 NNQISS--LPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNLLET-LPPELGGLESLELLYLRRNKIRFLP  222 (565)
T ss_pred             cccccc--CchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhhhhc-CChhhcchhhhHHHHhhhcccccCC
Confidence            445544  56666666666666666665         2334666666666 331 0000000       00011112344


Q ss_pred             hhhhcCCCCCccEEEeecCccccccchhcc-CCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhh
Q 040876          163 DIFSGCVSKGLEILVLRSSSISGHLTEQIG-HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFV  241 (343)
Q Consensus       163 ~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~-~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~  241 (343)
                       +|.++  ..|++++++.|+|. .+|.+.. ++.++.+||+.+|+++ +.|.++..+++|..||+++|.++ .+|. .++
T Consensus       223 -ef~gc--s~L~Elh~g~N~i~-~lpae~~~~L~~l~vLDLRdNklk-e~Pde~clLrsL~rLDlSNN~is-~Lp~-sLg  295 (565)
T KOG0472|consen  223 -EFPGC--SLLKELHVGENQIE-MLPAEHLKHLNSLLVLDLRDNKLK-EVPDEICLLRSLERLDLSNNDIS-SLPY-SLG  295 (565)
T ss_pred             -CCCcc--HHHHHHHhcccHHH-hhHHHHhcccccceeeeccccccc-cCchHHHHhhhhhhhcccCCccc-cCCc-ccc
Confidence             44555  55555555555555 4555544 7788888888888888 78888888888888899988887 6777 788


Q ss_pred             cCCCCCeEEecCcee
Q 040876          242 NLTKLSVFSVNENNL  256 (343)
Q Consensus       242 ~l~~L~~L~l~~n~l  256 (343)
                      ++ +|+.|.+.+|.+
T Consensus       296 nl-hL~~L~leGNPl  309 (565)
T KOG0472|consen  296 NL-HLKFLALEGNPL  309 (565)
T ss_pred             cc-eeeehhhcCCch
Confidence            88 888888888876

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

Probab=99.73  E-value=6.4e-21  Score=170.00  Aligned_cols=209  Identities=28%  Similarity=0.328  Sum_probs=151.0

Q ss_pred             CCCCCCCCCccccCCCCCCEecCCCCC---------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCC
Q 040876          101 MLVGKGPIPSWLYRLTHLEQLSVADRP---------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVS  170 (343)
Q Consensus       101 n~~~~~~ip~~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~  170 (343)
                      |++..  +|++++.+..++.+++++|+         .+.+++.+++++| +.                 ++|+.++.+  
T Consensus        78 n~l~~--lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~~~-----------------el~~~i~~~--  136 (565)
T KOG0472|consen   78 NKLSQ--LPAAIGELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNELK-----------------ELPDSIGRL--  136 (565)
T ss_pred             chhhh--CCHHHHHHHHHHHhhcccchHhhccHHHhhhhhhhhhhcccccee-----------------ecCchHHHH--
Confidence            45543  78888888888888888887         3445777777777 55                 667777777  


Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      ..++.++..+|+++ .+|+.+..+.+|..+++.+|++.. .|+..-+++.|++++...|.+. .+|+ .++.+.+|..|+
T Consensus       137 ~~l~dl~~~~N~i~-slp~~~~~~~~l~~l~~~~n~l~~-l~~~~i~m~~L~~ld~~~N~L~-tlP~-~lg~l~~L~~Ly  212 (565)
T KOG0472|consen  137 LDLEDLDATNNQIS-SLPEDMVNLSKLSKLDLEGNKLKA-LPENHIAMKRLKHLDCNSNLLE-TLPP-ELGGLESLELLY  212 (565)
T ss_pred             hhhhhhhccccccc-cCchHHHHHHHHHHhhccccchhh-CCHHHHHHHHHHhcccchhhhh-cCCh-hhcchhhhHHHH
Confidence            67777777777777 566777777777777777777773 3333334777777777777765 6777 677777777777


Q ss_pred             ecCceee----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCccccccC
Q 040876          251 VNENNLT----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSIS  317 (343)
Q Consensus       251 l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~  317 (343)
                      +.+|++.          ++.+++..|+|.-...+..+.. ++..|||.+|+++..+...  +++|++||+|+|.|++.  
T Consensus       213 L~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~is~L--  290 (565)
T KOG0472|consen  213 LRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDISSL--  290 (565)
T ss_pred             hhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCCccccC--
Confidence            7777764          3446777777763333344445 8999999999998765554  68899999999999873  


Q ss_pred             chhhccCCccccCceEecCCCcc
Q 040876          318 HFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       318 ~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                         |..++++ +|+.|-+.+|++
T Consensus       291 ---p~sLgnl-hL~~L~leGNPl  309 (565)
T KOG0472|consen  291 ---PYSLGNL-HLKFLALEGNPL  309 (565)
T ss_pred             ---Ccccccc-eeeehhhcCCch
Confidence               5678888 899999999986

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

Probab=99.69  E-value=1.3e-17  Score=152.68  Aligned_cols=222  Identities=22%  Similarity=0.252  Sum_probs=140.4

Q ss_pred             CCccccCCCCCCEecCCCCC--------------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCC
Q 040876          108 IPSWLYRLTHLEQLSVADRP--------------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKG  172 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~--------------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~  172 (343)
                      .+..+..++.|++|+++++.              ..+.++.++++.+ +.+          ....+..++..+..+  ++
T Consensus        15 ~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~----------~~~~~~~~~~~l~~~--~~   82 (319)
T cd00116          15 ATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGR----------IPRGLQSLLQGLTKG--CG   82 (319)
T ss_pred             hHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCC----------cchHHHHHHHHHHhc--Cc
Confidence            45555666667777777766              2333555665555 321          001113455666666  78


Q ss_pred             ccEEEeecCccccccchhccCCCC---CCEEECcCCcccc----cCCccccCC-CCCcEEEccCccCccc----cChHhh
Q 040876          173 LEILVLRSSSISGHLTEQIGHFKN---LDTLDLGNNSIVG----LVPLSLNEL-SKLRILHLSDNKLNGT----LSEIHF  240 (343)
Q Consensus       173 L~~L~L~~n~l~~~~p~~l~~l~~---L~~L~Ls~N~l~~----~~p~~l~~l-~~L~~L~l~~N~l~g~----~p~~~~  240 (343)
                      |++|++++|.+.+..+..+..+.+   |++|++++|++++    .+...+..+ ++|+.|++++|.+++.    ++. .+
T Consensus        83 L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~-~~  161 (319)
T cd00116          83 LQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAK-AL  161 (319)
T ss_pred             eeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHH-HH
Confidence            888888888777655655555544   8888888887763    223344555 7788888888877632    222 45


Q ss_pred             hcCCCCCeEEecCceee----------------EeEEeccCCccccc----CCCccccc-CCCeEeCcCCcccCcccc--
Q 040876          241 VNLTKLSVFSVNENNLT----------------LKFLDLGENQIHGE----MTNLTNAT-QLWYLRLHSNNFSGPLSL--  297 (343)
Q Consensus       241 ~~l~~L~~L~l~~n~l~----------------l~~L~ls~n~l~~~----~~~~~~~~-~L~~L~Ls~N~l~~~~~~--  297 (343)
                      ..+++|++|++++|.++                ++.|++++|.+++.    ++..+... +|++|++++|.+++....  
T Consensus       162 ~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l  241 (319)
T cd00116         162 RANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAAL  241 (319)
T ss_pred             HhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHH
Confidence            55667888888777654                56678888877642    22223333 788888888888752111  


Q ss_pred             --c----CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          298 --I----SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       298 --~----~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                        .    .+.|+.|++++|.+++.....++..+..+++|+++++++|.++.
T Consensus       242 ~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~  292 (319)
T cd00116         242 ASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKFGE  292 (319)
T ss_pred             HHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCCCcH
Confidence              1    26788888888888754444455556667888888888888764

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).

>PLN03150 hypothetical protein; Provisional

Probab=99.66  E-value=9.5e-16  Score=151.86  Aligned_cols=153  Identities=29%  Similarity=0.446  Sum_probs=119.1

Q ss_pred             CCCcHHHHHHHHHhhhhCCCCCCCCCCCCCCCCCc----cccceEeCC--CC--CcEEEEecCCCccccccccceeCCCC
Q 040876           29 MGCLESEREALLRFKQDLQDPSNRLASWNIGGDCC----TWAGIVCDN--VT--GHIIELNLRNPFTYYRRSRYKANPRS  100 (343)
Q Consensus        29 ~~~~~~~~~~L~~~k~~~~~~~~~~~~W~~~~~~c----~w~gv~c~~--~~--~~v~~l~l~~~~~~~~~~~g~~~~~~  100 (343)
                      .++.++|.+||+.+|+.+.++..  .+|. +..||    .|.||.|..  ..  .+|+.|+|+++               
T Consensus       367 ~~t~~~~~~aL~~~k~~~~~~~~--~~W~-g~~C~p~~~~w~Gv~C~~~~~~~~~~v~~L~L~~n---------------  428 (623)
T PLN03150        367 SKTLLEEVSALQTLKSSLGLPLR--FGWN-GDPCVPQQHPWSGADCQFDSTKGKWFIDGLGLDNQ---------------  428 (623)
T ss_pred             cccCchHHHHHHHHHHhcCCccc--CCCC-CCCCCCcccccccceeeccCCCCceEEEEEECCCC---------------
Confidence            45677899999999999876542  4794 44443    799999952  22  25888998875               


Q ss_pred             CCCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeec
Q 040876          101 MLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRS  180 (343)
Q Consensus       101 n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~  180 (343)
                       .+.+. +|..++++++|++|+|++|.             +.                +.+|+.++.+  ++|+.|+|++
T Consensus       429 -~L~g~-ip~~i~~L~~L~~L~Ls~N~-------------l~----------------g~iP~~~~~l--~~L~~LdLs~  475 (623)
T PLN03150        429 -GLRGF-IPNDISKLRHLQSINLSGNS-------------IR----------------GNIPPSLGSI--TSLEVLDLSY  475 (623)
T ss_pred             -Ccccc-CCHHHhCCCCCCEEECCCCc-------------cc----------------CcCChHHhCC--CCCCEEECCC
Confidence             55554 88888888888888888876             33                5788888888  8899999999


Q ss_pred             CccccccchhccCCCCCCEEECcCCcccccCCccccCC-CCCcEEEccCccCc
Q 040876          181 SSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNEL-SKLRILHLSDNKLN  232 (343)
Q Consensus       181 n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l-~~L~~L~l~~N~l~  232 (343)
                      |+++|.+|+.++++++|++|+|++|+++|.+|..++.. .++..+++.+|...
T Consensus       476 N~lsg~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~~l  528 (623)
T PLN03150        476 NSFNGSIPESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTDNAGL  528 (623)
T ss_pred             CCCCCCCchHHhcCCCCCEEECcCCcccccCChHHhhccccCceEEecCCccc
Confidence            99888888888888899999999998888888887654 46677888887654

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.64  E-value=1.8e-15  Score=150.55  Aligned_cols=207  Identities=21%  Similarity=0.214  Sum_probs=119.4

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC------CCCCCcccccchh-hcccccc--cCCCc--cccCcccchhhhhhcC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP------SLASREDQDLLSN-IRQRLSK--CRTGA--KSSQEISDIFDIFSGC  168 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~------~l~~L~~L~l~~n-l~~~l~~--~~~~~--~~~~~~~~ip~~l~~l  168 (343)
                      .+.++.  +|+.+.  ++|+.|++++|+      ..++|++|++++| ++.. +.  ..+..  +....+..+|...   
T Consensus       210 ~~~Lts--LP~~l~--~~L~~L~L~~N~Lt~LP~lp~~Lk~LdLs~N~LtsL-P~lp~sL~~L~Ls~N~L~~Lp~lp---  281 (788)
T PRK15387        210 ESGLTT--LPDCLP--AHITTLVIPDNNLTSLPALPPELRTLEVSGNQLTSL-PVLPPGLLELSIFSNPLTHLPALP---  281 (788)
T ss_pred             CCCCCc--CCcchh--cCCCEEEccCCcCCCCCCCCCCCcEEEecCCccCcc-cCcccccceeeccCCchhhhhhch---
Confidence            556664  888776  489999999998      3467899999999 7621 00  00000  0000112222211   


Q ss_pred             CCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCe
Q 040876          169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV  248 (343)
Q Consensus       169 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~  248 (343)
                        ++|+.|++++|+++ .+|..   .++|++|++++|+++ .+|..   ..+|+.|++++|.++ .+|. .   ..+|+.
T Consensus       282 --~~L~~L~Ls~N~Lt-~LP~~---p~~L~~LdLS~N~L~-~Lp~l---p~~L~~L~Ls~N~L~-~LP~-l---p~~Lq~  346 (788)
T PRK15387        282 --SGLCKLWIFGNQLT-SLPVL---PPGLQELSVSDNQLA-SLPAL---PSELCKLWAYNNQLT-SLPT-L---PSGLQE  346 (788)
T ss_pred             --hhcCEEECcCCccc-ccccc---ccccceeECCCCccc-cCCCC---cccccccccccCccc-cccc-c---ccccce
Confidence              33445555555555 23331   245666666666665 23332   124555566666665 4553 1   235677


Q ss_pred             EEecCceee--------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEccCCccccccCchh
Q 040876          249 FSVNENNLT--------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFW  320 (343)
Q Consensus       249 L~l~~n~l~--------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~~l  320 (343)
                      |++++|+++        ++.|++++|+++. +|...  .+|+.|++++|++++ +|...++|+.|++++|.++. +|.  
T Consensus       347 LdLS~N~Ls~LP~lp~~L~~L~Ls~N~L~~-LP~l~--~~L~~LdLs~N~Lt~-LP~l~s~L~~LdLS~N~Lss-IP~--  419 (788)
T PRK15387        347 LSVSDNQLASLPTLPSELYKLWAYNNRLTS-LPALP--SGLKELIVSGNRLTS-LPVLPSELKELMVSGNRLTS-LPM--  419 (788)
T ss_pred             EecCCCccCCCCCCCcccceehhhcccccc-Ccccc--cccceEEecCCcccC-CCCcccCCCEEEccCCcCCC-CCc--
Confidence            777777664        3456677777763 44321  267788888888775 44455678888888888764 432  


Q ss_pred             hccCCccccCceEecCCCccc
Q 040876          321 CYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       321 ~~~l~~l~~L~~L~ls~N~l~  341 (343)
                        .   ..+|+.|++++|+|+
T Consensus       420 --l---~~~L~~L~Ls~NqLt  435 (788)
T PRK15387        420 --L---PSGLLSLSVYRNQLT  435 (788)
T ss_pred             --c---hhhhhhhhhccCccc
Confidence              1   235777888888775

>PLN03210 Resistant to P

Probab=99.62  E-value=6.5e-15  Score=155.62  Aligned_cols=206  Identities=17%  Similarity=0.126  Sum_probs=121.2

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC---------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP---------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCV  169 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~  169 (343)
                      +|.+..  +|..+..+++|++|+|+++.         .+++|+.|++++| ..                ..+|..+..+ 
T Consensus       620 ~s~l~~--L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L----------------~~lp~si~~L-  680 (1153)
T PLN03210        620 GSKLEK--LWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSL----------------VELPSSIQYL-  680 (1153)
T ss_pred             Cccccc--cccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCc----------------cccchhhhcc-
Confidence            344443  56666777777777777654         3345666666665 21                3677777777 


Q ss_pred             CCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       170 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                       ++|+.|++++|..-..+|..+ ++++|++|++++|...+.+|..   ..+|++|++++|.+. .+|. .+ .+++|+.|
T Consensus       681 -~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~---~~nL~~L~L~~n~i~-~lP~-~~-~l~~L~~L  752 (1153)
T PLN03210        681 -NKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDI---STNISWLDLDETAIE-EFPS-NL-RLENLDEL  752 (1153)
T ss_pred             -CCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccc---cCCcCeeecCCCccc-cccc-cc-cccccccc
Confidence             888888888765444666655 6777888888777655555542   346777777777765 5664 22 34444444


Q ss_pred             EecCce-------------------eeEeEEeccCCcccccCCCccccc-CCCeEeCcCC--------------------
Q 040876          250 SVNENN-------------------LTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSN--------------------  289 (343)
Q Consensus       250 ~l~~n~-------------------l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N--------------------  289 (343)
                      ++..+.                   -.++.|++++|...+.+|..+..+ +|+.|++++|                    
T Consensus       753 ~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~L  832 (1153)
T PLN03210        753 ILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDL  832 (1153)
T ss_pred             cccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCCCccccCEEEC
Confidence            443311                   023445555554444444444444 5555555544                    


Q ss_pred             ---cccCcccccCCCCcEEEccCCccccccCchhhccCCccccCceEecCC
Q 040876          290 ---NFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGD  337 (343)
Q Consensus       290 ---~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~  337 (343)
                         .....+|....+|++|+|++|.++.     +|.++..+++|+.|++++
T Consensus       833 s~c~~L~~~p~~~~nL~~L~Ls~n~i~~-----iP~si~~l~~L~~L~L~~  878 (1153)
T PLN03210        833 SGCSRLRTFPDISTNISDLNLSRTGIEE-----VPWWIEKFSNLSFLDMNG  878 (1153)
T ss_pred             CCCCccccccccccccCEeECCCCCCcc-----ChHHHhcCCCCCEEECCC
Confidence               3333334444556666666666653     345667778888888877

syringae 6; Provisional

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

Probab=99.61  E-value=2.9e-16  Score=143.68  Aligned_cols=214  Identities=24%  Similarity=0.313  Sum_probs=144.1

Q ss_pred             CCccccCCCCCCEecCCCCC----------------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCC
Q 040876          108 IPSWLYRLTHLEQLSVADRP----------------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVS  170 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~----------------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~  170 (343)
                      ++..+...+++++++++++.                .+++|+.|++++| +.                +..+..+..+  
T Consensus        43 i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~----------------~~~~~~~~~l--  104 (319)
T cd00116          43 LASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALG----------------PDGCGVLESL--  104 (319)
T ss_pred             HHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCC----------------hhHHHHHHHH--
Confidence            45555666667777776653                2335666666666 54                2444555554  


Q ss_pred             CC---ccEEEeecCcccc----ccchhccCC-CCCCEEECcCCccccc----CCccccCCCCCcEEEccCccCccc----
Q 040876          171 KG---LEILVLRSSSISG----HLTEQIGHF-KNLDTLDLGNNSIVGL----VPLSLNELSKLRILHLSDNKLNGT----  234 (343)
Q Consensus       171 ~~---L~~L~L~~n~l~~----~~p~~l~~l-~~L~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~l~~N~l~g~----  234 (343)
                      ..   |++|++++|.+++    .+...+..+ ++|++|++++|.+++.    ++..+..+++|++|++++|.+++.    
T Consensus       105 ~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~  184 (319)
T cd00116         105 LRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRA  184 (319)
T ss_pred             hccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHH
Confidence            44   8888888888773    333445666 7888888888888743    333455667888888888888742    


Q ss_pred             cChHhhhcCCCCCeEEecCceee----------------EeEEeccCCcccccC----CCccc--ccCCCeEeCcCCccc
Q 040876          235 LSEIHFVNLTKLSVFSVNENNLT----------------LKFLDLGENQIHGEM----TNLTN--ATQLWYLRLHSNNFS  292 (343)
Q Consensus       235 ~p~~~~~~l~~L~~L~l~~n~l~----------------l~~L~ls~n~l~~~~----~~~~~--~~~L~~L~Ls~N~l~  292 (343)
                      ++. .+...++|++|++++|.++                ++.|++++|.+++..    ...+.  ...|++|++++|.++
T Consensus       185 l~~-~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~  263 (319)
T cd00116         185 LAE-GLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDIT  263 (319)
T ss_pred             HHH-HHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCC
Confidence            222 3445568888888888763                667888888887521    11111  138999999999997


Q ss_pred             Cc----ccc---cCCCCcEEEccCCccccccCchhhccCCcc-ccCceEecCCCcc
Q 040876          293 GP----LSL---ISSNLVYLDLFNNSFLGSISHFWCYRSNET-KRLRALSLGDNYL  340 (343)
Q Consensus       293 ~~----~~~---~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l-~~L~~L~ls~N~l  340 (343)
                      ..    +..   .+++|+++++++|.++......+...+... +.|+.+++.+|.+
T Consensus       264 ~~~~~~l~~~~~~~~~L~~l~l~~N~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (319)
T cd00116         264 DDGAKDLAEVLAEKESLLELDLRGNKFGEEGAQLLAESLLEPGNELESLWVKDDSF  319 (319)
T ss_pred             cHHHHHHHHHHhcCCCccEEECCCCCCcHHHHHHHHHHHhhcCCchhhcccCCCCC
Confidence            31    111   257899999999999987655666666666 7899999999875

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=99.61  E-value=1.3e-17  Score=133.17  Aligned_cols=151  Identities=32%  Similarity=0.416  Sum_probs=115.6

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      ..++.|.|++|+++ .+|+.+..+.+|+.|++++|++. .+|..++.+++|+.|+++-|++. .+|. .|+.++.|+.||
T Consensus        33 s~ITrLtLSHNKl~-~vppnia~l~nlevln~~nnqie-~lp~~issl~klr~lnvgmnrl~-~lpr-gfgs~p~levld  108 (264)
T KOG0617|consen   33 SNITRLTLSHNKLT-VVPPNIAELKNLEVLNLSNNQIE-ELPTSISSLPKLRILNVGMNRLN-ILPR-GFGSFPALEVLD  108 (264)
T ss_pred             hhhhhhhcccCcee-ecCCcHHHhhhhhhhhcccchhh-hcChhhhhchhhhheecchhhhh-cCcc-ccCCCchhhhhh
Confidence            67888889999988 67888889999999999999988 78888999999999999999887 7887 888899888888


Q ss_pred             ecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCccccccCchhhccCCcc
Q 040876          251 VNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSISHFWCYRSNET  327 (343)
Q Consensus       251 l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l  327 (343)
                      +..|++.       .|    .+|.-+..+ .|+.|+|++|.|.-.+|+.  +++|+.|.+.+|.+-.     +|..++.+
T Consensus       109 ltynnl~-------e~----~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~-----lpkeig~l  172 (264)
T KOG0617|consen  109 LTYNNLN-------EN----SLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLS-----LPKEIGDL  172 (264)
T ss_pred             ccccccc-------cc----cCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhh-----CcHHHHHH
Confidence            7776553       11    334434334 7778888888877655554  7778888888777653     34556677


Q ss_pred             ccCceEecCCCccc
Q 040876          328 KRLRALSLGDNYLQ  341 (343)
Q Consensus       328 ~~L~~L~ls~N~l~  341 (343)
                      .+|++|.+++|+++
T Consensus       173 t~lrelhiqgnrl~  186 (264)
T KOG0617|consen  173 TRLRELHIQGNRLT  186 (264)
T ss_pred             HHHHHHhcccceee
Confidence            77888888888764

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.60  E-value=4.2e-15  Score=148.50  Aligned_cols=165  Identities=19%  Similarity=0.278  Sum_probs=84.9

Q ss_pred             CCCCEecCCCCC--CC-----CCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcccccc
Q 040876          116 THLEQLSVADRP--SL-----ASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHL  187 (343)
Q Consensus       116 ~~L~~L~Ls~n~--~l-----~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~  187 (343)
                      .+...|+++++.  .+     ..++.|++++| ++                 .+|..+.    ++|++|++++|+++ .+
T Consensus       178 ~~~~~L~L~~~~LtsLP~~Ip~~L~~L~Ls~N~Lt-----------------sLP~~l~----~nL~~L~Ls~N~Lt-sL  235 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACIPEQITTLILDNNELK-----------------SLPENLQ----GNIKTLYANSNQLT-SI  235 (754)
T ss_pred             cCceEEEeCCCCcCcCCcccccCCcEEEecCCCCC-----------------cCChhhc----cCCCEEECCCCccc-cC
Confidence            356778888776  22     24788888888 66                 4444332    45666666666665 34


Q ss_pred             chhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee---------E
Q 040876          188 TEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------L  258 (343)
Q Consensus       188 p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~---------l  258 (343)
                      |..+.  ..|+.|++++|.+. .+|..+.  ++|+.|++++|+++ .+|. .+  .++|+.|++++|+++         +
T Consensus       236 P~~l~--~~L~~L~Ls~N~L~-~LP~~l~--s~L~~L~Ls~N~L~-~LP~-~l--~~sL~~L~Ls~N~Lt~LP~~lp~sL  306 (754)
T PRK15370        236 PATLP--DTIQEMELSINRIT-ELPERLP--SALQSLDLFHNKIS-CLPE-NL--PEELRYLSVYDNSIRTLPAHLPSGI  306 (754)
T ss_pred             Chhhh--ccccEEECcCCccC-cCChhHh--CCCCEEECcCCccC-cccc-cc--CCCCcEEECCCCccccCcccchhhH
Confidence            54332  24566666666655 4454432  35566666666555 4554 22  135555555555543         2


Q ss_pred             eEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEccCCccc
Q 040876          259 KFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFL  313 (343)
Q Consensus       259 ~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~  313 (343)
                      +.|++++|+++. +|..+. .+|+.|++++|.+++.+....++|+.|++++|.++
T Consensus       307 ~~L~Ls~N~Lt~-LP~~l~-~sL~~L~Ls~N~Lt~LP~~l~~sL~~L~Ls~N~L~  359 (754)
T PRK15370        307 THLNVQSNSLTA-LPETLP-PGLKTLEAGENALTSLPASLPPELQVLDVSKNQIT  359 (754)
T ss_pred             HHHHhcCCcccc-CCcccc-ccceeccccCCccccCChhhcCcccEEECCCCCCC
Confidence            334555555543 222110 14555555555554422222344555555555444

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

Probab=99.59  E-value=6e-17  Score=157.81  Aligned_cols=188  Identities=29%  Similarity=0.391  Sum_probs=137.7

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC---------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP---------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCV  169 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~  169 (343)
                      .|++++  +|++++.+.+|+.++..+|.         ...+|+.|....| +.                 -+|+...++ 
T Consensus       250 ~n~l~~--lp~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~nel~-----------------yip~~le~~-  309 (1081)
T KOG0618|consen  250 HNNLSN--LPEWIGACANLEALNANHNRLVALPLRISRITSLVSLSAAYNELE-----------------YIPPFLEGL-  309 (1081)
T ss_pred             hhhhhc--chHHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhhhhhhh-----------------hCCCccccc-
Confidence            677776  78888999999999998887         3445677777766 54                 677777777 


Q ss_pred             CCCccEEEeecCccccccchhcc--------------------------CCCCCCEEECcCCcccccCCccccCCCCCcE
Q 040876          170 SKGLEILVLRSSSISGHLTEQIG--------------------------HFKNLDTLDLGNNSIVGLVPLSLNELSKLRI  223 (343)
Q Consensus       170 ~~~L~~L~L~~n~l~~~~p~~l~--------------------------~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~  223 (343)
                       +.|++|+|..|.+. .+|+.+-                          .++.|+.|++.+|.++...-+.+.++++|+.
T Consensus       310 -~sL~tLdL~~N~L~-~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKV  387 (1081)
T KOG0618|consen  310 -KSLRTLDLQSNNLP-SLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKV  387 (1081)
T ss_pred             -ceeeeeeehhcccc-ccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceee
Confidence             88888888888877 3333211                          1345777888888888777777888888999


Q ss_pred             EEccCccCccccChHhhhcCCCCCeEEecCceee-----------EeEEeccCCcccccCCCcccccCCCeEeCcCCccc
Q 040876          224 LHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFS  292 (343)
Q Consensus       224 L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~-----------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~  292 (343)
                      |+|++|++. .+|+..+.++..|++|++++|+++           +++|...+|++. .+|+......|+.+|++.|+++
T Consensus       388 LhLsyNrL~-~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~-~fPe~~~l~qL~~lDlS~N~L~  465 (1081)
T KOG0618|consen  388 LHLSYNRLN-SFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLL-SFPELAQLPQLKVLDLSCNNLS  465 (1081)
T ss_pred             eeecccccc-cCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCcee-echhhhhcCcceEEecccchhh
Confidence            999999886 888878888888888888888875           555667777766 4555444447778888877777


Q ss_pred             C-ccccc--CCCCcEEEccCCc
Q 040876          293 G-PLSLI--SSNLVYLDLFNNS  311 (343)
Q Consensus       293 ~-~~~~~--~~~L~~L~Ls~N~  311 (343)
                      . .+|..  .++|++||+++|.
T Consensus       466 ~~~l~~~~p~p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  466 EVTLPEALPSPNLKYLDLSGNT  487 (1081)
T ss_pred             hhhhhhhCCCcccceeeccCCc
Confidence            5 33333  2677788887776

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

Probab=99.55  E-value=3.2e-16  Score=152.82  Aligned_cols=176  Identities=24%  Similarity=0.300  Sum_probs=114.6

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      ..+|+.++.+  .+|+.++..+|+++ .+|..+..+++|+.|++..|.+. .+|.....+++|++|+|..|++. .+|+.
T Consensus       254 ~~lp~wi~~~--~nle~l~~n~N~l~-~lp~ri~~~~~L~~l~~~~nel~-yip~~le~~~sL~tLdL~~N~L~-~lp~~  328 (1081)
T KOG0618|consen  254 SNLPEWIGAC--ANLEALNANHNRLV-ALPLRISRITSLVSLSAAYNELE-YIPPFLEGLKSLRTLDLQSNNLP-SLPDN  328 (1081)
T ss_pred             hcchHHHHhc--ccceEecccchhHH-hhHHHHhhhhhHHHHHhhhhhhh-hCCCcccccceeeeeeehhcccc-ccchH
Confidence            3778888888  88888888888886 78888888888888888888887 67777778888888888888886 77764


Q ss_pred             hhhcCCC-CCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCC
Q 040876          239 HFVNLTK-LSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSN  301 (343)
Q Consensus       239 ~~~~l~~-L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~  301 (343)
                      .+..... |+.|+.+.|.+.            ++.|.+.+|.++...-..+... +|+.|+|++|++...+...   +..
T Consensus       329 ~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~  408 (1081)
T KOG0618|consen  329 FLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEE  408 (1081)
T ss_pred             HHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHH
Confidence            4433332 455555555442            3346666666665432233333 6666666666665433222   344


Q ss_pred             CcEEEccCCccccccC-------------------chhhccCCccccCceEecCCCccc
Q 040876          302 LVYLDLFNNSFLGSIS-------------------HFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       302 L~~L~Ls~N~l~~~~~-------------------~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      |+.|+||+|+++. +|                   ..+| .+.+++.|+.+|+|.|+|+
T Consensus       409 LeeL~LSGNkL~~-Lp~tva~~~~L~tL~ahsN~l~~fP-e~~~l~qL~~lDlS~N~L~  465 (1081)
T KOG0618|consen  409 LEELNLSGNKLTT-LPDTVANLGRLHTLRAHSNQLLSFP-ELAQLPQLKVLDLSCNNLS  465 (1081)
T ss_pred             hHHHhcccchhhh-hhHHHHhhhhhHHHhhcCCceeech-hhhhcCcceEEecccchhh
Confidence            5566666666553 22                   1234 4566777777777777664

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

Probab=99.52  E-value=9.6e-16  Score=136.91  Aligned_cols=215  Identities=21%  Similarity=0.214  Sum_probs=120.1

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccch-h-hcccccccCCCccccCcccchhh-hhh
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLS-N-IRQRLSKCRTGAKSSQEISDIFD-IFS  166 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~-n-l~~~l~~~~~~~~~~~~~~~ip~-~l~  166 (343)
                      .|.++.. -|..|+.+++|+.||||+|.          .+.++..|-+.+ | |+                 .+|+ .|.
T Consensus        76 qN~I~~i-P~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~-----------------~l~k~~F~  137 (498)
T KOG4237|consen   76 QNQISSI-PPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKIT-----------------DLPKGAFG  137 (498)
T ss_pred             cCCcccC-ChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchh-----------------hhhhhHhh
Confidence            3567663 34568999999999999998          233333332222 3 43                 4453 455


Q ss_pred             cCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCc-cccCCCCCcEEEccCccCcc------------
Q 040876          167 GCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL-SLNELSKLRILHLSDNKLNG------------  233 (343)
Q Consensus       167 ~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~-~l~~l~~L~~L~l~~N~l~g------------  233 (343)
                      ++  ..++.|.+.-|++.-...+.+..+++|..|.+.+|.+. .++. .+..+..++++.+..|.+--            
T Consensus       138 gL--~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q-~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a  214 (498)
T KOG4237|consen  138 GL--SSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQ-SICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLA  214 (498)
T ss_pred             hH--HHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhh-hhccccccchhccchHhhhcCccccccccchhhhHHh
Confidence            55  56666666666666555556666666666666666665 3333 55556666666665555210            


Q ss_pred             ccChHhhhcCCCCCeEEecCcee--------------------------------------eEeEEeccCCcccccCCCc
Q 040876          234 TLSEIHFVNLTKLSVFSVNENNL--------------------------------------TLKFLDLGENQIHGEMTNL  275 (343)
Q Consensus       234 ~~p~~~~~~l~~L~~L~l~~n~l--------------------------------------~l~~L~ls~n~l~~~~~~~  275 (343)
                      ..|. .++..+...-..+..+++                                      .++.+++++|++++.-+.+
T Consensus       215 ~~~i-etsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~a  293 (498)
T KOG4237|consen  215 MNPI-ETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGA  293 (498)
T ss_pred             hchh-hcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhh
Confidence            0000 000000000000000000                                      0344666667776665666


Q ss_pred             cccc-CCCeEeCcCCcccCc---ccccCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcc
Q 040876          276 TNAT-QLWYLRLHSNNFSGP---LSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       276 ~~~~-~L~~L~Ls~N~l~~~---~~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      +... .+++|.|..|++...   +-..+..|+.|+|.+|+|+...|    ..|..+..|..|++-.|.+
T Consensus       294 Fe~~a~l~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~----~aF~~~~~l~~l~l~~Np~  358 (498)
T KOG4237|consen  294 FEGAAELQELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAP----GAFQTLFSLSTLNLLSNPF  358 (498)
T ss_pred             hcchhhhhhhhcCcchHHHHHHHhhhccccceeeeecCCeeEEEec----ccccccceeeeeehccCcc
Confidence            6655 777777777776532   22225677778888888876654    4456667777777777765

>PLN03210 Resistant to P

Probab=99.51  E-value=2.5e-13  Score=143.65  Aligned_cols=142  Identities=23%  Similarity=0.194  Sum_probs=69.2

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      ++|++|++++|.....+|..+..+++|++|++++|.....+|..+ ++++|+.|++++|...+.+|.    ..++|+.|+
T Consensus       657 ~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~----~~~nL~~L~  731 (1153)
T PLN03210        657 TNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPD----ISTNISWLD  731 (1153)
T ss_pred             CcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCcccccc----ccCCcCeee
Confidence            455555555444333445555555555555555443333444433 444555555555443333332    123444455


Q ss_pred             ecCceee----------EeEEeccCCc---ccc----cCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccC
Q 040876          251 VNENNLT----------LKFLDLGENQ---IHG----EMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFN  309 (343)
Q Consensus       251 l~~n~l~----------l~~L~ls~n~---l~~----~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~  309 (343)
                      +++|.++          +..|++.++.   +.+    ..+...... +|+.|++++|...+.+|..   +++|+.|++++
T Consensus       732 L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~  811 (1153)
T PLN03210        732 LDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIEN  811 (1153)
T ss_pred             cCCCccccccccccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCC
Confidence            5444432          1112222211   000    011111122 7888888888777777765   67888899988


Q ss_pred             CccccccC
Q 040876          310 NSFLGSIS  317 (343)
Q Consensus       310 N~l~~~~~  317 (343)
                      |...+.+|
T Consensus       812 C~~L~~LP  819 (1153)
T PLN03210        812 CINLETLP  819 (1153)
T ss_pred             CCCcCeeC
Confidence            76444444

syringae 6; Provisional

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

Probab=99.51  E-value=3e-16  Score=125.46  Aligned_cols=137  Identities=23%  Similarity=0.335  Sum_probs=86.1

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCcc-ccChH
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNG-TLSEI  238 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g-~~p~~  238 (343)
                      .+|+.+..+  .+|++|++++|+++ .+|..++.+++|++|+++-|++. ..|.+|+.++.|+.||+.+|++.. .+|. 
T Consensus        47 ~vppnia~l--~nlevln~~nnqie-~lp~~issl~klr~lnvgmnrl~-~lprgfgs~p~levldltynnl~e~~lpg-  121 (264)
T KOG0617|consen   47 VVPPNIAEL--KNLEVLNLSNNQIE-ELPTSISSLPKLRILNVGMNRLN-ILPRGFGSFPALEVLDLTYNNLNENSLPG-  121 (264)
T ss_pred             ecCCcHHHh--hhhhhhhcccchhh-hcChhhhhchhhhheecchhhhh-cCccccCCCchhhhhhccccccccccCCc-
Confidence            667777777  77777777777777 67777777777777777777776 667777777777777777777653 2444 


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCcccc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~  314 (343)
                      .|..++.|+.|.+++|.+.             .+|...+.. +|+.|.+..|.+-..+...  +..|++|++.+|+++-
T Consensus       122 nff~m~tlralyl~dndfe-------------~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl~v  187 (264)
T KOG0617|consen  122 NFFYMTTLRALYLGDNDFE-------------ILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRLTV  187 (264)
T ss_pred             chhHHHHHHHHHhcCCCcc-------------cCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccceeee
Confidence            4555666666655554432             233333333 6666666666655432222  4556666666666653

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

Probab=99.29  E-value=8.3e-13  Score=116.66  Aligned_cols=217  Identities=20%  Similarity=0.228  Sum_probs=157.5

Q ss_pred             CccccCCCCCCEecCCCCC--------------CCCCCcccccchhhcccccccCCCccccCcccchhh-------hhhc
Q 040876          109 PSWLYRLTHLEQLSVADRP--------------SLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFD-------IFSG  167 (343)
Q Consensus       109 p~~l~~l~~L~~L~Ls~n~--------------~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~-------~l~~  167 (343)
                      -+.+..+..++.++||+|.              ..+.|+..++++-++|++.            ..+|+       .+.+
T Consensus        23 ~~~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~------------~Ei~e~L~~l~~aL~~   90 (382)
T KOG1909|consen   23 EEELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLK------------DEIPEALKMLSKALLG   90 (382)
T ss_pred             HHHhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcH------------HHHHHHHHHHHHHHhc
Confidence            3446678889999999998              4556777787776665432            24444       4456


Q ss_pred             CCCCCccEEEeecCccccccchh----ccCCCCCCEEECcCCcccccCC-------------ccccCCCCCcEEEccCcc
Q 040876          168 CVSKGLEILVLRSSSISGHLTEQ----IGHFKNLDTLDLGNNSIVGLVP-------------LSLNELSKLRILHLSDNK  230 (343)
Q Consensus       168 l~~~~L~~L~L~~n~l~~~~p~~----l~~l~~L~~L~Ls~N~l~~~~p-------------~~l~~l~~L~~L~l~~N~  230 (343)
                      +  ++|++++||+|-+....++.    +.++..|++|+|.+|.+...--             .-.+.-+.|+++...+|+
T Consensus        91 ~--~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNr  168 (382)
T KOG1909|consen   91 C--PKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNR  168 (382)
T ss_pred             C--CceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccc
Confidence            6  79999999999988555543    4678999999999998862211             123345789999999999


Q ss_pred             CccccCh----HhhhcCCCCCeEEecCceee----------------EeEEeccCCccccc----CCCccccc-CCCeEe
Q 040876          231 LNGTLSE----IHFVNLTKLSVFSVNENNLT----------------LKFLDLGENQIHGE----MTNLTNAT-QLWYLR  285 (343)
Q Consensus       231 l~g~~p~----~~~~~l~~L~~L~l~~n~l~----------------l~~L~ls~n~l~~~----~~~~~~~~-~L~~L~  285 (343)
                      +. .-+.    ..|...+.|+.+.+++|.|.                +++||+..|-|+..    +...+... +|+.|+
T Consensus       169 le-n~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~  247 (382)
T KOG1909|consen  169 LE-NGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELN  247 (382)
T ss_pred             cc-cccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeec
Confidence            85 3222    25677789999999999874                77799999988742    22233333 789999


Q ss_pred             CcCCcccCcccc--------cCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcc
Q 040876          286 LHSNNFSGPLSL--------ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       286 Ls~N~l~~~~~~--------~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      +++|.+......        ..++|+.|.+.+|.++......+...+...+.|..|+|++|.+
T Consensus       248 l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  248 LGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             ccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            999988743221        2678999999999998765555555667788999999999988

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

Probab=99.28  E-value=2.6e-13  Score=121.49  Aligned_cols=58  Identities=24%  Similarity=0.115  Sum_probs=43.4

Q ss_pred             CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          280 QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       280 ~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      +|+.|+|++|++++.-+..   ...+++|.|..|++...-    ...|..+..|+.|+|.+|+|+
T Consensus       275 ~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~----~~~f~~ls~L~tL~L~~N~it  335 (498)
T KOG4237|consen  275 NLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVS----SGMFQGLSGLKTLSLYDNQIT  335 (498)
T ss_pred             cceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHH----HHhhhccccceeeeecCCeeE
Confidence            7888888888888755554   567788888888875432    234677889999999999986

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

Probab=99.26  E-value=3.8e-13  Score=125.47  Aligned_cols=130  Identities=27%  Similarity=0.359  Sum_probs=97.7

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .||..+.++  ..|.++||+.|+++ .+|..++.++ |+.|.+++|+++ .+|+.++....|..|+.+.|.+. .+|. .
T Consensus       112 ~ip~~i~~L--~~lt~l~ls~NqlS-~lp~~lC~lp-Lkvli~sNNkl~-~lp~~ig~~~tl~~ld~s~nei~-slps-q  184 (722)
T KOG0532|consen  112 TIPEAICNL--EALTFLDLSSNQLS-HLPDGLCDLP-LKVLIVSNNKLT-SLPEEIGLLPTLAHLDVSKNEIQ-SLPS-Q  184 (722)
T ss_pred             ecchhhhhh--hHHHHhhhccchhh-cCChhhhcCc-ceeEEEecCccc-cCCcccccchhHHHhhhhhhhhh-hchH-H
Confidence            788888888  88888888888888 7787777665 788888888887 78888888888888888888887 7777 7


Q ss_pred             hhcCCCCCeEEecCceee----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcccc
Q 040876          240 FVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSL  297 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~  297 (343)
                      ++.+.+|+.|.+..|++.          +..||++.|+++ .+|-.+..+ .|++|-|.+|.+..++..
T Consensus       185 l~~l~slr~l~vrRn~l~~lp~El~~LpLi~lDfScNkis-~iPv~fr~m~~Lq~l~LenNPLqSPPAq  252 (722)
T KOG0532|consen  185 LGYLTSLRDLNVRRNHLEDLPEELCSLPLIRLDFSCNKIS-YLPVDFRKMRHLQVLQLENNPLQSPPAQ  252 (722)
T ss_pred             hhhHHHHHHHHHhhhhhhhCCHHHhCCceeeeecccCcee-ecchhhhhhhhheeeeeccCCCCCChHH
Confidence            788888888888877653          445666666665 444444444 666666666666654443

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

Probab=99.24  E-value=2e-13  Score=127.36  Aligned_cols=148  Identities=27%  Similarity=0.337  Sum_probs=113.5

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      .++|..+..+  ..|+.+.|+.|.+. .+|..++++..|++||++.|+++ .+|..+..++ |+.|.+++|+++ .+|+ 
T Consensus        88 ~elp~~~~~f--~~Le~liLy~n~~r-~ip~~i~~L~~lt~l~ls~NqlS-~lp~~lC~lp-Lkvli~sNNkl~-~lp~-  160 (722)
T KOG0532|consen   88 SELPEEACAF--VSLESLILYHNCIR-TIPEAICNLEALTFLDLSSNQLS-HLPDGLCDLP-LKVLIVSNNKLT-SLPE-  160 (722)
T ss_pred             ccCchHHHHH--HHHHHHHHHhccce-ecchhhhhhhHHHHhhhccchhh-cCChhhhcCc-ceeEEEecCccc-cCCc-
Confidence            3889988888  88999999999998 89999999999999999999998 8899998888 999999999997 8998 


Q ss_pred             hhhcCCCCCeEEecCceee-----------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc--CCCCcEE
Q 040876          239 HFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI--SSNLVYL  305 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~-----------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~--~~~L~~L  305 (343)
                      .++...+|..|+.+.|.+.           ++.|.+..|++... |..+..+.|..||++.|+++..+..+  ++.|++|
T Consensus       161 ~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~~l-p~El~~LpLi~lDfScNkis~iPv~fr~m~~Lq~l  239 (722)
T KOG0532|consen  161 EIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLEDL-PEELCSLPLIRLDFSCNKISYLPVDFRKMRHLQVL  239 (722)
T ss_pred             ccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhhhC-CHHHhCCceeeeecccCceeecchhhhhhhhheee
Confidence            7788889999888887763           33455566665533 33333336666666666666543333  5666666


Q ss_pred             EccCCcccc
Q 040876          306 DLFNNSFLG  314 (343)
Q Consensus       306 ~Ls~N~l~~  314 (343)
                      -|.+|.+..
T Consensus       240 ~LenNPLqS  248 (722)
T KOG0532|consen  240 QLENNPLQS  248 (722)
T ss_pred             eeccCCCCC
Confidence            666666654

>PLN03150 hypothetical protein; Provisional

Probab=99.19  E-value=5.8e-11  Score=117.95  Aligned_cols=107  Identities=26%  Similarity=0.458  Sum_probs=76.7

Q ss_pred             ccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEec
Q 040876          173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN  252 (343)
Q Consensus       173 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~  252 (343)
                      ++.|+|++|.+.|.+|..++.+++|+.|+|++|.++|.+|..++.+++|+.|++++|+++|.+|. .++++++|+.|+++
T Consensus       420 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        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPE-SLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCch-HHhcCCCCCEEECc
Confidence            66777777777777777777778888888888888777777777778888888888888777777 67777777776555


Q ss_pred             CceeeEeEEeccCCcccccCCCccccc--CCCeEeCcCCccc
Q 040876          253 ENNLTLKFLDLGENQIHGEMTNLTNAT--QLWYLRLHSNNFS  292 (343)
Q Consensus       253 ~n~l~l~~L~ls~n~l~~~~~~~~~~~--~L~~L~Ls~N~l~  292 (343)
                      +            |+++|.+|..+...  ++..+++.+|...
T Consensus       499 ~------------N~l~g~iP~~l~~~~~~~~~l~~~~N~~l  528 (623)
T PLN03150        499 G------------NSLSGRVPAALGGRLLHRASFNFTDNAGL  528 (623)
T ss_pred             C------------CcccccCChHHhhccccCceEEecCCccc
Confidence            4            44556666555432  5566777766543

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

Probab=99.17  E-value=3.8e-11  Score=113.40  Aligned_cols=89  Identities=31%  Similarity=0.402  Sum_probs=55.1

Q ss_pred             chhhhhhcCCCC-CccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          160 DIFDIFSGCVSK-GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       160 ~ip~~l~~l~~~-~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      .+|......  + +|+.|++++|++. .+|..+..+++|+.|++++|+++ .+|...+..+.|+.|++++|+++ .+|. 
T Consensus       130 ~i~~~~~~~--~~nL~~L~l~~N~i~-~l~~~~~~l~~L~~L~l~~N~l~-~l~~~~~~~~~L~~L~ls~N~i~-~l~~-  203 (394)
T COG4886         130 DIPPLIGLL--KSNLKELDLSDNKIE-SLPSPLRNLPNLKNLDLSFNDLS-DLPKLLSNLSNLNNLDLSGNKIS-DLPP-  203 (394)
T ss_pred             cCccccccc--hhhcccccccccchh-hhhhhhhccccccccccCCchhh-hhhhhhhhhhhhhheeccCCccc-cCch-
Confidence            455555544  4 6677777777766 45555666777777777777766 55555446666777777777766 6665 


Q ss_pred             hhhcCCCCCeEEecCc
Q 040876          239 HFVNLTKLSVFSVNEN  254 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n  254 (343)
                      .......|+.+.+++|
T Consensus       204 ~~~~~~~L~~l~~~~N  219 (394)
T COG4886         204 EIELLSALEELDLSNN  219 (394)
T ss_pred             hhhhhhhhhhhhhcCC
Confidence            3334445666666655

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

Probab=99.10  E-value=1.3e-11  Score=107.34  Aligned_cols=20  Identities=15%  Similarity=0.172  Sum_probs=16.3

Q ss_pred             CCccccCCCCCCEecCCCCC
Q 040876          108 IPSWLYRLTHLEQLSVADRP  127 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~  127 (343)
                      +|-.+.-+++|..+.+|.+.
T Consensus       206 l~f~l~~f~~l~~~~~s~~~  225 (490)
T KOG1259|consen  206 LSFNLNAFRNLKTLKFSALS  225 (490)
T ss_pred             cccchHHhhhhheeeeeccc
Confidence            66667778899999998887

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

Probab=99.10  E-value=1.4e-10  Score=109.47  Aligned_cols=170  Identities=31%  Similarity=0.358  Sum_probs=120.6

Q ss_pred             ccccCCCCCCEecCCCCC---------CCC-CCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEe
Q 040876          110 SWLYRLTHLEQLSVADRP---------SLA-SREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVL  178 (343)
Q Consensus       110 ~~l~~l~~L~~L~Ls~n~---------~l~-~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L  178 (343)
                      ..+..++.++.|++.+|.         .+. +|+.|++++| +.                 .+|..+..+  +.|+.|++
T Consensus       110 ~~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~-----------------~l~~~~~~l--~~L~~L~l  170 (394)
T COG4886         110 SELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIE-----------------SLPSPLRNL--PNLKNLDL  170 (394)
T ss_pred             hhhhcccceeEEecCCcccccCccccccchhhcccccccccchh-----------------hhhhhhhcc--cccccccc
Confidence            345556778888888877         232 6788888877 65                 677788888  99999999


Q ss_pred             ecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeE
Q 040876          179 RSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTL  258 (343)
Q Consensus       179 ~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l  258 (343)
                      ++|+++ .+|...+..+.|+.|++++|++. .+|..+.....|+++.+++|.+. .++. .+.++..+..+.+.+|++. 
T Consensus       171 ~~N~l~-~l~~~~~~~~~L~~L~ls~N~i~-~l~~~~~~~~~L~~l~~~~N~~~-~~~~-~~~~~~~l~~l~l~~n~~~-  245 (394)
T COG4886         171 SFNDLS-DLPKLLSNLSNLNNLDLSGNKIS-DLPPEIELLSALEELDLSNNSII-ELLS-SLSNLKNLSGLELSNNKLE-  245 (394)
T ss_pred             CCchhh-hhhhhhhhhhhhhheeccCCccc-cCchhhhhhhhhhhhhhcCCcce-ecch-hhhhcccccccccCCceee-
Confidence            999999 67777778899999999999998 77776666777999999999644 4555 6777888888777776653 


Q ss_pred             eEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccc
Q 040876          259 KFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       259 ~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~  315 (343)
                                  .++...... .+++|++++|+++...+.. ..++++|++++|.+...
T Consensus       246 ------------~~~~~~~~l~~l~~L~~s~n~i~~i~~~~~~~~l~~L~~s~n~~~~~  292 (394)
T COG4886         246 ------------DLPESIGNLSNLETLDLSNNQISSISSLGSLTNLRELDLSGNSLSNA  292 (394)
T ss_pred             ------------eccchhccccccceeccccccccccccccccCccCEEeccCcccccc
Confidence                        112333333 5666666666666544322 45566666666665543

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

Probab=98.99  E-value=3.7e-10  Score=93.30  Aligned_cols=121  Identities=31%  Similarity=0.457  Sum_probs=43.7

Q ss_pred             CCccEEEeecCccccccchhcc-CCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhh-hcCCCCCe
Q 040876          171 KGLEILVLRSSSISGHLTEQIG-HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHF-VNLTKLSV  248 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~-~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~-~~l~~L~~  248 (343)
                      .++++|+|++|.|+. + +.++ .+.+|+.|++++|.++ .+ +.+..++.|++|++++|+++ .++. .+ ..+++|++
T Consensus        19 ~~~~~L~L~~n~I~~-I-e~L~~~l~~L~~L~Ls~N~I~-~l-~~l~~L~~L~~L~L~~N~I~-~i~~-~l~~~lp~L~~   92 (175)
T PF14580_consen   19 VKLRELNLRGNQIST-I-ENLGATLDKLEVLDLSNNQIT-KL-EGLPGLPRLKTLDLSNNRIS-SISE-GLDKNLPNLQE   92 (175)
T ss_dssp             -------------------S--TT-TT--EEE-TTS--S----TT----TT--EEE--SS----S-CH-HHHHH-TT--E
T ss_pred             ccccccccccccccc-c-cchhhhhcCCCEEECCCCCCc-cc-cCccChhhhhhcccCCCCCC-cccc-chHHhCCcCCE
Confidence            578999999999983 3 3465 5789999999999998 34 36788999999999999998 6765 34 46889999


Q ss_pred             EEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccc------cCCCCcEEEc
Q 040876          249 FSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSL------ISSNLVYLDL  307 (343)
Q Consensus       249 L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~------~~~~L~~L~L  307 (343)
                      |++++|++.         .+. .+-......+|+.|++.+|.++...-.      .+++|+.||-
T Consensus        93 L~L~~N~I~---------~l~-~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   93 LYLSNNKIS---------DLN-ELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             EE-TTS------------SCC-CCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             EECcCCcCC---------ChH-HhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCC
Confidence            888877764         111 121122223888888888888753211      1677777764

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

Probab=98.99  E-value=8.9e-10  Score=91.08  Aligned_cols=127  Identities=23%  Similarity=0.295  Sum_probs=48.3

Q ss_pred             ccCCCCCCEEECcCCcccccCCcccc-CCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCccc
Q 040876          191 IGHFKNLDTLDLGNNSIVGLVPLSLN-ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIH  269 (343)
Q Consensus       191 l~~l~~L~~L~Ls~N~l~~~~p~~l~-~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~  269 (343)
                      +.+..++++|+|.+|.|+ .+ +.++ .+.+|+.|++++|.++ .++  .+..++.|+.|++++|.++            
T Consensus        15 ~~n~~~~~~L~L~~n~I~-~I-e~L~~~l~~L~~L~Ls~N~I~-~l~--~l~~L~~L~~L~L~~N~I~------------   77 (175)
T PF14580_consen   15 YNNPVKLRELNLRGNQIS-TI-ENLGATLDKLEVLDLSNNQIT-KLE--GLPGLPRLKTLDLSNNRIS------------   77 (175)
T ss_dssp             -----------------------S--TT-TT--EEE-TTS--S---T--T----TT--EEE--SS---------------
T ss_pred             cccccccccccccccccc-cc-cchhhhhcCCCEEECCCCCCc-ccc--CccChhhhhhcccCCCCCC------------
Confidence            344567899999999998 33 4566 5789999999999998 665  4667888888877776654            


Q ss_pred             ccCCCcc-c-ccCCCeEeCcCCcccCccc---c-cCCCCcEEEccCCccccccCchhhccCCccccCceEecC
Q 040876          270 GEMTNLT-N-ATQLWYLRLHSNNFSGPLS---L-ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLG  336 (343)
Q Consensus       270 ~~~~~~~-~-~~~L~~L~Ls~N~l~~~~~---~-~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls  336 (343)
                       .++..+ . .++|++|++++|++...--   - .+++|+.|++.+|.++.. +..=...+..+|+|+.||-.
T Consensus        78 -~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   78 -SISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             -S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-TT-SEETTE
T ss_pred             -ccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCcccch-hhHHHHHHHHcChhheeCCE
Confidence             232222 2 3399999999999976321   1 289999999999999865 33323445678999998753

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

Probab=98.99  E-value=1.4e-10  Score=105.52  Aligned_cols=169  Identities=20%  Similarity=0.210  Sum_probs=90.9

Q ss_pred             CCccEEEeecCcccc--ccchhccCCCCCCEEECcCCcccccCCcc-ccCCCCCcEEEccCccCccccChHhhhcCCCCC
Q 040876          171 KGLEILVLRSSSISG--HLTEQIGHFKNLDTLDLGNNSIVGLVPLS-LNELSKLRILHLSDNKLNGTLSEIHFVNLTKLS  247 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~--~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~  247 (343)
                      ++++.|||+.|-+..  .+-....++++|+.|+++.|++.-..... -..+++|+.|.++.|.++..--......+|+|+
T Consensus       146 ~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~  225 (505)
T KOG3207|consen  146 PNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLE  225 (505)
T ss_pred             CcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHH
Confidence            555566666555542  11222345556666666666554221111 113455566666666555221111334455666


Q ss_pred             eEEecCce-e-----------eEeEEeccCCcccccC--CCcccccCCCeEeCcCCcccCc-ccc--------cCCCCcE
Q 040876          248 VFSVNENN-L-----------TLKFLDLGENQIHGEM--TNLTNATQLWYLRLHSNNFSGP-LSL--------ISSNLVY  304 (343)
Q Consensus       248 ~L~l~~n~-l-----------~l~~L~ls~n~l~~~~--~~~~~~~~L~~L~Ls~N~l~~~-~~~--------~~~~L~~  304 (343)
                      .|++..|. +           +++.|||++|++....  +.......|..|+++.+.+... .|+        .+++|++
T Consensus       226 ~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~  305 (505)
T KOG3207|consen  226 VLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEY  305 (505)
T ss_pred             HhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhccccccee
Confidence            66666652 1           1444666666665322  3333333777788888877642 121        1678999


Q ss_pred             EEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          305 LDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       305 L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      |+++.|++...-  . -..+..+++|+.|.+-.|+|+-
T Consensus       306 L~i~~N~I~~w~--s-l~~l~~l~nlk~l~~~~n~ln~  340 (505)
T KOG3207|consen  306 LNISENNIRDWR--S-LNHLRTLENLKHLRITLNYLNK  340 (505)
T ss_pred             eecccCcccccc--c-cchhhccchhhhhhcccccccc
Confidence            999999986531  1 1334556777777777777754

>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=98.89  E-value=2.2e-09  Score=67.29  Aligned_cols=39  Identities=51%  Similarity=1.102  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhhhhCC-CCCCCCCCCCCC--CCCccccceEeC
Q 040876           33 ESEREALLRFKQDLQ-DPSNRLASWNIG--GDCCTWAGIVCD   71 (343)
Q Consensus        33 ~~~~~~L~~~k~~~~-~~~~~~~~W~~~--~~~c~w~gv~c~   71 (343)
                      ++|++||++||+++. +|...+.+|+..  .+||.|.||+|+
T Consensus         2 ~~d~~aLl~~k~~l~~~~~~~l~~W~~~~~~~~C~W~GV~Cd   43 (43)
T PF08263_consen    2 NQDRQALLAFKKSLNNDPSGVLSSWNPSSDSDPCSWSGVTCD   43 (43)
T ss_dssp             HHHHHHHHHHHHCTT-SC-CCCTT--TT--S-CCCSTTEEE-
T ss_pred             cHHHHHHHHHHHhcccccCcccccCCCcCCCCCeeeccEEeC
Confidence            589999999999998 566889999865  799999999995

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.

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

Probab=98.86  E-value=3.7e-10  Score=100.13  Aligned_cols=200  Identities=22%  Similarity=0.174  Sum_probs=140.9

Q ss_pred             CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCc---cccccchh-------ccCCCC
Q 040876          128 SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSS---ISGHLTEQ-------IGHFKN  196 (343)
Q Consensus       128 ~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~---l~~~~p~~-------l~~l~~  196 (343)
                      .+.+++.+++++| |.--            -...+.+.+.+.  +.|+..++++-.   +...+|+.       +...++
T Consensus        28 ~~~s~~~l~lsgnt~G~E------------Aa~~i~~~L~~~--~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~   93 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTE------------AARAIAKVLASK--KELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPK   93 (382)
T ss_pred             ccCceEEEeccCCchhHH------------HHHHHHHHHhhc--ccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCc
Confidence            4556888999998 5310            002455667777  888888887632   22344443       445679


Q ss_pred             CCEEECcCCcccccCCccc----cCCCCCcEEEccCccCccccChH-------------hhhcCCCCCeEEecCceee--
Q 040876          197 LDTLDLGNNSIVGLVPLSL----NELSKLRILHLSDNKLNGTLSEI-------------HFVNLTKLSVFSVNENNLT--  257 (343)
Q Consensus       197 L~~L~Ls~N~l~~~~p~~l----~~l~~L~~L~l~~N~l~g~~p~~-------------~~~~l~~L~~L~l~~n~l~--  257 (343)
                      |++|+||+|-|....++.+    .++..|++|.|.+|.+. .....             ....-+.|+++...+|++.  
T Consensus        94 L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg-~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~  172 (382)
T KOG1909|consen   94 LQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLG-PEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENG  172 (382)
T ss_pred             eeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCC-hhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccc
Confidence            9999999999976655544    56789999999999885 22111             1234578999999999874  


Q ss_pred             --------------EeEEeccCCcccccC----CCccccc-CCCeEeCcCCcccCccc-------ccCCCCcEEEccCCc
Q 040876          258 --------------LKFLDLGENQIHGEM----TNLTNAT-QLWYLRLHSNNFSGPLS-------LISSNLVYLDLFNNS  311 (343)
Q Consensus       258 --------------l~~L~ls~n~l~~~~----~~~~~~~-~L~~L~Ls~N~l~~~~~-------~~~~~L~~L~Ls~N~  311 (343)
                                    ++.+.++.|.|...-    ...+..+ +|+.|||.+|-|+....       ..+++|+.|++++|.
T Consensus       173 ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcl  252 (382)
T KOG1909|consen  173 GATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCL  252 (382)
T ss_pred             cHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccc
Confidence                          667888888875321    1223334 99999999999984221       126789999999999


Q ss_pred             cccccCchhhccCC-ccccCceEecCCCcccc
Q 040876          312 FLGSISHFWCYRSN-ETKRLRALSLGDNYLQG  342 (343)
Q Consensus       312 l~~~~~~~l~~~l~-~l~~L~~L~ls~N~l~g  342 (343)
                      +.......+...+. ..++|+++.+.+|.|+-
T Consensus       253 l~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~  284 (382)
T KOG1909|consen  253 LENEGAIAFVDALKESAPSLEVLELAGNEITR  284 (382)
T ss_pred             cccccHHHHHHHHhccCCCCceeccCcchhHH
Confidence            98877666666553 47899999999998863

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

Probab=98.86  E-value=5.1e-10  Score=101.86  Aligned_cols=179  Identities=23%  Similarity=0.204  Sum_probs=128.3

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccc--hhccCCCCCCEEECcCCcccccCC--ccccCCCCCcEEEccCccCcccc
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLT--EQIGHFKNLDTLDLGNNSIVGLVP--LSLNELSKLRILHLSDNKLNGTL  235 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p--~~l~~l~~L~~L~Ls~N~l~~~~p--~~l~~l~~L~~L~l~~N~l~g~~  235 (343)
                      .+...=.++  ++|+.+.|.++.+. ..+  .....+++++.|||+.|-+....|  .....+++|+.|+++.|++.-..
T Consensus       112 ki~akQsn~--kkL~~IsLdn~~V~-~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~  188 (505)
T KOG3207|consen  112 KIAAKQSNL--KKLREISLDNYRVE-DAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFI  188 (505)
T ss_pred             HHHHHhhhH--HhhhheeecCcccc-ccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCc
Confidence            455555667  89999999998877 334  367789999999999998874322  34567999999999999986333


Q ss_pred             ChHhhhcCCCCCeEEecCceee-------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcc--ccc-
Q 040876          236 SEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPL--SLI-  298 (343)
Q Consensus       236 p~~~~~~l~~L~~L~l~~n~l~-------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~--~~~-  298 (343)
                      ....-..+++|+.|.++.|.++             ++.|++..|.....-....... .|+.|||++|++-...  +.. 
T Consensus       189 ~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~  268 (505)
T KOG3207|consen  189 SSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVG  268 (505)
T ss_pred             cccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccc
Confidence            2222235789999999999986             5569999996332222233334 8999999999987533  222 


Q ss_pred             -CCCCcEEEccCCcccccc-C-chhhccCCccccCceEecCCCccc
Q 040876          299 -SSNLVYLDLFNNSFLGSI-S-HFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       299 -~~~L~~L~Ls~N~l~~~~-~-~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                       ++.|+.|+++.+.+.... | ...-+....+++|++|++..|++.
T Consensus       269 ~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~  314 (505)
T KOG3207|consen  269 TLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIR  314 (505)
T ss_pred             cccchhhhhccccCcchhcCCCccchhhhcccccceeeecccCccc
Confidence             888999999999887531 1 001111356889999999999984

>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=98.83  E-value=3.2e-09  Score=72.23  Aligned_cols=60  Identities=35%  Similarity=0.561  Sum_probs=38.2

Q ss_pred             CccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccC
Q 040876          172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL  231 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l  231 (343)
                      +|++|++++|+++...+..|..+++|++|++++|.++...|..|.++++|++|++++|++
T Consensus         2 ~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    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            566667777666644445566666666666666666655555666666666666666653

...

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

Probab=98.78  E-value=6.1e-10  Score=97.01  Aligned_cols=81  Identities=27%  Similarity=0.365  Sum_probs=43.2

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      +.|+++||++|.|+ .+.+++.-++.++.|++|+|.+. .+ ..++.+++|+.||+++|.++ .+.. .-..+.+++.|.
T Consensus       284 q~LtelDLS~N~I~-~iDESvKL~Pkir~L~lS~N~i~-~v-~nLa~L~~L~~LDLS~N~Ls-~~~G-wh~KLGNIKtL~  358 (490)
T KOG1259|consen  284 QELTELDLSGNLIT-QIDESVKLAPKLRRLILSQNRIR-TV-QNLAELPQLQLLDLSGNLLA-ECVG-WHLKLGNIKTLK  358 (490)
T ss_pred             hhhhhccccccchh-hhhhhhhhccceeEEecccccee-ee-hhhhhcccceEeecccchhH-hhhh-hHhhhcCEeeee
Confidence            45566666666665 45555555566666666666665 22 23555666666666666654 3322 223344445555


Q ss_pred             ecCcee
Q 040876          251 VNENNL  256 (343)
Q Consensus       251 l~~n~l  256 (343)
                      +++|.+
T Consensus       359 La~N~i  364 (490)
T KOG1259|consen  359 LAQNKI  364 (490)
T ss_pred             hhhhhH
Confidence            544433

>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=98.75  E-value=6.2e-09  Score=70.80  Aligned_cols=61  Identities=38%  Similarity=0.604  Sum_probs=51.6

Q ss_pred             CCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCcee
Q 040876          195 KNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNL  256 (343)
Q Consensus       195 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l  256 (343)
                      ++|++|++++|+++..-+..+..+++|++|++++|.++ .+++..|.++++|++|++++|++
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 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLT-SIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSES-EEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccC-ccCHHHHcCCCCCCEEeCcCCcC
Confidence            47899999999999665568889999999999999998 66655889999999999988764

...

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

Probab=98.63  E-value=3.5e-09  Score=100.58  Aligned_cols=141  Identities=26%  Similarity=0.305  Sum_probs=86.3

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh-hhcC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH-FVNL  243 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~-~~~l  243 (343)
                      +..+  ++|++|++++|.|+...+  +..++.|+.|++++|.++..  ..+..++.|+.+++++|++. .+.. . ...+
T Consensus       114 l~~~--~~L~~L~ls~N~I~~i~~--l~~l~~L~~L~l~~N~i~~~--~~~~~l~~L~~l~l~~n~i~-~ie~-~~~~~~  185 (414)
T KOG0531|consen  114 LSSL--VNLQVLDLSFNKITKLEG--LSTLTLLKELNLSGNLISDI--SGLESLKSLKLLDLSYNRIV-DIEN-DELSEL  185 (414)
T ss_pred             hhhh--hcchheeccccccccccc--hhhccchhhheeccCcchhc--cCCccchhhhcccCCcchhh-hhhh-hhhhhc
Confidence            5556  778888888888774333  55666688888888887622  34556777888888888876 4443 1 3567


Q ss_pred             CCCCeEEecCceee----------EeEEeccCCcccccCCCccccc--CCCeEeCcCCcccCc--ccccCCCCcEEEccC
Q 040876          244 TKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNAT--QLWYLRLHSNNFSGP--LSLISSNLVYLDLFN  309 (343)
Q Consensus       244 ~~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~--~L~~L~Ls~N~l~~~--~~~~~~~L~~L~Ls~  309 (343)
                      .+++.+.+.+|.+.          +..+++..|.++-.-+ .....  .|+.+++++|.+...  ....+..+..|++.+
T Consensus       186 ~~l~~l~l~~n~i~~i~~~~~~~~l~~~~l~~n~i~~~~~-l~~~~~~~L~~l~l~~n~i~~~~~~~~~~~~l~~l~~~~  264 (414)
T KOG0531|consen  186 ISLEELDLGGNSIREIEGLDLLKKLVLLSLLDNKISKLEG-LNELVMLHLRELYLSGNRISRSPEGLENLKNLPVLDLSS  264 (414)
T ss_pred             cchHHHhccCCchhcccchHHHHHHHHhhcccccceeccC-cccchhHHHHHHhcccCccccccccccccccccccchhh
Confidence            77777777777664          2224556666553211 11111  267777777777653  222355666666666


Q ss_pred             Ccccc
Q 040876          310 NSFLG  314 (343)
Q Consensus       310 N~l~~  314 (343)
                      |++..
T Consensus       265 n~~~~  269 (414)
T KOG0531|consen  265 NRISN  269 (414)
T ss_pred             ccccc
Confidence            66654

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

Probab=98.63  E-value=4.2e-10  Score=108.16  Aligned_cols=167  Identities=24%  Similarity=0.318  Sum_probs=86.6

Q ss_pred             CccccCCCCCCEecCCCCC--------CC-CCCcccccchh---hcccccccCCCccccCcccchhhhhhcCCCCCccEE
Q 040876          109 PSWLYRLTHLEQLSVADRP--------SL-ASREDQDLLSN---IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEIL  176 (343)
Q Consensus       109 p~~l~~l~~L~~L~Ls~n~--------~l-~~L~~L~l~~n---l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L  176 (343)
                      |-.|..+..|++|.|.++.        .+ ..|+.|..++.   +...+..|.         |++..++..   ..|.+.
T Consensus       102 pi~ifpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascg---------gd~~ns~~W---n~L~~a  169 (1096)
T KOG1859|consen  102 PISIFPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCG---------GDISNSPVW---NKLATA  169 (1096)
T ss_pred             CceeccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhc---------cccccchhh---hhHhhh
Confidence            5568899999999999988        11 12444444443   221122221         233333322   245556


Q ss_pred             EeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCcee
Q 040876          177 VLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNL  256 (343)
Q Consensus       177 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l  256 (343)
                      +.++|.+. .+..++.-++.|+.|+|+.|+++..  +.+..+++|++||+++|.+. .+|......+ +|+.|.+.+|.+
T Consensus       170 ~fsyN~L~-~mD~SLqll~ale~LnLshNk~~~v--~~Lr~l~~LkhLDlsyN~L~-~vp~l~~~gc-~L~~L~lrnN~l  244 (1096)
T KOG1859|consen  170 SFSYNRLV-LMDESLQLLPALESLNLSHNKFTKV--DNLRRLPKLKHLDLSYNCLR-HVPQLSMVGC-KLQLLNLRNNAL  244 (1096)
T ss_pred             hcchhhHH-hHHHHHHHHHHhhhhccchhhhhhh--HHHHhcccccccccccchhc-cccccchhhh-hheeeeecccHH
Confidence            66666665 4555555566666666666666532  25566666666666666665 5554222222 255555555544


Q ss_pred             e----------EeEEeccCCccccc--CCCcccccCCCeEeCcCCccc
Q 040876          257 T----------LKFLDLGENQIHGE--MTNLTNATQLWYLRLHSNNFS  292 (343)
Q Consensus       257 ~----------l~~L~ls~n~l~~~--~~~~~~~~~L~~L~Ls~N~l~  292 (343)
                      +          +.-||+++|-|.+.  +........|+.|+|.+|.+.
T Consensus       245 ~tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  245 TTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             HhhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCccc
Confidence            3          23344445544431  111222225566666666554

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

Probab=98.60  E-value=3e-08  Score=85.44  Aligned_cols=224  Identities=18%  Similarity=0.161  Sum_probs=134.0

Q ss_pred             ccccCCCCCCEecCCCCC--------------CCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccE
Q 040876          110 SWLYRLTHLEQLSVADRP--------------SLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEI  175 (343)
Q Consensus       110 ~~l~~l~~L~~L~Ls~n~--------------~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~  175 (343)
                      ..+..+..++.+|||+|.              .-.+|+..+++.-++|....-     +...+.-+-+.+.+|  ++|+.
T Consensus        24 eel~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde-----~~~~L~~Ll~aLlkc--p~l~~   96 (388)
T COG5238          24 EELEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDE-----LYSNLVMLLKALLKC--PRLQK   96 (388)
T ss_pred             HHHHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHH-----HHHHHHHHHHHHhcC--Cccee
Confidence            445568889999999997              334466666665554432110     000012334466788  99999


Q ss_pred             EEeecCccccccchh----ccCCCCCCEEECcCCccccc----CCcc---------ccCCCCCcEEEccCccCccccCh-
Q 040876          176 LVLRSSSISGHLTEQ----IGHFKNLDTLDLGNNSIVGL----VPLS---------LNELSKLRILHLSDNKLNGTLSE-  237 (343)
Q Consensus       176 L~L~~n~l~~~~p~~----l~~l~~L~~L~Ls~N~l~~~----~p~~---------l~~l~~L~~L~l~~N~l~g~~p~-  237 (343)
                      .+||+|.+....|+.    +++.+.|++|.+++|.+...    +...         ..+-|.|+++....|++. ..|. 
T Consensus        97 v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRle-ngs~~  175 (388)
T COG5238          97 VDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLE-NGSKE  175 (388)
T ss_pred             eeccccccCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhc-cCcHH
Confidence            999999998766654    56778999999999987521    1111         234578999999999885 3332 


Q ss_pred             ---HhhhcCCCCCeEEecCceee-----------------EeEEeccCCcccccCC----Cccccc-CCCeEeCcCCccc
Q 040876          238 ---IHFVNLTKLSVFSVNENNLT-----------------LKFLDLGENQIHGEMT----NLTNAT-QLWYLRLHSNNFS  292 (343)
Q Consensus       238 ---~~~~~l~~L~~L~l~~n~l~-----------------l~~L~ls~n~l~~~~~----~~~~~~-~L~~L~Ls~N~l~  292 (343)
                         ..+..-..|+.+.+.+|.|.                 +++||+..|.++-.-.    ...... .|+.|.+.+|-++
T Consensus       176 ~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls  255 (388)
T COG5238         176 LSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLS  255 (388)
T ss_pred             HHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhc
Confidence               13334467888999888774                 5567777776653111    111111 4566677666665


Q ss_pred             Cccccc---------CCCCcEEEccCCccccccCch--hhccC-CccccCceEecCCCccc
Q 040876          293 GPLSLI---------SSNLVYLDLFNNSFLGSISHF--WCYRS-NETKRLRALSLGDNYLQ  341 (343)
Q Consensus       293 ~~~~~~---------~~~L~~L~Ls~N~l~~~~~~~--l~~~l-~~l~~L~~L~ls~N~l~  341 (343)
                      ......         .++|..|...+|...+.+-..  ++... .++|-|..|.+.+|+|.
T Consensus       256 ~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr~~  316 (388)
T COG5238         256 NEGVKSVLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNRIK  316 (388)
T ss_pred             cccHHHHHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccCcch
Confidence            322211         456666666666665533211  11111 34556666666666654

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

Probab=98.48  E-value=1.3e-08  Score=96.80  Aligned_cols=165  Identities=29%  Similarity=0.293  Sum_probs=107.9

Q ss_pred             hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhc
Q 040876          163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVN  242 (343)
Q Consensus       163 ~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~  242 (343)
                      ..+..+  ++|+.|++.+|+|.. +...+..+++|++|++++|.|+..  ..+..++.|+.|++++|.++ .+.  .+..
T Consensus        89 ~~l~~~--~~l~~l~l~~n~i~~-i~~~l~~~~~L~~L~ls~N~I~~i--~~l~~l~~L~~L~l~~N~i~-~~~--~~~~  160 (414)
T KOG0531|consen   89 NHLSKL--KSLEALDLYDNKIEK-IENLLSSLVNLQVLDLSFNKITKL--EGLSTLTLLKELNLSGNLIS-DIS--GLES  160 (414)
T ss_pred             cccccc--cceeeeeccccchhh-cccchhhhhcchheeccccccccc--cchhhccchhhheeccCcch-hcc--CCcc
Confidence            345666  889999999999984 444477899999999999999855  35778888999999999997 554  3555


Q ss_pred             CCCCCeEEecCceee---E---------eEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCC--CcEEE
Q 040876          243 LTKLSVFSVNENNLT---L---------KFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSN--LVYLD  306 (343)
Q Consensus       243 l~~L~~L~l~~n~l~---l---------~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~--L~~L~  306 (343)
                      +..|+.+++++|.++   .         +.+++.+|.+...  ...... .+..+++..|.++..-+.. ...  |+.++
T Consensus       161 l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i--~~~~~~~~l~~~~l~~n~i~~~~~l~~~~~~~L~~l~  238 (414)
T KOG0531|consen  161 LKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREI--EGLDLLKKLVLLSLLDNKISKLEGLNELVMLHLRELY  238 (414)
T ss_pred             chhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhcc--cchHHHHHHHHhhcccccceeccCcccchhHHHHHHh
Confidence            778888888777654   1         1133333333211  111111 3334455555554332222 222  77888


Q ss_pred             ccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          307 LFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       307 Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +++|.+...     +..+..+..+..+++..|+++.
T Consensus       239 l~~n~i~~~-----~~~~~~~~~l~~l~~~~n~~~~  269 (414)
T KOG0531|consen  239 LSGNRISRS-----PEGLENLKNLPVLDLSSNRISN  269 (414)
T ss_pred             cccCccccc-----cccccccccccccchhhccccc
Confidence            888887642     1345677888899999888764

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

Probab=98.45  E-value=1.4e-07  Score=81.46  Aligned_cols=199  Identities=22%  Similarity=0.206  Sum_probs=135.1

Q ss_pred             CCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccc---cccc-------hhccCCCCC
Q 040876          129 LASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSIS---GHLT-------EQIGHFKNL  197 (343)
Q Consensus       129 l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~---~~~p-------~~l~~l~~L  197 (343)
                      +..+..++||+| |...-            ...+...+.+-  .+|+..++++-...   ..+|       +.+.++++|
T Consensus        29 ~d~~~evdLSGNtigtEA------------~e~l~~~ia~~--~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l   94 (388)
T COG5238          29 MDELVEVDLSGNTIGTEA------------MEELCNVIANV--RNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRL   94 (388)
T ss_pred             hcceeEEeccCCcccHHH------------HHHHHHHHhhh--cceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcc
Confidence            445788889988 54100            02344555666  78888888764322   2233       345678999


Q ss_pred             CEEECcCCcccccCCccc----cCCCCCcEEEccCccCccccChHhh-------------hcCCCCCeEEecCceee---
Q 040876          198 DTLDLGNNSIVGLVPLSL----NELSKLRILHLSDNKLNGTLSEIHF-------------VNLTKLSVFSVNENNLT---  257 (343)
Q Consensus       198 ~~L~Ls~N~l~~~~p~~l----~~l~~L~~L~l~~N~l~g~~p~~~~-------------~~l~~L~~L~l~~n~l~---  257 (343)
                      +..+||+|.|....|+.+    ++.+.|.+|.+++|.+. .+.-..+             .+-+.|+.+....|++.   
T Consensus        95 ~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlG-p~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs  173 (388)
T COG5238          95 QKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLG-PIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGS  173 (388)
T ss_pred             eeeeccccccCcccchHHHHHHhcCCCceeEEeecCCCC-ccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCc
Confidence            999999999988877654    56789999999999874 3332112             34578999999999874   


Q ss_pred             -------------EeEEeccCCcccccC------CCcccccCCCeEeCcCCcccCcccc-------cCCCCcEEEccCCc
Q 040876          258 -------------LKFLDLGENQIHGEM------TNLTNATQLWYLRLHSNNFSGPLSL-------ISSNLVYLDLFNNS  311 (343)
Q Consensus       258 -------------l~~L~ls~n~l~~~~------~~~~~~~~L~~L~Ls~N~l~~~~~~-------~~~~L~~L~Ls~N~  311 (343)
                                   ++.+.+..|.|...-      -..+...+|+.|||.+|-|+-....       .++.|+.|.+.+|.
T Consensus       174 ~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDCl  253 (388)
T COG5238         174 KELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCL  253 (388)
T ss_pred             HHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchh
Confidence                         566778888775321      1122223899999999998842221       15678999999999


Q ss_pred             cccccCchhhccCC--ccccCceEecCCCcccc
Q 040876          312 FLGSISHFWCYRSN--ETKRLRALSLGDNYLQG  342 (343)
Q Consensus       312 l~~~~~~~l~~~l~--~l~~L~~L~ls~N~l~g  342 (343)
                      ++......+-..+.  ..++|..|...||...|
T Consensus       254 ls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~  286 (388)
T COG5238         254 LSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRG  286 (388)
T ss_pred             hccccHHHHHHHhhhhcCCCccccccchhhhcC
Confidence            88776655444443  45788888888887665

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

Probab=98.30  E-value=1.4e-08  Score=97.97  Aligned_cols=155  Identities=25%  Similarity=0.248  Sum_probs=87.9

Q ss_pred             hhhhhcCCCCCccEEEeecCccccccchhccCC---------------------------------CCCCEEECcCCccc
Q 040876          162 FDIFSGCVSKGLEILVLRSSSISGHLTEQIGHF---------------------------------KNLDTLDLGNNSIV  208 (343)
Q Consensus       162 p~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l---------------------------------~~L~~L~Ls~N~l~  208 (343)
                      |-.|..+  .+|++|.+.++.+...  ..+..+                                 ..|...+.++|.+.
T Consensus       102 pi~ifpF--~sLr~LElrg~~L~~~--~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN~L~  177 (1096)
T KOG1859|consen  102 PISIFPF--RSLRVLELRGCDLSTA--KGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFSYNRLV  177 (1096)
T ss_pred             Cceeccc--cceeeEEecCcchhhh--hhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcchhhHH
Confidence            4456666  8899999998887621  111111                                 12344444555554


Q ss_pred             ccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCcccc-cCCCeEeCc
Q 040876          209 GLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNA-TQLWYLRLH  287 (343)
Q Consensus       209 ~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~-~~L~~L~Ls  287 (343)
                       .+..++.-++.++.|+|+.|+++ .+.  .+..+++|++||++.|.            ++ .+|..... +.|+.|.++
T Consensus       178 -~mD~SLqll~ale~LnLshNk~~-~v~--~Lr~l~~LkhLDlsyN~------------L~-~vp~l~~~gc~L~~L~lr  240 (1096)
T KOG1859|consen  178 -LMDESLQLLPALESLNLSHNKFT-KVD--NLRRLPKLKHLDLSYNC------------LR-HVPQLSMVGCKLQLLNLR  240 (1096)
T ss_pred             -hHHHHHHHHHHhhhhccchhhhh-hhH--HHHhcccccccccccch------------hc-cccccchhhhhheeeeec
Confidence             33444555556666666666665 222  34455566665555544            43 33322211 267788888


Q ss_pred             CCcccCccccc-CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcc
Q 040876          288 SNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       288 ~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      +|.++...... +++|+.||+++|-+.+-- + + ..+..+..|+.|.|.+|++
T Consensus       241 nN~l~tL~gie~LksL~~LDlsyNll~~hs-e-L-~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  241 NNALTTLRGIENLKSLYGLDLSYNLLSEHS-E-L-EPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             ccHHHhhhhHHhhhhhhccchhHhhhhcch-h-h-hHHHHHHHHHHHhhcCCcc
Confidence            88777543332 677788888888776531 1 1 2345667777888888775

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.29  E-value=1.2e-07  Score=82.78  Aligned_cols=86  Identities=26%  Similarity=0.304  Sum_probs=65.2

Q ss_pred             CCccEEEeecCcccc--ccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCe
Q 040876          171 KGLEILVLRSSSISG--HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV  248 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~--~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~  248 (343)
                      +.++.+||.+|.|+.  .+...+.+++.|++|+++.|.+...|-..-....+|++|.|.+..+...-....+..++.++.
T Consensus        71 ~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vte  150 (418)
T KOG2982|consen   71 TDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTE  150 (418)
T ss_pred             hhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhh
Confidence            788999999999983  444556789999999999999875443221456789999999988865544446677888888


Q ss_pred             EEecCcee
Q 040876          249 FSVNENNL  256 (343)
Q Consensus       249 L~l~~n~l  256 (343)
                      |+++.|.+
T Consensus       151 lHmS~N~~  158 (418)
T KOG2982|consen  151 LHMSDNSL  158 (418)
T ss_pred             hhhccchh
Confidence            88888854

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.26  E-value=5.2e-07  Score=92.40  Aligned_cols=69  Identities=30%  Similarity=0.372  Sum_probs=55.8

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCcc
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK  230 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~  230 (343)
                      +.+|+.++++  -+|++|+++++.+. .+|..+.+++.|.+|++..+.....+|.....+.+|++|.+..-.
T Consensus       585 ~~LP~~I~~L--i~LryL~L~~t~I~-~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  585 SKLPSSIGEL--VHLRYLDLSDTGIS-HLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSA  653 (889)
T ss_pred             CcCChHHhhh--hhhhcccccCCCcc-ccchHHHHHHhhheeccccccccccccchhhhcccccEEEeeccc
Confidence            5788888888  88888888888888 788888888888898888877665666666668888888876554

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

Probab=98.22  E-value=4.2e-08  Score=85.58  Aligned_cols=165  Identities=18%  Similarity=0.143  Sum_probs=112.4

Q ss_pred             CCccEEEeecCcccc-ccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCcc-CccccChHhhhcCCCCCe
Q 040876          171 KGLEILVLRSSSISG-HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK-LNGTLSEIHFVNLTKLSV  248 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~-~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~-l~g~~p~~~~~~l~~L~~  248 (343)
                      +.||+|||++..|+. .+-..+..+.+|+.|.+.++.+...+...+++-..|+.|+++.+. ++..-....+.+++.|..
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            468999999988873 333446778899999999999998888888999999999998763 442222225678899999


Q ss_pred             EEecCceee--------------EeEEeccCCc--c-cccCCCccccc-CCCeEeCcCCcccCc--cccc--CCCCcEEE
Q 040876          249 FSVNENNLT--------------LKFLDLGENQ--I-HGEMTNLTNAT-QLWYLRLHSNNFSGP--LSLI--SSNLVYLD  306 (343)
Q Consensus       249 L~l~~n~l~--------------l~~L~ls~n~--l-~~~~~~~~~~~-~L~~L~Ls~N~l~~~--~~~~--~~~L~~L~  306 (343)
                      |+++.+.++              ++.|++++..  + ...+......+ +|..|||++|..-..  +...  ++.|++|.
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lS  344 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLS  344 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeee
Confidence            999988764              3346665542  1 11222222233 889999998765432  1111  67889999


Q ss_pred             ccCCccccccCchhhccCCccccCceEecCCC
Q 040876          307 LFNNSFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       307 Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      ++.|.  +.+|..+ -.+...|.|.+||+-+.
T Consensus       345 lsRCY--~i~p~~~-~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  345 LSRCY--DIIPETL-LELNSKPSLVYLDVFGC  373 (419)
T ss_pred             hhhhc--CCChHHe-eeeccCcceEEEEeccc
Confidence            98887  3444333 34577888888887653

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

Probab=98.07  E-value=3.4e-06  Score=52.93  Aligned_cols=36  Identities=39%  Similarity=0.591  Sum_probs=17.7

Q ss_pred             CccEEEeecCccccccchhccCCCCCCEEECcCCccc
Q 040876          172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV  208 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  208 (343)
                      +|++|++++|+|+ .+|+.++++++|++|++++|+++
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            4555555555555 34444555555555555555554

...

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

Probab=98.07  E-value=4.8e-06  Score=52.22  Aligned_cols=41  Identities=44%  Similarity=0.664  Sum_probs=34.5

Q ss_pred             CCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh
Q 040876          195 KNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       195 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~  237 (343)
                      ++|++|++++|+|+ .+|..++++++|++|++++|+++ .++.
T Consensus         1 ~~L~~L~l~~N~i~-~l~~~l~~l~~L~~L~l~~N~i~-~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQIT-DLPPELSNLPNLETLNLSNNPIS-DISP   41 (44)
T ss_dssp             TT-SEEEETSSS-S-SHGGHGTTCTTSSEEEETSSCCS-BEGG
T ss_pred             CcceEEEccCCCCc-ccCchHhCCCCCCEEEecCCCCC-CCcC
Confidence            57999999999999 67877999999999999999998 5553

...

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.95  E-value=4.2e-05  Score=71.23  Aligned_cols=132  Identities=14%  Similarity=0.155  Sum_probs=81.9

Q ss_pred             hhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCc-cCccccChHhh
Q 040876          162 FDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN-KLNGTLSEIHF  240 (343)
Q Consensus       162 p~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N-~l~g~~p~~~~  240 (343)
                      -..+..+  .+++.|++++|.++ .+|. +  ..+|++|.++++.--..+|..+  .++|+.|++++| .+. .+|.   
T Consensus        45 ~~r~~~~--~~l~~L~Is~c~L~-sLP~-L--P~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~-sLP~---  112 (426)
T PRK15386         45 TPQIEEA--RASGRLYIKDCDIE-SLPV-L--PNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEIS-GLPE---  112 (426)
T ss_pred             HHHHHHh--cCCCEEEeCCCCCc-ccCC-C--CCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccc-cccc---
Confidence            3345667  88999999999888 5662 2  2469999998754333666554  358999999988 554 5664   


Q ss_pred             hcCCCCCeEEecCceee--------EeEEeccCCc-cc-ccCCCccccc-CCCeEeCcCCcccCcccccCCCCcEEEccC
Q 040876          241 VNLTKLSVFSVNENNLT--------LKFLDLGENQ-IH-GEMTNLTNAT-QLWYLRLHSNNFSGPLSLISSNLVYLDLFN  309 (343)
Q Consensus       241 ~~l~~L~~L~l~~n~l~--------l~~L~ls~n~-l~-~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~  309 (343)
                          .|+.|++..+...        ++.|.+.+++ .. ..+|.  ..+ +|++|++++|.....++....+|+.|+++.
T Consensus       113 ----sLe~L~L~~n~~~~L~~LPssLk~L~I~~~n~~~~~~lp~--~LPsSLk~L~Is~c~~i~LP~~LP~SLk~L~ls~  186 (426)
T PRK15386        113 ----SVRSLEIKGSATDSIKNVPNGLTSLSINSYNPENQARIDN--LISPSLKTLSLTGCSNIILPEKLPESLQSITLHI  186 (426)
T ss_pred             ----ccceEEeCCCCCcccccCcchHhheecccccccccccccc--ccCCcccEEEecCCCcccCcccccccCcEEEecc
Confidence                3566666655431        3445553322 11 01111  123 788888888876643333456788888877


Q ss_pred             Cc
Q 040876          310 NS  311 (343)
Q Consensus       310 N~  311 (343)
                      +.
T Consensus       187 n~  188 (426)
T PRK15386        187 EQ  188 (426)
T ss_pred             cc
Confidence            63

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

Probab=97.95  E-value=8.7e-07  Score=68.97  Aligned_cols=89  Identities=28%  Similarity=0.334  Sum_probs=66.3

Q ss_pred             hhhhhcCCCCCccEEEeecCccccccchhc-cCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhh
Q 040876          162 FDIFSGCVSKGLEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHF  240 (343)
Q Consensus       162 p~~l~~l~~~~L~~L~L~~n~l~~~~p~~l-~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~  240 (343)
                      +..+...  ..|+..+|++|.+. ..|+.| ...+.+++|++++|.++ .+|..++.++.|+.++++.|.+. ..|. .+
T Consensus        46 vy~l~~~--~el~~i~ls~N~fk-~fp~kft~kf~t~t~lNl~~neis-dvPeE~Aam~aLr~lNl~~N~l~-~~p~-vi  119 (177)
T KOG4579|consen   46 VYMLSKG--YELTKISLSDNGFK-KFPKKFTIKFPTATTLNLANNEIS-DVPEELAAMPALRSLNLRFNPLN-AEPR-VI  119 (177)
T ss_pred             HHHHhCC--ceEEEEecccchhh-hCCHHHhhccchhhhhhcchhhhh-hchHHHhhhHHhhhcccccCccc-cchH-HH
Confidence            3344445  66777889999988 455555 44568889999999988 78888999999999999999987 6676 55


Q ss_pred             hcCCCCCeEEecCcee
Q 040876          241 VNLTKLSVFSVNENNL  256 (343)
Q Consensus       241 ~~l~~L~~L~l~~n~l  256 (343)
                      ..+.++..|+..+|.+
T Consensus       120 ~~L~~l~~Lds~~na~  135 (177)
T KOG4579|consen  120 APLIKLDMLDSPENAR  135 (177)
T ss_pred             HHHHhHHHhcCCCCcc
Confidence            5577777777666543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.94  E-value=4.5e-06  Score=73.13  Aligned_cols=191  Identities=21%  Similarity=0.179  Sum_probs=103.3

Q ss_pred             CCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccc
Q 040876          130 ASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV  208 (343)
Q Consensus       130 ~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  208 (343)
                      ..++.+||.+| ++.              +.+|..-+.++  +.|++|+++.|.+...+...-....+|+.|-|.+..+.
T Consensus        71 ~~v~elDL~~N~iSd--------------WseI~~ile~l--P~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~  134 (418)
T KOG2982|consen   71 TDVKELDLTGNLISD--------------WSEIGAILEQL--PALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLS  134 (418)
T ss_pred             hhhhhhhcccchhcc--------------HHHHHHHHhcC--ccceEeeccCCcCCCccccCcccccceEEEEEcCCCCC
Confidence            34666677666 552              24566667788  99999999999988544332245678999999888776


Q ss_pred             ccCC-ccccCCCCCcEEEccCccCccc-cChHhhhc-CCCCCeEEecCceee--------------EeEEeccCCccccc
Q 040876          209 GLVP-LSLNELSKLRILHLSDNKLNGT-LSEIHFVN-LTKLSVFSVNENNLT--------------LKFLDLGENQIHGE  271 (343)
Q Consensus       209 ~~~p-~~l~~l~~L~~L~l~~N~l~g~-~p~~~~~~-l~~L~~L~l~~n~l~--------------l~~L~ls~n~l~~~  271 (343)
                      .... ..+..+|.++.|.++.|.+.-. +.+..... -+.+++++.-.|...              ...+.+..|.+...
T Consensus       135 w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~  214 (418)
T KOG2982|consen  135 WTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTE  214 (418)
T ss_pred             hhhhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccch
Confidence            4433 3456788888888888854310 11101111 123344444333221              12233334433321


Q ss_pred             CCC-cccc-cCCCeEeCcCCcccCc--ccc--cCCCCcEEEccCCccccccCchhhc--cCCccccCceEecC
Q 040876          272 MTN-LTNA-TQLWYLRLHSNNFSGP--LSL--ISSNLVYLDLFNNSFLGSISHFWCY--RSNETKRLRALSLG  336 (343)
Q Consensus       272 ~~~-~~~~-~~L~~L~Ls~N~l~~~--~~~--~~~~L~~L~Ls~N~l~~~~~~~l~~--~l~~l~~L~~L~ls  336 (343)
                      -.. .... +.+-.|+|+.|++..-  +..  .++.|+.|.+++|.+.+.....-+.  -++++++++.|+=+
T Consensus       215 s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  215 SSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             hhcccCCCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence            110 0111 1344667777776541  111  1677777788887776544321111  23566777766543

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

Probab=97.93  E-value=1.3e-06  Score=67.93  Aligned_cols=130  Identities=17%  Similarity=0.198  Sum_probs=90.6

Q ss_pred             CCccEEEeecCccccccchh---ccCCCCCCEEECcCCcccccCCcccc-CCCCCcEEEccCccCccccChHhhhcCCCC
Q 040876          171 KGLEILVLRSSSISGHLTEQ---IGHFKNLDTLDLGNNSIVGLVPLSLN-ELSKLRILHLSDNKLNGTLSEIHFVNLTKL  246 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~---l~~l~~L~~L~Ls~N~l~~~~p~~l~-~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L  246 (343)
                      ..+..++|++|++. .++..   +.+...|+..+|++|.+. .+|+.|. ..+.+++|++++|.++ .+|. .+..++.|
T Consensus        27 kE~h~ldLssc~lm-~i~davy~l~~~~el~~i~ls~N~fk-~fp~kft~kf~t~t~lNl~~neis-dvPe-E~Aam~aL  102 (177)
T KOG4579|consen   27 KELHFLDLSSCQLM-YIADAVYMLSKGYELTKISLSDNGFK-KFPKKFTIKFPTATTLNLANNEIS-DVPE-ELAAMPAL  102 (177)
T ss_pred             HHhhhcccccchhh-HHHHHHHHHhCCceEEEEecccchhh-hCCHHHhhccchhhhhhcchhhhh-hchH-HHhhhHHh
Confidence            45667888988876 45544   445567777899999998 6676665 4568999999999998 8999 69999999


Q ss_pred             CeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CC-CCcEEEccCCccccccC
Q 040876          247 SVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SS-NLVYLDLFNNSFLGSIS  317 (343)
Q Consensus       247 ~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~-~L~~L~Ls~N~l~~~~~  317 (343)
                      +.|+++.|.+.             ..|..+... ++..|+..+|.+....-+. .+ ..-..++.++.+.+..+
T Consensus       103 r~lNl~~N~l~-------------~~p~vi~~L~~l~~Lds~~na~~eid~dl~~s~~~al~~lgnepl~~~~~  163 (177)
T KOG4579|consen  103 RSLNLRFNPLN-------------AEPRVIAPLIKLDMLDSPENARAEIDVDLFYSSLPALIKLGNEPLGDETK  163 (177)
T ss_pred             hhcccccCccc-------------cchHHHHHHHhHHHhcCCCCccccCcHHHhccccHHHHHhcCCcccccCc
Confidence            99888876653             334444445 8888888888776533222 22 22233456666766544

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

Probab=97.80  E-value=1.7e-06  Score=75.69  Aligned_cols=148  Identities=23%  Similarity=0.249  Sum_probs=99.7

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCc-ccccC-CccccCCCCCcEEEccCccCccccCh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNS-IVGLV-PLSLNELSKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~~~-p~~l~~l~~L~~L~l~~N~l~g~~p~  237 (343)
                      .+-..+..|  .+|+.|.+.++++...+...+++-.+|+.|+++.+. ++.-- .--+.+++.|..|+++.+.+..+...
T Consensus       201 tl~~iLs~C--~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vt  278 (419)
T KOG2120|consen  201 TLHGILSQC--SKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVT  278 (419)
T ss_pred             HHHHHHHHH--HhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhh
Confidence            455567778  889999999999998888888888999999998764 33111 11246788899999998877644332


Q ss_pred             Hhhhc-CCCCCeEEecCceee---------------EeEEeccCCc-ccc-cCCCcccccCCCeEeCcCCcccCccccc-
Q 040876          238 IHFVN-LTKLSVFSVNENNLT---------------LKFLDLGENQ-IHG-EMTNLTNATQLWYLRLHSNNFSGPLSLI-  298 (343)
Q Consensus       238 ~~~~~-l~~L~~L~l~~n~l~---------------l~~L~ls~n~-l~~-~~~~~~~~~~L~~L~Ls~N~l~~~~~~~-  298 (343)
                      ..+.+ -++|+.|++++..-.               +..|||+.|. ++. .+...++...|++|.++.|..-  +|.. 
T Consensus       279 v~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i--~p~~~  356 (419)
T KOG2120|consen  279 VAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDI--IPETL  356 (419)
T ss_pred             HHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCC--ChHHe
Confidence            22222 256777777775321               4557887663 443 2233344448999999998653  3332 


Q ss_pred             -----CCCCcEEEccCCc
Q 040876          299 -----SSNLVYLDLFNNS  311 (343)
Q Consensus       299 -----~~~L~~L~Ls~N~  311 (343)
                           .+.|.||++.++-
T Consensus       357 ~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  357 LELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             eeeccCcceEEEEecccc
Confidence                 6789999987665

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.78  E-value=1.9e-05  Score=81.12  Aligned_cols=89  Identities=26%  Similarity=0.361  Sum_probs=77.2

Q ss_pred             hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhc
Q 040876          163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVN  242 (343)
Q Consensus       163 ~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~  242 (343)
                      +.|..+  +.|++|||++|.--+.+|..++.+-+|++|++++..+. .+|.+++++++|.+|++..+.....+|. ....
T Consensus       565 ~ff~~m--~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~-~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~-i~~~  640 (889)
T KOG4658|consen  565 EFFRSL--PLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGIS-HLPSGLGNLKKLIYLNLEVTGRLESIPG-ILLE  640 (889)
T ss_pred             HHHhhC--cceEEEECCCCCccCcCChHHhhhhhhhcccccCCCcc-ccchHHHHHHhhheeccccccccccccc-hhhh
Confidence            346668  99999999998877899999999999999999999999 8999999999999999998876545554 6667


Q ss_pred             CCCCCeEEecCce
Q 040876          243 LTKLSVFSVNENN  255 (343)
Q Consensus       243 l~~L~~L~l~~n~  255 (343)
                      +++|++|.+....
T Consensus       641 L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  641 LQSLRVLRLPRSA  653 (889)
T ss_pred             cccccEEEeeccc
Confidence            9999999987654

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

Probab=97.66  E-value=3.1e-05  Score=77.63  Aligned_cols=128  Identities=17%  Similarity=0.297  Sum_probs=79.6

Q ss_pred             cchhhhhhcCCCCCccEEEeecCcccc-ccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISG-HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~-~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~  237 (343)
                      ...|..++.++ |.|+.|.+.+-.+.. ..-....++++|..||+|+.+++..  .+++++++|++|.+.+=.+...---
T Consensus       137 ~~W~~kig~~L-PsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl--~GIS~LknLq~L~mrnLe~e~~~~l  213 (699)
T KOG3665|consen  137 NGWPKKIGTML-PSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL--SGISRLKNLQVLSMRNLEFESYQDL  213 (699)
T ss_pred             ccHHHHHhhhC-cccceEEecCceecchhHHHHhhccCccceeecCCCCccCc--HHHhccccHHHHhccCCCCCchhhH
Confidence            36677776654 888888888766542 2233345778889999999888744  6788888888888877666521111


Q ss_pred             HhhhcCCCCCeEEecCceeeEeEEeccCCccccc-CCCcccccCCCeEeCcCCcccCcc
Q 040876          238 IHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGE-MTNLTNATQLWYLRLHSNNFSGPL  295 (343)
Q Consensus       238 ~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~-~~~~~~~~~L~~L~Ls~N~l~~~~  295 (343)
                      ..+.++++|+.||+|.....-.      .++... +..-...+.|+.||.|+..+.+.+
T Consensus       214 ~~LF~L~~L~vLDIS~~~~~~~------~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~  266 (699)
T KOG3665|consen  214 IDLFNLKKLRVLDISRDKNNDD------TKIIEQYLECGMVLPELRFLDCSGTDINEEI  266 (699)
T ss_pred             HHHhcccCCCeeeccccccccc------hHHHHHHHHhcccCccccEEecCCcchhHHH
Confidence            1455788888888887543210      011110 000111227888888888777533

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

Probab=97.53  E-value=7.9e-05  Score=74.73  Aligned_cols=93  Identities=24%  Similarity=0.312  Sum_probs=66.2

Q ss_pred             hhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccc-cCCccccCCCCCcEEEccCccCccc--cCh
Q 040876          161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVG-LVPLSLNELSKLRILHLSDNKLNGT--LSE  237 (343)
Q Consensus       161 ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~-~~p~~l~~l~~L~~L~l~~N~l~g~--~p~  237 (343)
                      +-....++  ++|..||+|+++++..  ..++++++|+.|.+.+=.+.. ..-..+.++++|++||+|.......  +..
T Consensus       165 F~~lc~sF--pNL~sLDIS~TnI~nl--~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~  240 (699)
T KOG3665|consen  165 FSQLCASF--PNLRSLDISGTNISNL--SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIE  240 (699)
T ss_pred             HHHHhhcc--CccceeecCCCCccCc--HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHH
Confidence            33444566  9999999999999843  668999999999998876652 2224678899999999998765421  111


Q ss_pred             H---hhhcCCCCCeEEecCceee
Q 040876          238 I---HFVNLTKLSVFSVNENNLT  257 (343)
Q Consensus       238 ~---~~~~l~~L~~L~l~~n~l~  257 (343)
                      .   .-..+|.|+.||.+++.+.
T Consensus       241 qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  241 QYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             HHHHhcccCccccEEecCCcchh
Confidence            0   1134788888888876654

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

Probab=97.48  E-value=0.0002  Score=59.63  Aligned_cols=59  Identities=24%  Similarity=0.390  Sum_probs=32.8

Q ss_pred             CCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCcee
Q 040876          195 KNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNL  256 (343)
Q Consensus       195 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l  256 (343)
                      .+...+||++|.+...  ..|..++.|.+|.+++|+|+ .|.+..-.-++.|..|.+.+|.+
T Consensus        42 d~~d~iDLtdNdl~~l--~~lp~l~rL~tLll~nNrIt-~I~p~L~~~~p~l~~L~LtnNsi  100 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKL--DNLPHLPRLHTLLLNNNRIT-RIDPDLDTFLPNLKTLILTNNSI  100 (233)
T ss_pred             cccceecccccchhhc--ccCCCccccceEEecCCcce-eeccchhhhccccceEEecCcch
Confidence            4556677777766522  24556667777777777776 33331222345555555555443

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

Probab=97.24  E-value=0.00048  Score=57.38  Aligned_cols=84  Identities=24%  Similarity=0.353  Sum_probs=62.2

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh-HhhhcCCCCCeE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE-IHFVNLTKLSVF  249 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~-~~~~~l~~L~~L  249 (343)
                      .....+||++|.+. .+ ..+..++.|.+|.+++|.|+..-|.--..+++|+.|.+.+|.+. .+.+ ..+..+++|++|
T Consensus        42 d~~d~iDLtdNdl~-~l-~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~-~l~dl~pLa~~p~L~~L  118 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLR-KL-DNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQ-ELGDLDPLASCPKLEYL  118 (233)
T ss_pred             cccceecccccchh-hc-ccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchh-hhhhcchhccCCcccee
Confidence            46678899999887 23 34778899999999999999555543345678999999999886 3221 135678899999


Q ss_pred             EecCceee
Q 040876          250 SVNENNLT  257 (343)
Q Consensus       250 ~l~~n~l~  257 (343)
                      .+-+|.++
T Consensus       119 tll~Npv~  126 (233)
T KOG1644|consen  119 TLLGNPVE  126 (233)
T ss_pred             eecCCchh
Confidence            88887764

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.16  E-value=0.0018  Score=60.47  Aligned_cols=130  Identities=17%  Similarity=0.179  Sum_probs=82.9

Q ss_pred             ccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCc-eee-----EeEEecc
Q 040876          191 IGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNEN-NLT-----LKFLDLG  264 (343)
Q Consensus       191 l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n-~l~-----l~~L~ls  264 (343)
                      +..+.+++.|++++|.++ .+|.   -..+|++|.++++.--..+|. .+  .++|+.|++++| .+.     ++.|++.
T Consensus        48 ~~~~~~l~~L~Is~c~L~-sLP~---LP~sLtsL~Lsnc~nLtsLP~-~L--P~nLe~L~Ls~Cs~L~sLP~sLe~L~L~  120 (426)
T PRK15386         48 IEEARASGRLYIKDCDIE-SLPV---LPNELTEITIENCNNLTTLPG-SI--PEGLEKLTVCHCPEISGLPESVRSLEIK  120 (426)
T ss_pred             HHHhcCCCEEEeCCCCCc-ccCC---CCCCCcEEEccCCCCcccCCc-hh--hhhhhheEccCcccccccccccceEEeC
Confidence            445688999999999888 6672   234799999988543236675 33  358899999988 442     5667777


Q ss_pred             CCcccccCCCccccc-CCCeEeCcCCccc--Cccccc-CCCCcEEEccCCccccccCchhhccCCccccCceEecCCC
Q 040876          265 ENQIHGEMTNLTNAT-QLWYLRLHSNNFS--GPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       265 ~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~--~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      .+.... +   ...+ +|+.|.+.+++..  ..+|.. .++|++|++++|.... .|+.+|      .+|+.|+++.|
T Consensus       121 ~n~~~~-L---~~LPssLk~L~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~i~-LP~~LP------~SLk~L~ls~n  187 (426)
T PRK15386        121 GSATDS-I---KNVPNGLTSLSINSYNPENQARIDNLISPSLKTLSLTGCSNII-LPEKLP------ESLQSITLHIE  187 (426)
T ss_pred             CCCCcc-c---ccCcchHhheeccccccccccccccccCCcccEEEecCCCccc-Cccccc------ccCcEEEeccc
Confidence            655432 1   1222 6778877543311  122322 4789999999988652 444444      35677776655

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

Probab=96.65  E-value=0.0011  Score=57.39  Aligned_cols=60  Identities=23%  Similarity=0.414  Sum_probs=36.2

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCC--cccccCCccccCCCCCcEEEccCccCc
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNN--SIVGLVPLSLNELSKLRILHLSDNKLN  232 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N--~l~~~~p~~l~~l~~L~~L~l~~N~l~  232 (343)
                      ..|+.|.+.+..++..  ..+..+++|+.|.++.|  ++.+.++.....+++|+++++++|++.
T Consensus        43 ~~le~ls~~n~gltt~--~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~  104 (260)
T KOG2739|consen   43 VELELLSVINVGLTTL--TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIK  104 (260)
T ss_pred             cchhhhhhhccceeec--ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccc
Confidence            4555555555555521  22445667777777777  555555554555677777777777764

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

Probab=96.30  E-value=0.0022  Score=55.55  Aligned_cols=60  Identities=30%  Similarity=0.362  Sum_probs=33.8

Q ss_pred             CCccEEEeecC--ccccccchhccCCCCCCEEECcCCcccccCCcc---ccCCCCCcEEEccCccCc
Q 040876          171 KGLEILVLRSS--SISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLS---LNELSKLRILHLSDNKLN  232 (343)
Q Consensus       171 ~~L~~L~L~~n--~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~---l~~l~~L~~L~l~~N~l~  232 (343)
                      ++|++|.++.|  ++.+.++.-...+++|++|++++|++..  ++.   +..+.+|..|++.+|..+
T Consensus        65 p~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~--lstl~pl~~l~nL~~Ldl~n~~~~  129 (260)
T KOG2739|consen   65 PKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKD--LSTLRPLKELENLKSLDLFNCSVT  129 (260)
T ss_pred             chhhhhcccCCcccccccceehhhhCCceeEEeecCCcccc--ccccchhhhhcchhhhhcccCCcc
Confidence            56666666666  4554444444445666666776666641  222   234455666666666544

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.01  E-value=0.00028  Score=61.58  Aligned_cols=53  Identities=21%  Similarity=0.300  Sum_probs=23.5

Q ss_pred             CCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCc
Q 040876          197 LDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNEN  254 (343)
Q Consensus       197 L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n  254 (343)
                      .+.|+.-++.++..  ....+|+.|++|.|+-|+|+ .+.  .+..+++|+.|.|..|
T Consensus        21 vkKLNcwg~~L~DI--sic~kMp~lEVLsLSvNkIs-sL~--pl~rCtrLkElYLRkN   73 (388)
T KOG2123|consen   21 VKKLNCWGCGLDDI--SICEKMPLLEVLSLSVNKIS-SLA--PLQRCTRLKELYLRKN   73 (388)
T ss_pred             hhhhcccCCCccHH--HHHHhcccceeEEeeccccc-cch--hHHHHHHHHHHHHHhc
Confidence            34444444444422  12334555555555555554 332  2344444444444443

>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=95.74  E-value=0.0038  Score=32.60  Aligned_cols=11  Identities=27%  Similarity=0.434  Sum_probs=4.5

Q ss_pred             cEEEeecCccc
Q 040876          174 EILVLRSSSIS  184 (343)
Q Consensus       174 ~~L~L~~n~l~  184 (343)
                      ++|++++|+++
T Consensus         3 ~~Ldls~n~l~   13 (22)
T PF00560_consen    3 EYLDLSGNNLT   13 (22)
T ss_dssp             SEEEETSSEES
T ss_pred             cEEECCCCcCE
Confidence            34444444443

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=95.72  E-value=6.6e-05  Score=72.09  Aligned_cols=172  Identities=22%  Similarity=0.161  Sum_probs=91.2

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccch----hccCC-CCCCEEECcCCccccc----CCccccCCCCCcEEEccCcc
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTE----QIGHF-KNLDTLDLGNNSIVGL----VPLSLNELSKLRILHLSDNK  230 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~----~l~~l-~~L~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~l~~N~  230 (343)
                      .+-..+...  ..|+.|++++|.+.+.--.    .+... ..+++|++..|.++..    +.+.+.....++.++++.|.
T Consensus       106 ~l~~~l~t~--~~L~~L~l~~n~l~~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~l~~~L~~~~~l~~l~l~~n~  183 (478)
T KOG4308|consen  106 ELAQALKTL--PTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPLAAVLEKNEHLTELDLSLNG  183 (478)
T ss_pred             HHHHHhccc--ccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHHHHHHhcccchhHHHHHhcc
Confidence            344445555  6666666666666532211    12222 3455566666655432    23344445566666666666


Q ss_pred             Cc--cc--cChHhhh----cCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc--CCCeEeCcCCcccCcccc---
Q 040876          231 LN--GT--LSEIHFV----NLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT--QLWYLRLHSNNFSGPLSL---  297 (343)
Q Consensus       231 l~--g~--~p~~~~~----~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~--~L~~L~Ls~N~l~~~~~~---  297 (343)
                      +.  |.  ++. .+.    ...++++|++.+|.++-.    .-.    .+...+...  .+..+++..|.+.+....   
T Consensus       184 l~~~g~~~l~~-~l~~~~~~~~~le~L~L~~~~~t~~----~c~----~l~~~l~~~~~~~~el~l~~n~l~d~g~~~L~  254 (478)
T KOG4308|consen  184 LIELGLLVLSQ-ALESAASPLSSLETLKLSRCGVTSS----SCA----LLDEVLASGESLLRELDLASNKLGDVGVEKLL  254 (478)
T ss_pred             cchhhhHHHhh-hhhhhhcccccHHHHhhhhcCcChH----HHH----HHHHHHhccchhhHHHHHHhcCcchHHHHHHH
Confidence            53  10  111 222    234455555554443200    000    001111112  256678888877643111   


Q ss_pred             -c---C-CCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          298 -I---S-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       298 -~---~-~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                       .   + ..++.++++.|.|+......++..+..+++++.+.+++|.+..
T Consensus       255 ~~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l~~  304 (478)
T KOG4308|consen  255 PCLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPLTD  304 (478)
T ss_pred             HHhcccchhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCcccc
Confidence             1   2 4567888888888887777777777778888888888887754

>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=95.64  E-value=0.0072  Score=31.53  Aligned_cols=22  Identities=41%  Similarity=0.699  Sum_probs=18.1

Q ss_pred             CCCEEECcCCcccccCCccccCC
Q 040876          196 NLDTLDLGNNSIVGLVPLSLNEL  218 (343)
Q Consensus       196 ~L~~L~Ls~N~l~~~~p~~l~~l  218 (343)
                      +|++||+++|+++ .+|.+++++
T Consensus         1 ~L~~Ldls~n~l~-~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLT-SIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEES-EEGTTTTT-
T ss_pred             CccEEECCCCcCE-eCChhhcCC
Confidence            5899999999999 888877653

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

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

Probab=95.39  E-value=0.047  Score=42.39  Aligned_cols=82  Identities=15%  Similarity=0.355  Sum_probs=36.6

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      +.++  ++|+.+.+..+ +...-...+.+++.++.+.+.+ .+...-...+..+++++.+.+..+ +. .++...|.+. 
T Consensus        31 F~~~--~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~~~~-~~-~i~~~~f~~~-  103 (129)
T PF13306_consen   31 FSNC--TSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNIDIPSN-IT-EIGSSSFSNC-  103 (129)
T ss_dssp             TTT---TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEEETTT--B-EEHTTTTTT--
T ss_pred             cccc--ccccccccccc-ccccceeeeecccccccccccc-cccccccccccccccccccccCcc-cc-EEchhhhcCC-
Confidence            4445  56666666553 4433333455565667776654 332222334555666777766554 33 4444355554 


Q ss_pred             CCCeEEecC
Q 040876          245 KLSVFSVNE  253 (343)
Q Consensus       245 ~L~~L~l~~  253 (343)
                      .++.+.+..
T Consensus       104 ~l~~i~~~~  112 (129)
T PF13306_consen  104 NLKEINIPS  112 (129)
T ss_dssp             T--EEE-TT
T ss_pred             CceEEEECC
Confidence            666665543

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=94.49  E-value=0.00029  Score=67.73  Aligned_cols=135  Identities=22%  Similarity=0.215  Sum_probs=82.8

Q ss_pred             CCccEEEeecCcccc----ccchhccCCCCCCEEECcCCcccc----cCCcccc----CCCCCcEEEccCccCccccC--
Q 040876          171 KGLEILVLRSSSISG----HLTEQIGHFKNLDTLDLGNNSIVG----LVPLSLN----ELSKLRILHLSDNKLNGTLS--  236 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~Ls~N~l~~----~~p~~l~----~l~~L~~L~l~~N~l~g~~p--  236 (343)
                      ..+++|++..|.+++    .+...+.....++.++++.|.+..    .++..+.    ...++++|.+.+|.++...-  
T Consensus       144 ~~l~~L~l~~c~l~~~g~~~l~~~L~~~~~l~~l~l~~n~l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~  223 (478)
T KOG4308|consen  144 CLLQTLELVSCSLTSEGAAPLAAVLEKNEHLTELDLSLNGLIELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCAL  223 (478)
T ss_pred             HHHHHHHhhcccccccchHHHHHHHhcccchhHHHHHhcccchhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHH
Confidence            457778888888874    455667778899999999998841    1233333    46789999999998862110  


Q ss_pred             -hHhhhcCCC-CCeEEecCceeeEeEEeccCCccccc-----CCCcccc-cCCCeEeCcCCcccCccccc-------CCC
Q 040876          237 -EIHFVNLTK-LSVFSVNENNLTLKFLDLGENQIHGE-----MTNLTNA-TQLWYLRLHSNNFSGPLSLI-------SSN  301 (343)
Q Consensus       237 -~~~~~~l~~-L~~L~l~~n~l~l~~L~ls~n~l~~~-----~~~~~~~-~~L~~L~Ls~N~l~~~~~~~-------~~~  301 (343)
                       ...+...+. +..|++..|.            +.+.     .|..... ..++.++++.|.++..-...       ++.
T Consensus       224 l~~~l~~~~~~~~el~l~~n~------------l~d~g~~~L~~~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~  291 (478)
T KOG4308|consen  224 LDEVLASGESLLRELDLASNK------------LGDVGVEKLLPCLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQ  291 (478)
T ss_pred             HHHHHhccchhhHHHHHHhcC------------cchHHHHHHHHHhcccchhhhhhhhhcCCccccchHHHHHHHhhhHH
Confidence             112233333 4445555544            4321     1211222 16778888888887533322       457


Q ss_pred             CcEEEccCCccccccC
Q 040876          302 LVYLDLFNNSFLGSIS  317 (343)
Q Consensus       302 L~~L~Ls~N~l~~~~~  317 (343)
                      ++++.++.|.+.+...
T Consensus       292 l~~l~l~~n~l~~~~~  307 (478)
T KOG4308|consen  292 LEELSLSNNPLTDYGV  307 (478)
T ss_pred             HHHhhcccCccccHHH
Confidence            7888888888766543

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.78  E-value=0.0038  Score=54.70  Aligned_cols=78  Identities=24%  Similarity=0.324  Sum_probs=34.8

Q ss_pred             CccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh-HhhhcCCCCCeEE
Q 040876          172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE-IHFVNLTKLSVFS  250 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~-~~~~~l~~L~~L~  250 (343)
                      +.+.|++-++.++. + ....+|+.|+.|.||-|+|+..  +.+..+++|++|+|..|.|. .+.+ ..+.++++|+.|.
T Consensus        20 ~vkKLNcwg~~L~D-I-sic~kMp~lEVLsLSvNkIssL--~pl~rCtrLkElYLRkN~I~-sldEL~YLknlpsLr~LW   94 (388)
T KOG2123|consen   20 NVKKLNCWGCGLDD-I-SICEKMPLLEVLSLSVNKISSL--APLQRCTRLKELYLRKNCIE-SLDELEYLKNLPSLRTLW   94 (388)
T ss_pred             HhhhhcccCCCccH-H-HHHHhcccceeEEeeccccccc--hhHHHHHHHHHHHHHhcccc-cHHHHHHHhcCchhhhHh
Confidence            34445555555442 1 1123455555555555555422  22445555555555555544 2221 1234444555444


Q ss_pred             ecCc
Q 040876          251 VNEN  254 (343)
Q Consensus       251 l~~n  254 (343)
                      |..|
T Consensus        95 L~EN   98 (388)
T KOG2123|consen   95 LDEN   98 (388)
T ss_pred             hccC
Confidence            4443

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

Probab=92.86  E-value=0.27  Score=38.05  Aligned_cols=84  Identities=17%  Similarity=0.345  Sum_probs=43.2

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+.++  ++|+.+.+.. .+...-...|..+++|+.+.+..+ +...-...+.++++++.+.+.+ .+. .++...|..+
T Consensus         7 ~F~~~--~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~-~i~~~~F~~~   80 (129)
T PF13306_consen    7 AFYNC--SNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLK-SIGDNAFSNC   80 (129)
T ss_dssp             TTTT---TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT--EE-TTTTTT-
T ss_pred             HHhCC--CCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccc-cccccccccc
Confidence            34555  6788887764 455344455677777888887765 5433334566666788887765 333 4555456667


Q ss_pred             CCCCeEEecC
Q 040876          244 TKLSVFSVNE  253 (343)
Q Consensus       244 ~~L~~L~l~~  253 (343)
                      ++|+.+.+..
T Consensus        81 ~~l~~i~~~~   90 (129)
T PF13306_consen   81 TNLKNIDIPS   90 (129)
T ss_dssp             TTECEEEETT
T ss_pred             ccccccccCc
Confidence            7777766654

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

Probab=92.83  E-value=0.073  Score=25.75  Aligned_cols=11  Identities=64%  Similarity=0.951  Sum_probs=3.4

Q ss_pred             CcEEEccCccC
Q 040876          221 LRILHLSDNKL  231 (343)
Q Consensus       221 L~~L~l~~N~l  231 (343)
                      |++|++++|++
T Consensus         3 L~~L~l~~n~L   13 (17)
T PF13504_consen    3 LRTLDLSNNRL   13 (17)
T ss_dssp             -SEEEETSS--
T ss_pred             cCEEECCCCCC
Confidence            34444444443

...

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

Probab=91.32  E-value=0.0041  Score=53.17  Aligned_cols=88  Identities=15%  Similarity=0.145  Sum_probs=69.3

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+...  +..+.||++.|++. .+...++-++.|..|+++.|.+. ..|+.++....++.+++..|..+ ..|. +++..
T Consensus        37 ei~~~--kr~tvld~~s~r~v-n~~~n~s~~t~~~rl~~sknq~~-~~~~d~~q~~e~~~~~~~~n~~~-~~p~-s~~k~  110 (326)
T KOG0473|consen   37 EIASF--KRVTVLDLSSNRLV-NLGKNFSILTRLVRLDLSKNQIK-FLPKDAKQQRETVNAASHKNNHS-QQPK-SQKKE  110 (326)
T ss_pred             hhhcc--ceeeeehhhhhHHH-hhccchHHHHHHHHHhccHhhHh-hChhhHHHHHHHHHHHhhccchh-hCCc-ccccc
Confidence            44555  78888999988877 45566777788888889888887 77888888888888888888886 7787 78888


Q ss_pred             CCCCeEEecCceee
Q 040876          244 TKLSVFSVNENNLT  257 (343)
Q Consensus       244 ~~L~~L~l~~n~l~  257 (343)
                      +.++.+++..|.++
T Consensus       111 ~~~k~~e~k~~~~~  124 (326)
T KOG0473|consen  111 PHPKKNEQKKTEFF  124 (326)
T ss_pred             CCcchhhhccCcch
Confidence            88888888777654

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

Probab=90.71  E-value=0.27  Score=26.51  Aligned_cols=18  Identities=44%  Similarity=0.660  Sum_probs=10.2

Q ss_pred             CCCcEEEccCccCccccCh
Q 040876          219 SKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       219 ~~L~~L~l~~N~l~g~~p~  237 (343)
                      ++|++|++++|+++ .+|.
T Consensus         2 ~~L~~L~L~~N~l~-~lp~   19 (26)
T smart00369        2 PNLRELDLSNNQLS-SLPP   19 (26)
T ss_pred             CCCCEEECCCCcCC-cCCH
Confidence            45566666666655 5554

>smart00370 LRR Leucine-rich repeats, outliers

Probab=90.71  E-value=0.27  Score=26.51  Aligned_cols=18  Identities=44%  Similarity=0.660  Sum_probs=10.2

Q ss_pred             CCCcEEEccCccCccccCh
Q 040876          219 SKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       219 ~~L~~L~l~~N~l~g~~p~  237 (343)
                      ++|++|++++|+++ .+|.
T Consensus         2 ~~L~~L~L~~N~l~-~lp~   19 (26)
T smart00370        2 PNLRELDLSNNQLS-SLPP   19 (26)
T ss_pred             CCCCEEECCCCcCC-cCCH
Confidence            45566666666655 5554

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

Probab=90.30  E-value=0.011  Score=50.67  Aligned_cols=88  Identities=13%  Similarity=0.060  Sum_probs=68.7

Q ss_pred             cccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchh
Q 040876          111 WLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQ  190 (343)
Q Consensus       111 ~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~  190 (343)
                      .+..+...+.||++.|.             +.                 .+-..++-+  +.+..|+++.|++. .+|..
T Consensus        37 ei~~~kr~tvld~~s~r-------------~v-----------------n~~~n~s~~--t~~~rl~~sknq~~-~~~~d   83 (326)
T KOG0473|consen   37 EIASFKRVTVLDLSSNR-------------LV-----------------NLGKNFSIL--TRLVRLDLSKNQIK-FLPKD   83 (326)
T ss_pred             hhhccceeeeehhhhhH-------------HH-----------------hhccchHHH--HHHHHHhccHhhHh-hChhh
Confidence            36677778888887776             11                 223334445  77888899999888 78898


Q ss_pred             ccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCc
Q 040876          191 IGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN  232 (343)
Q Consensus       191 l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~  232 (343)
                      +++...+..+++..|..+ ..|.+++..+.++++++-.|.+.
T Consensus        84 ~~q~~e~~~~~~~~n~~~-~~p~s~~k~~~~k~~e~k~~~~~  124 (326)
T KOG0473|consen   84 AKQQRETVNAASHKNNHS-QQPKSQKKEPHPKKNEQKKTEFF  124 (326)
T ss_pred             HHHHHHHHHHHhhccchh-hCCccccccCCcchhhhccCcch
Confidence            998888999999888887 78889999999999998888765

>smart00370 LRR Leucine-rich repeats, outliers

Probab=89.29  E-value=0.35  Score=26.01  Aligned_cols=18  Identities=44%  Similarity=0.639  Sum_probs=10.2

Q ss_pred             CCCCEEECcCCcccccCCc
Q 040876          195 KNLDTLDLGNNSIVGLVPL  213 (343)
Q Consensus       195 ~~L~~L~Ls~N~l~~~~p~  213 (343)
                      ++|++|+|++|+++ .+|.
T Consensus         2 ~~L~~L~L~~N~l~-~lp~   19 (26)
T smart00370        2 PNLRELDLSNNQLS-SLPP   19 (26)
T ss_pred             CCCCEEECCCCcCC-cCCH
Confidence            45666666666665 3443

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

Probab=89.29  E-value=0.35  Score=26.01  Aligned_cols=18  Identities=44%  Similarity=0.639  Sum_probs=10.2

Q ss_pred             CCCCEEECcCCcccccCCc
Q 040876          195 KNLDTLDLGNNSIVGLVPL  213 (343)
Q Consensus       195 ~~L~~L~Ls~N~l~~~~p~  213 (343)
                      ++|++|+|++|+++ .+|.
T Consensus         2 ~~L~~L~L~~N~l~-~lp~   19 (26)
T smart00369        2 PNLRELDLSNNQLS-SLPP   19 (26)
T ss_pred             CCCCEEECCCCcCC-cCCH
Confidence            45666666666665 3443

>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=86.11  E-value=0.2  Score=26.49  Aligned_cols=17  Identities=29%  Similarity=0.301  Sum_probs=7.8

Q ss_pred             CCccEEEeecCcccccc
Q 040876          171 KGLEILVLRSSSISGHL  187 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~  187 (343)
                      ++|++|++++|+|+...
T Consensus         2 ~~L~~L~l~~n~i~~~g   18 (24)
T PF13516_consen    2 PNLETLDLSNNQITDEG   18 (24)
T ss_dssp             TT-SEEE-TSSBEHHHH
T ss_pred             CCCCEEEccCCcCCHHH
Confidence            45555555555555433

...

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=85.52  E-value=0.35  Score=26.71  Aligned_cols=18  Identities=33%  Similarity=0.237  Sum_probs=11.6

Q ss_pred             CCCcEEEccCCccccccC
Q 040876          300 SNLVYLDLFNNSFLGSIS  317 (343)
Q Consensus       300 ~~L~~L~Ls~N~l~~~~~  317 (343)
                      ++|++|+|++|.+.....
T Consensus         2 ~~L~~LdL~~N~i~~~G~   19 (28)
T smart00368        2 PSLRELDLSNNKLGDEGA   19 (28)
T ss_pred             CccCEEECCCCCCCHHHH
Confidence            456777777777765443

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

Probab=82.19  E-value=1  Score=43.28  Aligned_cols=60  Identities=25%  Similarity=0.249  Sum_probs=26.1

Q ss_pred             CCccEEEeecCc-cccccchhccC-CCCCCEEECcCCc-ccccCCc-cccCCCCCcEEEccCcc
Q 040876          171 KGLEILVLRSSS-ISGHLTEQIGH-FKNLDTLDLGNNS-IVGLVPL-SLNELSKLRILHLSDNK  230 (343)
Q Consensus       171 ~~L~~L~L~~n~-l~~~~p~~l~~-l~~L~~L~Ls~N~-l~~~~p~-~l~~l~~L~~L~l~~N~  230 (343)
                      ++|+.|+++++. ++...-..+.. +++|++|.+.++. ++..--. ....++.|++|+++.+.
T Consensus       243 ~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~  306 (482)
T KOG1947|consen  243 RKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCH  306 (482)
T ss_pred             CCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCc
Confidence            455555555555 33222222222 4555555544444 3322111 11234555555555554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	343
1ogq_A	313	The Crystal Structure Of Pgip (Polygalacturonase In		1e-12
3riz_A	772	Crystal Structure Of The Plant Steroid Receptor Bri		8e-05
3riz_A	772	Crystal Structure Of The Plant Steroid Receptor Bri		4e-04
3rgx_A	768	Structural Insight Into Brassinosteroid Perception		8e-05
3rgx_A	768	Structural Insight Into Brassinosteroid Perception		4e-04
1o6s_A	466	Internalin (Listeria Monocytogenes) E-Cadherin (Hum		2e-04
2omz_A	466	Crystal Structure Of Inla Y369a/hec1 Complex Length		2e-04
2omt_A	462	Crystal Structure Of Inla G194s+sHEC1 COMPLEX Lengt		3e-04
2omu_A	462	Crystal Structure Of Inla G194s+s Y369s/hec1 Comple		3e-04
2omy_A	461	Crystal Structure Of Inla S192n/hec1 Complex Length		5e-04
2omv_A	461	Crystal Structure Of Inla S192n Y369s/hec1 Complex		6e-04
2omx_A	462	Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX		7e-04

>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 = 70.5 bits (171), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 90/331 (27%), Positives = 132/331 (39%), Gaps = 68/331 (20%)
Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCC--TWAGIVCDNVTG-------HIIELN 81
           C   +++ALL+ K+DL +P+  L+SW    DCC  TW G++CD  T         +  LN
Sbjct: 3   CNPQDKQALLQIKKDLGNPTT-LSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLN 61
Query: 82  LRNPFTYYRRSRYKANPRSMLVGK-----GPIPSWLYRLTHLEQLSVADRPSLASREDQD 136
           L  P+              + +G      GPIP  + +LT L  L +    +  S    D
Sbjct: 62  LPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITH--TNVSGAIPD 119
Query: 137 LLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKN 196
            LS I                             K L  L    +++SG L   I    N
Sbjct: 120 FLSQI-----------------------------KTLVTLDFSYNALSGTLPPSISSLPN 150
Query: 197 LDTLDLGNNSIVGLVPLSLNELSKLRI-LHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           L  +    N I G +P S    SKL   + +S N+L G +             F+    N
Sbjct: 151 LVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPP----------TFA----N 196
Query: 256 LTLKFLDLGENQIHGEMTNLTNA---TQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSF 312
           L L F+DL  N + G+ + L  +   TQ  +L  +S  F      +S NL  LDL NN  
Sbjct: 197 LNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRI 256
Query: 313 LGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
            G++         + K L +L++  N L GE
Sbjct: 257 YGTLPQGL----TQLKFLHSLNVSFNNLCGE 283

>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1 Ectodomain Length = 772

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 49/83 (59%), Gaps = 6/83 (7%)
Query: 162 FDIFSGCVSKG------LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSL 215
           +++ SG + K       L IL L  + ISG + +++G  + L+ LDL +N + G +P ++
Sbjct: 638 YNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAM 697
Query: 216 NELSKLRILHLSDNKLNGTLSEI 238
           + L+ L  + LS+N L+G + E+
Sbjct: 698 SALTMLTEIDLSNNNLSGPIPEM 720

>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1 Ectodomain Length = 772

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 56/166 (33%), Positives = 82/166 (49%), Gaps = 19/166 (11%)
Query: 169 VSKGLEILVLRSSSISGHLTEQI-GHFKN-LDTLDLGNNSIVGLVPLSLNELSKLRILHL 226
           +S  L  L L S++ SG +   +  + KN L  L L NN   G +P +L+  S+L  LHL
Sbjct: 363 LSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHL 422
Query: 227 SDNKLNGTLSEIHFVNLTKLSVFSVNENNL------------TLKFLDLGENQIHGEM-T 273
           S N L+GT+      +L+KL    +  N L            TL+ L L  N + GE+ +
Sbjct: 423 SFNYLSGTIPS-SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPS 481
Query: 274 NLTNATQLWYLRLHSNNFSGPLSLISS---NLVYLDLFNNSFLGSI 316
            L+N T L ++ L +N  +G +        NL  L L NNSF G+I
Sbjct: 482 GLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 527

>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1 Length = 768

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 49/83 (59%), Gaps = 6/83 (7%)
Query: 162 FDIFSGCVSKG------LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSL 215
           +++ SG + K       L IL L  + ISG + +++G  + L+ LDL +N + G +P ++
Sbjct: 641 YNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAM 700
Query: 216 NELSKLRILHLSDNKLNGTLSEI 238
           + L+ L  + LS+N L+G + E+
Sbjct: 701 SALTMLTEIDLSNNNLSGPIPEM 723

>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1 Length = 768

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 56/166 (33%), Positives = 82/166 (49%), Gaps = 19/166 (11%)
Query: 169 VSKGLEILVLRSSSISGHLTEQI-GHFKN-LDTLDLGNNSIVGLVPLSLNELSKLRILHL 226
           +S  L  L L S++ SG +   +  + KN L  L L NN   G +P +L+  S+L  LHL
Sbjct: 366 LSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHL 425
Query: 227 SDNKLNGTLSEIHFVNLTKLSVFSVNENNL------------TLKFLDLGENQIHGEM-T 273
           S N L+GT+      +L+KL    +  N L            TL+ L L  N + GE+ +
Sbjct: 426 SFNYLSGTIPS-SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPS 484
Query: 274 NLTNATQLWYLRLHSNNFSGPLSLISS---NLVYLDLFNNSFLGSI 316
            L+N T L ++ L +N  +G +        NL  L L NNSF G+I
Sbjct: 485 GLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 530

>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human) Recognition Complex Length = 466

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 61/199 (30%), Positives = 97/199 (48%), Gaps = 42/199 (21%)
Query: 110 SWLYRLTHLEQLS----VAD-RP--SLASREDQDLLSN------IRQRLSKCRTGAKSSQ 156
           S L  LT L+QLS    V D +P  +L + E  D+ SN      +  +L+   +   ++ 
Sbjct: 150 SALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN 209
Query: 157 EISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG---HFKNLDTLDLGNNSIVGLVPL 213
           +ISDI  +  G ++   E+      S++G+  + IG      NL  LDL NN I  L PL
Sbjct: 210 QISDITPL--GILTNLDEL------SLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 261
Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT 273
           S   L+KL  L L  N+++         N++ L+  +       L  L+L ENQ+  +++
Sbjct: 262 S--GLTKLTELKLGANQIS---------NISPLAGLTA------LTNLELNENQLE-DIS 303
Query: 274 NLTNATQLWYLRLHSNNFS 292
            ++N   L YL L+ NN S
Sbjct: 304 PISNLKNLTYLTLYFNNIS 322

>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex Length = 466

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 61/199 (30%), Positives = 96/199 (48%), Gaps = 42/199 (21%)
Query: 110 SWLYRLTHLEQLS----VAD-RP--SLASREDQDLLSN------IRQRLSKCRTGAKSSQ 156
           S L  LT L+QLS    V D +P  +L + E  D+ SN      +  +L+   +   ++ 
Sbjct: 149 SALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN 208
Query: 157 EISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG---HFKNLDTLDLGNNSIVGLVPL 213
           +ISDI  +  G ++       L   S++G+  + IG      NL  LDL NN I  L PL
Sbjct: 209 QISDITPL--GILTN------LDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 260
Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT 273
           S   L+KL  L L  N+++         N++ L+  +       L  L+L ENQ+  +++
Sbjct: 261 S--GLTKLTELKLGANQIS---------NISPLAGLTA------LTNLELNENQLE-DIS 302
Query: 274 NLTNATQLWYLRLHSNNFS 292
            ++N   L YL L+ NN S
Sbjct: 303 PISNLKNLTYLTLYFNNIS 321

>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX Length = 462

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 61/200 (30%), Positives = 97/200 (48%), Gaps = 43/200 (21%)
Query: 110 SWLYRLTHLEQLS-----VAD-RP--SLASREDQDLLSN------IRQRLSKCRTGAKSS 155
           S L  LT L+QLS     V D +P  +L + E  D+ SN      +  +L+   +   ++
Sbjct: 145 SALSGLTSLQQLSFSSNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATN 204
Query: 156 QEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG---HFKNLDTLDLGNNSIVGLVP 212
            +ISDI  +  G ++   E+      S++G+  + IG      NL  LDL NN I  L P
Sbjct: 205 NQISDITPL--GILTNLDEL------SLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP 256
Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM 272
           LS   L+KL  L L  N+++         N++ L+  +       L  L+L ENQ+  ++
Sbjct: 257 LS--GLTKLTELKLGANQIS---------NISPLAGLTA------LTNLELNENQLE-DI 298
Query: 273 TNLTNATQLWYLRLHSNNFS 292
           + ++N   L YL L+ NN S
Sbjct: 299 SPISNLKNLTYLTLYFNNIS 318

>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex Length = 462

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 61/200 (30%), Positives = 97/200 (48%), Gaps = 43/200 (21%)
Query: 110 SWLYRLTHLEQLS-----VAD-RP--SLASREDQDLLSN------IRQRLSKCRTGAKSS 155
           S L  LT L+QLS     V D +P  +L + E  D+ SN      +  +L+   +   ++
Sbjct: 145 SALSGLTSLQQLSFSSNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATN 204
Query: 156 QEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG---HFKNLDTLDLGNNSIVGLVP 212
            +ISDI  +  G ++   E+      S++G+  + IG      NL  LDL NN I  L P
Sbjct: 205 NQISDITPL--GILTNLDEL------SLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP 256
Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM 272
           LS   L+KL  L L  N+++         N++ L+  +       L  L+L ENQ+  ++
Sbjct: 257 LS--GLTKLTELKLGANQIS---------NISPLAGLTA------LTNLELNENQLE-DI 298
Query: 273 TNLTNATQLWYLRLHSNNFS 292
           + ++N   L YL L+ NN S
Sbjct: 299 SPISNLKNLTYLTLYFNNIS 318

>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex Length = 461

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 60/199 (30%), Positives = 97/199 (48%), Gaps = 42/199 (21%)
Query: 110 SWLYRLTHLEQLS----VAD-RP--SLASREDQDLLSN------IRQRLSKCRTGAKSSQ 156
           S L  LT L+QL+    V D +P  +L + E  D+ SN      +  +L+   +   ++ 
Sbjct: 145 SALSGLTSLQQLNFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN 204
Query: 157 EISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG---HFKNLDTLDLGNNSIVGLVPL 213
           +ISDI  +  G ++   E+      S++G+  + IG      NL  LDL NN I  L PL
Sbjct: 205 QISDITPL--GILTNLDEL------SLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 256
Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT 273
           S   L+KL  L L  N+++         N++ L+  +       L  L+L ENQ+  +++
Sbjct: 257 S--GLTKLTELKLGANQIS---------NISPLAGLTA------LTNLELNENQLE-DIS 298
Query: 274 NLTNATQLWYLRLHSNNFS 292
            ++N   L YL L+ NN S
Sbjct: 299 PISNLKNLTYLTLYFNNIS 317

>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex Length = 461

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 60/199 (30%), Positives = 97/199 (48%), Gaps = 42/199 (21%)
Query: 110 SWLYRLTHLEQLS----VAD-RP--SLASREDQDLLSN------IRQRLSKCRTGAKSSQ 156
           S L  LT L+QL+    V D +P  +L + E  D+ SN      +  +L+   +   ++ 
Sbjct: 145 SALSGLTSLQQLNFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN 204
Query: 157 EISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG---HFKNLDTLDLGNNSIVGLVPL 213
           +ISDI  +  G ++   E+      S++G+  + IG      NL  LDL NN I  L PL
Sbjct: 205 QISDITPL--GILTNLDEL------SLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 256
Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT 273
           S   L+KL  L L  N+++         N++ L+  +       L  L+L ENQ+  +++
Sbjct: 257 S--GLTKLTELKLGANQIS---------NISPLAGLTA------LTNLELNENQLE-DIS 298
Query: 274 NLTNATQLWYLRLHSNNFS 292
            ++N   L YL L+ NN S
Sbjct: 299 PISNLKNLTYLTLYFNNIS 317

>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX Length = 462

Iteration: 1
 Score = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 51/181 (28%), Positives = 89/181 (49%), Gaps = 31/181 (17%)
Query: 115 LTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLE 174
           L  L  L+  +R  ++S +  D+  ++  +L+   +   ++ +ISDI  +  G ++   E
Sbjct: 166 LKPLANLTTLERLDISSNKVSDI--SVLAKLTNLESLIATNNQISDITPL--GILTNLDE 221
Query: 175 ILVLRSSSISGHLTEQIG---HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
           +      S++G+  + IG      NL  LDL NN I  L PLS   L+KL  L L  N++
Sbjct: 222 L------SLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQI 273
Query: 232 NGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNF 291
           +         N++ L+  +       L  L+L ENQ+  +++ ++N   L YL L+ NN 
Sbjct: 274 S---------NISPLAGLTA------LTNLELNENQLE-DISPISNLKNLTYLTLYFNNI 317
Query: 292 S 292
           S
Sbjct: 318 S 318

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	343
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	9e-45
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-29
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-25
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-20
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-16
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-15
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-13
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	9e-42
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-19
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-20
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-17
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-17
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-19
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-19
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-18
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-16
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-19
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-16
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-18
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-15
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-16
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-16
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-16
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-15
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-15
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-07
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	7e-15
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	4e-14
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	9e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-09
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-14
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-13
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-11
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	8e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-14
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-14
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-13
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	9e-11
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-14
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-10
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-14
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-10
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-08
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-13
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-11
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	7e-14
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-12
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	8e-14
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-09
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-13
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-12
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-12
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	8e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-13
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-11
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-09
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	6e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-13
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-13
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-13
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	9e-13
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	8e-13
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	4e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-12
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-11
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-11
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-09
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-07
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-11
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-07
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-11
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	6e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	5e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	7e-09
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	7e-11
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	9e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-09
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	4e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-07
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	9e-10
3m19_A	251	Variable lymphocyte receptor A diversity region; a	2e-09
3m19_A	251	Variable lymphocyte receptor A diversity region; a	6e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-09
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-09
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-08
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-08
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-08
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-08
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	8e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-05
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	3e-07
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	3e-07
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	1e-05
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	1e-05
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	8e-07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	1e-06
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	3e-04
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	5e-04
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	6e-04
3e6j_A	229	Variable lymphocyte receptor diversity region; var	2e-06
3e6j_A	229	Variable lymphocyte receptor diversity region; var	2e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-04
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	3e-06
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	7e-04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	6e-05
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-05
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	2e-05
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	4e-05
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	9e-05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	1e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	4e-04
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	1e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	2e-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 =  162 bits (412), Expect = 9e-45
 Identities = 75/332 (22%), Positives = 127/332 (38%), Gaps = 73/332 (21%)

Query: 30  GCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYY 89
             L  E   L+ FK  L D  N L  W+   + CT+ G+ C +    +  ++L +     
Sbjct: 8   QSLYREIHQLISFKDVLPDK-NLLPDWSSNKNPCTFDGVTCRD--DKVTSIDLSS----- 59

Query: 90  RRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCR 149
                    + + VG   + S L  LT LE L +                          
Sbjct: 60  ---------KPLNVGFSAVSSSLLSLTGLESLFL-------------------------- 84

Query: 150 TGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHL--TEQIGHFKNLDTLDLGNNSI 207
               S+  I+     F    S  L  L L  +S+SG +     +G    L  L++ +N++
Sbjct: 85  ----SNSHINGSVSGFKCSAS--LTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTL 138

Query: 208 VGLVPLS-LNELSKLRILHLSDNKLNGTL--SEIHFVNLTKLSVFSVNENNLT------- 257
                +S   +L+ L +L LS N ++G      +      +L   +++ N ++       
Sbjct: 139 DFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSR 198

Query: 258 ---LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPL-SLIS--SNLVYLDLFNNS 311
              L+FLD+  N     +  L + + L +L +  N  SG     IS  + L  L++ +N 
Sbjct: 199 CVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQ 258

Query: 312 FLGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
           F+G I           K L+ LSL +N   GE
Sbjct: 259 FVGPIPPLPL------KSLQYLSLAENKFTGE 284

>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 =  116 bits (293), Expect = 7e-29
 Identities = 56/191 (29%), Positives = 75/191 (39%), Gaps = 24/191 (12%)

Query: 173 LEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
           L+ L L  +  +G + + + G    L  LDL  N   G VP      S L  L LS N  
Sbjct: 271 LQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNF 330

Query: 232 NGTLSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHGEM-TNLTN 277
           +G L     + +  L V  ++ N  +             L  LDL  N   G +  NL  
Sbjct: 331 SGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 390

Query: 278 --ATQLWYLRLHSNNFSGPL-SLIS--SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRA 332
                L  L L +N F+G +   +S  S LV L L  N   G+I       S     LR 
Sbjct: 391 NPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK----LRD 446

Query: 333 LSLGDNYLQGE 343
           L L  N L+GE
Sbjct: 447 LKLWLNMLEGE 457

>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 =  104 bits (263), Expect = 5e-25
 Identities = 47/172 (27%), Positives = 81/172 (47%), Gaps = 17/172 (9%)

Query: 161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSK 220
           I           L+ L L+++  +G +   + +   L +L L  N + G +P SL  LSK
Sbjct: 384 ILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK 443

Query: 221 LRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQI 268
           LR L L  N L G + +   + +  L    ++ N+LT            L ++ L  N++
Sbjct: 444 LRDLKLWLNMLEGEIPQ-ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRL 502

Query: 269 HGEM-TNLTNATQLWYLRLHSNNFSGPL-SLIS--SNLVYLDLFNNSFLGSI 316
            GE+   +     L  L+L +N+FSG + + +    +L++LDL  N F G+I
Sbjct: 503 TGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTI 554

>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 = 90.4 bits (225), Expect = 5e-20
 Identities = 39/190 (20%), Positives = 68/190 (35%), Gaps = 19/190 (10%)

Query: 168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLS 227
              K LE L+L  + ++G +   + +  NL+ + L NN + G +P  +  L  L IL LS
Sbjct: 463 MYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLS 522

Query: 228 DNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------LKFLDLGENQIHGEM-TNLTNA 278
           +N  +G +      +   L    +N N            +   +  N I G+    + N 
Sbjct: 523 NNSFSGNIPA-ELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKND 581

Query: 279 TQLWYLRLHSN--NFSGPLSL---ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRAL 333
                     N   F G  S      S     ++ +  + G  S  +    +    +  L
Sbjct: 582 GMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTF----DNNGSMMFL 637

Query: 334 SLGDNYLQGE 343
            +  N L G 
Sbjct: 638 DMSYNMLSGY 647

>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 = 80.0 bits (198), Expect = 1e-16
 Identities = 39/215 (18%), Positives = 70/215 (32%), Gaps = 26/215 (12%)

Query: 106 GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIF 165
           G IP+ L     L  L +                 I   + K      ++      +   
Sbjct: 528 GNIPAELGDCRSLIWLDLNT---------NLFNGTIPAAMFKQSGKIAANFIAGKRYVYI 578

Query: 166 SGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILH 225
                K             G  +EQ+      +  ++ +    G    + +    +  L 
Sbjct: 579 KNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLD 638

Query: 226 LSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM-TNLTNATQLWYL 284
           +S N L+G + +     +  +           L  L+LG N I G +   + +   L  L
Sbjct: 639 MSYNMLSGYIPK----EIGSMP---------YLFILNLGHNDISGSIPDEVGDLRGLNIL 685

Query: 285 RLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSI 316
            L SN   G  P ++ + + L  +DL NN+  G I
Sbjct: 686 DLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPI 720

>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 = 76.5 bits (189), Expect = 2e-15
 Identities = 37/167 (22%), Positives = 62/167 (37%), Gaps = 23/167 (13%)

Query: 168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLS 227
              + L IL L ++S SG++  ++G  ++L  LDL  N   G +P ++ + S      ++
Sbjct: 511 GRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGK----IA 566

Query: 228 DNKLNGTLSEIHFVNLTKLSVFSVNENNL--------------TLKFLDLGENQIHGE-M 272
            N + G     +  N           N L              T    ++      G   
Sbjct: 567 ANFIAGKRYV-YIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTS 625

Query: 273 TNLTNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSI 316
               N   + +L +  N  SG  P  + S   L  L+L +N   GSI
Sbjct: 626 PTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSI 672

>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 = 68.8 bits (169), Expect = 5e-13
 Identities = 36/211 (17%), Positives = 77/211 (36%), Gaps = 25/211 (11%)

Query: 106 GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIF 165
           G IP+ +++ +     +          ++  +        +        S++++ +    
Sbjct: 552 GTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRL---- 607

Query: 166 SGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILH 225
                       + S    GH +    +  ++  LD+  N + G +P  +  +  L IL+
Sbjct: 608 -----STRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILN 662

Query: 226 LSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM-TNLTNATQLWYL 284
           L  N ++G++ +    +L  L++            LDL  N++ G +   ++  T L  +
Sbjct: 663 LGHNDISGSIPD-EVGDLRGLNI------------LDLSSNKLDGRIPQAMSALTMLTEI 709

Query: 285 RLHSNNFSG--PLSLISSNLVYLDLFNNSFL 313
            L +NN SG  P              NN  L
Sbjct: 710 DLSNNNLSGPIPEMGQFETFPPAKFLNNPGL 740

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score =  146 bits (372), Expect = 9e-42
 Identities = 79/332 (23%), Positives = 133/332 (40%), Gaps = 70/332 (21%)

Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCC--TWAGIVCDNVT--GHIIELNLRNPF 86
           C   +++ALL+ K+DL +P+  L+SW    DCC  TW G++CD  T    +  L+L    
Sbjct: 3   CNPQDKQALLQIKKDLGNPTT-LSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSG-- 59

Query: 87  TYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLS 146
                          L    PIPS L  L +L  L +    +L           I   ++
Sbjct: 60  -------------LNLPKPYPIPSSLANLPYLNFLYIGGINNLVG--------PIPPAIA 98

Query: 147 KCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNS 206
           K                         L  L +  +++SG + + +   K L TLD   N+
Sbjct: 99  KL----------------------TQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNA 136

Query: 207 IVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF-SVNENNLT-------- 257
           + G +P S++ L  L  +    N+++G + +  + + +KL    +++ N LT        
Sbjct: 137 LSGTLPPSISSLPNLVGITFDGNRISGAIPD-SYGSFSKLFTSMTISRNRLTGKIPPTFA 195

Query: 258 ---LKFLDLGENQIHGEM-TNLTNATQLWYLRLHSNNFSGPLSLIS--SNLVYLDLFNNS 311
              L F+DL  N + G+      +      + L  N+ +  L  +    NL  LDL NN 
Sbjct: 196 NLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNR 255

Query: 312 FLGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
             G++             L +L++  N L GE
Sbjct: 256 IYGTLPQGLTQLKF----LHSLNVSFNNLCGE 283

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 86.4 bits (215), Expect = 2e-19
 Identities = 49/231 (21%), Positives = 74/231 (32%), Gaps = 58/231 (25%)

Query: 106 GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSN-----IRQRLSKCRTGAKSSQEISD 160
           G IP +L ++  L  L              D   N     +   +S              
Sbjct: 115 GAIPDFLSQIKTLVTL--------------DFSYNALSGTLPPSISSLPN---------- 150

Query: 161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDT-LDLGNNSIVGLVPLSLNELS 219
                       L  +    + ISG + +  G F  L T + +  N + G +P +   L+
Sbjct: 151 ------------LVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN 198

Query: 220 KLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQI 268
            L  + LS N L G  S + F +        + +N+L            L  LDL  N+I
Sbjct: 199 -LAFVDLSRNMLEGDASVL-FGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRI 256

Query: 269 HGEM-TNLTNATQLWYLRLHSNNFSG--PLSLISSNLVYLDLFNNSFLGSI 316
           +G +   LT    L  L +  NN  G  P              NN  L   
Sbjct: 257 YGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGS 307

>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 = 90.8 bits (226), Expect = 3e-20
 Identities = 44/188 (23%), Positives = 68/188 (36%), Gaps = 20/188 (10%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L  L +  ++IS    E       L  L+L +N +  L   +    + L  LHL  N + 
Sbjct: 51  LTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQ 110

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG---EMTNLTN 277
             +    FV    L    ++ N L+            L+ L L  N+I     E  ++  
Sbjct: 111 K-IKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFA 169

Query: 278 ATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALS 334
            + L  L L SN      P    +   L  L L N     S++   C     T  +R LS
Sbjct: 170 NSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTS-IRNLS 228

Query: 335 LGDNYLQG 342
           L ++ L  
Sbjct: 229 LSNSQLST 236

>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 = 80.8 bits (200), Expect = 7e-17
 Identities = 47/189 (24%), Positives = 74/189 (39%), Gaps = 16/189 (8%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
             F G     L +L L  ++++    +       L+   L  N+I  L   SL+ L  +R
Sbjct: 240 TTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVR 299

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTN-LTNATQL 281
            L+L  +    ++S     +L K+  FS       L+ L++ +N I G  +N  T    L
Sbjct: 300 YLNLKRSFTKQSIS---LASLPKIDDFSFQ-WLKCLEHLNMEDNDIPGIKSNMFTGLINL 355

Query: 282 WYLRLHSNNFSGP-------LSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALS 334
            YL L ++  S         +SL  S L  L+L  N      S  +         L  L 
Sbjct: 356 KYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFS----WLGHLEVLD 411

Query: 335 LGDNYLQGE 343
           LG N +  E
Sbjct: 412 LGLNEIGQE 420

>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 = 80.4 bits (199), Expect = 9e-17
 Identities = 49/206 (23%), Positives = 76/206 (36%), Gaps = 32/206 (15%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQ-IGHFKNLDTLDLGNNSIVGLVPLSLNELSKL 221
           D FS      LE+L L  + I   LT Q     +N+  + L  N  + L   S   +  L
Sbjct: 399 DAFSWLGH--LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSL 456

Query: 222 RILHLSDNKLNG-TLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQI 268
           + L L    L     S   F  L  L++  ++ NN+             L+ LDL  N +
Sbjct: 457 QRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNL 516

Query: 269 H---------GEMTNLTNATQLWYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSI 316
                     G +  L   + L  L L SN F   P+ +      L  +DL  N+     
Sbjct: 517 ARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLP 576

Query: 317 SHFWCYRSNETKRLRALSLGDNYLQG 342
           +  +    N    L++L+L  N +  
Sbjct: 577 ASVF----NNQVSLKSLNLQKNLITS 598

>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 = 67.7 bits (166), Expect = 1e-12
 Identities = 40/188 (21%), Positives = 73/188 (38%), Gaps = 25/188 (13%)

Query: 156 QEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSI-------- 207
           + +      F    +  L IL L +++I+    + +   + L+ LDL +N++        
Sbjct: 467 KNVDSSPSPFQPLRN--LTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHAN 524

Query: 208 VGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------- 257
            G     L  LS L IL+L  N  +  +    F +L +L +  +  NNL           
Sbjct: 525 PGGPIYFLKGLSHLHILNLESNGFDE-IPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQ 583

Query: 258 --LKFLDLGENQIHG--EMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFL 313
             LK L+L +N I    +         L  L +  N F      I+  + +++  + +  
Sbjct: 584 VSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIP 643

Query: 314 GSISHFWC 321
              SH+ C
Sbjct: 644 ELSSHYLC 651

>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 = 65.0 bits (159), Expect = 9e-12
 Identities = 37/184 (20%), Positives = 54/184 (29%), Gaps = 40/184 (21%)

Query: 196 NLDTLD---------------------LGNNSIVGLVPLSLNELSKLRILHLSDNKLNGT 234
           + +  D                     L +N +  L   +    S+L  L +  N ++  
Sbjct: 5   SHEVADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISK- 63

Query: 235 LSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG-EMTNLTNATQL 281
           L       L  L V ++  N L+            L  L L  N I   +         L
Sbjct: 64  LEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNL 123

Query: 282 WYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
             L L  N  S   L       NL  L L NN      S      +N    L+ L L  N
Sbjct: 124 ITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFAN--SSLKKLELSSN 181

Query: 339 YLQG 342
            ++ 
Sbjct: 182 QIKE 185

>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 = 58.9 bits (143), Expect = 1e-09
 Identities = 22/128 (17%), Positives = 39/128 (30%), Gaps = 11/128 (8%)

Query: 161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSK 220
                 G     L IL L S+       E       L  +DLG N++  L     N    
Sbjct: 528 PIYFLKGLSH--LHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVS 585

Query: 221 LRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------LKFLDLGENQIHGE 271
           L+ L+L  N +     ++       L+   +  N            + +++     I   
Sbjct: 586 LKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIPEL 645

Query: 272 MTNLTNAT 279
            ++    T
Sbjct: 646 SSHYLCNT 653

>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 = 87.8 bits (218), Expect = 3e-19
 Identities = 46/340 (13%), Positives = 102/340 (30%), Gaps = 73/340 (21%)

Query: 50  SNRLASWNIGGDCCTWA---GIVCDNVTGHIIELNL-RNPFTYYRRSRYKANPRSMLVGK 105
           +   A+WN   +   W    G+  ++  G +  L+L     +                  
Sbjct: 54  TQPGANWNFNKELDMWGAQPGVSLNS-NGRVTGLSLEGFGAS------------------ 94

Query: 106 GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIF 165
           G +P  + +LT LE L++         E       I   +S  +             D  
Sbjct: 95  GRVPDAIGQLTELEVLALGS-HGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYD 153

Query: 166 SGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILH 225
                  L    + S      + +          +   +N+I  +   ++  L+KLR  +
Sbjct: 154 PREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFV-SKAVMRLTKLRQFY 212

Query: 226 LSDNKLNG------------------TLSEIHFVNLTKLSVFSVNENNLT---------- 257
           + ++                         ++ + NL  L+   V                
Sbjct: 213 MGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKAL 272

Query: 258 --LKFLDLGENQIHG---------EMTNLTNATQLWYLRLHSNNF-SGPL-SLIS--SNL 302
             ++ +++  N+             + +     ++  + +  NN  + P+ + +     L
Sbjct: 273 PEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKL 332

Query: 303 VYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG 342
             L+   N   G +  F     +E K L +L+L  N +  
Sbjct: 333 GMLECLYNQLEGKLPAF----GSEIK-LASLNLAYNQITE 367

>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 = 87.0 bits (216), Expect = 5e-19
 Identities = 29/196 (14%), Positives = 67/196 (34%), Gaps = 26/196 (13%)

Query: 170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN 229
            +  E      +        +  + K+L  +++ N   +  +P  L  L ++++++++ N
Sbjct: 224 CEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACN 283

Query: 230 KLNGTLSEI-------HFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIH 269
           +                     K+ +  +  NNL              L  L+   NQ+ 
Sbjct: 284 RGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLE 343

Query: 270 GEMTNLTNATQLWYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISHFWCYRSNE 326
           G++    +  +L  L L  N  +  P +       +  L   +N  L  I + +  +S  
Sbjct: 344 GKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNK-LKYIPNIFDAKSV- 401

Query: 327 TKRLRALSLGDNYLQG 342
              + A+    N +  
Sbjct: 402 -SVMSAIDFSYNEIGS 416

>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 = 83.6 bits (207), Expect = 7e-18
 Identities = 42/253 (16%), Positives = 80/253 (31%), Gaps = 29/253 (11%)

Query: 106 GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEIS------ 159
             +P++L  L  ++ ++VA    ++  + +D    +           +  Q I       
Sbjct: 263 TKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALAD-APVG----EKIQIIYIGYNNL 317

Query: 160 ---DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
               +           L +L    + + G L    G    L +L+L  N I  +      
Sbjct: 318 KTFPVETSLQKMKK--LGMLECLYNQLEGKLPA-FGSEIKLASLNLAYNQITEIPANFCG 374

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLT 276
              ++  L  + NKL    +     +++ +S    + N +      +             
Sbjct: 375 FTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIG----SVDGKNFDPLDPTPF 430

Query: 277 NATQLWYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISHFWCYRSNET----KR 329
               +  + L +N  S  P  L S  S L  ++L  N  L  I        NE       
Sbjct: 431 KGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNM-LTEIPKNSLKDENENFKNTYL 489

Query: 330 LRALSLGDNYLQG 342
           L ++ L  N L  
Sbjct: 490 LTSIDLRFNKLTK 502

>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 = 78.5 bits (194), Expect = 3e-16
 Identities = 32/194 (16%), Positives = 61/194 (31%), Gaps = 29/194 (14%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL-------VPLSLNELSKLRILH 225
           +  + L ++ IS    E       L +++L  N +  +          +      L  + 
Sbjct: 435 VSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSID 494

Query: 226 LSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGE------NQI 268
           L  NKL     +     L  L    ++ N+ +           LK   +        N+ 
Sbjct: 495 LRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRT 554

Query: 269 HGEM-TNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNET 327
             E    +T    L  L++ SN+       I+ N+  LD+ +N  +     + C      
Sbjct: 555 LREWPEGITLCPSLTQLQIGSNDIRKVNEKITPNISVLDIKDNPNISIDLSYVC----PY 610

Query: 328 KRLRALSLGDNYLQ 341
                  L  +  Q
Sbjct: 611 IEAGMYMLFYDKTQ 624

>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 = 69.7 bits (171), Expect = 3e-13
 Identities = 21/188 (11%), Positives = 48/188 (25%), Gaps = 23/188 (12%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVG----LVPLSLNELSKLRILHLSD 228
           +  L L     SG + + IG    L+ L LG++          P  ++            
Sbjct: 83  VTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMR 142

Query: 229 NKLNGT-LSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNL 275
                T +      + + L    +N +                  +    N I      +
Sbjct: 143 MHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAV 202

Query: 276 TNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSL 335
              T+L    + ++ F       +      +         +        +  K L  + +
Sbjct: 203 MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKW------DNLKDLTDVEV 256

Query: 336 GDNYLQGE 343
            +     +
Sbjct: 257 YNCPNLTK 264

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 59.7 bits (145), Expect = 5e-10
 Identities = 19/157 (12%), Positives = 52/157 (33%), Gaps = 14/157 (8%)

Query: 190 QIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF 249
            +     +  L L      G VP ++ +L++L +L L  +             ++     
Sbjct: 76  SLNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANM-- 133

Query: 250 SVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPL---SLISSNLVYLD 306
             ++       +   +  +  +     + + L    ++S+     +   S I+     + 
Sbjct: 134 --SDEQKQKMRMHYQKTFVDYD--PREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIG 189

Query: 307 LFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
             +N+ +  +S      +     LR   +G++    E
Sbjct: 190 QLSNN-ITFVSKAVMRLTK----LRQFYMGNSPFVAE 221

>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 = 87.4 bits (217), Expect = 3e-19
 Identities = 36/185 (19%), Positives = 60/185 (32%), Gaps = 20/185 (10%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVP 212
           S   +  +   F G     LE L  + S++       +    +NL  LD+ +        
Sbjct: 381 SFNGVITMSSNFLGLEQ--LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN 438

Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKF 260
              N LS L +L ++ N          F  L  L+   +++  L             L+ 
Sbjct: 439 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498

Query: 261 LDLGENQIHGEMTN-LTNATQLWYLRLHSNNFSGP----LSLISSNLVYLDLFNNSFLGS 315
           L++  N      T        L  L    N+        L    S+L +L+L  N F  +
Sbjct: 499 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACT 558

Query: 316 ISHFW 320
             H  
Sbjct: 559 CEHQS 563

>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 = 78.5 bits (194), Expect = 3e-16
 Identities = 41/266 (15%), Positives = 84/266 (31%), Gaps = 34/266 (12%)

Query: 106 GPIPSWLYRLTHLEQLSVA--------DRPSLASREDQDLLSNIRQRLSKCRTGAKSSQE 157
             I      LT++   S+         D       +  +L++    +    +  +     
Sbjct: 272 DDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLT 331

Query: 158 ISD--IFDIFSGCVSKGLEILVLRSSSIS--GHLTEQIGHFKNLDTLDLGNNSIVGLVPL 213
            +     + FS      LE L L  + +S  G  ++      +L  LDL  N ++ +   
Sbjct: 332 FTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITM-SS 390

Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFL 261
           +   L +L  L    + L        F++L  L    ++  +              L+ L
Sbjct: 391 NFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVL 450

Query: 262 DLGENQIHGEM--TNLTNATQLWYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSI 316
            +  N           T    L +L L          +  +  S+L  L++ +N+F    
Sbjct: 451 KMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLD 510

Query: 317 SHFWCYRSNETKRLRALSLGDNYLQG 342
           +  +         L+ L    N++  
Sbjct: 511 TFPY----KCLNSLQVLDYSLNHIMT 532

>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 = 76.6 bits (189), Expect = 1e-15
 Identities = 36/209 (17%), Positives = 65/209 (31%), Gaps = 24/209 (11%)

Query: 154 SSQEISDI-FDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVP 212
           S  EI  I    +       L  L+L  + I            +L  L     ++  L  
Sbjct: 60  SRCEIQTIEDGAYQSLSH--LSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLEN 117

Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------------- 257
             +  L  L+ L+++ N +       +F NLT L    ++ N +                
Sbjct: 118 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPL 177

Query: 258 -LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS----SNLVYLDLFNNSF 312
               LDL  N ++          +L  L L +N  S  +        + L    L    F
Sbjct: 178 LNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEF 237

Query: 313 LGSISHFWCYRSNETKRLRALSLGDNYLQ 341
                +   +  +  + L  L++ +  L 
Sbjct: 238 RNE-GNLEKFDKSALEGLCNLTIEEFRLA 265

>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 = 59.7 bits (145), Expect = 5e-10
 Identities = 34/248 (13%), Positives = 79/248 (31%), Gaps = 30/248 (12%)

Query: 106 GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQ----RLSKCR-TGAKSSQEISD 160
                    L+ L++L   +  +  +  +   + +++      ++       K  +    
Sbjct: 90  SLALGAFSGLSSLQKLVAVE--TNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY--- 144

Query: 161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLD----TLDLGNNSIVGLVPLSLN 216
               FS   +  LE L L S+ I       +     +     +LDL  N +  + P +  
Sbjct: 145 ----FSNLTN--LEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFK 198

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF--SVNENNLTLKFLDLGENQIHGEMTN 274
           E+  L  L L +N  +  + +     L  L V    + E           ++ + G    
Sbjct: 199 EIR-LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNL 257

Query: 275 LTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALS 334
                +L YL  + ++     + + +N+    L + +        + +        + L 
Sbjct: 258 TIEEFRLAYLDYYLDDIIDLFNCL-TNVSSFSLVSVTIERVKDFSYNF------GWQHLE 310

Query: 335 LGDNYLQG 342
           L +     
Sbjct: 311 LVNCKFGQ 318

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 28/167 (16%), Positives = 48/167 (28%), Gaps = 28/167 (16%)

Query: 196 NLDTLDLGNNSI-VGLVPLSLNELSKLRILHLSDNKLNGT--LSEIHFVNLTKLSVFSVN 252
            L  L L NN   + ++   +  L+ L +  L   +      L +     L  L   ++ 
Sbjct: 201 RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIE 260

Query: 253 ENNLT------------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGP 294
           E  L                   +    L    I   + + +      +L L +  F   
Sbjct: 261 EFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIER-VKDFSYNFGWQHLELVNCKFGQF 319

Query: 295 LSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
            +L   +L  L   +N    + S            L  L L  N L 
Sbjct: 320 PTLKLKSLKRLTFTSNKGGNAFSEVDL------PSLEFLDLSRNGLS 360

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

 Score = 84.2 bits (208), Expect = 5e-18
 Identities = 50/379 (13%), Positives = 109/379 (28%), Gaps = 84/379 (22%)

Query: 41  RFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVT--GHIIELNLRN-------------- 84
           R+     + +    +WN   +   W      ++   G +  L+L                
Sbjct: 287 RYYSGTINNTIHSLNWNFNKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQL 346

Query: 85  ------------------PFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADR 126
                              F     +   +  R   +       +L     L    +   
Sbjct: 347 TELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQD 406

Query: 127 PSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISG- 185
               + E + +  + R  L   + G  +++ I+ I           L+I+   +S  +  
Sbjct: 407 AINRNPEMKPIKKDSRISLKDTQIGNLTNR-ITFISKAIQRLTK--LQIIYFANSPFTYD 463

Query: 186 ------------------HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLS 227
                             +      + K+L  ++L N   +  +P  L +L +L+ L+++
Sbjct: 464 NIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIA 523

Query: 228 DNKLNGTLSEIH--------FVNLTKLSVFSVNENNLT-------------LKFLDLGEN 266
            N+                      K+ +F +  NNL              L  LD   N
Sbjct: 524 CNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN 583

Query: 267 QIHGEMTNLTNATQLWYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISHFWCYR 323
           ++   +       +L  L+L  N     P    +    +  L   +N  L  I + +  +
Sbjct: 584 KVR-HLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFNAK 641

Query: 324 SNETKRLRALSLGDNYLQG 342
           S     + ++    N +  
Sbjct: 642 S--VYVMGSVDFSYNKIGS 658

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

 Score = 78.0 bits (192), Expect = 6e-16
 Identities = 39/247 (15%), Positives = 79/247 (31%), Gaps = 19/247 (7%)

Query: 106 GPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAK---SSQEISDIF 162
             +P +LY L  L+ L++A    +++ + +   + +                   + +  
Sbjct: 505 TQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFP 564

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
              S      L +L    + +  HL    G    L  L L  N I  +         ++ 
Sbjct: 565 ASASLQKMVKLGLLDCVHNKVR-HLEA-FGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVE 622

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLW 282
            L  S NKL    +  +  ++  +     + N +  +  ++  +    +  N +      
Sbjct: 623 GLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINAS------ 676

Query: 283 YLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISHFWCYRSNET----KRLRALSL 335
            + L  N     P  L +  S +  + L NN  + SI        +        L  + L
Sbjct: 677 TVTLSYNEIQKFPTELFATGSPISTIILSNNL-MTSIPENSLKPKDGNYKNTYLLTTIDL 735

Query: 336 GDNYLQG 342
             N L  
Sbjct: 736 RFNKLTS 742

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

 Score = 76.5 bits (188), Expect = 2e-15
 Identities = 36/203 (17%), Positives = 62/203 (30%), Gaps = 26/203 (12%)

Query: 155 SQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSI------- 207
             E  +I              + L  + I    TE       + T+ L NN +       
Sbjct: 657 GSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENS 716

Query: 208 VGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------- 257
           +     +      L  + L  NKL     +     L  LS   V+ N  +          
Sbjct: 717 LKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSS 776

Query: 258 -LKFLDLGE------NQIHGEM-TNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFN 309
            LK   +        N+I  +  T +T    L  L++ SN+       ++  L  LD+ +
Sbjct: 777 QLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKLTPQLYILDIAD 836

Query: 310 NSFL-GSISHFWCYRSNETKRLR 331
           N  +   ++    Y       L 
Sbjct: 837 NPNISIDVTSVCPYIEAGMYVLL 859

>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 = 78.1 bits (193), Expect = 4e-16
 Identities = 37/199 (18%), Positives = 61/199 (30%), Gaps = 26/199 (13%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
           + F       L+ L L ++ +S  L   +     L  L L  N    L  +S +    L 
Sbjct: 272 NTFHCFSG--LQELDLTATHLS-ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLT 328

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------------LKFLDLGENQI 268
            L +  N     L      NL  L    ++ +++               L+ L+L  N+ 
Sbjct: 329 HLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEP 388

Query: 269 HGEMTN-LTNATQLWYLRLHSNNFSG--PLSLIS--SNLVYLDLFNNSFLGSISHFWCYR 323
               T       QL  L L           S       L  L+L ++    S    +   
Sbjct: 389 LSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFD-- 446

Query: 324 SNETKRLRALSLGDNYLQG 342
                 L+ L+L  N+   
Sbjct: 447 --GLPALQHLNLQGNHFPK 463

>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 = 77.7 bits (192), Expect = 6e-16
 Identities = 32/189 (16%), Positives = 56/189 (29%), Gaps = 24/189 (12%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
            E L    + +            NL  LDL    I  +   +     +L  L L+ N L 
Sbjct: 35  TECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLI 94

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG-EMTNLTNAT 279
             ++E        L      +  ++            L+ L LG N I   ++       
Sbjct: 95  F-MAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTE 153

Query: 280 QLWYLRLHSNNFSG-----PLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALS 334
           +L  L   +N           SL  +  + L+L  N  +  I       +      ++L+
Sbjct: 154 KLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGN-DIAGIEPGAFDSAV----FQSLN 208

Query: 335 LGDNYLQGE 343
            G       
Sbjct: 209 FGGTQNLLV 217

>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 = 70.8 bits (174), Expect = 1e-13
 Identities = 28/189 (14%), Positives = 52/189 (27%), Gaps = 22/189 (11%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L+ LVL ++ +       +   K L  L      I  +  + L+    L  L+L  N ++
Sbjct: 83  LDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHIS 142

Query: 233 GTLSEIHFVNLTKLSVFSVNEN--------------NLTLKFLDLGENQIHGEMTNLTNA 278
             +         KL V     N                T   L+L  N I G      ++
Sbjct: 143 S-IKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDS 201

Query: 279 TQLWYLRLHSNNFSGPLSLISSN-----LVYLDLFNNSFLGSISHFWCYRSNETKRLRAL 333
                L          +     N     L      +          +      +  + ++
Sbjct: 202 AVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMS--VESI 259

Query: 334 SLGDNYLQG 342
           +L  +Y   
Sbjct: 260 NLQKHYFFN 268

>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 = 68.5 bits (168), Expect = 6e-13
 Identities = 50/259 (19%), Positives = 82/259 (31%), Gaps = 61/259 (23%)

Query: 108 IPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDI-FS 166
           +PS L  L+ L++L                       LS  +          ++  I  S
Sbjct: 293 LPSGLVGLSTLKKLV----------------------LSANK--------FENLCQISAS 322

Query: 167 GCVSKGLEILVLRSSSISGHLTEQ-IGHFKNLDTLDLGNNSI--VGLVPLSLNELSKLRI 223
              S  L  L ++ ++    L    + + +NL  LDL ++ I       L L  LS L+ 
Sbjct: 323 NFPS--LTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQS 380

Query: 224 LHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHG 270
           L+LS N+   +L    F    +L +  +    L              LK L+L  + +  
Sbjct: 381 LNLSYNEPL-SLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDI 439

Query: 271 EMTN-LTNATQLWYLRLHSNNFSGPLSLIS------SNLVYLDLFNNSFLGSISHFWCYR 323
                      L +L L  N+F       +        L  L L          H +   
Sbjct: 440 SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAF--- 496

Query: 324 SNETKRLRALSLGDNYLQG 342
               K +  + L  N L  
Sbjct: 497 -TSLKMMNHVDLSHNRLTS 514

>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 = 65.0 bits (159), Expect = 1e-11
 Identities = 29/135 (21%), Positives = 46/135 (34%), Gaps = 17/135 (12%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE 253
             + + L+   N +  +   + + L  L  L L+  ++   + E  F +  +L    +  
Sbjct: 32  PNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIY-WIHEDTFQSQHRLDTLVLTA 90

Query: 254 NNLT------------LKFLDLGENQIHGEMTN-LTNATQLWYLRLHSNNFSG-PLSLIS 299
           N L             LK L   +  I       L N   L  L L SN+ S   L    
Sbjct: 91  NPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGF 150

Query: 300 --SNLVYLDLFNNSF 312
               L  LD  NN+ 
Sbjct: 151 PTEKLKVLDFQNNAI 165

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 63.1 bits (154), Expect = 3e-11
 Identities = 34/210 (16%), Positives = 65/210 (30%), Gaps = 27/210 (12%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISG--HLTEQIGHFKNLDTLDLGNNSIVGLV 211
            +Q +  IF        + L +                +     ++++++L  +    + 
Sbjct: 211 GTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNIS 270

Query: 212 PLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LK 259
             + +  S L+ L L+   L+   S    V L+ L    ++ N               L 
Sbjct: 271 SNTFHCFSGLQELDLTATHLSELPS--GLVGLSTLKKLVLSANKFENLCQISASNFPSLT 328

Query: 260 FLDLGENQIHGEMTN--LTNATQLWYLRLHSNNFSGPLSLISS-----NLVYLDLFNNSF 312
            L +  N    E+    L N   L  L L  ++               +L  L+L  N  
Sbjct: 329 HLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEP 388

Query: 313 LGSISHFWCYRSNETKRLRALSLGDNYLQG 342
           L   +  +     E  +L  L L    L+ 
Sbjct: 389 LSLKTEAF----KECPQLELLDLAFTRLKV 414

>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 = 56.6 bits (137), Expect = 4e-09
 Identities = 23/135 (17%), Positives = 45/135 (33%), Gaps = 20/135 (14%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLD---TLDLGNNSIVGLVPLSLNELS 219
            +F G  +  L+ L L+ +       ++    + L     L L    +  +   +   L 
Sbjct: 443 QLFDGLPA--LQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLK 500

Query: 220 KLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG-EMTNLTNA 278
            +  + LS N+L  + S     +L  +             +L+L  N I     + L   
Sbjct: 501 MMNHVDLSHNRLT-SSSIEALSHLKGI-------------YLNLASNHISIILPSLLPIL 546

Query: 279 TQLWYLRLHSNNFSG 293
           +Q   + L  N    
Sbjct: 547 SQQRTINLRQNPLDC 561

>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 = 76.4 bits (189), Expect = 8e-16
 Identities = 44/183 (24%), Positives = 77/183 (42%), Gaps = 24/183 (13%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
           + +  LV+    ++    + I +  NL+ L+L  N I  + PLS   L KL  L++  NK
Sbjct: 44  ESITKLVVAGEKVAS--IQGIEYLTNLEYLNLNGNQITDISPLS--NLVKLTNLYIGTNK 99

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQ 280
           +   +S     NLT L    +NE+N++          +  L+LG N    +++ L+N T 
Sbjct: 100 IT-DISA--LQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTG 156

Query: 281 LWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNY 339
           L YL +  +       + + ++L  L L  N  +  IS            L   +   N 
Sbjct: 157 LNYLTVTESKVKDVTPIANLTDLYSLSLNYNQ-IEDISPLA-----SLTSLHYFTAYVNQ 210

Query: 340 LQG 342
           +  
Sbjct: 211 ITD 213

>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 = 75.3 bits (186), Expect = 2e-15
 Identities = 37/182 (20%), Positives = 73/182 (40%), Gaps = 27/182 (14%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L  L L  + I       +    +L       N I  + P++   +++L  L + +NK+ 
Sbjct: 179 LYSLSLNYNQIEDI--SPLASLTSLHYFTAYVNQITDITPVA--NMTRLNSLKIGNNKIT 234

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLW 282
                    NL++L+   +  N ++          LK L++G NQI  +++ L N +QL 
Sbjct: 235 DLSP---LANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQIS-DISVLNNLSQLN 290

Query: 283 YLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNY 339
            L L++N      + +I   +NL  L L  N  +  I            ++ +    +  
Sbjct: 291 SLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNH-ITDIRPL-----ASLSKMDSADFANQV 344

Query: 340 LQ 341
           ++
Sbjct: 345 IK 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 = 75.3 bits (186), Expect = 2e-15
 Identities = 42/184 (22%), Positives = 77/184 (41%), Gaps = 26/184 (14%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             LE L L  + I+      + +   L  L +G N I  +  L    L+ LR L+L+++ 
Sbjct: 66  TNLEYLNLNGNQITD--ISPLSNLVKLTNLYIGTNKITDISALQ--NLTNLRELYLNEDN 121

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNAT 279
           ++         NLTK+   ++  N+             L +L + E+++   +T + N T
Sbjct: 122 ISDI---SPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKD-VTPIANLT 177

Query: 280 QLWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
            L+ L L+ N       L S ++L Y   + N  +  I+           RL +L +G+N
Sbjct: 178 DLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQ-ITDITPV-----ANMTRLNSLKIGNN 231

Query: 339 YLQG 342
            +  
Sbjct: 232 KITD 235

>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 = 69.9 bits (172), Expect = 1e-13
 Identities = 38/182 (20%), Positives = 70/182 (38%), Gaps = 24/182 (13%)

Query: 172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
           G   L    + I+                 L   S+  +V     EL  +  L ++  K+
Sbjct: 1   GAATLATLPAPINQ--IFPDADLAEGIRAVLQKASVTDVVTQE--ELESITKLVVAGEKV 56

Query: 232 NGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQL 281
             ++  I    LT L   ++N N +T          L  L +G N+I  +++ L N T L
Sbjct: 57  A-SIQGIE--YLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKIT-DISALQNLTNL 112

Query: 282 WYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
             L L+ +N S    L + + +  L+L  N  L  +S       +    L  L++ ++ +
Sbjct: 113 RELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPL-----SNMTGLNYLTVTESKV 167

Query: 341 QG 342
           + 
Sbjct: 168 KD 169

>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 = 49.8 bits (120), Expect = 5e-07
 Identities = 22/104 (21%), Positives = 41/104 (39%), Gaps = 8/104 (7%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL 213
            + +ISDI +         L++L + S+ IS      + +   L++L L NN +      
Sbjct: 251 GTNQISDI-NAVKDLTK--LKMLNVGSNQISD--ISVLNNLSQLNSLFLNNNQLGNEDME 305

Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT 257
            +  L+ L  L LS N +          +L+K+         + 
Sbjct: 306 VIGGLTNLTTLFLSQNHIT---DIRPLASLSKMDSADFANQVIK 346

>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 = 74.4 bits (182), Expect = 7e-15
 Identities = 44/180 (24%), Positives = 74/180 (41%), Gaps = 27/180 (15%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             ++ ++  +S I   + + I +  N+  L L  N +  + PL+   L  L  L L +NK
Sbjct: 43  NSIDQIIANNSDIK-SV-QGIQYLPNVTKLFLNGNKLTDIKPLT--NLKNLGWLFLDENK 98

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQ 280
           +   LS +   +L KL   S+  N ++          L+ L LG N+I  ++T L+  T+
Sbjct: 99  IK-DLSSLK--DLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKIT-DITVLSRLTK 154

Query: 281 LWYLRLHSNNFSGPLSLISS--NLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
           L  L L  N  S  +  ++    L  L L  N  +  +           K L  L L   
Sbjct: 155 LDTLSLEDNQISD-IVPLAGLTKLQNLYLSKNH-ISDLRAL-----AGLKNLDVLELFSQ 207

>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 = 72.1 bits (176), Expect = 4e-14
 Identities = 37/162 (22%), Positives = 67/162 (41%), Gaps = 31/162 (19%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE 253
           F      +L   S+   V  +  EL+ +  +  +++ +  ++  I    L  ++   +N 
Sbjct: 20  FAETIKDNLKKKSVTDAVTQN--ELNSIDQIIANNSDIK-SVQGIQ--YLPNVTKLFLNG 74

Query: 254 NNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS---- 299
           N LT          L +L L EN+I  ++++L +  +L  L L  N     +S I+    
Sbjct: 75  NKLTDIKPLTNLKNLGWLFLDENKIK-DLSSLKDLKKLKSLSLEHNG----ISDINGLVH 129

Query: 300 -SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
              L  L L NN  +  I+       +   +L  LSL DN +
Sbjct: 130 LPQLESLYLGNNK-ITDITVL-----SRLTKLDTLSLEDNQI 165

>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 = 65.1 bits (158), Expect = 9e-12
 Identities = 40/183 (21%), Positives = 71/183 (38%), Gaps = 28/183 (15%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRS---SSISGHLTEQIGHFKNLDTLDLGNNSIVGL 210
              +I D+           L+ L L     S I+G     + H   L++L LGNN I  +
Sbjct: 95  DENKIKDL-SSLKDLKK--LKSLSLEHNGISDING-----LVHLPQLESLYLGNNKITDI 146

Query: 211 VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKF 260
             LS   L+KL  L L DN+++  +  +    LTKL    +++N+++          L  
Sbjct: 147 TVLS--RLTKLDTLSLEDNQIS-DIVPLA--GLTKLQNLYLSKNHISDLRALAGLKNLDV 201

Query: 261 LDLGENQIHGEMTN-LTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHF 319
           L+L   +   +  N  +N      ++    +   P   IS +  Y        L   ++ 
Sbjct: 202 LELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEI-ISDDGDYEKPNVKWHLPEFTNE 260

Query: 320 WCY 322
             +
Sbjct: 261 VSF 263

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 57.0 bits (137), Expect = 3e-09
 Identities = 26/160 (16%), Positives = 58/160 (36%), Gaps = 31/160 (19%)

Query: 197 LDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNL 256
           +      +  I  + P      ++    +L    +   +++    ++ ++     N +++
Sbjct: 1   MGETITVSTPIKQIFPDD--AFAETIKDNLKKKSVTDAVTQNELNSIDQI---IANNSDI 55

Query: 257 T----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISS-----N 301
                      +  L L  N++  ++  LTN   L +L L  N     +  +SS      
Sbjct: 56  KSVQGIQYLPNVTKLFLNGNKLT-DIKPLTNLKNLGWLFLDENK----IKDLSSLKDLKK 110

Query: 302 LVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
           L  L L +N  +  I+           +L +L LG+N + 
Sbjct: 111 LKSLSLEHNG-ISDINGL-----VHLPQLESLYLGNNKIT 144

>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 = 72.7 bits (179), Expect = 1e-14
 Identities = 38/164 (23%), Positives = 64/164 (39%), Gaps = 19/164 (11%)

Query: 192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL-NGTLSEIHFVNLTKLSVFS 250
              K L  L +  N I  +     N L+++ ++ L  N L +  +    F  + KLS   
Sbjct: 118 KMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIR 177

Query: 251 VNENNLT---------LKFLDLGENQIHG-EMTNLTNATQLWYLRLHSNNFSG--PLSLI 298
           + + N+T         L  L L  N+I   +  +L     L  L L  N+ S     SL 
Sbjct: 178 IADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLA 237

Query: 299 S-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
           +  +L  L L NN  L  +         + K ++ + L +N + 
Sbjct: 238 NTPHLRELHLNNNK-LVKVPGGL----ADHKYIQVVYLHNNNIS 276

>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 = 67.3 bits (165), Expect = 7e-13
 Identities = 45/190 (23%), Positives = 72/190 (37%), Gaps = 27/190 (14%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           +     +L L+++ I+        + KNL TL L NN I  + P +   L KL  L+LS 
Sbjct: 50  LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK 109

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG---EMT 273
           N+L   L E     L +L    V+EN +T            +  ++LG N +     E  
Sbjct: 110 NQLK-ELPEKMPKTLQEL---RVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENG 165

Query: 274 NLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSIS--HFWCYRSNETKRLR 331
                 +L Y+R+   N +     +  +L  L L  N  +  +               L 
Sbjct: 166 AFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNK-ITKVDAASL-----KGLNNLA 219

Query: 332 ALSLGDNYLQ 341
            L L  N + 
Sbjct: 220 KLGLSFNSIS 229

>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 = 63.5 bits (155), Expect = 1e-11
 Identities = 40/190 (21%), Positives = 71/190 (37%), Gaps = 23/190 (12%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSI--VGLVPLSLNELSKLRILHLSD 228
           K L+ L +  + I+            +  ++LG N +   G+   +   + KL  + ++D
Sbjct: 121 KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIAD 180

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTN-L 275
             +  T+ +    +LT+L +   + N +T            L  L L  N I       L
Sbjct: 181 TNIT-TIPQGLPPSLTELHL---DGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSL 236

Query: 276 TNATQLWYLRLHSNNFSG-PLSLIS-SNLVYLDLFNN--SFLGSISHFWCYRSNETKRLR 331
            N   L  L L++N     P  L     +  + L NN  S +GS        + +     
Sbjct: 237 ANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYS 296

Query: 332 ALSLGDNYLQ 341
            +SL  N +Q
Sbjct: 297 GVSLFSNPVQ 306

>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 = 40.0 bits (94), Expect = 8e-04
 Identities = 14/101 (13%), Positives = 31/101 (30%), Gaps = 14/101 (13%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL------VPLSLN 216
              +      L  L L ++ +   +   +   K +  + L NN+I  +       P    
Sbjct: 234 GSLANTPH--LRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNT 290

Query: 217 ELSKLRILHLSDNKLNGTLSEIH---FVNLTKLSVFSVNEN 254
           + +    + L  N +     EI    F  +   +   +   
Sbjct: 291 KKASYSGVSLFSNPV--QYWEIQPSTFRCVYVRAAVQLGNY 329

>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 = 73.7 bits (181), Expect = 1e-14
 Identities = 39/191 (20%), Positives = 70/191 (36%), Gaps = 21/191 (10%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
           + F+G     +  L L    +    +      K+L  L+L  N I  +   +   L  L+
Sbjct: 258 NTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQ 317

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG 270
           +L+LS N L   L   +F  L K++   + +N++             L+ LDL +N +  
Sbjct: 318 VLNLSYNLLG-ELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNAL-- 374

Query: 271 EMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRL 330
             T +     +  + L  N     L  I+     + L  N  L ++   +         L
Sbjct: 375 --TTIHFIPSIPDIFLSGNKLVT-LPKINLTANLIHLSENR-LENLDILYFLLR--VPHL 428

Query: 331 RALSLGDNYLQ 341
           + L L  N   
Sbjct: 429 QILILNQNRFS 439

>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 = 62.5 bits (152), Expect = 7e-11
 Identities = 32/169 (18%), Positives = 50/169 (29%), Gaps = 23/169 (13%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
                + L L  N I  +   S   L +L++L L       T+ +  F NL  L +  + 
Sbjct: 22  VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLG 81

Query: 253 ENNLT------------LKFLDLGENQIHGEMTN---LTNATQLWYLRLHSNNFS----G 293
            + +             L  L L    +   +       N   L  L L  N        
Sbjct: 82  SSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLH 141

Query: 294 PLSLISSNLVYLDLFNNSFLG-SISHFWCYRSNETKRLRALSLGDNYLQ 341
           P     ++L  +D  +N                + K L   SL  N L 
Sbjct: 142 PSFGKLNSLKSIDFSSNQIFLVCEHEL---EPLQGKTLSFFSLAANSLY 187

>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 = 54.0 bits (130), Expect = 3e-08
 Identities = 38/185 (20%), Positives = 63/185 (34%), Gaps = 18/185 (9%)

Query: 171 KGLEILVLRSSSISG-HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELS--KLRILHLS 227
           K L  L L  + I   +L    G   +L ++D  +N I  +    L  L    L    L+
Sbjct: 123 KALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLA 182

Query: 228 DNKLN-----GTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG-EMTNLTNATQL 281
            N L           ++      L +  V+ N  T+       N I   +  +L  A  +
Sbjct: 183 ANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHI 242

Query: 282 WYLRLHSNNFSGP-----LSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLG 336
                  +N   P       L  S++ +LDL +       S  +       K L+ L+L 
Sbjct: 243 MGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVF----ETLKDLKVLNLA 298

Query: 337 DNYLQ 341
            N + 
Sbjct: 299 YNKIN 303

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 45.2 bits (107), Expect = 2e-05
 Identities = 32/134 (23%), Positives = 49/134 (36%), Gaps = 24/134 (17%)

Query: 164 IFSGCVSKGLEILVLRSSSISGHLTEQI-----GHFKNLDTLDLGNNSIVGLVPLSLNEL 218
             S   S  LE L L  + +      ++         +L  L L +N +  L P   + L
Sbjct: 446 TPSENPS--LEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHL 503

Query: 219 SKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNA 278
           + LR L L+ N               +L+V S N+    L+ LD+  NQ+     N    
Sbjct: 504 TALRGLSLNSN---------------RLTVLSHNDLPANLEILDISRNQLL--APNPDVF 546

Query: 279 TQLWYLRLHSNNFS 292
             L  L +  N F 
Sbjct: 547 VSLSVLDITHNKFI 560

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 72.8 bits (179), Expect = 2e-14
 Identities = 36/197 (18%), Positives = 75/197 (38%), Gaps = 25/197 (12%)

Query: 159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNEL 218
            D++  F        +I+  ++S++       +  F+ ++ L+L +  I  +   +    
Sbjct: 33  QDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYA 92

Query: 219 SKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGEN 266
             ++ L++  N +   L    F N+  L+V  +  N+L+            L  L +  N
Sbjct: 93  HTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN 151

Query: 267 QIHG-EMTNLTNATQLWYLRLHSNNFSG-PLSLISSNLVYLDLFNNSFLGSISHFWCYRS 324
            +   E       T L  L+L SN  +   LSLI  +L + ++  N  L +++       
Sbjct: 152 NLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLI-PSLFHANVSYNL-LSTLA------- 202

Query: 325 NETKRLRALSLGDNYLQ 341
                +  L    N + 
Sbjct: 203 -IPIAVEELDASHNSIN 218

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 68.9 bits (169), Expect = 4e-13
 Identities = 35/188 (18%), Positives = 65/188 (34%), Gaps = 22/188 (11%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
             F+   +  ++ L +  ++I         +   L  L L  N +  L     +   KL 
Sbjct: 87  YAFAYAHT--IQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLT 144

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------LKFLDLGENQIHGEMT 273
            L +S+N L   + +  F   T L    ++ N LT         L   ++  N +    +
Sbjct: 145 TLSMSNNNLE-RIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLL----S 199

Query: 274 NLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRAL 333
            L     +  L    N+ +     ++  L  L L +N+ L   +    Y       L  +
Sbjct: 200 TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNN-LTDTAWLLNY-----PGLVEV 253

Query: 334 SLGDNYLQ 341
            L  N L+
Sbjct: 254 DLSYNELE 261

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 61.6 bits (150), Expect = 9e-11
 Identities = 26/181 (14%), Positives = 58/181 (32%), Gaps = 26/181 (14%)

Query: 178 LRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE 237
           +   +   +   +     N   +   N+++  L    L+   ++ +L+L+D ++   +  
Sbjct: 28  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIE-EIDT 86

Query: 238 IHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG-EMTNLTNATQLWYL 284
             F     +    +  N +             L  L L  N +         N  +L  L
Sbjct: 87  YAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTL 146

Query: 285 RLHSNNFS--GPLSLIS-SNLVYLDLFNNSFLG-SISHFWCYRSNETKRLRALSLGDNYL 340
            + +NN       +  + ++L  L L +N      +S            L   ++  N L
Sbjct: 147 SMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLI--------PSLFHANVSYNLL 198

Query: 341 Q 341
            
Sbjct: 199 S 199

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 55.1 bits (133), Expect = 1e-08
 Identities = 24/122 (19%), Positives = 46/122 (37%), Gaps = 14/122 (11%)

Query: 191 IGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS 250
           + ++  L  +DL  N +  ++     ++ +L  L++S+N+L      ++   +       
Sbjct: 244 LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRL--VALNLYGQPIPT----- 296

Query: 251 VNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNN 310
                  LK LDL  N +     N     +L  L L  N+           L  L L +N
Sbjct: 297 -------LKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLKLSTHHTLKNLTLSHN 349

Query: 311 SF 312
            +
Sbjct: 350 DW 351

>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 = 73.1 bits (180), Expect = 2e-14
 Identities = 36/190 (18%), Positives = 51/190 (26%), Gaps = 24/190 (12%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L+ L L    I     +      +L  L L  N I    P S + L+ L  L   + KL 
Sbjct: 58  LQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLA 117

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHG----EMTNL 275
             L       L  L   +V  N +              L  +DL  N I      ++  L
Sbjct: 118 S-LESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFL 176

Query: 276 TNAT-QLWYLRLHSNNFSG--PLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRA 332
                    L +  N        +     L  L L  N    +I             L  
Sbjct: 177 RENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCL---QNLAGLHV 233

Query: 333 LSLGDNYLQG 342
             L     + 
Sbjct: 234 HRLILGEFKD 243

>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 = 71.2 bits (175), Expect = 9e-14
 Identities = 37/201 (18%), Positives = 65/201 (32%), Gaps = 24/201 (11%)

Query: 161 IFDIFSGCVSKGLEILVLRSSSIS--GHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNEL 218
               F       L  L L  +++S  G  +       +L  LDL  N  + ++  +   L
Sbjct: 340 GSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAI-IMSANFMGL 398

Query: 219 SKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGEN 266
            +L+ L    + L        F++L KL    ++  N              L  L +  N
Sbjct: 399 EELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGN 458

Query: 267 QIHGEMTN--LTNATQLWYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISHFWC 321
                  +    N T L +L L           +      L  L++ +N+ L   S  + 
Sbjct: 459 SFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHY- 517

Query: 322 YRSNETKRLRALSLGDNYLQG 342
              N+   L  L    N ++ 
Sbjct: 518 ---NQLYSLSTLDCSFNRIET 535

>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 = 71.2 bits (175), Expect = 9e-14
 Identities = 29/176 (16%), Positives = 56/176 (31%), Gaps = 19/176 (10%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQ-IGHFKNLDTLDLGNNSIVGLVP 212
           S      +   F G     L+ L  + S++            + L  LD+   +      
Sbjct: 384 SFNGAIIMSANFMGLEE--LQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFD 441

Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKF 260
                L+ L  L ++ N          F N T L+   +++  L             L+ 
Sbjct: 442 GIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQL 501

Query: 261 LDLGENQIHG-EMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSF 312
           L++  N +   + ++      L  L    N       ++     +L + +L NNS 
Sbjct: 502 LNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTNNSV 557

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 67.7 bits (166), Expect = 1e-12
 Identities = 34/199 (17%), Positives = 57/199 (28%), Gaps = 25/199 (12%)

Query: 161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSK 220
           I  +         + L +    +             L +L L  N     +      L  
Sbjct: 297 IKYLEDVPKHFKWQSLSIIRCQLKQF---PTLDLPFLKSLTLTMNKG--SISFKKVALPS 351

Query: 221 LRILHLSDNKLNGTLSEI-HFVNLTKLSVFSVNENNLT-----------LKFLDLGENQI 268
           L  L LS N L+ +       +    L    ++ N              L+ LD   + +
Sbjct: 352 LSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTL 411

Query: 269 HG--EMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYR 323
               E +   +  +L YL +   N       I    ++L  L +  NSF  +        
Sbjct: 412 KRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVF-- 469

Query: 324 SNETKRLRALSLGDNYLQG 342
              T  L  L L    L+ 
Sbjct: 470 -ANTTNLTFLDLSKCQLEQ 487

>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 = 61.2 bits (149), Expect = 2e-10
 Identities = 31/191 (16%), Positives = 54/191 (28%), Gaps = 25/191 (13%)

Query: 171 KGLEILVLRSSSISGHLTEQI---GHFKNLD-----TLDLGNNSIVGLVPLSLNELSKLR 222
            GL +  L           +I      + L         L   +      +  + L+ + 
Sbjct: 229 AGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVS 288

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------LKFLDLGENQIHGEMTNLT 276
            + L+   +              LS+               LK L L  N+         
Sbjct: 289 AMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSIS-FKKV 347

Query: 277 NATQLWYLRLHSNNFSG-----PLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLR 331
               L YL L  N  S         L +++L +LDL  N  +   ++F          L+
Sbjct: 348 ALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEE-----LQ 402

Query: 332 ALSLGDNYLQG 342
            L    + L+ 
Sbjct: 403 HLDFQHSTLKR 413

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 30/164 (18%), Positives = 60/164 (36%), Gaps = 21/164 (12%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSLNELSKL 221
            IF G  S  L  L +  +S   +    +  +  NL  LDL    +  +     + L +L
Sbjct: 442 GIFLGLTS--LNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRL 499

Query: 222 RILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIH 269
           ++L++S N L   L   H+  L  LS    + N +             L F +L  N + 
Sbjct: 500 QLLNMSHNNLLF-LDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTNNSVA 558

Query: 270 -----GEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLF 308
                 +        + + + +     + P+ + +S ++  +  
Sbjct: 559 CICEHQKFLQWVKEQKQFLVNVEQMTCATPVEMNTSLVLDFNNS 602

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 57.0 bits (138), Expect = 3e-09
 Identities = 28/193 (14%), Positives = 50/193 (25%), Gaps = 28/193 (14%)

Query: 170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVG-LVPLSLNELSKLRILHLSD 228
            +    L +  + I   + +Q      L  L L  N     ++   L  L+ L +  L  
Sbjct: 180 PQVNLSLDMSLNPID-FIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLIL 238

Query: 229 NKLNG-----TLSEIHFVNLTKLSV--FSVNENNLT------------LKFLDLGENQIH 269
            +                 L  +++  F +   N              +  + L    I 
Sbjct: 239 GEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIK 298

Query: 270 GEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKR 329
             + ++    +   L +         +L    L  L L  N    S              
Sbjct: 299 -YLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVAL------PS 351

Query: 330 LRALSLGDNYLQG 342
           L  L L  N L  
Sbjct: 352 LSYLDLSRNALSF 364

>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 = 72.1 bits (177), Expect = 5e-14
 Identities = 33/185 (17%), Positives = 63/185 (34%), Gaps = 24/185 (12%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL- 231
           +  L +    +   L+      + +  + + N+ +  +       L  L  L LS+N + 
Sbjct: 288 IRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMV 347

Query: 232 -NGTLSEIHFVNLTKLSVFSVNENNLT--------------LKFLDLGENQIHGEMTNLT 276
                +         L    +++N+L               L  LD+  N  H    +  
Sbjct: 348 EEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQ 407

Query: 277 NATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLG 336
              ++ +L L S       + I   L  LD+ NN    ++  F    S    RL+ L + 
Sbjct: 408 WPEKMRFLNLSSTGIRVVKTCIPQTLEVLDVSNN----NLDSF----SLFLPRLQELYIS 459

Query: 337 DNYLQ 341
            N L+
Sbjct: 460 RNKLK 464

>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 = 62.0 bits (151), Expect = 7e-11
 Identities = 32/166 (19%), Positives = 64/166 (38%), Gaps = 23/166 (13%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE 253
              + +LDL  N I  +    L   + L++L L  +++N T+    F +L  L    +++
Sbjct: 25  TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRIN-TIEGDAFYSLGSLEHLDLSD 83

Query: 254 NNLT------------LKFLDLGENQIHGEMTN--LTNATQLWYLRLHSNNFSGPLSLIS 299
           N+L+            LK+L+L  N            N T L  LR+ +      +  I 
Sbjct: 84  NHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRID 143

Query: 300 ----SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
               ++L  L++       S+ ++        + +  L+L  +   
Sbjct: 144 FAGLTSLNELEIKAL----SLRNYQSQSLKSIRDIHHLTLHLSESA 185

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 59.4 bits (144), Expect = 6e-10
 Identities = 37/186 (19%), Positives = 72/186 (38%), Gaps = 18/186 (9%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L++L+L+SS I+    +      +L+ LDL +N +  L       LS L+ L+L  N   
Sbjct: 52  LQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQ 111

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHG-EMTNLTNA 278
                  F NLT L    +                   L  L++    +   +  +L + 
Sbjct: 112 TLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSI 171

Query: 279 TQLWYLRLHSNNFSGPLSLIS---SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSL 335
             + +L LH +  +  L + +   S++ YL+L + + L             +  ++ L+ 
Sbjct: 172 RDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTN-LARFQFSPLPVDEVSSPMKKLAF 230

Query: 336 GDNYLQ 341
             + L 
Sbjct: 231 RGSVLT 236

>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 = 58.6 bits (142), Expect = 1e-09
 Identities = 35/191 (18%), Positives = 58/191 (30%), Gaps = 26/191 (13%)

Query: 163 DIFSGCVSKGLEILVLRS---SSISGHLTEQIGHFKNLDTLDLGNNSIVGL--VPLSLNE 217
                  S  LE L L            +   G + +L TL L  N +  +      L  
Sbjct: 328 SFSQHLKS--LEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLT 385

Query: 218 LSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------LKFLDLGENQI 268
           L  L  L +S N               K+   +++   +          L+ LD+  N +
Sbjct: 386 LKNLTSLDISRNTF--HPMPDSCQWPEKMRFLNLSSTGIRVVKTCIPQTLEVLDVSNNNL 443

Query: 269 HGEMTNLTNATQLWYLRLHSNNFSG-PLSLISSNLVYLDLFNNSFLGSISHFWCYRSNET 327
                 L     L  L +  N     P + +   L+ + +  N  L S+      R    
Sbjct: 444 DSFSLFLPR---LQELYISRNKLKTLPDASLFPVLLVMKISRNQ-LKSVPDGIFDR---L 496

Query: 328 KRLRALSLGDN 338
             L+ + L  N
Sbjct: 497 TSLQKIWLHTN 507

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 57.0 bits (138), Expect = 3e-09
 Identities = 33/153 (21%), Positives = 60/153 (39%), Gaps = 19/153 (12%)

Query: 173 LEILVLRSSSIS--GHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
           L+ LVL  + +       E +   KNL +LD+  N+   + P S     K+R L+LS   
Sbjct: 363 LQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPM-PDSCQWPEKMRFLNLSSTG 421

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT--------LKFLDLGENQIHGEMTNLTNATQLW 282
           +      +       L V  V+ NNL         L+ L +  N++   + + +    L 
Sbjct: 422 I----RVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQELYISRNKLK-TLPDASLFPVLL 476

Query: 283 YLRLHSNNFSG-PLSLISS--NLVYLDLFNNSF 312
            +++  N     P  +     +L  + L  N +
Sbjct: 477 VMKISRNQLKSVPDGIFDRLTSLQKIWLHTNPW 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 = 54.3 bits (131), Expect = 2e-08
 Identities = 32/226 (14%), Positives = 74/226 (32%), Gaps = 58/226 (25%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L  L +++ S+  + ++ +   +++  L L  +    L+ +  + LS +R L L D  L 
Sbjct: 150 LNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLA 209

Query: 233 G-----------------------------------------TLSEIHFVNLTKLSVFSV 251
                                                      LSE+ F + T   +   
Sbjct: 210 RFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDF 269

Query: 252 NENN------------LTLKFLDLGENQIHGEMTN-LTNATQLWYLRLHSNNFSGPLSLI 298
           N +             +T++ L + +  +  +++   +   ++  + + ++         
Sbjct: 270 NPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSF 329

Query: 299 SS---NLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
           S    +L +LDL  N  +                L+ L L  N+L+
Sbjct: 330 SQHLKSLEFLDLSEN-LMVEEYLKNSACKGAWPSLQTLVLSQNHLR 374

>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 = 71.5 bits (176), Expect = 5e-14
 Identities = 38/183 (20%), Positives = 71/183 (38%), Gaps = 26/183 (14%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             +  L      I     + + +  NL  ++  NN +  + PL    L+KL  + +++N+
Sbjct: 46  DQVTTLQADRLGIKS--IDGVEYLNNLTQINFSNNQLTDITPLK--NLTKLVDILMNNNQ 101

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQ 280
           +          NLT L+  ++  N +T          L  L+L  N I   ++ L+  T 
Sbjct: 102 IA---DITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISD-ISALSGLTS 157

Query: 281 LWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNY 339
           L  L    N  +    L + + L  LD+ +N  +  IS        +   L +L   +N 
Sbjct: 158 LQQLSF-GNQVTDLKPLANLTTLERLDISSNK-VSDISVL-----AKLTNLESLIATNNQ 210

Query: 340 LQG 342
           +  
Sbjct: 211 ISD 213

>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 = 71.5 bits (176), Expect = 5e-14
 Identities = 52/200 (26%), Positives = 89/200 (44%), Gaps = 28/200 (14%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL 213
           SS ++SDI  + +   +  LE L+  ++ IS      +G   NLD L L  N +  +  L
Sbjct: 185 SSNKVSDI-SVLAKLTN--LESLIATNNQISD--ITPLGILTNLDELSLNGNQLKDIGTL 239

Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDL 263
           +   L+ L  L L++N+++   +      LTKL+   +  N ++          L  L+L
Sbjct: 240 A--SLTNLTDLDLANNQIS---NLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLEL 294

Query: 264 GENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCY 322
            ENQ+   ++ ++N   L YL L+ NN S    + S + L  L  +NN  +  +S     
Sbjct: 295 NENQLED-ISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNK-VSDVSSL--- 349

Query: 323 RSNETKRLRALSLGDNYLQG 342
                  +  LS G N +  
Sbjct: 350 --ANLTNINWLSAGHNQISD 367

>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 = 69.2 bits (170), Expect = 3e-13
 Identities = 35/155 (22%), Positives = 59/155 (38%), Gaps = 18/155 (11%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L  L L ++ IS      +     L  L+L  N +  + P+S   L  L  L L  N ++
Sbjct: 267 LTELKLGANQISN--ISPLAGLTALTNLELNENQLEDISPIS--NLKNLTYLTLYFNNIS 322

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLW 282
                    +LTKL       N ++          + +L  G NQI   +T L N T++ 
Sbjct: 323 DI---SPVSSLTKLQRLFFYNNKVSDVSSLANLTNINWLSAGHNQISD-LTPLANLTRIT 378

Query: 283 YLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSIS 317
            L L+   ++       +N+   +   N     I+
Sbjct: 379 QLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALIA 413

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

 Score = 63.8 bits (156), Expect = 2e-11
 Identities = 34/161 (21%), Positives = 61/161 (37%), Gaps = 23/161 (14%)

Query: 189 EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV 248
                        LG  ++   V  +  +L ++  L      +  ++  +    L  L+ 
Sbjct: 18  FTDTALAEKMKTVLGKTNVTDTVSQT--DLDQVTTLQADRLGIK-SIDGVE--YLNNLTQ 72

Query: 249 FSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI 298
            + + N LT          L  + +  NQI   +T L N T L  L L +N  +    L 
Sbjct: 73  INFSNNQLTDITPLKNLTKLVDILMNNNQIAD-ITPLANLTNLTGLTLFNNQITDIDPLK 131

Query: 299 S-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
           + +NL  L+L +N+ +  IS       +    L+ LS G+ 
Sbjct: 132 NLTNLNRLELSSNT-ISDISAL-----SGLTSLQQLSFGNQ 166

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

 Score = 57.7 bits (140), Expect = 2e-09
 Identities = 29/152 (19%), Positives = 55/152 (36%), Gaps = 17/152 (11%)

Query: 199 TLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT- 257
                +  I  +   +   L++     L    +  T+S+     +T L    +   ++  
Sbjct: 6   ATITQDTPINQIFTDT--ALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDG 63

Query: 258 ------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS-SNLVYLDLFNN 310
                 L  ++   NQ+   +T L N T+L  + +++N  +    L + +NL  L LFNN
Sbjct: 64  VEYLNNLTQINFSNNQLTD-ITPLKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNN 122

Query: 311 SFLGSISHFWCYRSNETKRLRALSLGDNYLQG 342
             +  I             L  L L  N +  
Sbjct: 123 Q-ITDIDPL-----KNLTNLNRLELSSNTISD 148

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

 Score = 48.8 bits (117), Expect = 1e-06
 Identities = 25/159 (15%), Positives = 55/159 (34%), Gaps = 20/159 (12%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
           K L  L L  ++IS      +     L  L   NN +  +  L+   L+ +  L    N+
Sbjct: 309 KNLTYLTLYFNNISD--ISPVSSLTKLQRLFFYNNKVSDVSSLA--NLTNINWLSAGHNQ 364

Query: 231 LNGTLSEIHFVNLTKLSVFSVNEN-----------NLTLKFLDLGENQIHGEMTNLTNAT 279
           ++         NLT+++   +N+            N+++                +++  
Sbjct: 365 IS---DLTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALIAPATISDGG 421

Query: 280 QLWYLRLHSNN--FSGPLSLISSNLVYLDLFNNSFLGSI 316
                 +  N   ++  +S   S  V +     +F G++
Sbjct: 422 SYTEPDITWNLPSYTNEVSYTFSQPVTIGKGTTTFSGTV 460

>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 = 71.9 bits (176), Expect = 5e-14
 Identities = 36/197 (18%), Positives = 75/197 (38%), Gaps = 25/197 (12%)

Query: 159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNEL 218
            D++  F        +I+  ++S++       +  F+ ++ L+L +  I  +   +    
Sbjct: 39  QDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYA 98

Query: 219 SKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGEN 266
             ++ L++  N +   L    F N+  L+V  +  N+L+            L  L +  N
Sbjct: 99  HTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN 157

Query: 267 QIHG-EMTNLTNATQLWYLRLHSNNFSG-PLSLISSNLVYLDLFNNSFLGSISHFWCYRS 324
            +   E       T L  L+L SN  +   LSLI  +L + ++  N  L +++       
Sbjct: 158 NLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLI-PSLFHANVSYNL-LSTLA------- 208

Query: 325 NETKRLRALSLGDNYLQ 341
                +  L    N + 
Sbjct: 209 -IPIAVEELDASHNSIN 224

>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 = 68.8 bits (168), Expect = 5e-13
 Identities = 35/188 (18%), Positives = 65/188 (34%), Gaps = 22/188 (11%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
             F+   +  ++ L +  ++I         +   L  L L  N +  L     +   KL 
Sbjct: 93  YAFAYAHT--IQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLT 150

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT---------LKFLDLGENQIHGEMT 273
            L +S+N L   + +  F   T L    ++ N LT         L   ++  N +    +
Sbjct: 151 TLSMSNNNLE-RIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLL----S 205

Query: 274 NLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRAL 333
            L     +  L    N+ +     ++  L  L L +N+ L   +    Y       L  +
Sbjct: 206 TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNN-LTDTAWLLNY-----PGLVEV 259

Query: 334 SLGDNYLQ 341
            L  N L+
Sbjct: 260 DLSYNELE 267

>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 = 60.3 bits (146), Expect = 3e-10
 Identities = 32/199 (16%), Positives = 64/199 (32%), Gaps = 35/199 (17%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
           ++   CV   + I +       G    +     N   +   N+++  L    L+   ++ 
Sbjct: 22  NLQYDCVFYDVHIDMQTQDVYFGF---EDITLNNQKIVTFKNSTMRKLPAALLDSFRQVE 78

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG 270
           +L+L+D ++   +    F     +    +  N +             L  L L  N +  
Sbjct: 79  LLNLNDLQIE-EIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSS 137

Query: 271 -EMTNLTNATQLWYLRLHSNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISHFWCY 322
                  N  +L  L + +NN    L  I        ++L  L L +N  L  +      
Sbjct: 138 LPRGIFHNTPKLTTLSMSNNN----LERIEDDTFQATTSLQNLQLSSNR-LTHVD----- 187

Query: 323 RSNETKRLRALSLGDNYLQ 341
             +    L   ++  N L 
Sbjct: 188 -LSLIPSLFHANVSYNLLS 205

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 54.5 bits (131), Expect = 2e-08
 Identities = 29/142 (20%), Positives = 56/142 (39%), Gaps = 16/142 (11%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             L IL L+ ++++   T  + ++  L  +DL  N +  ++     ++ +L  L++S+N+
Sbjct: 232 VELTILKLQHNNLTD--TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR 289

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNN 290
           L      ++   +              LK LDL  N +     N     +L  L L  N+
Sbjct: 290 L--VALNLYGQPIPT------------LKVLDLSHNHLLHVERNQPQFDRLENLYLDHNS 335

Query: 291 FSGPLSLISSNLVYLDLFNNSF 312
                      L  L L +N +
Sbjct: 336 IVTLKLSTHHTLKNLTLSHNDW 357

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 43.4 bits (102), Expect = 7e-05
 Identities = 22/106 (20%), Positives = 39/106 (36%), Gaps = 12/106 (11%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L  + L  + +   +       + L+ L + NN +V L  L    +  L++L LS N L 
Sbjct: 256 LVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVAL-NLYGQPIPTLKVLDLSHNHLL 314

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT---------LKFLDLGENQIH 269
             +         +L    ++ N++          LK L L  N   
Sbjct: 315 -HVERNQP-QFDRLENLYLDHNSIVTLKLSTHHTLKNLTLSHNDWD 358

>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 = 40.3 bits (94), Expect = 8e-04
 Identities = 22/98 (22%), Positives = 41/98 (41%), Gaps = 6/98 (6%)

Query: 157 EISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
            +  +        +  L++L L  + +  H+      F  L+ L L +NSIV    L L+
Sbjct: 289 RLVALNLYGQPIPT--LKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIV---TLKLS 342

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNEN 254
               L+ L LS N  +       F N+ + +V   +++
Sbjct: 343 THHTLKNLTLSHNDWDCNSLRALFRNVARPAVDDADQH 380

>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 = 70.4 bits (173), Expect = 6e-14
 Identities = 34/177 (19%), Positives = 58/177 (32%), Gaps = 20/177 (11%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVP 212
           S   +  +   F G     LE L  + S++       +    +NL  LD+ +        
Sbjct: 86  SFNGVITMSSNFLGLEQ--LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN 143

Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKF 260
              N LS L +L ++ N          F  L  L+   +++  L             L+ 
Sbjct: 144 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 203

Query: 261 LDLGENQIHG-EMTNLTNATQLWYLRLHSNNFS----GPLSLISSNLVYLDLFNNSF 312
           L++  N     +         L  L    N+        L    S+L +L+L  N F
Sbjct: 204 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF 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 = 69.7 bits (171), Expect = 1e-13
 Identities = 33/171 (19%), Positives = 58/171 (33%), Gaps = 32/171 (18%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN-GTLSEIHFVNLTKLSVFSVN 252
             +   L+L +N +  L     ++L++L  L LS N L+            T L    ++
Sbjct: 27  PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLS 86

Query: 253 ENNLT-----------LKFLDLGENQIH--GEMTNLTNATQLWYLRLHSNNFSGPLSLIS 299
            N +            L+ LD   + +    E +   +   L YL +   +      +  
Sbjct: 87  FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH----TRVAF 142

Query: 300 -------SNLVYLDLFNNSFLGSISH--FWCYRSNETKRLRALSLGDNYLQ 341
                  S+L  L +  NSF  +     F      E + L  L L    L+
Sbjct: 143 NGIFNGLSSLEVLKMAGNSFQENFLPDIF-----TELRNLTFLDLSQCQLE 188

>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 = 63.5 bits (155), Expect = 1e-11
 Identities = 39/198 (19%), Positives = 63/198 (31%), Gaps = 36/198 (18%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSI--VGLVPLSLNELSKLRILHL 226
           +      L L S+ +             L  L L +N +   G    S    + L+ L L
Sbjct: 26  IPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL 85

Query: 227 SDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHG-EM 272
           S N +  T+S  +F+ L +L       +NL              L +LD+          
Sbjct: 86  SFNGVI-TMSS-NFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN 143

Query: 273 TNLTNATQLWYLRLHSNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISH--FWCYR 323
                 + L  L++  N+F                NL +LDL     L  +S   F    
Sbjct: 144 GIFNGLSSLEVLKMAGNSF---QENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNS-- 197

Query: 324 SNETKRLRALSLGDNYLQ 341
                 L+ L++  N   
Sbjct: 198 ---LSSLQVLNMSHNNFF 212

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 53.9 bits (130), Expect = 2e-08
 Identities = 33/131 (25%), Positives = 58/131 (44%), Gaps = 14/131 (10%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSLNELSKL 221
            IF+G  S  LE+L +  +S   +    I    +NL  LDL    +  L P + N LS L
Sbjct: 144 GIFNGLSS--LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSL 201

Query: 222 RILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQL 281
           ++L++S N    +L    +  L  L V   + N++        + ++    ++L      
Sbjct: 202 QVLNMSHNNFF-SLDTFPYKCLNSLQVLDYSLNHIM----TSKKQELQHFPSSLA----- 251

Query: 282 WYLRLHSNNFS 292
            +L L  N+F+
Sbjct: 252 -FLNLTQNDFA 261

>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 = 71.3 bits (175), Expect = 7e-14
 Identities = 43/213 (20%), Positives = 78/213 (36%), Gaps = 45/213 (21%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           +     +L L  + I     ++   F +L+ L+L  N +  + P + N L  LR L L  
Sbjct: 30  IPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRS 89

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIH------- 269
           N+L   +    F  L+ L+   ++EN +             LK L++G+N +        
Sbjct: 90  NRLK-LIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAF 148

Query: 270 GEMTNLT------------------NATQLWYLRLHSNNFS--GPLSLIS-SNLVYLDLF 308
             + +L                   +   L  LRL   N +     S      L  L++ 
Sbjct: 149 SGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEIS 208

Query: 309 NNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
           +  +L +++    Y  N    L +LS+    L 
Sbjct: 209 HWPYLDTMTPNCLYGLN----LTSLSITHCNLT 237

>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 = 67.8 bits (166), Expect = 1e-12
 Identities = 47/199 (23%), Positives = 77/199 (38%), Gaps = 31/199 (15%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
             FSG  S  LE L L   +++   TE + H   L  L L + +I  +   S   L +L+
Sbjct: 146 RAFSGLNS--LEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLK 203

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG 270
           +L +S      T++      L  L+  S+   NLT            L+FL+L  N I  
Sbjct: 204 VLEISHWPYLDTMTPNCLYGLN-LTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPIST 262

Query: 271 -EMTNLTNATQLWYLRLHSNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISHFWCY 322
            E + L    +L  ++L        L+++        + L  L++  N  L ++      
Sbjct: 263 IEGSMLHELLRLQEIQLVGGQ----LAVVEPYAFRGLNYLRVLNVSGNQ-LTTLEESVF- 316

Query: 323 RSNETKRLRALSLGDNYLQ 341
             +    L  L L  N L 
Sbjct: 317 --HSVGNLETLILDSNPLA 333

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 70.9 bits (174), Expect = 8e-14
 Identities = 49/181 (27%), Positives = 66/181 (36%), Gaps = 30/181 (16%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           +S    +L L  + I         H ++L+ L L  N I  +   + N L+ L  L L D
Sbjct: 62  ISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFD 121

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG-EMTNLTNATQLWYLRLH 287
           N+L  T+    FV L+K            LK L L  N I             L  L L 
Sbjct: 122 NRLT-TIPNGAFVYLSK------------LKELWLRNNPIESIPSYAFNRIPSLRRLDLG 168

Query: 288 SNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
                  LS IS       SNL YL+L   + L  I +          +L  L L  N+L
Sbjct: 169 ELK---RLSYISEGAFEGLSNLRYLNLAMCN-LREIPNL-----TPLIKLDELDLSGNHL 219

Query: 341 Q 341
            
Sbjct: 220 S 220

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 69.8 bits (171), Expect = 2e-13
 Identities = 44/202 (21%), Positives = 71/202 (35%), Gaps = 33/202 (16%)

Query: 158 ISDI-FDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           I  I    F+G  +  L  L L  + ++        +   L  L L NN I  +   + N
Sbjct: 100 IRTIEIGAFNGLAN--LNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFN 157

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGEN 266
            +  LR L L + K    +SE  F  L+ L   ++   NL           L  LDL  N
Sbjct: 158 RIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGN 217

Query: 267 QIHG-EMTNLTNATQLWYLRLHSNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISH 318
            +      +      L  L +  +     + +I         +LV ++L +N+ L  + H
Sbjct: 218 HLSAIRPGSFQGLMHLQKLWMIQSQ----IQVIERNAFDNLQSLVEINLAHNN-LTLLPH 272

Query: 319 --FWCYRSNETKRLRALSLGDN 338
             F          L  + L  N
Sbjct: 273 DLF-----TPLHHLERIHLHHN 289

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 70.0 bits (172), Expect = 1e-13
 Identities = 41/183 (22%), Positives = 68/183 (37%), Gaps = 26/183 (14%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
            +I  +  SS+   L        N+  LDL  N +  +    L   +KL +L+LS N L 
Sbjct: 12  YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLY 71

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT-------LKFLDLGENQIH----GEMTNLTNATQL 281
            TL      +L+ L    +N N +        ++ L    N I            N    
Sbjct: 72  ETLD---LESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKN---- 124

Query: 282 WYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
             + L +N  +    L     S + YLDL  N  + +++      S  +  L  L+L  N
Sbjct: 125 --IYLANNKITMLRDLDEGCRSRVQYLDLKLNE-IDTVNFAELAAS--SDTLEHLNLQYN 179

Query: 339 YLQ 341
           ++ 
Sbjct: 180 FIY 182

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 68.5 bits (168), Expect = 3e-13
 Identities = 31/165 (18%), Positives = 55/165 (33%), Gaps = 19/165 (11%)

Query: 187 LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKL 246
           + E   +        + ++S+   +         ++ L LS N L+  +S       TKL
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLS-QISAADLAPFTKL 60

Query: 247 SVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLS 296
            + +++ N L           L+ LDL  N +      L     +  L   +NN S    
Sbjct: 61  ELLNLSSNVLYETLDLESLSTLRTLDLNNNYV----QELLVGPSIETLHAANNNISRVSC 116

Query: 297 LISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
                   + L NN     I+           R++ L L  N + 
Sbjct: 117 SRGQGKKNIYLANN----KITMLRDLDEGCRSRVQYLDLKLNEID 157

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 66.9 bits (164), Expect = 9e-13
 Identities = 32/152 (21%), Positives = 57/152 (37%), Gaps = 15/152 (9%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           +E L   +++IS          +    + L NN I  L  L     S+++ L L  N+++
Sbjct: 101 IETLHAANNNIS---RVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEID 157

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLW 282
                    +   L   ++  N +           LK LDL  N++        +A  + 
Sbjct: 158 TVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVT 217

Query: 283 YLRLHSNNFSG-PLSLIS-SNLVYLDLFNNSF 312
           ++ L +N       +L    NL + DL  N F
Sbjct: 218 WISLRNNKLVLIEKALRFSQNLEHFDLRGNGF 249

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 55.0 bits (133), Expect = 9e-09
 Identities = 27/156 (17%), Positives = 50/156 (32%), Gaps = 17/156 (10%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL-VPLSLNELSKLRILHLSDN 229
           +G + + L ++ I+       G    +  LDL  N I  +           L  L+L  N
Sbjct: 120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN 179

Query: 230 KLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNA 278
            +     ++ F  L  L    ++ N L            + ++ L  N++      L  +
Sbjct: 180 FIYDVKGQVVFAKLKTL---DLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFS 236

Query: 279 TQLWYLRLHSNNFSG--PLSLISSNLVYLDLFNNSF 312
             L +  L  N F         S N     +   + 
Sbjct: 237 QNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTV 272

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 47.7 bits (114), Expect = 2e-06
 Identities = 16/126 (12%), Positives = 38/126 (30%), Gaps = 8/126 (6%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L+ L L S+ ++  +  +      +  + L NN +V +   +L     L    L  N  +
Sbjct: 193 LKTLDLSSNKLA-FMGPEFQSAAGVTWISLRNNKLVLI-EKALRFSQNLEHFDLRGNGFH 250

Query: 233 GTLSEIHFVNLTKLSVFSVNENN----LTLKFLDLGENQIHGEMT--NLTNATQLWYLRL 286
                  F    ++   +            +   +     +G     +L        + L
Sbjct: 251 CGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIAL 310

Query: 287 HSNNFS 292
             ++  
Sbjct: 311 GHHHHH 316

>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 = 69.9 bits (171), Expect = 2e-13
 Identities = 41/183 (22%), Positives = 68/183 (37%), Gaps = 26/183 (14%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
            +I  +  SS+   L        N+  LDL  N +  +    L   +KL +L+LS N L 
Sbjct: 12  YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLY 71

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT-------LKFLDLGENQIH----GEMTNLTNATQL 281
            TL      +L+ L    +N N +        ++ L    N I            N    
Sbjct: 72  ETLD---LESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKN---- 124

Query: 282 WYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
             + L +N  +    L     S + YLDL  N  + +++      S  +  L  L+L  N
Sbjct: 125 --IYLANNKITMLRDLDEGCRSRVQYLDLKLNE-IDTVNFAELAAS--SDTLEHLNLQYN 179

Query: 339 YLQ 341
           ++ 
Sbjct: 180 FIY 182

>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 = 67.6 bits (165), Expect = 1e-12
 Identities = 31/165 (18%), Positives = 55/165 (33%), Gaps = 19/165 (11%)

Query: 187 LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKL 246
           + E   +        + ++S+   +         ++ L LS N L+  +S       TKL
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLS-QISAADLAPFTKL 60

Query: 247 SVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLS 296
            + +++ N L           L+ LDL  N +      L     +  L   +NN S    
Sbjct: 61  ELLNLSSNVLYETLDLESLSTLRTLDLNNNYV----QELLVGPSIETLHAANNNISRVSC 116

Query: 297 LISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
                   + L NN     I+           R++ L L  N + 
Sbjct: 117 SRGQGKKNIYLANN----KITMLRDLDEGCRSRVQYLDLKLNEID 157

>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 = 67.2 bits (164), Expect = 2e-12
 Identities = 32/175 (18%), Positives = 64/175 (36%), Gaps = 15/175 (8%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           +E L   +++IS          +    + L NN I  L  L     S+++ L L  N+++
Sbjct: 101 IETLHAANNNIS---RVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEID 157

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLW 282
                    +   L   ++  N +           LK LDL  N++        +A  + 
Sbjct: 158 TVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVT 217

Query: 283 YLRLHSNNFSG-PLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSL 335
           ++ L +N       +L    NL + DL  N F       +  ++   + +   ++
Sbjct: 218 WISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTV 272

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 52.5 bits (126), Expect = 8e-08
 Identities = 28/156 (17%), Positives = 51/156 (32%), Gaps = 17/156 (10%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSL-NELSKLRILHLSDN 229
           +G + + L ++ I+       G    +  LDL  N I  +    L      L  L+L  N
Sbjct: 120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN 179

Query: 230 KLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNA 278
            +     ++ F  L  L    ++ N L            + ++ L  N++      L  +
Sbjct: 180 FIYDVKGQVVFAKLKTL---DLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFS 236

Query: 279 TQLWYLRLHSNNFSG--PLSLISSNLVYLDLFNNSF 312
             L +  L  N F         S N     +   + 
Sbjct: 237 QNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTV 272

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 49.1 bits (117), Expect = 1e-06
 Identities = 21/169 (12%), Positives = 46/169 (27%), Gaps = 12/169 (7%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L+ L L S+ ++  +  +      +  + L NN +V +   +L     L    L  N  +
Sbjct: 193 LKTLDLSSNKLA-FMGPEFQSAAGVTWISLRNNKLVLI-EKALRFSQNLEHFDLRGNGFH 250

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFS 292
                  F    ++   +             G+N+    +  L +        L +    
Sbjct: 251 CGTLRDFFSKNQRVQTVAKQTVKKL-----TGQNEEECTVPTLGHYGAYCCEDLPAPFAD 305

Query: 293 GPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
             ++L       L    +                  R R +       +
Sbjct: 306 RLIALKRKEHALLSGQGSETERLECERE-----NQARQREIDALKEQYR 349

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 68.9 bits (169), Expect = 3e-13
 Identities = 37/168 (22%), Positives = 61/168 (36%), Gaps = 28/168 (16%)

Query: 192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL-NGTLSEIHFVNLTKLSVFS 250
               +L  L + +N I  +     + L  +  + +  N L N       F  L KL+   
Sbjct: 120 NLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLR 178

Query: 251 VNENNLT---------LKFLDLGENQIHG-EMTNLTNATQLWYLRLHSNNFSGPLSLIS- 299
           ++E  LT         L  L L  N+I   E+ +L   ++L+ L L  N     + +I  
Sbjct: 179 ISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ----IRMIEN 234

Query: 300 ------SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
                   L  L L NN  L  +         + K L+ + L  N + 
Sbjct: 235 GSLSFLPTLRELHLDNNK-LSRVPAGL----PDLKLLQVVYLHTNNIT 277

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 63.1 bits (154), Expect = 2e-11
 Identities = 39/189 (20%), Positives = 74/189 (39%), Gaps = 26/189 (13%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           +S    +L L+++ IS    +     ++L  L L NN I  +   + + L KL+ L++S 
Sbjct: 52  ISPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISK 111

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLT 276
           N L   +      +L +L    +++N +             +  +++G N +  E +   
Sbjct: 112 NHLV-EIPPNLPSSLVEL---RIHDNRIRKVPKGVFSGLRNMNCIEMGGNPL--ENSGFE 165

Query: 277 NAT----QLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRA 332
                  +L YLR+     +G    +   L  L L +N     I            +L  
Sbjct: 166 PGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHN----KIQAIELEDLLRYSKLYR 221

Query: 333 LSLGDNYLQ 341
           L LG N ++
Sbjct: 222 LGLGHNQIR 230

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 28/150 (18%), Positives = 47/150 (31%), Gaps = 32/150 (21%)

Query: 192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSV 251
              + L+ L L +N I  +    L   SKL  L L  N++   +       L  L     
Sbjct: 190 DLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIR-MIENGSLSFLPTL----- 243

Query: 252 NENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNS 311
                  + L L  N++      L +   L  + LH+NN +              +  N 
Sbjct: 244 -------RELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNIT-------------KVGVND 283

Query: 312 FLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
           F             +      +SL +N + 
Sbjct: 284 FCP------VGFGVKRAYYNGISLFNNPVP 307

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 49.2 bits (118), Expect = 6e-07
 Identities = 34/160 (21%), Positives = 54/160 (33%), Gaps = 42/160 (26%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
           + L  L L  + I     E +  +  L  L LG+N I  +   SL+ L  LR LHL +NK
Sbjct: 193 ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNK 252

Query: 231 LNGTLSEI--HFVNLTKLSVFSVNENNLT------------------LKFLDLGENQIHG 270
           L    S +     +L  L V  ++ NN+T                     + L  N +  
Sbjct: 253 L----SRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVP- 307

Query: 271 EMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNN 310
                       Y  +    F        ++ + +   N 
Sbjct: 308 ------------YWEVQPATFRC-----VTDRLAIQFGNY 330

>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 = 69.4 bits (170), Expect = 3e-13
 Identities = 44/192 (22%), Positives = 67/192 (34%), Gaps = 27/192 (14%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
            + L L  + +    +     F  L  LDL    I  +   +   LS L  L L+ N + 
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIH--GEMTNLTNA 278
            +L+   F  L+ L      E NL             LK L++  N I         +N 
Sbjct: 90  -SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNL 148

Query: 279 TQLWYLRLHSNNFSG-------PLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLR 331
           T L +L L SN            L  +    + LDL  N  +  I       + +  RL 
Sbjct: 149 TNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLN-PMNFIQPG----AFKEIRLH 203

Query: 332 ALSLGDNYLQGE 343
            L+L +N+    
Sbjct: 204 KLTLRNNFDSLN 215

>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 = 8e-12
 Identities = 32/165 (19%), Positives = 56/165 (33%), Gaps = 18/165 (10%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE 253
             +   LDL  N +  L   S     +L++L LS  ++  T+ +  + +L+ LS   +  
Sbjct: 27  PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLILTG 85

Query: 254 NNLT------------LKFLDLGENQIHGEMTN-LTNATQLWYLRLHSNNF-SGPLSLI- 298
           N +             L+ L   E  +       + +   L  L +  N   S  L    
Sbjct: 86  NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 299 --SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
              +NL +LDL +N                     +L L  N + 
Sbjct: 146 SNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMN 190

>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 = 61.7 bits (150), Expect = 1e-10
 Identities = 35/170 (20%), Positives = 56/170 (32%), Gaps = 19/170 (11%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISG-HLTEQIGHFKNLDTLDLGNNSIVGLVP 212
           S   +  +   F G     LE L  + S++            +NL  LD+ +        
Sbjct: 381 SFNGVITMSSNFLGLEQ--LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN 438

Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG-E 271
              N LS L +L ++ N          F  L              L FLDL + Q+    
Sbjct: 439 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRN------------LTFLDLSQCQLEQLS 486

Query: 272 MTNLTNATQLWYLRLHSNNFSG-PLSLIS--SNLVYLDLFNNSFLGSISH 318
            T   + + L  L + SN     P  +    ++L  + L  N +  S   
Sbjct: 487 PTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPR 536

>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 = 60.5 bits (147), Expect = 2e-10
 Identities = 32/189 (16%), Positives = 61/189 (32%), Gaps = 21/189 (11%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L  L+L  + I            +L  L     ++  L    +  L  L+ L+++ N + 
Sbjct: 78  LSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 137

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT----------------LKFLDLGENQIHGEMTNLT 276
                 +F NLT L    ++ N +                    LDL  N ++       
Sbjct: 138 SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF 197

Query: 277 NATQLWYLRLHSNNFSGPLSLIS----SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRA 332
              +L  L L +N  S  +        + L    L    F  +  +   +  +  + L  
Sbjct: 198 KEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFR-NEGNLEKFDKSALEGLCN 256

Query: 333 LSLGDNYLQ 341
           L++ +  L 
Sbjct: 257 LTIEEFRLA 265

>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 = 59.7 bits (145), Expect = 5e-10
 Identities = 48/249 (19%), Positives = 79/249 (31%), Gaps = 36/249 (14%)

Query: 115 LTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRT----GAKSSQEISDIFDIFSGCVS 170
           L  LE   +           +    +  + L          A     + DI D+F+   +
Sbjct: 224 LAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTN 283

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             +    L S +I     +   +      L+L N        L L  L +L     + NK
Sbjct: 284 --VSSFSLVSVTIER--VKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRL---TFTSNK 336

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT--------------LKFLDLGENQIHGEMTNLT 276
                S    V+L  L    ++ N L+              LK+LDL  N +    +N  
Sbjct: 337 GGNAFS---EVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFL 393

Query: 277 NATQLWYLRLHSNNFSGPLSLIS----SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRA 332
              QL +L    +N              NL+YLD+ +     + +  +    N    L  
Sbjct: 394 GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF----NGLSSLEV 449

Query: 333 LSLGDNYLQ 341
           L +  N  Q
Sbjct: 450 LKMAGNSFQ 458

>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 = 6e-06
 Identities = 26/167 (15%), Positives = 46/167 (27%), Gaps = 28/167 (16%)

Query: 196 NLDTLDLGNNSI-VGLVPLSLNELSKLRILHLSDNKLNG-----TLSEIHFVNLTKLSVF 249
            L  L L NN   + ++   +  L+ L +  L   +           +     L  L++ 
Sbjct: 201 RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIE 260

Query: 250 SVNENNLT---------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGP 294
                 L                +    L    I   + + +      +L L +  F   
Sbjct: 261 EFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIE-RVKDFSYNFGWQHLELVNCKFGQF 319

Query: 295 LSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
            +L   +L  L   +N    + S            L  L L  N L 
Sbjct: 320 PTLKLKSLKRLTFTSNKGGNAFSEVDL------PSLEFLDLSRNGLS 360

>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 = 67.7 bits (166), Expect = 4e-13
 Identities = 40/195 (20%), Positives = 66/195 (33%), Gaps = 32/195 (16%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           +    + + L  + IS          +NL  L L +N +  +   +   L+ L  L LSD
Sbjct: 30  IPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSD 89

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG-EMTNL 275
           N    ++    F  L +L    ++   L             L++L L +N +        
Sbjct: 90  NAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTF 149

Query: 276 TNATQLWYLRLHSNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISH--FWCYRSNE 326
            +   L +L LH N     +S +         +L  L L  N  +  +    F       
Sbjct: 150 RDLGNLTHLFLHGNR----ISSVPERAFRGLHSLDRLLLHQNR-VAHVHPHAFRD----- 199

Query: 327 TKRLRALSLGDNYLQ 341
             RL  L L  N L 
Sbjct: 200 LGRLMTLYLFANNLS 214

>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 = 68.2 bits (167), Expect = 6e-13
 Identities = 41/181 (22%), Positives = 60/181 (33%), Gaps = 30/181 (16%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           +      L L  ++I     +   H  +L+ L LG NSI  +   + N L+ L  L L D
Sbjct: 73  IPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD 132

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG-EMTNLTNATQLWYLRLH 287
           N L   +    F  L+K            L+ L L  N I             L  L L 
Sbjct: 133 NWLT-VIPSGAFEYLSK------------LRELWLRNNPIESIPSYAFNRVPSLMRLDLG 179

Query: 288 SNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
                  L  IS        NL YL+L   + +  + +           L  L +  N+ 
Sbjct: 180 ELK---KLEYISEGAFEGLFNLKYLNLGMCN-IKDMPNL-----TPLVGLEELEMSGNHF 230

Query: 341 Q 341
            
Sbjct: 231 P 231

>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 = 67.8 bits (166), Expect = 9e-13
 Identities = 44/194 (22%), Positives = 73/194 (37%), Gaps = 32/194 (16%)

Query: 165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRIL 224
           F+G  S  L  L L  + ++   +    +   L  L L NN I  +   + N +  L  L
Sbjct: 119 FNGLAS--LNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRL 176

Query: 225 HLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTN 274
            L + K    +SE  F  L  L   ++   N+           L+ L++  N        
Sbjct: 177 DLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPG 236

Query: 275 -LTNATQLWYLRLHSNNFSGPLSLIS-------SNLVYLDLFNNSFLGSISH--FWCYRS 324
                + L  L + ++     +SLI        ++LV L+L +N+ L S+ H  F     
Sbjct: 237 SFHGLSSLKKLWVMNSQ----VSLIERNAFDGLASLVELNLAHNN-LSSLPHDLF----- 286

Query: 325 NETKRLRALSLGDN 338
              + L  L L  N
Sbjct: 287 TPLRYLVELHLHHN 300

>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 = 65.4 bits (160), Expect = 8e-13
 Identities = 27/154 (17%), Positives = 52/154 (33%), Gaps = 20/154 (12%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             L  + L + +++  LT  I +  N+  L + N       P+S   LS L  L +    
Sbjct: 44  NSLTYITLANINVT-DLTG-IEYAHNIKDLTINNIHATNYNPIS--GLSNLERLRIMGKD 99

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNA 278
           +       +   LT L++  ++ +               +  +DL  N    ++  L   
Sbjct: 100 VTSDKIP-NLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTL 158

Query: 279 TQLWYLRLHSNNFSGPLSLIS--SNLVYLDLFNN 310
            +L  L +  +        I     L  L  F+ 
Sbjct: 159 PELKSLNIQFDGVHD-YRGIEDFPKLNQLYAFSQ 191

>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 = 60.7 bits (148), Expect = 4e-11
 Identities = 21/123 (17%), Positives = 45/123 (36%), Gaps = 15/123 (12%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             LE L +    ++      +    +L  LD+ +++    +   +N L K+  + LS N 
Sbjct: 88  SNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNG 147

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNN 290
               +  +    L +            LK L++  + +H +   + +  +L  L   S  
Sbjct: 148 AITDIMPLK--TLPE------------LKSLNIQFDGVH-DYRGIEDFPKLNQLYAFSQT 192

Query: 291 FSG 293
             G
Sbjct: 193 IGG 195

>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 = 66.6 bits (163), Expect = 1e-12
 Identities = 35/171 (20%), Positives = 75/171 (43%), Gaps = 21/171 (12%)

Query: 157 EISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
            + ++  I      + ++ L L S+ I+      +    NL  L L  N I  + PL+  
Sbjct: 96  PLKNVSAIAG---LQSIKTLDLTSTQITD--VTPLAGLSNLQVLYLDLNQITNISPLA-- 148

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGEN 266
            L+ L+ L + + +++  L+ +   NL+KL+    ++N ++          L  + L  N
Sbjct: 149 GLTNLQYLSIGNAQVS-DLTPLA--NLSKLTTLKADDNKISDISPLASLPNLIEVHLKNN 205

Query: 267 QIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSIS 317
           QI  +++ L N + L+ + L +   +      ++NLV  ++        I+
Sbjct: 206 QIS-DVSPLANTSNLFIVTLTNQTITNQPVFYNNNLVVPNVVKGPSGAPIA 255

>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 = 65.9 bits (161), Expect = 2e-12
 Identities = 45/182 (24%), Positives = 72/182 (39%), Gaps = 27/182 (14%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
            G+  L    + ++    E + +  NL  L+L +N I  L PL    L+K+  L LS N 
Sbjct: 41  DGITTLSAFGTGVTT--IEGVQYLNNLIGLELKDNQITDLAPLK--NLTKITELELSGNP 96

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQ 280
           L   +S I    L  +    +    +T          L+ L L  NQI   ++ L   T 
Sbjct: 97  LK-NVSAIA--GLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQIT-NISPLAGLTN 152

Query: 281 LWYLRLHSNNFSGPLSLIS--SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
           L YL + +   S  L+ ++  S L  L   +N  +  IS            L  + L +N
Sbjct: 153 LQYLSIGNAQVSD-LTPLANLSKLTTLKADDNK-ISDISPL-----ASLPNLIEVHLKNN 205

Query: 339 YL 340
            +
Sbjct: 206 QI 207

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 63.2 bits (154), Expect = 2e-11
 Identities = 29/158 (18%), Positives = 56/158 (35%), Gaps = 23/158 (14%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE 253
             N   +  G +++   V  +  +L  +  L      +  T+  +    L  L    + +
Sbjct: 18  LANAIKIAAGKSNVTDTVTQA--DLDGITTLSAFGTGVT-TIEGVQ--YLNNLIGLELKD 72

Query: 254 NNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS-SNL 302
           N +T          +  L+L  N +   ++ +     +  L L S   +    L   SNL
Sbjct: 73  NQITDLAPLKNLTKITELELSGNPLK-NVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNL 131

Query: 303 VYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
             L L  N  + +IS            L+ LS+G+  +
Sbjct: 132 QVLYLDLNQ-ITNISPL-----AGLTNLQYLSIGNAQV 163

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 51.6 bits (124), Expect = 1e-07
 Identities = 27/143 (18%), Positives = 53/143 (37%), Gaps = 17/143 (11%)

Query: 204 NNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN-------ENNL 256
             +I  + P     L+    +    + +  T+++     +T LS F          +   
Sbjct: 6   PTAINVIFPDP--ALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLN 63

Query: 257 TLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGS 315
            L  L+L +NQI  ++  L N T++  L L  N      ++    ++  LDL +   +  
Sbjct: 64  NLIGLELKDNQIT-DLAPLKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQ-ITD 121

Query: 316 ISHFWCYRSNETKRLRALSLGDN 338
           ++            L+ L L  N
Sbjct: 122 VTPL-----AGLSNLQVLYLDLN 139

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 65.6 bits (160), Expect = 4e-12
 Identities = 42/178 (23%), Positives = 64/178 (35%), Gaps = 34/178 (19%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSL 215
           C  + L            +L L  +++S    E       NL +L L +N +  +   + 
Sbjct: 25  CSKQQLPNVPQSLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAF 84

Query: 216 NELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDL 263
             +  LR L LS N L+ TL E  F +L  L V  +  N++             L+ L L
Sbjct: 85  VPVPNLRYLDLSSNHLH-TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYL 143

Query: 264 GENQI----HGEMTNLTNATQLWYLRLHSNNFS-----GPLSLISSNLVYLDLFNNSF 312
            +NQI       + +     +L  L L SN            L +     L L NN  
Sbjct: 144 SQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPL 201

>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 = 63.5 bits (155), Expect = 1e-11
 Identities = 46/198 (23%), Positives = 82/198 (41%), Gaps = 32/198 (16%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL 213
             + ++D     +   S  ++ ++  +S I   + + I +  N+  L L  N +  + PL
Sbjct: 32  KKKSVTDA-VTQNELNS--IDQIIANNSDIK-SV-QGIQYLPNVTKLFLNGNKLTDIKPL 86

Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFV-NLTKLSVFSVNENNLT----------LKFLD 262
           +   L  L  L L +NK    + ++  + +L KL   S+  N ++          L+ L 
Sbjct: 87  A--NLKNLGWLFLDENK----VKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLY 140

Query: 263 LGENQIHGEMTNLTNATQLWYLRLHSNNFS--GPLSLISSNLVYLDLFNNSFLGSISHFW 320
           LG N+I  ++T L+  T+L  L L  N  S   PL+ + + L  L L  N  +  +    
Sbjct: 141 LGNNKIT-DITVLSRLTKLDTLSLEDNQISDIVPLAGL-TKLQNLYLSKNH-ISDLRAL- 196

Query: 321 CYRSNETKRLRALSLGDN 338
                  K L  L L   
Sbjct: 197 ----AGLKNLDVLELFSQ 210

>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 = 63.1 bits (154), Expect = 2e-11
 Identities = 41/168 (24%), Positives = 68/168 (40%), Gaps = 23/168 (13%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL 213
           +  +++DI  + +    K L  L L  + +       +   K L +L L +N I  +  L
Sbjct: 76  NGNKLTDIKPLAN---LKNLGWLFLDENKVKD--LSSLKDLKKLKSLSLEHNGISDINGL 130

Query: 214 SLNELSKLRILHLSDNKLNGTLSEIH-FVNLTKLSVFSVNENNLT----------LKFLD 262
               L +L  L+L +NK+    ++I     LTKL   S+ +N ++          L+ L 
Sbjct: 131 V--HLPQLESLYLGNNKI----TDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLY 184

Query: 263 LGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNN 310
           L +N I  ++  L     L  L L S           SNLV  +   N
Sbjct: 185 LSKNHIS-DLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKN 231

>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 = 61.2 bits (149), Expect = 6e-11
 Identities = 35/160 (21%), Positives = 67/160 (41%), Gaps = 25/160 (15%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
            F      +L   S+   V  +  EL+ +  +  +++ +  ++  I    L  ++   +N
Sbjct: 22  AFAETIKDNLKKKSVTDAVTQN--ELNSIDQIIANNSDIK-SVQGIQ--YLPNVTKLFLN 76

Query: 253 ENNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS--S 300
            N LT          L +L L EN++  ++++L +  +L  L L  N  S  ++ +    
Sbjct: 77  GNKLTDIKPLANLKNLGWLFLDENKVK-DLSSLKDLKKLKSLSLEHNGISD-INGLVHLP 134

Query: 301 NLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
            L  L L NN  +  I+       +   +L  LSL DN +
Sbjct: 135 QLESLYLGNNK-ITDITVL-----SRLTKLDTLSLEDNQI 168

>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 = 63.8 bits (156), Expect = 1e-11
 Identities = 45/249 (18%), Positives = 73/249 (29%), Gaps = 58/249 (23%)

Query: 115 LTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLE 174
           L+  ++   ADR    S   Q   +N +      R        +    D+       G  
Sbjct: 32  LSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGR-------ALKATADLLEDATQPGRV 84

Query: 175 ILVLRSSSIS------GHLT----------------EQIGHFKNLDTLDLGNNSIVGLVP 212
            L LRS  +         L+                + +  F  L+TL L  N +  L P
Sbjct: 85  ALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRAL-P 143

Query: 213 LSLNELSKLRILHLSDNKLNGTLSE--------IHFVNLTKLSVFSVNENNLT------- 257
            S+  L++LR L +        L E             L  L    +    +        
Sbjct: 144 ASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIA 203

Query: 258 ----LKFLDLGENQIHG---EMTNLTNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDL 307
               LK L +  + +      + +L     L  L L         P      + L  L L
Sbjct: 204 NLQNLKSLKIRNSPLSALGPAIHHLPK---LEELDLRGCTALRNYPPIFGGRAPLKRLIL 260

Query: 308 FNNSFLGSI 316
            + S L ++
Sbjct: 261 KDCSNLLTL 269

>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 = 57.6 bits (140), Expect = 1e-09
 Identities = 26/193 (13%), Positives = 49/193 (25%), Gaps = 28/193 (14%)

Query: 170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN 229
           S G E L  + S+      + +  ++     D                 +  +I   +  
Sbjct: 11  SSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHS----AWRQANSNNPQIETRTGR 66

Query: 230 KLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIH---GEMTNL 275
            L  T   +            +    L            L+ + +    +      M   
Sbjct: 67  ALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQF 126

Query: 276 TNATQLWYLRLHSNNFSG-PLSLIS-SNLVYLDLFNNSFLGSI-----SHFWCYRSNETK 328
                L  L L  N     P S+ S + L  L +     L  +     S           
Sbjct: 127 AG---LETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLV 183

Query: 329 RLRALSLGDNYLQ 341
            L++L L    ++
Sbjct: 184 NLQSLRLEWTGIR 196

>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 = 49.6 bits (119), Expect = 5e-07
 Identities = 27/133 (20%), Positives = 44/133 (33%), Gaps = 17/133 (12%)

Query: 187 LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKL 246
            + +     NL +L L    I  L P S+  L  L+ L + ++ L+     IH  +L KL
Sbjct: 175 ASGEHQGLVNLQSLRLEWTGIRSL-PASIANLQNLKSLKIRNSPLSALGPAIH--HLPKL 231

Query: 247 SVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNF--SGPLSLIS-SNLV 303
               +        +                    L  L L   +   + PL +   + L 
Sbjct: 232 EELDLRGCTALRNYPP--------IFGGRAP---LKRLILKDCSNLLTLPLDIHRLTQLE 280

Query: 304 YLDLFNNSFLGSI 316
            LDL     L  +
Sbjct: 281 KLDLRGCVNLSRL 293

>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 = 45.3 bits (108), Expect = 1e-05
 Identities = 25/111 (22%), Positives = 41/111 (36%), Gaps = 16/111 (14%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
           + L+ L +R+S +S  L   I H   L+ LDL   + +   P      + L+ L L D  
Sbjct: 206 QNLKSLKIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCS 264

Query: 231 LNGTL-SEIHFVNLTKLSVFSVNEN-----------NLT-LKFLDLGENQI 268
              TL  +IH   LT+L    +               L     + +  +  
Sbjct: 265 NLLTLPLDIH--RLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQ 313

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

 Score = 44.6 bits (106), Expect = 2e-05
 Identities = 19/87 (21%), Positives = 30/87 (34%), Gaps = 1/87 (1%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             LE L LR  +   +     G    L  L L + S +  +PL ++ L++L  L L    
Sbjct: 229 PKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCV 288

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT 257
               L       L    +  V  +   
Sbjct: 289 NLSRLPS-LIAQLPANCIILVPPHLQA 314

>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 = 63.6 bits (155), Expect = 2e-11
 Identities = 47/195 (24%), Positives = 73/195 (37%), Gaps = 35/195 (17%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             L  L   +SSI+  +T  I     L  L   +N+I     L L++ + L  L    NK
Sbjct: 42  ATLTSLDCHNSSIT-DMTG-IEKLTGLTKLICTSNNITT---LDLSQNTNLTYLACDSNK 96

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT---------LKFLDLGENQIHGEMTNLTNATQL 281
               L+ +    LTKL+  + + N LT         L +L+   N +     ++++ TQL
Sbjct: 97  ----LTNLDVTPLTKLTYLNCDTNKLTKLDVSQNPLLTYLNCARNTL--TEIDVSHNTQL 150

Query: 282 WYLRLHSNNFSGPLSLIS-SNLVYLDLFNN-------SFLGSISHFWCYRSNET------ 327
             L  H N     L +   + L  LD   N       S    ++   C  +N T      
Sbjct: 151 TELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNITKLDLNQ 210

Query: 328 -KRLRALSLGDNYLQ 341
             +L  L    N L 
Sbjct: 211 NIQLTFLDCSSNKLT 225

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 55.8 bits (135), Expect = 7e-09
 Identities = 27/128 (21%), Positives = 42/128 (32%), Gaps = 15/128 (11%)

Query: 191 IGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS 250
           +     L   D   N +     L ++ LSKL  LH     L   +   H   L       
Sbjct: 229 VTPLTQLTYFDCSVNPL---TELDVSTLSKLTTLHCIQTDLL-EIDLTHNTQLIYFQAEG 284

Query: 251 VNE-------NNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSG-PLSLISSNL 302
             +       +N  L  LD     I     +L+   +L YL L++   +   +S   + L
Sbjct: 285 CRKIKELDVTHNTQLYLLDCQAAGI--TELDLSQNPKLVYLYLNNTELTELDVSHN-TKL 341

Query: 303 VYLDLFNN 310
             L   N 
Sbjct: 342 KSLSCVNA 349

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 54.7 bits (132), Expect = 2e-08
 Identities = 30/170 (17%), Positives = 59/170 (34%), Gaps = 29/170 (17%)

Query: 195 KNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNEN 254
            N  +       +     +S  +L+ L  L   ++ +   ++ I    LT L+      N
Sbjct: 18  DNFASEVAAAFEMQATDTISEEQLATLTSLDCHNSSIT-DMTGIE--KLTGLTKLICTSN 74

Query: 255 NLT---------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYL 305
           N+T         L +L    N++     ++T  T+L YL   +N  +      +  L YL
Sbjct: 75  NITTLDLSQNTNLTYLACDSNKL--TNLDVTPLTKLTYLNCDTNKLTKLDVSQNPLLTYL 132

Query: 306 DLFNN-------SFLGSISHFWCYRSNET--------KRLRALSLGDNYL 340
           +   N       S    ++   C+ + +          +L  L    N +
Sbjct: 133 NCARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKI 182

>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 = 50.8 bits (122), Expect = 3e-07
 Identities = 20/145 (13%), Positives = 50/145 (34%), Gaps = 21/145 (14%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           ++   +++  ++          + H   L  LD     I     L L++  KL  L+L++
Sbjct: 271 LTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGIT---ELDLSQNPKLVYLYLNN 327

Query: 229 NKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHS 288
            +    L+E+   + TKL   S    ++              + +++     L       
Sbjct: 328 TE----LTELDVSHNTKLKSLSCVNAHIQ-------------DFSSVGKIPALNNNFEAE 370

Query: 289 NNFSG-PLSLISSNLVYLDLFNNSF 312
                 P   +++N + + +  +  
Sbjct: 371 GQTITMPKETLTNNSLTIAVSPDLL 395

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 61.2 bits (149), Expect = 5e-11
 Identities = 37/152 (24%), Positives = 57/152 (37%), Gaps = 24/152 (15%)

Query: 189 EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV 248
                  N    +LG  S+  LV     ELS ++  +  ++            N+  L+ 
Sbjct: 13  FPDPGLANAVKQNLGKQSVTDLVSQK--ELSGVQNFNGDNS------------NIQSLAG 58

Query: 249 FSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLF 308
                N   LK L L  NQI  +++ L + T+L  L ++ N       + S+ L  L L 
Sbjct: 59  MQFFTN---LKELHLSHNQIS-DLSPLKDLTKLEELSVNRNRLKNLNGIPSACLSRLFLD 114

Query: 309 NNSFLGSISHFWCYRSNETKRLRALSLGDNYL 340
           NN  L              K L  LS+ +N L
Sbjct: 115 NNE-LRDTDSL-----IHLKNLEILSIRNNKL 140

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 57.0 bits (138), Expect = 1e-09
 Identities = 30/167 (17%), Positives = 55/167 (32%), Gaps = 22/167 (13%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL 213
            +  I  +  +        L+ L L  + IS      +     L+ L +  N +  L  +
Sbjct: 49  DNSNIQSLAGMQF---FTNLKELHLSHNQISD--LSPLKDLTKLEELSVNRNRLKNLNGI 103

Query: 214 SLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDL 263
                + L  L L +N+L      +   +L  L + S+  N L           L+ LDL
Sbjct: 104 ---PSACLSRLFLDNNELR-DTDSLI--HLKNLEILSIRNNKLKSIVMLGFLSKLEVLDL 157

Query: 264 GENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNN 310
             N+I      LT   ++ ++ L               L   +   +
Sbjct: 158 HGNEIT-NTGGLTRLKKVNWIDLTGQKCVNEPVKYQPELYITNTVKD 203

>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 = 61.1 bits (149), Expect = 6e-11
 Identities = 35/171 (20%), Positives = 60/171 (35%), Gaps = 34/171 (19%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           +   LDL  N +  L   S     +L++L LS  ++  T+ +  + +L+ LS   +  N 
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLILTGNP 87

Query: 256 LT------------LKFLDLGENQI----HGEMTNLTNATQLWYLRLHSNNFSGPLSLIS 299
           +             L+ L   E  +    +  + +L     L  L +  N      S   
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT---LKELNVAHNLIQ---SFKL 141

Query: 300 -------SNLVYLDLFNNSFLGSISH--FWCYRSNETKRLRALSLGDNYLQ 341
                  +NL +LDL +N  + SI               L  L L  N + 
Sbjct: 142 PEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLS-LDLSLNPMN 190

>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 = 55.4 bits (134), Expect = 5e-09
 Identities = 48/210 (22%), Positives = 72/210 (34%), Gaps = 46/210 (21%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           C+               + L L  + +    +     F  L  LDL    I  +   +  
Sbjct: 14  CMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQ 73

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLG 264
            LS L  L L+ N +  +L+   F  L+ L      E NL             LK L++ 
Sbjct: 74  SLSHLSTLILTGNPIQ-SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVA 132

Query: 265 ENQIH-----GEMTNLTNATQLWYLRLHSNN--------FSGPLSLISSNLVYLDLFNNS 311
            N I         +NLTN   L +L L SN             L  +    + LDL  N 
Sbjct: 133 HNLIQSFKLPEYFSNLTN---LEHLDLSSNKIQSIYCTDLRV-LHQMPLLNLSLDLSLNP 188

Query: 312 FLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
            +  I       + +  RL+ L+L  N L+
Sbjct: 189 -MNFIQP----GAFKEIRLKELALDTNQLK 213

>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 = 55.0 bits (133), Expect = 7e-09
 Identities = 25/138 (18%), Positives = 47/138 (34%), Gaps = 27/138 (19%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           +L  L     ++  L    +  L  L+ L+++ N +       +F NLT L    ++ N 
Sbjct: 101 SLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK 160

Query: 256 LT------------LKF----LDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS 299
           +             +      LDL  N ++          +L  L L +N     L  + 
Sbjct: 161 IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQ----LKSVP 216

Query: 300 -------SNLVYLDLFNN 310
                  ++L  + L  N
Sbjct: 217 DGIFDRLTSLQKIWLHTN 234

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 61.7 bits (150), Expect = 7e-11
 Identities = 28/153 (18%), Positives = 56/153 (36%), Gaps = 10/153 (6%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR 222
             F+G     LE L + +S +  +  + +   +N+  L L     + L+ + ++  S + 
Sbjct: 168 KDFAGLTF--LEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVE 225

Query: 223 ILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLW 282
            L L D  L+      HF  L+     +      T + + + +  +   M  L   + L 
Sbjct: 226 CLELRDTDLDT----FHFSELSTG-ETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLL 280

Query: 283 YLRLHSNNFSG-PLSLISS--NLVYLDLFNNSF 312
            L    N     P  +     +L  + L  N +
Sbjct: 281 ELEFSRNQLKSVPDGIFDRLTSLQKIWLHTNPW 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 = 58.2 bits (141), Expect = 9e-10
 Identities = 42/202 (20%), Positives = 68/202 (33%), Gaps = 27/202 (13%)

Query: 163 DIFSGCVSKGLEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSLNELSKL 221
                CV+  L+ LVL S+ I+  + E       +L+ LDL  N +  L       LS L
Sbjct: 70  SDLQRCVN--LQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSL 126

Query: 222 RILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNL-------------TLKFLDLGENQI 268
             L+L  N          F +LTKL +  V   +               L+ L++  + +
Sbjct: 127 TFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDL 186

Query: 269 HG-EMTNLTNATQLWYLRLHSNN--------FSGPLSLISSNLVYLDLFNNSFLGSISHF 319
              E  +L +   + +L LH                S+    L   DL        +S  
Sbjct: 187 QSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFH-FSELSTG 245

Query: 320 WCYRSNETKRLRALSLGDNYLQ 341
                 +    R + + D  L 
Sbjct: 246 ETNSLIKKFTFRNVKITDESLF 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 = 58.2 bits (141), Expect = 1e-09
 Identities = 37/169 (21%), Positives = 64/169 (37%), Gaps = 29/169 (17%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE 253
            + + +LDL NN I  +    L     L+ L L+ N +N T+ E  F +L  L    ++ 
Sbjct: 51  TEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSY 109

Query: 254 NNLT------------LKFLDLGENQIH--GEMTNLTNATQLWYLRLHSNNFSGPLSLIS 299
           N L+            L FL+L  N     GE +  ++ T+L  LR+ + +     + I 
Sbjct: 110 NYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDT---FTKIQ 166

Query: 300 -------SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
                  + L  L++  +  L S            + +  L L      
Sbjct: 167 RKDFAGLTFLEELEIDASD-LQSYEPKSL---KSIQNVSHLILHMKQHI 211

>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 = 60.9 bits (148), Expect = 1e-10
 Identities = 37/165 (22%), Positives = 57/165 (34%), Gaps = 21/165 (12%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           +++ +DL  NSI  L   S + L  L+ L +        +    F  L+ L +  ++ N 
Sbjct: 31  HVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ 90

Query: 256 LT------------LKFLDLGENQIHGEM---TNLTNATQLWYLRLHSNNFS--GPLSLI 298
                         L+ L L +  + G +         T L  L L  NN     P S  
Sbjct: 91  FLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFF 150

Query: 299 SS--NLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
            +      LDL  N  + SI       + + K    L L    LQ
Sbjct: 151 LNMRRFHVLDLTFNK-VKSICEE-DLLNFQGKHFTLLRLSSITLQ 193

>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 = 60.5 bits (147), Expect = 2e-10
 Identities = 39/200 (19%), Positives = 69/200 (34%), Gaps = 32/200 (16%)

Query: 173 LEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
           L+ L +   +    +         +L  L L  N  + L   + N L+ L +L L+   L
Sbjct: 56  LQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNL 115

Query: 232 NGT-LSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQI----HGEMT 273
           +G  LS   F  LT L +  + +NN+                 LDL  N++      ++ 
Sbjct: 116 DGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLL 175

Query: 274 NLTNATQLWYLRLHSNNFSG-PLSLISS----------NLVYLDLFNNSFLGSISHFWCY 322
           N         LRL S          +            ++  LDL  N           +
Sbjct: 176 NFQG-KHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNG-FKESMAKRFF 233

Query: 323 RSNETKRLRALSLGDNYLQG 342
            +    ++++L L ++Y  G
Sbjct: 234 DAIAGTKIQSLILSNSYNMG 253

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 59.8 bits (145), Expect = 3e-10
 Identities = 33/137 (24%), Positives = 53/137 (38%), Gaps = 25/137 (18%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
            + T DL  + I  L+    +  + L  L L+ N++N  + +  F  LT L   ++++N 
Sbjct: 276 GVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEIN-KIDDNAFWGLTHLLKLNLSQNF 334

Query: 256 LT------------LKFLDLGENQI----HGEMTNLTNATQLWYLRLHSNNFS----GPL 295
           L             L+ LDL  N I          L N   L  L L +N       G  
Sbjct: 335 LGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPN---LKELALDTNQLKSVPDGIF 391

Query: 296 SLISSNLVYLDLFNNSF 312
             ++S L  + L  N +
Sbjct: 392 DRLTS-LQKIWLHTNPW 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 = 59.8 bits (145), Expect = 4e-10
 Identities = 38/213 (17%), Positives = 66/213 (30%), Gaps = 43/213 (20%)

Query: 168 CVSKGL----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL-SLN 216
           C+++GL            + L  +SI+          ++L  L +   +   ++   +  
Sbjct: 17  CINRGLHQVPELPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFR 76

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------------LKFLD 262
            LS L IL L  N+    L    F  L  L V ++ + NL               L+ L 
Sbjct: 77  GLSSLIILKLDYNQF-LQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLV 135

Query: 263 LGENQI-----HGEMTNLTNATQLWYLRLHSNNFSGP-----LSLISSNLVYLDLFNNSF 312
           L +N I          N+        L L  N          L+    +   L L + + 
Sbjct: 136 LRDNNIKKIQPASFFLNMRR---FHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITL 192

Query: 313 L----GSISHFWCYRSNETKRLRALSLGDNYLQ 341
                  +    C    +   +  L L  N  +
Sbjct: 193 QDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFK 225

>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 = 42.4 bits (100), Expect = 2e-04
 Identities = 25/157 (15%), Positives = 50/157 (31%), Gaps = 20/157 (12%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           ++   D+    +      +  + + +  L LS N    ++++  F  +    + S+  +N
Sbjct: 189 SITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSN 248

Query: 256 LTLKFLDLGENQIHGEMTNLT----NATQLWYLRLHSNNFSG-----PLSLISSNLVYLD 306
                   G      +  N T     A+ +    L  +               ++L  L 
Sbjct: 249 SYNMGSSFGHTNFK-DPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHF--TDLEQLT 305

Query: 307 LFNNSFLGSISH--FWCYRSNETKRLRALSLGDNYLQ 341
           L  N  +  I    FW         L  L+L  N+L 
Sbjct: 306 LAQNE-INKIDDNAFWGLTH-----LLKLNLSQNFLG 336

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 60.8 bits (147), Expect = 2e-10
 Identities = 39/183 (21%), Positives = 70/183 (38%), Gaps = 27/183 (14%)

Query: 168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLS 227
           C+      L L   ++S  L + +     +  L++  N+++ L        + L  L   
Sbjct: 56  CLINQFSELQLNRLNLS-SLPDNLP--PQITVLEITQNALISL----PELPASLEYLDAC 108

Query: 228 DNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------LKFLDLGENQIHGEMTNLTNA- 278
           DN+L+ TL E    +L  L    V+ N LT        L++++   NQ+    T L    
Sbjct: 109 DNRLS-TLPE-LPASLKHL---DVDNNQLTMLPELPALLEYINADNNQL----TMLPELP 159

Query: 279 TQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN 338
           T L  L + +N  +    L   +L  LD+  N  L S+        +  +        +N
Sbjct: 160 TSLEVLSVRNNQLTFLPELP-ESLEALDVSTN-LLESLPAVPVRNHHSEETEIFFRCREN 217

Query: 339 YLQ 341
            + 
Sbjct: 218 RIT 220

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 47.7 bits (113), Expect = 4e-06
 Identities = 30/168 (17%), Positives = 57/168 (33%), Gaps = 33/168 (19%)

Query: 199 TLDLGNNSIVGL---VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           + +   N+I G       + ++  K  +   + N+    L E      ++L    +N  N
Sbjct: 14  SQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSEL---QLNRLN 70

Query: 256 LT---------LKFLDLGENQIHGEMTNLTNA-TQLWYLRLHSNNFSGPLSLISSNLVYL 305
           L+         +  L++ +N +     +L      L YL    N  S    L  ++L +L
Sbjct: 71  LSSLPDNLPPQITVLEITQNAL----ISLPELPASLEYLDACDNRLSTLPELP-ASLKHL 125

Query: 306 DLFNNSF------LGSISHFWCYR------SNETKRLRALSLGDNYLQ 341
           D+ NN           + +                 L  LS+ +N L 
Sbjct: 126 DVDNNQLTMLPELPALLEYINADNNQLTMLPELPTSLEVLSVRNNQLT 173

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 47.3 bits (112), Expect = 5e-06
 Identities = 26/140 (18%), Positives = 46/140 (32%), Gaps = 18/140 (12%)

Query: 172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
            LE +   ++ ++  L E      +L+ L + NN +  L  L       L  L +S N L
Sbjct: 141 LLEYINADNNQLT-MLPELPT---SLEVLSVRNNQLTFLPEL----PESLEALDVSTNLL 192

Query: 232 NGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNF 291
             +L                + +  T  F    EN+I     N+ +      + L  N  
Sbjct: 193 E-SLPA---------VPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNPL 242

Query: 292 SGPLSLISSNLVYLDLFNNS 311
           S  +    S       ++  
Sbjct: 243 SSRIRESLSQQTAQPDYHGP 262

>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 = 59.9 bits (145), Expect = 4e-10
 Identities = 37/173 (21%), Positives = 66/173 (38%), Gaps = 19/173 (10%)

Query: 158 ISDIFDIFSGCVSK--GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLS- 214
           +S    +   C SK      L   ++ ++  + E  GH   L+TL L  N +  L  ++ 
Sbjct: 309 VSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAE 368

Query: 215 -LNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDL 263
              ++  L+ L +S N ++    +        L   +++ N LT          +K LDL
Sbjct: 369 MTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDL 428

Query: 264 GENQIHGEMTNLTNATQLWYLRLHSNNFS----GPLSLISSNLVYLDLFNNSF 312
             N+I      +     L  L + SN       G    ++S L  + L  N +
Sbjct: 429 HSNKIKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTS-LQKIWLHTNPW 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 = 58.0 bits (140), Expect = 1e-09
 Identities = 31/157 (19%), Positives = 57/157 (36%), Gaps = 18/157 (11%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
           K L I  + S       +     F N++  +   +    +  L  +++S    L  S+N 
Sbjct: 276 KALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNL 335

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLT--------------LKFLDLGENQIHGEMT--N 274
           L  T+ E    +LT+L    +  N L               L+ LD+ +N +  +    +
Sbjct: 336 LTDTVFEN-CGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGD 394

Query: 275 LTNATQLWYLRLHSNNF-SGPLSLISSNLVYLDLFNN 310
            +    L  L + SN         +   +  LDL +N
Sbjct: 395 CSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSN 431

>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 = 56.0 bits (135), Expect = 6e-09
 Identities = 33/131 (25%), Positives = 52/131 (39%), Gaps = 16/131 (12%)

Query: 195 KNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNEN 254
           +    L++  N I  L    +  LSKLRIL +S N++   L    F    +L    ++ N
Sbjct: 21  QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQ-YLDISVFKFNQELEYLDLSHN 79

Query: 255 NLT---------LKFLDLGENQIH--GEMTNLTNATQLWYLRLHSNNFS----GPLSLIS 299
            L          LK LDL  N            N +QL +L L + +       P++ ++
Sbjct: 80  KLVKISCHPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLN 139

Query: 300 SNLVYLDLFNN 310
            + V L L   
Sbjct: 140 ISKVLLVLGET 150

>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 = 2e-08
 Identities = 42/200 (21%), Positives = 70/200 (35%), Gaps = 34/200 (17%)

Query: 159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNEL 218
           S I++IFS      + I     S                  LD  NN +   V  +   L
Sbjct: 293 SYIYEIFSN-----MNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHL 347

Query: 219 SKLRILHLSDNKLNGTLSEIH--FVNLTKLSVFSVNENNLT-------------LKFLDL 263
           ++L  L L  N+L   LS+I      +  L    +++N+++             L  L++
Sbjct: 348 TELETLILQMNQLK-ELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNM 406

Query: 264 GENQI-HGEMTNLTNATQLWYLRLHSNNFS----GPLSLISSNLVYLDLFNNSFLGSISH 318
             N +       L    ++  L LHSN         + L    L  L++ +N  L S+  
Sbjct: 407 SSNILTDTIFRCLP--PRIKVLDLHSNKIKSIPKQVVKL--EALQELNVASNQ-LKSVPD 461

Query: 319 FWCYRSNETKRLRALSLGDN 338
               R      L+ + L  N
Sbjct: 462 GIFDRL---TSLQKIWLHTN 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 = 50.2 bits (120), Expect = 5e-07
 Identities = 30/162 (18%), Positives = 45/162 (27%), Gaps = 19/162 (11%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
             IL +  + IS   T  I     L  L + +N I  L         +L  L LS NK  
Sbjct: 23  TTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK-- 80

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIH-GEMTNLTNA 278
             L +I       L    ++ N                LKFL L    +    +  + + 
Sbjct: 81  --LVKISCHPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHL 138

Query: 279 TQLWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHF 319
                L +    +          +     L          HF
Sbjct: 139 NISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHF 180

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 58.5 bits (142), Expect = 4e-10
 Identities = 45/181 (24%), Positives = 67/181 (37%), Gaps = 35/181 (19%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           C SK L           + L L+S+ +S   ++       L  L L +N +  L      
Sbjct: 23  CSSKKLTAIPSNIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFK 82

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLG 264
           EL  L  L ++DNKL   L    F  L  L+   ++ N L             L +L LG
Sbjct: 83  ELKNLETLWVTDNKLQ-ALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLG 141

Query: 265 ENQI----HGEMTNLTNATQLWYLRLHSNNF-SGPLSLIS--SNLVYLDLFNNSFLGSIS 317
            N++     G    LT+  +L    L++N     P       + L  L L NN  L  + 
Sbjct: 142 YNELQSLPKGVFDKLTSLKELR---LYNNQLKRVPEGAFDKLTELKTLKLDNNQ-LKRVP 197

Query: 318 H 318
            
Sbjct: 198 E 198

>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 = 59.5 bits (144), Expect = 5e-10
 Identities = 41/200 (20%), Positives = 77/200 (38%), Gaps = 50/200 (25%)

Query: 168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLS 227
           C++ G  +L +  S ++  L + +    ++ TL + +N++  L         +LR L +S
Sbjct: 37  CLNNGNAVLNVGESGLT-TLPDCLP--AHITTLVIPDNNLTSL----PALPPELRTLEVS 89

Query: 228 DNKLNGTLSEIHFVNLTKLSVFSVNENNLT-------------------------LKFLD 262
            N+L  +L       L +LS+FS    +L                          L+ L 
Sbjct: 90  GNQLT-SLPV-LPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELS 147

Query: 263 LGENQIHGEMTNLTNA-TQLWYLRLHSNNFSG-PLSLISSNLVYLDLFNNSFLGSISHFW 320
           + +NQ+     +L    ++L  L  ++N  +  P+    S L  L + +N  L S+    
Sbjct: 148 VSDNQL----ASLPALPSELCKLWAYNNQLTSLPMLP--SGLQELSVSDNQ-LASL---- 196

Query: 321 CYRSNETKRLRALSLGDNYL 340
                    L  L   +N L
Sbjct: 197 ---PTLPSELYKLWAYNNRL 213

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 51.4 bits (123), Expect = 2e-07
 Identities = 25/143 (17%), Positives = 45/143 (31%), Gaps = 27/143 (18%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN------GTLSEIHFVN----- 242
              L  L + +N +  L P      S+L  L   +N+L         L E+         
Sbjct: 180 PSGLQELSVSDNQLASL-P---TLPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTS 235

Query: 243 ----LTKLSVFSVNENNLT--------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNN 290
                ++L    V+ N LT        L  L +  NQ+     +L + +    + L  N 
Sbjct: 236 LPVLPSELKELMVSGNRLTSLPMLPSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNP 295

Query: 291 FSGPLSLISSNLVYLDLFNNSFL 313
            S         +     ++   +
Sbjct: 296 LSERTLQALREITSAPGYSGPII 318

>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 = 57.0 bits (138), Expect = 9e-10
 Identities = 29/152 (19%), Positives = 51/152 (33%), Gaps = 32/152 (21%)

Query: 168 CVSKGL-----------EILVLRSSSISG-HLTEQIGHFKNLDTLDLGNNSIVGLVPLSL 215
           C ++ L             L L ++  +    T        L  ++  NN I  +   + 
Sbjct: 18  CSNQKLNKIPEHIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAF 77

Query: 216 NELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDL 263
              S +  + L+ N+L   +    F  L  L    +  N +T            ++ L L
Sbjct: 78  EGASGVNEILLTSNRLE-NVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSL 136

Query: 264 GENQI----HGEMTNLTNATQLWYLRLHSNNF 291
            +NQI     G    L + + L    L +N F
Sbjct: 137 YDNQITTVAPGAFDTLHSLSTLN---LLANPF 165

>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 = 56.6 bits (137), Expect = 2e-09
 Identities = 44/173 (25%), Positives = 64/173 (36%), Gaps = 34/173 (19%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           C  K L           E L L+S+ ++            L  L+L  N +  L     +
Sbjct: 21  CQGKSLDSVPSGIPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFD 80

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLG 264
           +L++L  L L++N+L  +L    F +LT+L    +  N L             LK L L 
Sbjct: 81  DLTELGTLGLANNQLA-SLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLN 139

Query: 265 ENQI----HGEMTNLTNATQLWYLRLHSNNF-SGPLSLISS--NLVYLDLFNN 310
            NQ+     G    L   T L  L L +N   S P         L  + LF N
Sbjct: 140 TNQLQSIPAGAFDKL---TNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGN 189

>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 = 52.0 bits (125), Expect = 6e-08
 Identities = 33/115 (28%), Positives = 44/115 (38%), Gaps = 20/115 (17%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
               L TL L NN +  L     + L++L  L+L  N+L  +L    F  LTKL    +N
Sbjct: 81  DLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLKELRLN 139

Query: 253 ENNLT------------LKFLDLGENQI----HGEMTNLTNATQLWYLRLHSNNF 291
            N L             L+ L L  NQ+    HG    L     +    L  N F
Sbjct: 140 TNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTIT---LFGNQF 191

>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 = 57.5 bits (139), Expect = 2e-09
 Identities = 24/138 (17%), Positives = 42/138 (30%), Gaps = 19/138 (13%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSV-N 252
            +N   L      +  +   + +    L  + +S N +   +    F NL KL    +  
Sbjct: 29  PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK 88

Query: 253 ENNLT------------LKFLDLGENQIHG-EMTNLTNATQLWYLRLHSNNF-----SGP 294
            NNL             L++L +    I      +  ++ Q   L +  N          
Sbjct: 89  ANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNS 148

Query: 295 LSLISSNLVYLDLFNNSF 312
              +S   V L L  N  
Sbjct: 149 FVGLSFESVILWLNKNGI 166

>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 = 53.7 bits (129), Expect = 3e-08
 Identities = 30/127 (23%), Positives = 42/127 (33%), Gaps = 21/127 (16%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
           +  NL  L + N  I  L  +      +  +L + DN    T+    FV L+        
Sbjct: 102 NLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFE------ 155

Query: 253 ENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLIS-------SNLVYL 305
                   L L +N I     +  N TQL  L L  NN    L  +        S  V L
Sbjct: 156 -----SVILWLNKNGIQEIHNSAFNGTQLDELNLSDNN---NLEELPNDVFHGASGPVIL 207

Query: 306 DLFNNSF 312
           D+     
Sbjct: 208 DISRTRI 214

>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 = 56.7 bits (137), Expect = 2e-09
 Identities = 36/173 (20%), Positives = 58/173 (33%), Gaps = 42/173 (24%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH-FVNLTKLSVFSVN 252
            K+   L L  N +      +L   ++L  L+L   +    L+++     L  L    ++
Sbjct: 30  PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE----LTKLQVDGTLPVLGTLDLS 85

Query: 253 ENNLT-----------LKFLDLGENQIHGEMTNL-----TNATQLWYLRLHSNNFSGPLS 296
            N L            L  LD+  N++    T+L         +L  L L  N      +
Sbjct: 86  HNQLQSLPLLGQTLPALTVLDVSFNRL----TSLPLGALRGLGELQELYLKGNELK---T 138

Query: 297 LIS------SNLVYLDLFNNSFLGSISH--FWCYRSNETKRLRALSLGDNYLQ 341
           L          L  L L NN+ L  +          N  + L  L L +N L 
Sbjct: 139 LPPGLLTPTPKLEKLSLANNN-LTELPAGLL-----NGLENLDTLLLQENSLY 185

>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 = 53.9 bits (130), Expect = 1e-08
 Identities = 36/151 (23%), Positives = 53/151 (35%), Gaps = 31/151 (20%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           C  KGL             + L  ++I          +K L  +DL NN I  L P +  
Sbjct: 18  CRGKGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQ 77

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLG 264
            L  L  L L  NK+   L +  F  L  L +  +N N +             L  L L 
Sbjct: 78  GLRSLNSLVLYGNKIT-ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLY 136

Query: 265 ENQI----HGEMTNLTNATQLWYLRLHSNNF 291
           +N++     G  + L     +  + L  N F
Sbjct: 137 DNKLQTIAKGTFSPLRA---IQTMHLAQNPF 164

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 53.7 bits (129), Expect = 2e-08
 Identities = 43/222 (19%), Positives = 64/222 (28%), Gaps = 25/222 (11%)

Query: 102 LVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDI 161
           + G  P P        L  L++ +   ++       L+ ++Q L         +Q  S  
Sbjct: 107 VTGTAPPPLLEATGPDLNILNLRN---VSWATRDAWLAELQQWLKPGLKVLSIAQAHSLN 163

Query: 162 FDIFSGCVSKGLEILVLRSSSISGHLTEQI----GHFKNLDTLDLGNN---SIVGLVPLS 214
           F      V   L  L L  +   G            F  L  L L N    +  G+    
Sbjct: 164 FSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSAL 223

Query: 215 LNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTN 274
                +L+ L LS N L            ++            L  L+L    +      
Sbjct: 224 AAARVQLQGLDLSHNSLRDAAGAPSCDWPSQ------------LNSLNLSFTGLKQVPKG 271

Query: 275 LTNATQLWYLRLHSNNFSG-PLSLISSNLVYLDLFNNSFLGS 315
           L    +L  L L  N     P       +  L L  N FL S
Sbjct: 272 L--PAKLSVLDLSYNRLDRNPSPDELPQVGNLSLKGNPFLDS 311

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 50.3 bits (120), Expect = 3e-07
 Identities = 30/150 (20%), Positives = 55/150 (36%), Gaps = 8/150 (5%)

Query: 196 NLDTLDLGNNSIVGLVP---LSLNELSKLRILHLSDNKLNGT-LSEIHFVNLTKLSVFSV 251
           +L  L +    I   +    L +  +S L+ L L + ++ GT    +       L++ ++
Sbjct: 69  SLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNL 128

Query: 252 NENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNS 311
              +   +   L E Q             L   + HS NFS     +   L  LDL +N 
Sbjct: 129 RNVSWATRDAWLAELQQW----LKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNP 184

Query: 312 FLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
            LG           +   L+ L+L +  ++
Sbjct: 185 ELGERGLISALCPLKFPTLQVLALRNAGME 214

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 50.3 bits (120), Expect = 4e-07
 Identities = 41/197 (20%), Positives = 64/197 (32%), Gaps = 34/197 (17%)

Query: 176 LVLRSSSISGHLTEQIGHFKN---LDTLDLGNNSIVGLVPLSL--NELSKLRILHLSDNK 230
           L +R++ I   +            L  L L N  + G  P  L       L IL+L +  
Sbjct: 73  LTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVS 132

Query: 231 LNGT---LSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHG----- 270
                  L+E+       L V S+ + +              L  LDL +N   G     
Sbjct: 133 WATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLI 192

Query: 271 EMTNLTNATQLWYLRLHSNNFSGPLSLISS------NLVYLDLFNNSFLGSISHFWCYRS 324
                     L  L L +     P  + S+       L  LDL +NS   +     C   
Sbjct: 193 SALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSC--- 249

Query: 325 NETKRLRALSLGDNYLQ 341
           +   +L +L+L    L+
Sbjct: 250 DWPSQLNSLNLSFTGLK 266

>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 = 52.7 bits (127), Expect = 3e-08
 Identities = 22/137 (16%), Positives = 49/137 (35%), Gaps = 20/137 (14%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           +  TL L    +  +   + + L  +  +++S +     L    F NL+K++   +    
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTR 91

Query: 256 L-------------TLKFLDLGENQIH--GEMTNLTNATQLWYLRLHSNNF-----SGPL 295
                          LKFL +    +    ++T + +    + L +  N +         
Sbjct: 92  NLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAF 151

Query: 296 SLISSNLVYLDLFNNSF 312
             + +  + L L+NN F
Sbjct: 152 QGLCNETLTLKLYNNGF 168

>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 = 52.7 bits (127), Expect = 3e-08
 Identities = 23/143 (16%), Positives = 44/143 (30%), Gaps = 28/143 (19%)

Query: 193 HFKNLDTLDLGNN-SIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSV 251
           +   +  +++ N  ++  + P +L EL  L+ L + +  L          +     +  +
Sbjct: 78  NLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEI 137

Query: 252 NENNL--------------TLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNN------- 290
            +N                    L L  N          N T+L  + L+ N        
Sbjct: 138 TDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDK 197

Query: 291 --FSGPLSLISSNLVYLDLFNNS 311
             F G    + S    LD+   S
Sbjct: 198 DAFGG----VYSGPSLLDVSQTS 216

>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 = 50.8 bits (122), Expect = 8e-08
 Identities = 32/137 (23%), Positives = 55/137 (40%), Gaps = 32/137 (23%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           C +KGL             L L  +  +  + +++ ++K+L  +DL NN I  L   S +
Sbjct: 17  CSNKGLKVLPKGIPRDVTELYLDGNQFTL-VPKELSNYKHLTLIDLSNNRISTLSNQSFS 75

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQI----HGEM 272
            +++L  L LS N+L   +    F  L              L+ L L  N I     G  
Sbjct: 76  NMTQLLTLILSYNRLR-CIPPRTFDGLKS------------LRLLSLHGNDISVVPEGAF 122

Query: 273 TNLTNATQLWYLRLHSN 289
            +L+  + L    + +N
Sbjct: 123 NDLSALSHLA---IGAN 136

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 51.9 bits (125), Expect = 1e-07
 Identities = 32/205 (15%), Positives = 69/205 (33%), Gaps = 45/205 (21%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELS------------- 219
           L+  +  SS+++  +  +  + K+        +      P    E               
Sbjct: 13  LQEPLRHSSNLT-EMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDR 71

Query: 220 KLRILHLSDNKLN------GTLSEIH------------FVNLTKLSVFSVNENNLT---- 257
           +   L L++  L+        L  +               +L  L V + N   L+    
Sbjct: 72  QAHELELNNLGLSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPP 131

Query: 258 -LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSI 316
            L++L +  NQ+  ++  L N++ L  + + +N+      L   +L ++   NN  L  +
Sbjct: 132 LLEYLGVSNNQLE-KLPELQNSSFLKIIDVDNNSLKKLPDLP-PSLEFIAAGNNQ-LEEL 188

Query: 317 SHFWCYRSNETKRLRALSLGDNYLQ 341
                        L A+   +N L+
Sbjct: 189 PEL-----QNLPFLTAIYADNNSLK 208

>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 = 50.8 bits (122), Expect = 3e-07
 Identities = 44/197 (22%), Positives = 77/197 (39%), Gaps = 45/197 (22%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             L+I+ + ++S+   L +      +L+ +  GNN +  L  L    L  L  ++  +N 
Sbjct: 153 SFLKIIDVDNNSLK-KLPDLPP---SLEFIAAGNNQLEELPELQ--NLPFLTAIYADNNS 206

Query: 231 LN------GTLSEIH-----------FVNLTKLSVFSVNENNLT--------LKFLDLGE 265
           L        +L  I              NL  L+    + N L         L+ L++ +
Sbjct: 207 LKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRD 266

Query: 266 NQIHGEMTNLTNA-TQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRS 324
           N +    T+L      L +L +  N FSG LS +  NL YL+  +N  + S+        
Sbjct: 267 NYL----TDLPELPQSLTFLDVSENIFSG-LSELPPNLYYLNASSNE-IRSLCDLP---- 316

Query: 325 NETKRLRALSLGDNYLQ 341
                L  L++ +N L 
Sbjct: 317 ---PSLEELNVSNNKLI 330

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 46.5 bits (111), Expect = 8e-06
 Identities = 23/145 (15%), Positives = 55/145 (37%), Gaps = 15/145 (10%)

Query: 171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK 230
             L  +   ++ +   L +      +L+ L++ +N +  L P     L+ L +     + 
Sbjct: 237 PFLTTIYADNNLLK-TLPDLPP---SLEALNVRDNYLTDL-PELPQSLTFLDVSENIFSG 291

Query: 231 LNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIH---GEMTNLTNATQLWYLRLH 287
           L+     ++++N +   + S+ +   +L+ L++  N++         L        L   
Sbjct: 292 LSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLER------LIAS 345

Query: 288 SNNFSGPLSLISSNLVYLDLFNNSF 312
            N+ +    L   NL  L +  N  
Sbjct: 346 FNHLAEVPELP-QNLKQLHVEYNPL 369

>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 = 50.1 bits (120), Expect = 1e-07
 Identities = 29/141 (20%), Positives = 47/141 (33%), Gaps = 17/141 (12%)

Query: 176 LVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTL 235
           L      I   +   +   K    L L  N+I  +  LS   +  LRIL L  N +   +
Sbjct: 30  LHGMIPPIE-KMDATLSTLKACKHLALSTNNIEKISSLS--GMENLRILSLGRNLIK-KI 85

Query: 236 SEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIH--GEMTNLTNATQLWY 283
             +       L    ++ N +           L+ L +  N+I   GE+  L    +L  
Sbjct: 86  ENLDA-VADTLEELWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLED 144

Query: 284 LRLHSNNFSGPLSLISSNLVY 304
           L L  N         ++   Y
Sbjct: 145 LLLAGNPLYNDYKENNATSEY 165

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 51.8 bits (124), Expect = 2e-07
 Identities = 38/200 (19%), Positives = 69/200 (34%), Gaps = 34/200 (17%)

Query: 159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNEL 218
             ++ +F+      + I +L  S              +   L+   N     V    + L
Sbjct: 322 EALYSVFAE-----MNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTL 376

Query: 219 SKLRILHLSDNKLNGTLSEI--HFVNLTKLSVFSVNENNL-------------TLKFLDL 263
            +L+ L L  N L     ++     N++ L    V+ N+L             ++  L+L
Sbjct: 377 KRLQTLILQRNGLK-NFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNL 435

Query: 264 GENQIHGEMTN-LTNATQLWYLRLHSNNFS----GPLSLISSNLVYLDLFNNSFLGSISH 318
             N + G +   L    ++  L LH+N           L    L  L++ +N  L S+  
Sbjct: 436 SSNMLTGSVFRCLP--PKVKVLDLHNNRIMSIPKDVTHL--QALQELNVASNQ-LKSVPD 490

Query: 319 FWCYRSNETKRLRALSLGDN 338
               R      L+ + L DN
Sbjct: 491 GVFDR---LTSLQYIWLHDN 507

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 51.0 bits (122), Expect = 2e-07
 Identities = 35/131 (26%), Positives = 51/131 (38%), Gaps = 19/131 (14%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
               L L  NSI  L    ++ LS+LR+L LS N++  +L    F+    L    V+ N 
Sbjct: 53  RTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIR-SLDFHVFLFNQDLEYLDVSHNR 111

Query: 256 LT---------LKFLDLGENQI-----HGEMTNLTNATQLWYLRLHSNNF-SGPLSLISS 300
           L          L+ LDL  N         E  NLT    L +L L +  F    L  ++ 
Sbjct: 112 LQNISCCPMASLRHLDLSFNDFDVLPVCKEFGNLTK---LTFLGLSAAKFRQLDLLPVAH 168

Query: 301 NLVYLDLFNNS 311
             +   L +  
Sbjct: 169 LHLSCILLDLV 179

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 51.0 bits (122), Expect = 3e-07
 Identities = 44/226 (19%), Positives = 80/226 (35%), Gaps = 19/226 (8%)

Query: 102 LVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDI 161
           +  +     + Y  T L+ L +     + ++        +    ++      S  +   I
Sbjct: 288 ITERIDREEFTYSETALKSLMIEH---VKNQVFLFSKEALYSVFAEMNIKMLSISDTPFI 344

Query: 162 FDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL--VPLSLNELS 219
             +     S     L    +  +  + +     K L TL L  N +     V L    +S
Sbjct: 345 HMVCPPSPSS-FTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMS 403

Query: 220 KLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIH 269
            L  L +S N LN    +        + V +++ N LT          +K LDL  N+I 
Sbjct: 404 SLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIM 463

Query: 270 GEMTNLTNATQLWYLRLHSNNF-SGPLSLISS--NLVYLDLFNNSF 312
               ++T+   L  L + SN   S P  +     +L Y+ L +N +
Sbjct: 464 SIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHDNPW 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 = 43.7 bits (103), Expect = 6e-05
 Identities = 27/138 (19%), Positives = 39/138 (28%), Gaps = 25/138 (18%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
               L  L L +N I  L          L  L +S N+L   +S     +L  L +    
Sbjct: 74  FLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRL-QNISCCPMASLRHLDLSF-- 130

Query: 253 ENNLT-------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFS------G 293
            N+               L FL L   +      +L     L    +  +  S       
Sbjct: 131 -NDFDVLPVCKEFGNLTKLTFLGLSAAKF--RQLDLLPVAHLHLSCILLDLVSYHIKGGE 187

Query: 294 PLSLISSNLVYLDLFNNS 311
             SL   N   L L  + 
Sbjct: 188 TESLQIPNTTVLHLVFHP 205

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 49.3 bits (118), Expect = 3e-07
 Identities = 41/149 (27%), Positives = 59/149 (39%), Gaps = 31/149 (20%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           C S+G              L L ++S+            +L  L LG N +  L     N
Sbjct: 14  CYSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFN 73

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLG 264
           +L+ L  L+LS N+L  +L    F  LT+L   ++N N L             LK L L 
Sbjct: 74  KLTSLTYLNLSTNQLQ-SLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLY 132

Query: 265 ENQI----HGEMTNLTNATQLWYLRLHSN 289
           +NQ+     G    LT+   +W   LH N
Sbjct: 133 QNQLKSVPDGVFDRLTSLQYIW---LHDN 158

>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 = 50.5 bits (121), Expect = 3e-07
 Identities = 40/183 (21%), Positives = 69/183 (37%), Gaps = 33/183 (18%)

Query: 186 HLTEQIGHFKNLDTLDLGNNSI--VGLVPLS--LNELSKLRILHLSDNKLN----GTLSE 237
            L + +     L T+ L +N+       PL   L++ + L  L+L +N L       ++ 
Sbjct: 85  LLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIAR 144

Query: 238 IHFVNLTKLSVFSVNENNLTLKFLDLGENQIH-------GEMTNLTNATQLWYLRLHSNN 290
                L +L+V    +N   L+ +  G N++         +     +   L  +++  N 
Sbjct: 145 A----LQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKT--FQSHRLLHTVKMVQNG 198

Query: 291 FS--GPLSLIS------SNLVYLDLFNNSF--LGSISHFWCYRSNETKRLRALSLGDNYL 340
               G   L+         L  LDL +N+F  LGS +     +S     LR L L D  L
Sbjct: 199 IRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPN--LRELGLNDCLL 256

Query: 341 QGE 343
              
Sbjct: 257 SAR 259

>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 = 45.9 bits (109), Expect = 1e-05
 Identities = 36/163 (22%), Positives = 59/163 (36%), Gaps = 27/163 (16%)

Query: 145 LSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSI-----SGHLTEQIGHFKNLDT 199
             + R    S +E +  F        + L  + +  + I        L E + + + L  
Sbjct: 166 CGRNRLENGSMKEWAKTF-----QSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKV 220

Query: 200 LDLGNNSI--VGLVPLS--LNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           LDL +N+   +G   L+  L     LR L L+D  L         V+            N
Sbjct: 221 LDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLL-SARGAAAVVDAFS------KLEN 273

Query: 256 LTLKFLDLGENQIHGE-MTNL-----TNATQLWYLRLHSNNFS 292
           + L+ L L  N+I  + +  L          L +L L+ N FS
Sbjct: 274 IGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFS 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 = 45.9 bits (109), Expect = 1e-05
 Identities = 33/202 (16%), Positives = 59/202 (29%), Gaps = 36/202 (17%)

Query: 173 LEILVLRSSSISG----HLTEQIGHFKNLDTLDLGNNSI--VGLVPLS--LNELSKLRIL 224
           +E   L+  +I+      +   +    ++  + L  N+I       LS  +     L I 
Sbjct: 6   IEGKSLKLDAITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIA 65

Query: 225 HLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTN-----LTNAT 279
             SD        EI    L  L           L  + L +N             L+  T
Sbjct: 66  EFSDIFTGRVKDEIP-EALRLLL--QALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHT 122

Query: 280 QLWYLRLHSNNFS----------------GPLSLISSNLVYLDLFNNSFLGSISHFWC-- 321
            L +L LH+N                      +  +  L  +    N         W   
Sbjct: 123 PLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKT 182

Query: 322 YRSNETKRLRALSLGDNYLQGE 343
           ++S+    L  + +  N ++ E
Sbjct: 183 FQSHRL--LHTVKMVQNGIRPE 202

>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 = 48.1 bits (115), Expect = 8e-07
 Identities = 36/143 (25%), Positives = 55/143 (38%), Gaps = 42/143 (29%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFK---NLDTLDLGNNSIVGLVPL 213
           C  +GL             L+L  + +        G F    +L  L+L  N + G+ P 
Sbjct: 15  CTGRGLKEIPRDIPLHTTELLLNDNELGR--ISSDGLFGRLPHLVKLELKRNQLTGIEPN 72

Query: 214 SLNELSKLRILHLSDNKLNGTLSEIH---FVNLTKLSVFSVNENNLTLKFLDLGENQI-- 268
           +    S ++ L L +NK    + EI    F+ L +            LK L+L +NQI  
Sbjct: 73  AFEGASHIQELQLGENK----IKEISNKMFLGLHQ------------LKTLNLYDNQISC 116

Query: 269 --HGEMTNLTNATQLWYLRLHSN 289
              G   +L + T L    L SN
Sbjct: 117 VMPGSFEHLNSLTSLN---LASN 136

>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 = 48.8 bits (117), Expect = 1e-06
 Identities = 37/243 (15%), Positives = 66/243 (27%), Gaps = 48/243 (19%)

Query: 144 RLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISG----HLTEQIGH-FKNLD 198
            L  C         +S             L+ L L  + +       L E +      L+
Sbjct: 91  SLQNCCLTGAGCGVLSSTL-----RTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLE 145

Query: 199 TLDLGNNSI--VGLVPLS--LNELSKLRILHLSDNKLNGT----LSEIHFVNLTKLSVFS 250
            L L   S+      PL+  L      + L +S+N +N      L +    +  +L    
Sbjct: 146 KLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALK 205

Query: 251 VNENNLT----------------LKFLDLGENQIHGE-MTNLTNA-----TQLWYLRLHS 288
           +    +T                L+ L LG N++    M  L        ++L  L +  
Sbjct: 206 LESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWE 265

Query: 289 NNFS-------GPLSLISSNLVYLDLFNNSFLGS-ISHFWCYRSNETKRLRALSLGDNYL 340
              +         +     +L  L L  N                   +L +L +     
Sbjct: 266 CGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSF 325

Query: 341 QGE 343
              
Sbjct: 326 TAA 328

>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 = 41.1 bits (97), Expect = 3e-04
 Identities = 22/133 (16%), Positives = 45/133 (33%), Gaps = 25/133 (18%)

Query: 195 KNLDTLDLGNNSI--VGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
            ++ +LD+    +       L L  L + +++ L D  L    +E    +++  S   VN
Sbjct: 3   LDIQSLDIQCEELSDARWAEL-LPLLQQCQVVRLDDCGL----TEARCKDIS--SALRVN 55

Query: 253 ENNLTLKFLDLGENQIHGE-MTNLTNA-----TQLWYLRLHSNNFS-------GPLSLIS 299
                L  L+L  N++    +  +         ++  L L +   +              
Sbjct: 56  PA---LAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTL 112

Query: 300 SNLVYLDLFNNSF 312
             L  L L +N  
Sbjct: 113 PTLQELHLSDNLL 125

>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 = 40.7 bits (96), Expect = 5e-04
 Identities = 31/219 (14%), Positives = 66/219 (30%), Gaps = 40/219 (18%)

Query: 145 LSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSIS----GHLTEQIGHFKNLDTL 200
           +           E+  +         +  +++ L    ++      ++  +     L  L
Sbjct: 10  IQCEELSDARWAELLPLL--------QQCQVVRLDDCGLTEARCKDISSALRVNPALAEL 61

Query: 201 DLGNNSI--VGLVPLS---LNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           +L +N +  VG+  +         K++ L L +  L G              + S     
Sbjct: 62  NLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCG---------VLSSTLRTL 112

Query: 256 LTLKFLDLGENQIHGE------MTNLTNATQLWYLRLHSNNFS-------GPLSLISSNL 302
            TL+ L L +N +            L    +L  L+L   + S         +     + 
Sbjct: 113 PTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDF 172

Query: 303 VYLDLFNNSFLGS-ISHFWCYRSNETKRLRALSLGDNYL 340
             L + NN    + +        +   +L AL L    +
Sbjct: 173 KELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGV 211

>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 = 40.3 bits (95), Expect = 6e-04
 Identities = 30/139 (21%), Positives = 54/139 (38%), Gaps = 24/139 (17%)

Query: 169 VSKGLEILVLRSSSISG----HLTEQIGHFKNLDTLDLGNNSI--VGLVPLS---LNELS 219
               LE L ++S S +     H +  +   + L  L + NN +   G+  L        S
Sbjct: 311 PGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGS 370

Query: 220 KLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGE-MTNL--- 275
            LR+L L+D  ++ +       + + L+  +    N +L+ LDL  N +    +  L   
Sbjct: 371 VLRVLWLADCDVSDS-------SCSSLA--ATLLANHSLRELDLSNNCLGDAGILQLVES 421

Query: 276 --TNATQLWYLRLHSNNFS 292
                  L  L L+   +S
Sbjct: 422 VRQPGCLLEQLVLYDIYWS 440

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 47.4 bits (113), Expect = 2e-06
 Identities = 38/148 (25%), Positives = 54/148 (36%), Gaps = 30/148 (20%)

Query: 168 CVSKGL-----------EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN 216
           C SK             +IL L  + I+           NL  L LG+N +  L     +
Sbjct: 26  CRSKRHASVPAGIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFD 85

Query: 217 ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGE 265
            L++L +L L  N+L   L    F  L  L    +  N LT           L  L L +
Sbjct: 86  SLTQLTVLDLGTNQLT-VLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQ 144

Query: 266 NQI----HGEMTNLTNATQLWYLRLHSN 289
           NQ+    HG    L++ T  +   L  N
Sbjct: 145 NQLKSIPHGAFDRLSSLTHAY---LFGN 169

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 47.0 bits (112), Expect = 2e-06
 Identities = 38/130 (29%), Positives = 54/130 (41%), Gaps = 20/130 (15%)

Query: 198 DTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT 257
             L L +N I  L P   + L  L+ L+L  N+L   L    F +LT+L+V  +  N LT
Sbjct: 43  QILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLDLGTNQLT 101

Query: 258 ------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNF-SGPL----SLISS 300
                       LK L +  N++      +   T L +L L  N   S P      L  S
Sbjct: 102 VLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRL--S 159

Query: 301 NLVYLDLFNN 310
           +L +  LF N
Sbjct: 160 SLTHAYLFGN 169

>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 = 48.2 bits (114), Expect = 2e-06
 Identities = 16/85 (18%), Positives = 40/85 (47%), Gaps = 3/85 (3%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           +  L L  + +   L   +   + L+ L   +N++  +  ++   L +L+ L L +N+L 
Sbjct: 465 VTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALENVDGVA--NLPRLQELLLCNNRLQ 521

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLT 257
            + +    V+  +L + ++  N+L 
Sbjct: 522 QSAAIQPLVSCPRLVLLNLQGNSLC 546

>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 = 42.4 bits (99), Expect = 2e-04
 Identities = 36/176 (20%), Positives = 63/176 (35%), Gaps = 27/176 (15%)

Query: 175 ILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLV--------PLSLNELSKLRILHL 226
           IL++R+     +  E + +F  L  +D    + +  +         +   E + +R+LHL
Sbjct: 389 ILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHL 448

Query: 227 SDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRL 286
           +   L    + +   +L +L           +  LDL  N++      L     L  L+ 
Sbjct: 449 AHKDL----TVLC--HLEQLL---------LVTHLDLSHNRLRALPPALAALRCLEVLQA 493

Query: 287 HSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ 341
             N       + +   L  L L NN  L   +      S    RL  L+L  N L 
Sbjct: 494 SDNALENVDGVANLPRLQELLLCNNR-LQQSAAIQPLVSC--PRLVLLNLQGNSLC 546

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 31/110 (28%), Positives = 45/110 (40%), Gaps = 20/110 (18%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           NL  L L  N +  L     ++L+ L+ L L +N+L  +L +  F  LT L+  ++  N 
Sbjct: 86  NLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQ-SLPDGVFDKLTNLTYLNLAHNQ 144

Query: 256 LT------------LKFLDLGENQI----HGEMTNLTNATQLWYLRLHSN 289
           L             L  LDL  NQ+     G    LT    L    L+ N
Sbjct: 145 LQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLR---LYQN 191

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 40.0 bits (94), Expect = 7e-04
 Identities = 31/101 (30%), Positives = 44/101 (43%), Gaps = 20/101 (19%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
              NL  L+L +N +  L     ++L+ L  L LS N+L  +L E  F  LT+       
Sbjct: 131 KLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQ-SLPEGVFDKLTQ------- 182

Query: 253 ENNLTLKFLDLGENQI----HGEMTNLTNATQLWYLRLHSN 289
                LK L L +NQ+     G    LT+   +W   LH N
Sbjct: 183 -----LKDLRLYQNQLKSVPDGVFDRLTSLQYIW---LHDN 215

>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 = 45.9 bits (108), Expect = 1e-05
 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 3/87 (3%)

Query: 173 LEILVLRSSSISGHLT-EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
           L  L + +     HL    +     L  L +  + +  + P + +   +L  L+LS N L
Sbjct: 33  LTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNAL 92

Query: 232 NGTLSEIHFVNLTKLSVFSVNENNLTL 258
             +LS      L+ L    ++ N L  
Sbjct: 93  E-SLSWKTVQGLS-LQELVLSGNPLHC 117

>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 = 43.2 bits (101), Expect = 6e-05
 Identities = 15/93 (16%), Positives = 26/93 (27%), Gaps = 12/93 (12%)

Query: 211 VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------L 258
               L     L  L++ + +    L       L +L   ++ ++ L             L
Sbjct: 23  SLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRL 82

Query: 259 KFLDLGENQIHGEMTNLTNATQLWYLRLHSNNF 291
             L+L  N +            L  L L  N  
Sbjct: 83  SRLNLSFNALESLSWKTVQGLSLQELVLSGNPL 115

>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 = 43.9 bits (104), Expect = 1e-05
 Identities = 24/142 (16%), Positives = 42/142 (29%), Gaps = 23/142 (16%)

Query: 200 LDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLK 259
           + L    I            + R L L   K+                + ++        
Sbjct: 2   VKLTAELIEQA--AQYTNAVRDRELDLRGYKIP--------------VIENLGATLDQFD 45

Query: 260 FLDLGENQIHGEMTNLTNATQLWYLRLHSNNFS---GPLSLISSNLVYLDLFNNSFLGSI 316
            +D  +N+I  ++       +L  L +++N        L     +L  L L NN  L  +
Sbjct: 46  AIDFSDNEIR-KLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNN-SLVEL 103

Query: 317 SHFWCYRSNETKRLRALSLGDN 338
                  S   K L  L +  N
Sbjct: 104 GDLDPLASL--KSLTYLCILRN 123

>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 = 43.9 bits (104), Expect = 2e-05
 Identities = 20/105 (19%), Positives = 39/105 (37%), Gaps = 6/105 (5%)

Query: 154 SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL 213
              +I  I ++ +       + +    + I     +     + L TL + NN I  +   
Sbjct: 27  RGYKIPVIENLGATLDQ--FDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRICRIGEG 82

Query: 214 SLNELSKLRILHLSDNKLNGTLSEI-HFVNLTKLSVFSVNENNLT 257
               L  L  L L++N L   L ++    +L  L+   +  N +T
Sbjct: 83  LDQALPDLTELILTNNSLV-ELGDLDPLASLKSLTYLCILRNPVT 126

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 42.7 bits (101), Expect = 4e-05
 Identities = 27/127 (21%), Positives = 40/127 (31%), Gaps = 21/127 (16%)

Query: 189 EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV 248
            Q  +      LDL    I  +  L    L +   +  SDN+            + KL  
Sbjct: 13  AQYTNAVRDRELDLRGYKIPVIENLG-ATLDQFDAIDFSDNE------------IRKLDG 59

Query: 249 FSVNENNLTLKFLDLGENQI-HGEMTNLTNATQLWYLRLHSNNFSGPLSLIS----SNLV 303
           F +      LK L +  N+I             L  L L +N+      L       +L 
Sbjct: 60  FPLLRR---LKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLT 116

Query: 304 YLDLFNN 310
           YL +  N
Sbjct: 117 YLCILRN 123

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus} Length = 174

 Score = 41.5 bits (98), Expect = 9e-05
 Identities = 27/98 (27%), Positives = 41/98 (41%), Gaps = 20/98 (20%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
           +   L L NN I  L P   + L  L+ L+ + NKL   +    F  LT+          
Sbjct: 34  DKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLT-AIPTGVFDKLTQ---------- 82

Query: 256 LTLKFLDLGENQI----HGEMTNLTNATQLWYLRLHSN 289
             L  LDL +N +     G   NL + T ++   L++N
Sbjct: 83  --LTQLDLNDNHLKSIPRGAFDNLKSLTHIY---LYNN 115

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 32/101 (31%), Positives = 44/101 (43%), Gaps = 20/101 (19%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
               L  L L  N I  L     ++L+KL IL+L +NKL  +L    F  LT+       
Sbjct: 50  KLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQ-SLPNGVFDKLTQ------- 101

Query: 253 ENNLTLKFLDLGENQI----HGEMTNLTNATQLWYLRLHSN 289
                LK L L  NQ+     G    LT+  ++W   LH+N
Sbjct: 102 -----LKELALDTNQLKSVPDGIFDRLTSLQKIW---LHTN 134

>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 = 1e-04
 Identities = 14/69 (20%), Positives = 26/69 (37%)

Query: 189 EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV 248
             +     L  L+L +N + G + +   +   L  L+LS NK+    +      L  L  
Sbjct: 58  ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKS 117

Query: 249 FSVNENNLT 257
             +    +T
Sbjct: 118 LDLFNCEVT 126

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.0 bits (94), Expect = 2e-04
 Identities = 27/129 (20%), Positives = 49/129 (37%), Gaps = 19/129 (14%)

Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM 272
           L     S ++ L L +++ N    E       +            L+FL      +   +
Sbjct: 11  LRNRTPSDVKELVLDNSRSNEGKLEGLTDEFEE------------LEFLSTINVGLT-SI 57

Query: 273 TNLTNATQLWYLRLHSNNFSGPLSLISS---NLVYLDLFNNSFLGSISHFWCYRSNETKR 329
            NL    +L  L L  N  SG L +++    NL +L+L  N  +  +S     +    + 
Sbjct: 58  ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGN-KIKDLSTIEPLKKL--EN 114

Query: 330 LRALSLGDN 338
           L++L L + 
Sbjct: 115 LKSLDLFNC 123

>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 = 40.9 bits (96), Expect = 1e-04
 Identities = 30/129 (23%), Positives = 48/129 (37%), Gaps = 19/129 (14%)

Query: 213 LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM 272
           L     + +R L L + K N    E                    L+FL L    +   +
Sbjct: 18  LRNRTPAAVRELVLDNCKSNDGKIEGLTAEFVN------------LEFLSLINVGLI-SV 64

Query: 273 TNLTNATQLWYLRLHSNNFSGPLSLISS---NLVYLDLFNNSFLGSISHFWCYRSNETKR 329
           +NL    +L  L L  N   G L +++    NL +L+L  N  L  IS     +    + 
Sbjct: 65  SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGN-KLKDISTLEPLKKL--EC 121

Query: 330 LRALSLGDN 338
           L++L L + 
Sbjct: 122 LKSLDLFNC 130

>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 = 40.9 bits (96), Expect = 2e-04
 Identities = 17/69 (24%), Positives = 26/69 (37%)

Query: 189 EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV 248
             +     L  L+L  N I G + +   +L  L  L+LS NKL    +      L  L  
Sbjct: 65  SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKS 124

Query: 249 FSVNENNLT 257
             +    +T
Sbjct: 125 LDLFNCEVT 133

>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 = 39.7 bits (93), Expect = 4e-04
 Identities = 29/123 (23%), Positives = 37/123 (30%), Gaps = 21/123 (17%)

Query: 194 FKNLDTLDLGNNSI-VGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
              +  L L N     G +     E   L  L L +              L  +S     
Sbjct: 23  PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINV------------GLISVSNL--- 67

Query: 253 ENNLTLKFLDLGENQI-HGEMTNLTNATQLWYLRLHSNNFSGPLSLIS----SNLVYLDL 307
                LK L+L EN+I  G          L +L L  N      +L        L  LDL
Sbjct: 68  PKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDL 127

Query: 308 FNN 310
           FN 
Sbjct: 128 FNC 130

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D Length = 170

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 28/98 (28%), Positives = 40/98 (40%), Gaps = 20/98 (20%)

Query: 196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN 255
               L L +N I  L P   + L++L  L L +N+L   L    F  LT+          
Sbjct: 31  TTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQ---------- 79

Query: 256 LTLKFLDLGENQI----HGEMTNLTNATQLWYLRLHSN 289
             L  L L +NQ+     G   NL + T +W   L +N
Sbjct: 80  --LTQLSLNDNQLKSIPRGAFDNLKSLTHIW---LLNN 112

>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 = 42.2 bits (98), Expect = 2e-04
 Identities = 13/81 (16%), Positives = 32/81 (39%), Gaps = 7/81 (8%)

Query: 158 ISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHF---KNLDTLDLGNNSI--VGLVP 212
           ++    +FS      L+ L +  +     + E          L+T+D+    +   G   
Sbjct: 239 MNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARL 298

Query: 213 L--SLNELSKLRILHLSDNKL 231
           L   ++++  L+ +++  N L
Sbjct: 299 LLDHVDKIKHLKFINMKYNYL 319

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	343
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	100.0
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	100.0
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.98
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.96
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.96
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.95
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.94
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.94
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.94
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.94
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.94
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.94
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.94
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.93
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.93
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.93
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.93
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.93
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.93
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.93
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.92
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.92
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.92
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.92
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.92
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.92
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.92
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.92
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.92
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.92
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.91
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.91
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.91
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.91
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.91
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.9
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.9
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.9
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.9
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.9
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.9
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.9
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.9
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.9
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.9
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.89
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.89
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.89
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.89
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.89
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.89
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.89
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.89
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.88
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.88
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.88
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.88
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.87
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.87
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.87
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.87
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.87
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.87
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.87
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.87
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.86
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.85
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.85
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.85
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.85
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.85
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.84
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.84
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.84
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.84
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.83
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.83
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.83
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.82
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.82
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.81
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.8
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.8
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.8
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.8
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.8
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.8
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.79
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.78
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.77
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.77
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.76
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.75
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.75
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.74
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.74
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.74
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.74
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.74
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.73
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.73
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.73
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.73
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.71
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.7
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.7
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.69
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.69
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.67
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.65
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.65
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.64
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.64
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.62
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.61
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.59
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.59
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.59
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.58
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.57
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.55
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.54
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.53
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.52
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.49
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.47
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.46
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.44
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.44
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.42
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.39
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.36
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.36
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.33
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.31
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.28
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.26
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.2
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.19
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	99.04
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.92
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.82
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.77
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.75
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.65
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.63
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.28
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.0
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.87
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.77
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.65
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.62
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.53
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.09
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.85
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.82
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.72
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.32
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.28

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=100.00  E-value=2e-41  Score=308.52  Aligned_cols=270  Identities=28%  Similarity=0.422  Sum_probs=228.1

Q ss_pred             CCcHHHHHHHHHhhhhCCCCCCCCCCCCCCCCCcc--ccceEeCCCC--CcEEEEecCCCccccccccceeCCCCCCCCC
Q 040876           30 GCLESEREALLRFKQDLQDPSNRLASWNIGGDCCT--WAGIVCDNVT--GHIIELNLRNPFTYYRRSRYKANPRSMLVGK  105 (343)
Q Consensus        30 ~~~~~~~~~L~~~k~~~~~~~~~~~~W~~~~~~c~--w~gv~c~~~~--~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~  105 (343)
                      .|.++|++||++||+++.+|. .+.+|..+.+||.  |.||+|+..+  ++|+.+++++.                .+++
T Consensus         2 ~c~~~~~~aL~~~k~~~~~~~-~l~~W~~~~~~C~~~w~gv~C~~~~~~~~l~~L~L~~~----------------~l~~   64 (313)
T 1ogq_A            2 LCNPQDKQALLQIKKDLGNPT-TLSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGL----------------NLPK   64 (313)
T ss_dssp             CSCHHHHHHHHHHHHHTTCCG-GGTTCCTTSCTTTTCSTTEEECCSSSCCCEEEEEEECC----------------CCSS
T ss_pred             CCCHHHHHHHHHHHHhcCCcc-cccCCCCCCCCCcCCCcceEeCCCCCCceEEEEECCCC----------------CccC
Confidence            588999999999999998876 7889988889998  9999998655  89999999986                4444


Q ss_pred             --CCCCccccCCCCCCEecCCC-CC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCC
Q 040876          106 --GPIPSWLYRLTHLEQLSVAD-RP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSK  171 (343)
Q Consensus       106 --~~ip~~l~~l~~L~~L~Ls~-n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~  171 (343)
                        . +|+.++++++|++|++++ |.          .+++|++|++++| +.                +.+|+.+.++  +
T Consensus        65 ~~~-~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~----------------~~~p~~~~~l--~  125 (313)
T 1ogq_A           65 PYP-IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS----------------GAIPDFLSQI--K  125 (313)
T ss_dssp             CEE-CCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCE----------------EECCGGGGGC--T
T ss_pred             Ccc-cChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeC----------------CcCCHHHhCC--C
Confidence              3 888999999999999995 65          5667888999888 77                5788888888  8


Q ss_pred             CccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCC-CCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELS-KLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~-~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      +|++|++++|.+++.+|..+..+++|++|++++|.+++.+|..++.++ +|++|++++|++++.+|. .+..++ |+.|+
T Consensus       126 ~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~-~~~~l~-L~~L~  203 (313)
T 1ogq_A          126 TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPP-TFANLN-LAFVD  203 (313)
T ss_dssp             TCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCG-GGGGCC-CSEEE
T ss_pred             CCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCCh-HHhCCc-ccEEE
Confidence            999999999999988898899999999999999999888898898887 899999999999888887 777777 99999


Q ss_pred             ecCceee------------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc---CCCCcEEEccCCccccc
Q 040876          251 VNENNLT------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       251 l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~  315 (343)
                      +++|.++            ++.|++++|++++.+|......+|++|++++|++++.+|..   +++|++|++++|.++|.
T Consensus       204 Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  283 (313)
T 1ogq_A          204 LSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGE  283 (313)
T ss_dssp             CCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEE
T ss_pred             CcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCccccc
Confidence            9998876            56789999998877776333338999999999998877765   67889999999999887


Q ss_pred             cCchhhccCCccccCceEecCCCc-ccc
Q 040876          316 ISHFWCYRSNETKRLRALSLGDNY-LQG  342 (343)
Q Consensus       316 ~~~~l~~~l~~l~~L~~L~ls~N~-l~g  342 (343)
                      +|.    . ..+++|+.+++++|+ +.|
T Consensus       284 ip~----~-~~l~~L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          284 IPQ----G-GNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             CCC----S-TTGGGSCGGGTCSSSEEES
T ss_pred             CCC----C-ccccccChHHhcCCCCccC
Confidence            662    2 678889999999987 554

>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=5.8e-39  Score=325.51  Aligned_cols=297  Identities=24%  Similarity=0.338  Sum_probs=196.2

Q ss_pred             CCCcHHHHHHHHHhhhhCCCCCCCCCCCCCCCCCccccceEeCCCCCcEEEEecCCCccccccccce---eCCC------
Q 040876           29 MGCLESEREALLRFKQDLQDPSNRLASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYK---ANPR------   99 (343)
Q Consensus        29 ~~~~~~~~~~L~~~k~~~~~~~~~~~~W~~~~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~---~~~~------   99 (343)
                      +.+.++|++||++||+++.||. .+++|+.+.+||.|.||+|+  .+||+.+||++.     ++.|.   +|+.      
T Consensus         7 ~~~~~~~~~all~~k~~~~~~~-~l~~W~~~~~~C~w~gv~C~--~~~v~~L~L~~~-----~l~g~~~~l~~~l~~L~~   78 (768)
T 3rgz_A            7 SQSLYREIHQLISFKDVLPDKN-LLPDWSSNKNPCTFDGVTCR--DDKVTSIDLSSK-----PLNVGFSAVSSSLLSLTG   78 (768)
T ss_dssp             -CCHHHHHHHHHHHHTTCSCTT-SSTTCCTTSCGGGSTTEEEE--TTEEEEEECTTS-----CCCEEHHHHHHHTTTCTT
T ss_pred             ccCCHHHHHHHHHHHhhCCCcc-cccCCCCCCCCcCCcceEEC--CCcEEEEECCCC-----CcCCccCccChhHhccCc
Confidence            3457899999999999999988 89999888999999999998  689999999987     66665   4431      


Q ss_pred             ----CCCCCCC-CCCccccCCCCCCEecCCCCC------------CCCCCcccccchh-hcccccccC---CCcc----c
Q 040876          100 ----SMLVGKG-PIPSWLYRLTHLEQLSVADRP------------SLASREDQDLLSN-IRQRLSKCR---TGAK----S  154 (343)
Q Consensus       100 ----~n~~~~~-~ip~~l~~l~~L~~L~Ls~n~------------~l~~L~~L~l~~n-l~~~l~~~~---~~~~----~  154 (343)
                          ++.+.+. ++|+.++++++|++|+|++|.            .+++|++|++++| +.+......   +...    +
T Consensus        79 L~~l~~~~~~~~~l~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L  158 (768)
T 3rgz_A           79 LESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDL  158 (768)
T ss_dssp             CCEEECTTSCEEECCCCCCCCTTCCEEECCSSEEEEEGGGGGGGGGCTTCCEEECCSSEEECCSSCCSCCCCTTCSEEEC
T ss_pred             ccccCCcCCCcCCCchhhccCCCCCEEECCCCcCCCcCCChHHHhCCCCCCEEECcCCccCCcCCHHHhccCCCCCEEEC
Confidence                2222222 123556666666666666654            3445666666666 443211100   0000    0


Q ss_pred             -cCc-ccchhhh---hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCc
Q 040876          155 -SQE-ISDIFDI---FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN  229 (343)
Q Consensus       155 -~~~-~~~ip~~---l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N  229 (343)
                       ... .+..|..   +.++  ++|++|++++|.+++..|.  ..+++|++|++++|.+++.+|. ++++++|++|++++|
T Consensus       159 s~n~l~~~~~~~~~~~~~l--~~L~~L~Ls~n~l~~~~~~--~~l~~L~~L~Ls~n~l~~~~~~-l~~l~~L~~L~Ls~n  233 (768)
T 3rgz_A          159 SANSISGANVVGWVLSDGC--GELKHLAISGNKISGDVDV--SRCVNLEFLDVSSNNFSTGIPF-LGDCSALQHLDISGN  233 (768)
T ss_dssp             CSSCCEEETHHHHHHTTCC--TTCCEEECCSSEEESCCBC--TTCTTCCEEECCSSCCCSCCCB-CTTCCSCCEEECCSS
T ss_pred             CCCccCCcCChhhhhhccC--CCCCEEECCCCcccccCCc--ccCCcCCEEECcCCcCCCCCcc-cccCCCCCEEECcCC
Confidence             000 0334444   5666  7777777777777765543  6677777777777777766665 777777888888777


Q ss_pred             cCccccChHhhhcCCCCCeEEecCceee----------EeEEeccCCcccccCCCcccc--cCCCeEeCcCCcccCcccc
Q 040876          230 KLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNA--TQLWYLRLHSNNFSGPLSL  297 (343)
Q Consensus       230 ~l~g~~p~~~~~~l~~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~--~~L~~L~Ls~N~l~~~~~~  297 (343)
                      .+++.+|. .+..+++|++|++++|.++          ++.|++++|++++.+|..+..  .+|++|++++|++++.+|.
T Consensus       234 ~l~~~~~~-~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~  312 (768)
T 3rgz_A          234 KLSGDFSR-AISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPP  312 (768)
T ss_dssp             CCCSCHHH-HTTTCSSCCEEECCSSCCEESCCCCCCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCG
T ss_pred             cCCCcccH-HHhcCCCCCEEECCCCcccCccCccccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccch
Confidence            77766666 6777777777777777764          456777777777766665543  2777777777777766665


Q ss_pred             c---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          298 I---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       298 ~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      .   +++|++|++++|.++|.+|.   ..+.++++|++|++++|+++|
T Consensus       313 ~~~~l~~L~~L~L~~n~l~~~ip~---~~l~~l~~L~~L~Ls~n~l~~  357 (768)
T 3rgz_A          313 FFGSCSLLESLALSSNNFSGELPM---DTLLKMRGLKVLDLSFNEFSG  357 (768)
T ss_dssp             GGGGCTTCCEEECCSSEEEEECCH---HHHTTCTTCCEEECCSSEEEE
T ss_pred             HHhcCCCccEEECCCCcccCcCCH---HHHhcCCCCCEEeCcCCccCc
Confidence            4   56677777777777666552   124556666666666666554

>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=8.6e-35  Score=288.94  Aligned_cols=290  Identities=17%  Similarity=0.202  Sum_probs=210.8

Q ss_pred             CCCcHHHHHHHHHhhhhCCCCCCC--------CCCCCCCCCCccc---cceEeCCCCCcEEEEecCCCccccccccceeC
Q 040876           29 MGCLESEREALLRFKQDLQDPSNR--------LASWNIGGDCCTW---AGIVCDNVTGHIIELNLRNPFTYYRRSRYKAN   97 (343)
Q Consensus        29 ~~~~~~~~~~L~~~k~~~~~~~~~--------~~~W~~~~~~c~w---~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~   97 (343)
                      ++....|++||.++++++.++...        ..+|+.+.+||.|   .||+|+.. +||++|+|++.     ++.|.  
T Consensus        25 ~~~~~~d~~aL~~~~~~~~~~~w~~~~~~~~~~~~W~~~~~~c~w~~~~GV~C~~~-~~V~~L~L~~~-----~l~g~--   96 (636)
T 4eco_A           25 TAEYIKDYLALKEIWDALNGKNWSQQGFGTQPGANWNFNKELDMWGAQPGVSLNSN-GRVTGLSLEGF-----GASGR--   96 (636)
T ss_dssp             CCHHHHHHHHHHHHHHHTTGGGCCCCC------CCCCCSSCGGGTTCCTTEEECTT-CCEEEEECTTS-----CCEEE--
T ss_pred             hhhHHHHHHHHHHHHHHcCCCCcccCCcCCccCCCCCCCCCcccccCCCCeEEcCC-CCEEEEEecCc-----ccCCc--
Confidence            345567999999999998655322        2479988999999   99999864 89999999986     44443  


Q ss_pred             CCCCCCCCCCCCccccCCCCCCEecCCCCC--------------------------------------------------
Q 040876           98 PRSMLVGKGPIPSWLYRLTHLEQLSVADRP--------------------------------------------------  127 (343)
Q Consensus        98 ~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------------------------------------------------  127 (343)
                                +|+.++++++|++|+|++|.                                                  
T Consensus        97 ----------lp~~l~~L~~L~~L~Ls~N~~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~~~~~~~~l~  166 (636)
T 4eco_A           97 ----------VPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCI  166 (636)
T ss_dssp             ----------ECGGGGGCTTCCEEESCCGGGGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGGSCHHHHHHH
T ss_pred             ----------CChHHhcCccceEEECcCCccccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhhHHHHHHHHh
Confidence                      78889999999999999882                                                  


Q ss_pred             -------------------------------------CCCCCcccccchh-hccc-ccccCCCccccCcccchhhhhh--
Q 040876          128 -------------------------------------SLASREDQDLLSN-IRQR-LSKCRTGAKSSQEISDIFDIFS--  166 (343)
Q Consensus       128 -------------------------------------~l~~L~~L~l~~n-l~~~-l~~~~~~~~~~~~~~~ip~~l~--  166 (343)
                                                           .+++|++|++++| +++. ....+.........+.+|+.++  
T Consensus       167 ~~~l~~~~~~~~~~~~l~~l~l~~~~n~l~~ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~  246 (636)
T 4eco_A          167 NSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWD  246 (636)
T ss_dssp             HHCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGG
T ss_pred             hcCccccccccccccchhhhhhccccCCCccCCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhc
Confidence                                                 2334566666666 5520 0000000000000011888888  


Q ss_pred             cCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCc-ccc-cCCccccCC------CCCcEEEccCccCccccCh-
Q 040876          167 GCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNS-IVG-LVPLSLNEL------SKLRILHLSDNKLNGTLSE-  237 (343)
Q Consensus       167 ~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~-~~p~~l~~l------~~L~~L~l~~N~l~g~~p~-  237 (343)
                      ++  ++|++|++++|.+.+.+|..++++++|++|++++|+ +++ .+|..++.+      ++|++|++++|+++ .+|. 
T Consensus       247 ~l--~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~  323 (636)
T 4eco_A          247 NL--KDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK-TFPVE  323 (636)
T ss_dssp             GC--TTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS-SCCCH
T ss_pred             cc--CCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC-ccCch
Confidence            88  999999999999999999999999999999999998 888 788888776      88999999999998 7875 


Q ss_pred             HhhhcCCCCCeEEecCceee-----------EeEEeccCCcccccCCCccccc-C-CCeEeCcCCcccCccccc-----C
Q 040876          238 IHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNAT-Q-LWYLRLHSNNFSGPLSLI-----S  299 (343)
Q Consensus       238 ~~~~~l~~L~~L~l~~n~l~-----------l~~L~ls~n~l~~~~~~~~~~~-~-L~~L~Ls~N~l~~~~~~~-----~  299 (343)
                      ..++.+++|++|++++|.++           ++.|++++|+++ .+|..+... + |++|++++|.++ .+|..     +
T Consensus       324 ~~l~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~~L~~L~Ls~N~l~-~lp~~~~~~~l  401 (636)
T 4eco_A          324 TSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQIT-EIPANFCGFTEQVENLSFAHNKLK-YIPNIFDAKSV  401 (636)
T ss_dssp             HHHTTCTTCCEEECCSCCCEEECCCCEEEEEESEEECCSSEEE-ECCTTSEEECTTCCEEECCSSCCS-SCCSCCCTTCS
T ss_pred             hhhccCCCCCEEeCcCCcCccchhhhCCCCCCCEEECCCCccc-cccHhhhhhcccCcEEEccCCcCc-ccchhhhhccc
Confidence            35788899999999988776           556888888888 666656555 6 888888888888 45544     2


Q ss_pred             CCCcEEEccCCccccccCchhh-ccC--CccccCceEecCCCccc
Q 040876          300 SNLVYLDLFNNSFLGSISHFWC-YRS--NETKRLRALSLGDNYLQ  341 (343)
Q Consensus       300 ~~L~~L~Ls~N~l~~~~~~~l~-~~l--~~l~~L~~L~ls~N~l~  341 (343)
                      ++|++|++++|.+++..|..++ ...  ..+++|++|++++|.|+
T Consensus       402 ~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~  446 (636)
T 4eco_A          402 SVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQIS  446 (636)
T ss_dssp             SCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCC
T ss_pred             CccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccC
Confidence            3688888888888876654332 000  14456666666666654

>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=100.00  E-value=8.1e-34  Score=259.91  Aligned_cols=256  Identities=19%  Similarity=0.241  Sum_probs=180.6

Q ss_pred             CCCcHHHHHHHHHhhhhC-CCCCCCCCCC----CCCCCCccccceEeCC--------CCCcEEEEecCCCccccccccce
Q 040876           29 MGCLESEREALLRFKQDL-QDPSNRLASW----NIGGDCCTWAGIVCDN--------VTGHIIELNLRNPFTYYRRSRYK   95 (343)
Q Consensus        29 ~~~~~~~~~~L~~~k~~~-~~~~~~~~~W----~~~~~~c~w~gv~c~~--------~~~~v~~l~l~~~~~~~~~~~g~   95 (343)
                      ..+..+|++||++||..+ .++.++..+|    ....++|.|.|+.|+.        ...+|+.|+++++          
T Consensus        22 ~~~~~~~~~aLl~~k~~~~~~~~~~~~~w~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~l~~L~L~~n----------   91 (328)
T 4fcg_A           22 STALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSV----------   91 (328)
T ss_dssp             -CCCCCHHHHHHHHHHHHHHCCTTHHHHHHHHTTTCTTSCCSHHHHHHHHHHHHHHHTSTTCCEEEEESS----------
T ss_pred             cccCchHHHHHHHHHHhccCCchhhhhhhcccccccccccccCCcchhhhHHHHhcccccceeEEEccCC----------
Confidence            456778999999999988 4777777889    3567899999999952        3478999999985          


Q ss_pred             eCCCCCCCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccE
Q 040876           96 ANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEI  175 (343)
Q Consensus        96 ~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~  175 (343)
                            .++.  +|+.++++++|++|++++|.             +                 ..+|+.++++  ++|++
T Consensus        92 ------~l~~--lp~~l~~l~~L~~L~L~~n~-------------l-----------------~~lp~~~~~l--~~L~~  131 (328)
T 4fcg_A           92 ------PLPQ--FPDQAFRLSHLQHMTIDAAG-------------L-----------------MELPDTMQQF--AGLET  131 (328)
T ss_dssp             ------CCSS--CCSCGGGGTTCSEEEEESSC-------------C-----------------CCCCSCGGGG--TTCSE
T ss_pred             ------Cchh--cChhhhhCCCCCEEECCCCC-------------c-----------------cchhHHHhcc--CCCCE
Confidence                  5552  88889999999999999987             1                 2344444555  55555


Q ss_pred             EEeecCccccccchhccCCCCCCEEECcCCcccccCCccccC---------CCCCcEEEccCccCccccChHhhhcCCCC
Q 040876          176 LVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNE---------LSKLRILHLSDNKLNGTLSEIHFVNLTKL  246 (343)
Q Consensus       176 L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~---------l~~L~~L~l~~N~l~g~~p~~~~~~l~~L  246 (343)
                      |++++|.++ .+|..++++++|++|++++|++.+.+|..+..         +++|++|++++|.++ .+|. .+..+++|
T Consensus       132 L~Ls~n~l~-~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~-~lp~-~l~~l~~L  208 (328)
T 4fcg_A          132 LTLARNPLR-ALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPA-SIANLQNL  208 (328)
T ss_dssp             EEEESCCCC-CCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC-CCCG-GGGGCTTC
T ss_pred             EECCCCccc-cCcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcC-cchH-hhcCCCCC
Confidence            555555555 44555555555555555555554455544432         555555555555554 4554 45555555


Q ss_pred             CeEEecCceee-----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCc
Q 040876          247 SVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNS  311 (343)
Q Consensus       247 ~~L~l~~n~l~-----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~  311 (343)
                      ++|++++|.++           ++.|++++|++.+.+|..+... +|++|++++|.+.+.+|..   +++|++|++++|.
T Consensus       209 ~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~  288 (328)
T 4fcg_A          209 KSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCV  288 (328)
T ss_dssp             CEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCT
T ss_pred             CEEEccCCCCCcCchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCC
Confidence            55555555443           3446666777788888877777 9999999999999988865   7899999999999


Q ss_pred             cccccCchhhccCCccccCceEecCCCccc
Q 040876          312 FLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       312 l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      +.+.+|    ..+.++++|+.+++..|.+.
T Consensus       289 ~~~~iP----~~l~~L~~L~~l~l~~~~~~  314 (328)
T 4fcg_A          289 NLSRLP----SLIAQLPANCIILVPPHLQA  314 (328)
T ss_dssp             TCCCCC----GGGGGSCTTCEEECCGGGSC
T ss_pred             chhhcc----HHHhhccCceEEeCCHHHHH
Confidence            988776    56678999999999987654

>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=6.7e-33  Score=281.71  Aligned_cols=78  Identities=22%  Similarity=0.354  Sum_probs=63.3

Q ss_pred             CCCCCcHHHHHHHHHhhhhCCCCCCCCCCCCCC-----CCC--ccc------------cceEeCCCCCcEEEEecCCCcc
Q 040876           27 DHMGCLESEREALLRFKQDLQDPSNRLASWNIG-----GDC--CTW------------AGIVCDNVTGHIIELNLRNPFT   87 (343)
Q Consensus        27 ~~~~~~~~~~~~L~~~k~~~~~~~~~~~~W~~~-----~~~--c~w------------~gv~c~~~~~~v~~l~l~~~~~   87 (343)
                      +.+++..+|++||++||+++.+|     +|+.+     .+|  |.|            .||+|+. .+||++|+|++.  
T Consensus       262 ~~~~~~~~d~~ALl~~k~~l~~~-----~W~~~~~~~~~~~~~C~W~~~~~~~~w~~~~GV~C~~-~~~V~~L~Ls~~--  333 (876)
T 4ecn_A          262 KETAEYIKDYKALKAIWEALDGK-----NWRYYSGTINNTIHSLNWNFNKELDMWGDQPGVDLDN-NGRVTGLSLAGF--  333 (876)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTTGG-----GCCCCCSSCSSCCCCCSCCCSSCGGGTTCCTTEEECT-TSCEEEEECTTT--
T ss_pred             cccccchHHHHHHHHHHHHcCCC-----CCCcCCCcccccCCccccccccccccccCcCceEecC-CCCEEEEECccC--
Confidence            34566778999999999999776     57533     355  999            9999986 699999999986  


Q ss_pred             ccccccceeCCCCCCCCCCCCCccccCCCCCCEecC-CCCC
Q 040876           88 YYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSV-ADRP  127 (343)
Q Consensus        88 ~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~L-s~n~  127 (343)
                         ++.|.            +|+.++++++|++|+| ++|.
T Consensus       334 ---~L~G~------------ip~~l~~L~~L~~LdLss~N~  359 (876)
T 4ecn_A          334 ---GAKGR------------VPDAIGQLTELKVLSFGTHSE  359 (876)
T ss_dssp             ---CCEEE------------ECGGGGGCTTCCEEESCCTTH
T ss_pred             ---CCCCc------------CchHHhccccceEeeeccccc
Confidence               44443            8889999999999999 6663

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=99.98  E-value=1.1e-31  Score=272.12  Aligned_cols=219  Identities=26%  Similarity=0.367  Sum_probs=172.8

Q ss_pred             CCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCC
Q 040876          101 MLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCV  169 (343)
Q Consensus       101 n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~  169 (343)
                      |.+++. +|..++++++|++|++++|.          .+++|+.|++++| +.                +.+|..+..+ 
T Consensus       404 n~l~~~-~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~----------------~~~p~~~~~l-  465 (768)
T 3rgz_A          404 NGFTGK-IPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE----------------GEIPQELMYV-  465 (768)
T ss_dssp             SEEEEE-CCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCC----------------SCCCGGGGGC-
T ss_pred             Cccccc-cCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCccc----------------CcCCHHHcCC-
Confidence            333333 55555555555555555554          2344555555555 44                4677778888 


Q ss_pred             CCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          170 SKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       170 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                       ++|++|++++|++++.+|..+.++++|++|++++|++++.+|..++.+++|++|++++|+++|.+|. .+..+++|+.|
T Consensus       466 -~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~-~l~~l~~L~~L  543 (768)
T 3rgz_A          466 -KTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPA-ELGDCRSLIWL  543 (768)
T ss_dssp             -TTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCG-GGGGCTTCCEE
T ss_pred             -CCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCH-HHcCCCCCCEE
Confidence             8888888888888888888888888888888888888888888888888888888888888878887 77888888888


Q ss_pred             EecCceee------------------------------------------------------------------------
Q 040876          250 SVNENNLT------------------------------------------------------------------------  257 (343)
Q Consensus       250 ~l~~n~l~------------------------------------------------------------------------  257 (343)
                      ++++|.++                                                                        
T Consensus       544 ~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~  623 (768)
T 3rgz_A          544 DLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGH  623 (768)
T ss_dssp             ECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEE
T ss_pred             ECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceeccc
Confidence            88887664                                                                        


Q ss_pred             ----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhcc
Q 040876          258 ----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYR  323 (343)
Q Consensus       258 ----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~  323 (343)
                                ++.||+++|+++|.+|..++.. .|+.|+|++|+++|.+|..   +++|++|||++|+++|.+|    ..
T Consensus       624 ~~~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip----~~  699 (768)
T 3rgz_A          624 TSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIP----QA  699 (768)
T ss_dssp             CCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCC----GG
T ss_pred             CchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCC----hH
Confidence                      3459999999999999988888 9999999999999999976   7899999999999999876    55


Q ss_pred             CCccccCceEecCCCccccC
Q 040876          324 SNETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       324 l~~l~~L~~L~ls~N~l~g~  343 (343)
                      +..++.|++||+++|+++|+
T Consensus       700 l~~l~~L~~L~ls~N~l~g~  719 (768)
T 3rgz_A          700 MSALTMLTEIDLSNNNLSGP  719 (768)
T ss_dssp             GGGCCCCSEEECCSSEEEEE
T ss_pred             HhCCCCCCEEECcCCccccc
Confidence            67899999999999999883

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.96  E-value=4.3e-28  Score=231.09  Aligned_cols=118  Identities=20%  Similarity=0.162  Sum_probs=80.6

Q ss_pred             CCcEEEccCccCccccChHhhhcCCCCCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeC
Q 040876          220 KLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRL  286 (343)
Q Consensus       220 ~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~L  286 (343)
                      +|++|++++|.+++..|. .+..+++|++|++++|.++            ++.|++++|.+++..|..+... +|++|++
T Consensus       276 ~L~~L~l~~n~l~~~~~~-~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  354 (455)
T 3v47_A          276 GVKTCDLSKSKIFALLKS-VFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDL  354 (455)
T ss_dssp             CCCEEECCSSCCCEECTT-TTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEEC
T ss_pred             CceEEEecCccccccchh-hcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEEC
Confidence            444555555555433444 5666777777777777664            5567777777776666666655 7888888


Q ss_pred             cCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          287 HSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       287 s~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++|++++..|..   +++|++|++++|.+++..    +..+..+++|++|++++|++++
T Consensus       355 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~~~~~~l~~L~~L~l~~N~l~~  409 (455)
T 3v47_A          355 SYNHIRALGDQSFLGLPNLKELALDTNQLKSVP----DGIFDRLTSLQKIWLHTNPWDC  409 (455)
T ss_dssp             CSSCCCEECTTTTTTCTTCCEEECCSSCCSCCC----TTTTTTCTTCCEEECCSSCBCC
T ss_pred             CCCcccccChhhccccccccEEECCCCccccCC----HhHhccCCcccEEEccCCCccc
Confidence            888887766654   577888888888877633    2345678888888888888876

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.96  E-value=1.6e-28  Score=223.32  Aligned_cols=204  Identities=24%  Similarity=0.368  Sum_probs=185.5

Q ss_pred             CCCCEecCCCCC------------CCCCCcccccch-h-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecC
Q 040876          116 THLEQLSVADRP------------SLASREDQDLLS-N-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSS  181 (343)
Q Consensus       116 ~~L~~L~Ls~n~------------~l~~L~~L~l~~-n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n  181 (343)
                      .++++|++++|.            .+++|++|++++ | +.                +.+|+.+.++  ++|++|++++|
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~----------------~~~p~~l~~l--~~L~~L~Ls~n  111 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLV----------------GPIPPAIAKL--TQLHYLYITHT  111 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEE----------------SCCCGGGGGC--TTCSEEEEEEE
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCccc----------------ccCChhHhcC--CCCCEEECcCC
Confidence            478889998886            456799999994 6 77                5889999999  99999999999


Q ss_pred             ccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC-CCCeEEecCceee---
Q 040876          182 SISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT-KLSVFSVNENNLT---  257 (343)
Q Consensus       182 ~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~-~L~~L~l~~n~l~---  257 (343)
                      .+++.+|..+.++++|++|++++|.+++.+|..+..+++|++|++++|++++.+|. .+..++ +|++|++++|.++   
T Consensus       112 ~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~-~l~~l~~~L~~L~L~~N~l~~~~  190 (313)
T 1ogq_A          112 NVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD-SYGSFSKLFTSMTISRNRLTGKI  190 (313)
T ss_dssp             CCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCG-GGGCCCTTCCEEECCSSEEEEEC
T ss_pred             eeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCH-HHhhhhhcCcEEECcCCeeeccC
Confidence            99999999999999999999999999999999999999999999999999989998 888888 9999999999986   


Q ss_pred             --------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCccccccCchhhccCCc
Q 040876          258 --------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSISHFWCYRSNE  326 (343)
Q Consensus       258 --------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l~~~l~~  326 (343)
                              ++.|++++|.+++.+|..+... +|++|++++|++++.+|..  +++|++|++++|.+++.+|    ..+..
T Consensus       191 ~~~~~~l~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~~~p----~~l~~  266 (313)
T 1ogq_A          191 PPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLP----QGLTQ  266 (313)
T ss_dssp             CGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCC----GGGGG
T ss_pred             ChHHhCCcccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCcccCcCC----hHHhc
Confidence                    6779999999999888888777 9999999999999877765  7899999999999998765    55678


Q ss_pred             cccCceEecCCCcccc
Q 040876          327 TKRLRALSLGDNYLQG  342 (343)
Q Consensus       327 l~~L~~L~ls~N~l~g  342 (343)
                      +++|++|++++|+|+|
T Consensus       267 l~~L~~L~Ls~N~l~~  282 (313)
T 1ogq_A          267 LKFLHSLNVSFNNLCG  282 (313)
T ss_dssp             CTTCCEEECCSSEEEE
T ss_pred             CcCCCEEECcCCcccc
Confidence            9999999999999986

>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-26  Score=209.85  Aligned_cols=227  Identities=23%  Similarity=0.268  Sum_probs=148.5

Q ss_pred             CccccceEeCCCC---------CcEEEEecCCCccccccccceeCCCCCCCCCCCCCcc-ccCCCCCCEecCCCCC----
Q 040876           62 CCTWAGIVCDNVT---------GHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSW-LYRLTHLEQLSVADRP----  127 (343)
Q Consensus        62 ~c~w~gv~c~~~~---------~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~-l~~l~~L~~L~Ls~n~----  127 (343)
                      .|.|.+|.|....         ..++.|+++++                .++.  +|.. +.++++|++|++++|.    
T Consensus         6 ~C~~~~l~c~~~~l~~ip~~~~~~l~~L~L~~n----------------~l~~--i~~~~~~~l~~L~~L~L~~n~l~~~   67 (306)
T 2z66_A            6 SCSGTEIRCNSKGLTSVPTGIPSSATRLELESN----------------KLQS--LPHGVFDKLTQLTKLSLSSNGLSFK   67 (306)
T ss_dssp             EEETTEEECCSSCCSSCCSCCCTTCCEEECCSS----------------CCCC--CCTTTTTTCTTCSEEECCSSCCCEE
T ss_pred             eeCCCEEEcCCCCcccCCCCCCCCCCEEECCCC----------------ccCc--cCHhHhhccccCCEEECCCCccCcc
Confidence            3899999997521         24666666653                5554  5554 6889999999999887    


Q ss_pred             --------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccc-hhccCCCCC
Q 040876          128 --------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLT-EQIGHFKNL  197 (343)
Q Consensus       128 --------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p-~~l~~l~~L  197 (343)
                              .+++|++|++++| +.                 .+|..+.++  ++|++|++++|.+++..+ ..+..+++|
T Consensus        68 ~~~~~~~~~~~~L~~L~Ls~n~i~-----------------~l~~~~~~l--~~L~~L~l~~n~l~~~~~~~~~~~l~~L  128 (306)
T 2z66_A           68 GCCSQSDFGTTSLKYLDLSFNGVI-----------------TMSSNFLGL--EQLEHLDFQHSNLKQMSEFSVFLSLRNL  128 (306)
T ss_dssp             EEEEHHHHSCSCCCEEECCSCSEE-----------------EEEEEEETC--TTCCEEECTTSEEESSTTTTTTTTCTTC
T ss_pred             cCcccccccccccCEEECCCCccc-----------------cChhhcCCC--CCCCEEECCCCcccccccchhhhhccCC
Confidence                    2445555665555 43                 344445555  566666666666554332 345555666


Q ss_pred             CEEECcCCcccccCCccccCCCCCcEEEccCccCcc-ccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCcc
Q 040876          198 DTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNG-TLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLT  276 (343)
Q Consensus       198 ~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g-~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~  276 (343)
                      ++|++++|.+++..|..+..+++|++|++++|.+++ .+|. .+..+++|++|            ++++|++++..|..+
T Consensus       129 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-~~~~l~~L~~L------------~Ls~n~l~~~~~~~~  195 (306)
T 2z66_A          129 IYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD-IFTELRNLTFL------------DLSQCQLEQLSPTAF  195 (306)
T ss_dssp             CEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECS-CCTTCTTCCEE------------ECTTSCCCEECTTTT
T ss_pred             CEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchh-HHhhCcCCCEE------------ECCCCCcCCcCHHHh
Confidence            666666666655555555556666666666665553 2444 45555555555            455566666666666


Q ss_pred             ccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCcc-ccCceEecCCCcccc
Q 040876          277 NAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNET-KRLRALSLGDNYLQG  342 (343)
Q Consensus       277 ~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l-~~L~~L~ls~N~l~g  342 (343)
                      ... +|++|++++|++++..+..   +++|++|++++|.+++..|    ..+..+ ++|++|++++|++++
T Consensus       196 ~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~----~~~~~~~~~L~~L~L~~N~~~~  262 (306)
T 2z66_A          196 NSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKK----QELQHFPSSLAFLNLTQNDFAC  262 (306)
T ss_dssp             TTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSS----SSCCCCCTTCCEEECTTCCEEC
T ss_pred             cCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCCCcccCH----HHHHhhhccCCEEEccCCCeec
Confidence            665 8999999999998765533   6789999999999887654    455666 489999999998875

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.94  E-value=2.1e-26  Score=220.89  Aligned_cols=235  Identities=22%  Similarity=0.229  Sum_probs=122.7

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccc----c-CCCcc-c-cCcc-cc
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSK----C-RTGAK-S-SQEI-SD  160 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~----~-~~~~~-~-~~~~-~~  160 (343)
                      +|.+++. .|..+.++++|++|+|++|.          .+++|++|++++| +.+....    + ++..+ + ...+ +.
T Consensus        65 ~n~i~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~  143 (477)
T 2id5_A           65 ENIVSAV-EPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYI  143 (477)
T ss_dssp             TSCCCEE-CTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEE
T ss_pred             CCccCEe-ChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCcccee
Confidence            5556554 46667777777777777665          3455677777766 5421000    0 00000 0 0000 11


Q ss_pred             hhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhh
Q 040876          161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHF  240 (343)
Q Consensus       161 ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~  240 (343)
                      .|..+.++  ++|++|++++|.+++..+..+.++++|++|++++|.+.+..+..+..+++|++|++++|.+.+.+|. ..
T Consensus       144 ~~~~~~~l--~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~  220 (477)
T 2id5_A          144 SHRAFSGL--NSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTP-NC  220 (477)
T ss_dssp             CTTSSTTC--TTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECT-TT
T ss_pred             ChhhccCC--CCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCc-cc
Confidence            12233444  4444444444444433333344444444444444444433333444444444444444444444444 22


Q ss_pred             hcCCCCCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcE
Q 040876          241 VNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVY  304 (343)
Q Consensus       241 ~~l~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~  304 (343)
                      ....+|+.|++++|.++            ++.|++++|.+++..+..+... +|++|++++|++++..|..   +++|++
T Consensus       221 ~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  300 (477)
T 2id5_A          221 LYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRV  300 (477)
T ss_dssp             TTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCE
T ss_pred             ccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceECHHHhcCcccCCE
Confidence            23335555555555543            4556777776666555555544 7777777777777655544   567777


Q ss_pred             EEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          305 LDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       305 L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      |++++|.+++..    +..+..+++|+.|++++|++++
T Consensus       301 L~L~~N~l~~~~----~~~~~~l~~L~~L~l~~N~l~c  334 (477)
T 2id5_A          301 LNVSGNQLTTLE----ESVFHSVGNLETLILDSNPLAC  334 (477)
T ss_dssp             EECCSSCCSCCC----GGGBSCGGGCCEEECCSSCEEC
T ss_pred             EECCCCcCceeC----HhHcCCCcccCEEEccCCCccC
Confidence            777777776532    2345667778888888877654

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.94  E-value=3.4e-28  Score=220.98  Aligned_cols=243  Identities=19%  Similarity=0.189  Sum_probs=184.8

Q ss_pred             CCCCCCCCCCccccceEeCCCCCcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC-----
Q 040876           53 LASWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP-----  127 (343)
Q Consensus        53 ~~~W~~~~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~-----  127 (343)
                      ...|.....|+.+..+.......+++.++++++                .+  . +|..+...  |++|++++|.     
T Consensus        21 ~~~~~~~~~c~~~~~~~~~~~~~~L~~l~l~~n----------------~l--~-~p~~~~~~--L~~L~L~~n~l~~~~   79 (312)
T 1wwl_A           21 KPDWSSAFNCLGAADVELYGGGRSLEYLLKRVD----------------TE--A-DLGQFTDI--IKSLSLKRLTVRAAR   79 (312)
T ss_dssp             SCCGGGGGGSSSCSEEEEEEEEEECTTHHHHCC----------------TT--C-CCHHHHHH--HHHCCCCEEEEEEEE
T ss_pred             ccchHHHhhhhccccEEEEccCCCceeEeeccc----------------cc--c-cHHHHHHH--HhhcccccccccCCC
Confidence            456755556666665443222234555555543                44  1 66655544  7777777765     


Q ss_pred             -------------CCCCCcccccchh-hcccccccCCCccccCcccchhhhh--hcCCCCCccEEEeecCccccccchhc
Q 040876          128 -------------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIF--SGCVSKGLEILVLRSSSISGHLTEQI  191 (343)
Q Consensus       128 -------------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l--~~l~~~~L~~L~L~~n~l~~~~p~~l  191 (343)
                                   .+++|++|++++| +.                +.+|..+  ..+  ++|++|++++|++++. |..+
T Consensus        80 ~~~~~~~~~~~~~~l~~L~~L~L~~n~l~----------------~~~~~~~~~~~l--~~L~~L~Ls~N~l~~~-~~~~  140 (312)
T 1wwl_A           80 IPSRILFGALRVLGISGLQELTLENLEVT----------------GTAPPPLLEATG--PDLNILNLRNVSWATR-DAWL  140 (312)
T ss_dssp             CBHHHHHHHHHHHTTSCCCEEEEEEEBCB----------------SCCCCCSSSCCS--CCCSEEEEESCBCSSS-SSHH
T ss_pred             cCHHHHHHHHHhcCcCCccEEEccCCccc----------------chhHHHHHHhcC--CCccEEEccCCCCcch-hHHH
Confidence                         1667888888888 76                4677765  778  9999999999999976 7777


Q ss_pred             cCC-----CCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccc--cChHhh--hcCCCCCeEEecCceee-----
Q 040876          192 GHF-----KNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGT--LSEIHF--VNLTKLSVFSVNENNLT-----  257 (343)
Q Consensus       192 ~~l-----~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~--~p~~~~--~~l~~L~~L~l~~n~l~-----  257 (343)
                      +.+     ++|++|++++|++++..|..++.+++|++|++++|++.+.  +|. .+  ..+++|++|++++|.++     
T Consensus       141 ~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~-~~~~~~l~~L~~L~L~~N~l~~~~~~  219 (312)
T 1wwl_A          141 AELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLIS-ALCPLKFPTLQVLALRNAGMETPSGV  219 (312)
T ss_dssp             HHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHH-HSCTTSCTTCCEEECTTSCCCCHHHH
T ss_pred             HHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHH-HHHhccCCCCCEEECCCCcCcchHHH
Confidence            776     8999999999999987778899999999999999998765  233 33  78899999999999875     


Q ss_pred             ----------EeEEeccCCcccccCC-Cccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhccC
Q 040876          258 ----------LKFLDLGENQIHGEMT-NLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRS  324 (343)
Q Consensus       258 ----------l~~L~ls~n~l~~~~~-~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l  324 (343)
                                ++.|++++|++++.+| ..+... +|++|++++|+++. +|.. .++|++|++++|++++. |    . +
T Consensus       220 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~Ls~N~l~~-ip~~~~~~L~~L~Ls~N~l~~~-p----~-~  292 (312)
T 1wwl_A          220 CSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQ-VPKGLPAKLSVLDLSYNRLDRN-P----S-P  292 (312)
T ss_dssp             HHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEECTTSCCSS-CCSSCCSEEEEEECCSSCCCSC-C----C-T
T ss_pred             HHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEECCCCccCh-hhhhccCCceEEECCCCCCCCC-h----h-H
Confidence                      5679999999998764 334434 99999999999994 4544 57899999999999875 3    3 6


Q ss_pred             CccccCceEecCCCccccC
Q 040876          325 NETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       325 ~~l~~L~~L~ls~N~l~g~  343 (343)
                      ..+++|++|++++|+|+++
T Consensus       293 ~~l~~L~~L~L~~N~l~~~  311 (312)
T 1wwl_A          293 DELPQVGNLSLKGNPFLDS  311 (312)
T ss_dssp             TTSCEEEEEECTTCTTTCC
T ss_pred             hhCCCCCEEeccCCCCCCC
Confidence            7899999999999999874

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.94  E-value=2.7e-26  Score=218.63  Aligned_cols=171  Identities=23%  Similarity=0.275  Sum_probs=103.1

Q ss_pred             hhcCCCCCccEEEeecCccccccchh-ccCCCCCCEEECcCCcccccCCccccCC-------------------------
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQ-IGHFKNLDTLDLGNNSIVGLVPLSLNEL-------------------------  218 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~Ls~N~l~~~~p~~l~~l-------------------------  218 (343)
                      +..+  ++|++|++++|.+++..|.. +.++++|++|++++|.+++..|..+..+                         
T Consensus       125 ~~~l--~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~  202 (455)
T 3v47_A          125 FKPL--TSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGW  202 (455)
T ss_dssp             TTTC--TTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTH
T ss_pred             ccCc--ccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhhhhccccccccccccccCcccccchhhccc
Confidence            5556  66666666666666555554 5666666666666666665555444332                         


Q ss_pred             ---------CCCcEEEccCccCccccChHhhhcC---------------------------------------CCCCeEE
Q 040876          219 ---------SKLRILHLSDNKLNGTLSEIHFVNL---------------------------------------TKLSVFS  250 (343)
Q Consensus       219 ---------~~L~~L~l~~N~l~g~~p~~~~~~l---------------------------------------~~L~~L~  250 (343)
                               ++|++|++++|.+++.+|. .+...                                       ++|+.|+
T Consensus       203 ~~~~~~~~~~~L~~L~Ls~n~l~~~~~~-~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~  281 (455)
T 3v47_A          203 EKCGNPFKNTSITTLDLSGNGFKESMAK-RFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCD  281 (455)
T ss_dssp             HHHCCTTTTCEEEEEECTTSCCCHHHHH-HHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEE
T ss_pred             cccccccccceeeeEecCCCcccccchh-hhhccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEE
Confidence                     4555666666655544433 22211                                       3455555


Q ss_pred             ecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccc
Q 040876          251 VNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       251 l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~  314 (343)
                      +++|.++            ++.|++++|++++..|..+... +|++|++++|.+++..|..   +++|++|++++|.+++
T Consensus       282 l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~  361 (455)
T 3v47_A          282 LSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRA  361 (455)
T ss_dssp             CCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSCCCE
T ss_pred             ecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCCcccc
Confidence            5555543            4556666666666555555544 6777777777776655443   5667777777777766


Q ss_pred             ccCchhhccCCccccCceEecCCCcccc
Q 040876          315 SISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       315 ~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ..|    ..+..+++|++|++++|+|++
T Consensus       362 ~~~----~~~~~l~~L~~L~L~~N~l~~  385 (455)
T 3v47_A          362 LGD----QSFLGLPNLKELALDTNQLKS  385 (455)
T ss_dssp             ECT----TTTTTCTTCCEEECCSSCCSC
T ss_pred             cCh----hhccccccccEEECCCCcccc
Confidence            543    455677788888888887764

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.94  E-value=9.8e-26  Score=214.29  Aligned_cols=175  Identities=22%  Similarity=0.188  Sum_probs=140.7

Q ss_pred             hhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhh
Q 040876          161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHF  240 (343)
Q Consensus       161 ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~  240 (343)
                      .+..+.++  ++|++|+|++|+++...+..+..+++|++|++++|.++...+..+..+++|++|++++|+..+.++...|
T Consensus       104 ~~~~~~~l--~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~  181 (440)
T 3zyj_A          104 EIGAFNGL--ANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAF  181 (440)
T ss_dssp             CGGGGTTC--SSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTT
T ss_pred             ChhhccCC--ccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchh
Confidence            34567777  8888888888888865556688888888888888888866666778888888888888554446666567


Q ss_pred             hcCCCCCeEEecCceee----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEE
Q 040876          241 VNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLD  306 (343)
Q Consensus       241 ~~l~~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~  306 (343)
                      .++++|++|++++|.++          ++.|++++|++++..|..+... +|++|++++|++++..+..   +++|++|+
T Consensus       182 ~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  261 (440)
T 3zyj_A          182 EGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEIN  261 (440)
T ss_dssp             TTCSSCCEEECTTSCCSSCCCCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEE
T ss_pred             hcccccCeecCCCCcCccccccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEE
Confidence            78888888888888764          6778889999998878877777 9999999999999877665   68999999


Q ss_pred             ccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          307 LFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       307 Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      |++|++++..+    ..+..+++|+.|++++|++.
T Consensus       262 L~~N~l~~~~~----~~~~~l~~L~~L~L~~Np~~  292 (440)
T 3zyj_A          262 LAHNNLTLLPH----DLFTPLHHLERIHLHHNPWN  292 (440)
T ss_dssp             CTTSCCCCCCT----TTTSSCTTCCEEECCSSCEE
T ss_pred             CCCCCCCccCh----hHhccccCCCEEEcCCCCcc
Confidence            99999986543    45678899999999999875

>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=99.94  E-value=1.3e-26  Score=213.99  Aligned_cols=245  Identities=18%  Similarity=0.226  Sum_probs=180.7

Q ss_pred             CCCCCCCccccceEeCCCC-----------CcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCC
Q 040876           56 WNIGGDCCTWAGIVCDNVT-----------GHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVA  124 (343)
Q Consensus        56 W~~~~~~c~w~gv~c~~~~-----------~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls  124 (343)
                      |.....+|.|.|+ |+-..           .+++.|+++++                .+++. .+..+.++++|++|+++
T Consensus        23 ~~~~~~~C~~~~~-c~~~~~~l~~iP~~~~~~L~~L~l~~n----------------~i~~~-~~~~~~~l~~L~~L~L~   84 (353)
T 2z80_A           23 SNQASLSCDRNGI-CKGSSGSLNSIPSGLTEAVKSLDLSNN----------------RITYI-SNSDLQRCVNLQALVLT   84 (353)
T ss_dssp             ----CCEECTTSE-EECCSTTCSSCCTTCCTTCCEEECTTS----------------CCCEE-CTTTTTTCTTCCEEECT
T ss_pred             CCccCCCCCCCeE-eeCCCCCcccccccccccCcEEECCCC----------------cCccc-CHHHhccCCCCCEEECC
Confidence            4345567888887 65322           24666777654                55542 33478889999999999


Q ss_pred             CCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhh-hhhcCCCCCccEEEeecCccccccch--h
Q 040876          125 DRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFD-IFSGCVSKGLEILVLRSSSISGHLTE--Q  190 (343)
Q Consensus       125 ~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~-~l~~l~~~~L~~L~L~~n~l~~~~p~--~  190 (343)
                      +|.          .+++|++|++++| ++                 .+|. .+.++  ++|++|++++|++++ +|.  .
T Consensus        85 ~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-----------------~~~~~~~~~l--~~L~~L~L~~n~l~~-l~~~~~  144 (353)
T 2z80_A           85 SNGINTIEEDSFSSLGSLEHLDLSYNYLS-----------------NLSSSWFKPL--SSLTFLNLLGNPYKT-LGETSL  144 (353)
T ss_dssp             TSCCCEECTTTTTTCTTCCEEECCSSCCS-----------------SCCHHHHTTC--TTCSEEECTTCCCSS-SCSSCS
T ss_pred             CCccCccCHhhcCCCCCCCEEECCCCcCC-----------------cCCHhHhCCC--ccCCEEECCCCCCcc-cCchhh
Confidence            887          4567888888888 76                 4444 47788  899999999998884 554  6


Q ss_pred             ccCCCCCCEEECcCC-cccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee------------
Q 040876          191 IGHFKNLDTLDLGNN-SIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------  257 (343)
Q Consensus       191 l~~l~~L~~L~Ls~N-~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~------------  257 (343)
                      +.++++|++|++++| .+++..|..++.+++|++|++++|.+++..|. .+..+++|++|++++|.++            
T Consensus       145 ~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~  223 (353)
T 2z80_A          145 FSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPK-SLKSIQNVSHLILHMKQHILLLEIFVDVTSS  223 (353)
T ss_dssp             CTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTT-TTTTCSEEEEEEEECSCSTTHHHHHHHHTTT
T ss_pred             hccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHH-HHhccccCCeecCCCCccccchhhhhhhccc
Confidence            888899999999988 46655667788889999999999998866666 7888889999999888763            


Q ss_pred             EeEEeccCCcccccCCCccc---cc-CCCeEeCcCCcccC----ccccc---CCCCcEEEccCCccccccCchhhccCCc
Q 040876          258 LKFLDLGENQIHGEMTNLTN---AT-QLWYLRLHSNNFSG----PLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNE  326 (343)
Q Consensus       258 l~~L~ls~n~l~~~~~~~~~---~~-~L~~L~Ls~N~l~~----~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~  326 (343)
                      ++.|++++|.+++..+..+.   .. .++.++++++.+++    .+|..   +++|++|++++|.++. +|.   ..+..
T Consensus       224 L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~-i~~---~~~~~  299 (353)
T 2z80_A          224 VECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKS-VPD---GIFDR  299 (353)
T ss_dssp             EEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCCC-CCT---TTTTT
T ss_pred             ccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCCCCCc-cCH---HHHhc
Confidence            77889999988875443222   12 67888888888775    23432   7899999999999984 442   23478


Q ss_pred             cccCceEecCCCccccC
Q 040876          327 TKRLRALSLGDNYLQGE  343 (343)
Q Consensus       327 l~~L~~L~ls~N~l~g~  343 (343)
                      +++|++|++++|++++.
T Consensus       300 l~~L~~L~L~~N~~~~~  316 (353)
T 2z80_A          300 LTSLQKIWLHTNPWDCS  316 (353)
T ss_dssp             CTTCCEEECCSSCBCCC
T ss_pred             CCCCCEEEeeCCCccCc
Confidence            99999999999999873

>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=99.94  E-value=9.5e-26  Score=215.10  Aligned_cols=204  Identities=22%  Similarity=0.161  Sum_probs=156.1

Q ss_pred             CCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecC
Q 040876          102 LVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSS  181 (343)
Q Consensus       102 ~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n  181 (343)
                      ++++. .|..+.++++|++|+|++|.             +.                +..|..+.++  ++|++|+|++|
T Consensus        86 ~i~~~-~~~~~~~l~~L~~L~Ls~n~-------------i~----------------~~~~~~~~~l--~~L~~L~L~~n  133 (452)
T 3zyi_A           86 NIQMI-QADTFRHLHHLEVLQLGRNS-------------IR----------------QIEVGAFNGL--ASLNTLELFDN  133 (452)
T ss_dssp             CCCEE-CTTTTTTCTTCCEEECCSSC-------------CC----------------EECTTTTTTC--TTCCEEECCSS
T ss_pred             cCceE-CHHHcCCCCCCCEEECCCCc-------------cC----------------CcChhhccCc--ccCCEEECCCC
Confidence            44443 45566777777777777665             33                2334667777  88888888888


Q ss_pred             ccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee----
Q 040876          182 SISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----  257 (343)
Q Consensus       182 ~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~----  257 (343)
                      .+++..+..+..+++|++|++++|.++...+..+.++++|++|++++|+..+.++...+..+++|+.|++++|.++    
T Consensus       134 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~  213 (452)
T 3zyi_A          134 WLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPN  213 (452)
T ss_dssp             CCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCC
T ss_pred             cCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccc
Confidence            8886555667778888888888888875555577788888888888754444666656777888888888888764    


Q ss_pred             ------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCcc
Q 040876          258 ------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNET  327 (343)
Q Consensus       258 ------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l  327 (343)
                            ++.|++++|++++..|..+... +|++|++++|++++..+..   +++|++|+|++|++++..+    ..+..+
T Consensus       214 ~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~----~~~~~l  289 (452)
T 3zyi_A          214 LTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPH----DLFTPL  289 (452)
T ss_dssp             CTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCT----TSSTTC
T ss_pred             ccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccCh----HHhccc
Confidence                  6678888899988888877777 9999999999999877765   6899999999999986433    456789


Q ss_pred             ccCceEecCCCccc
Q 040876          328 KRLRALSLGDNYLQ  341 (343)
Q Consensus       328 ~~L~~L~ls~N~l~  341 (343)
                      ++|+.|++++|++.
T Consensus       290 ~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          290 RYLVELHLHHNPWN  303 (452)
T ss_dssp             TTCCEEECCSSCEE
T ss_pred             cCCCEEEccCCCcC
Confidence            99999999999875

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.94  E-value=3.1e-26  Score=214.26  Aligned_cols=103  Identities=23%  Similarity=0.252  Sum_probs=51.1

Q ss_pred             ccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeec
Q 040876          112 LYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRS  180 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~  180 (343)
                      +..+++|++|++++|.          .+++|++|++++| +.                +..|..+.++  ++|++|++++
T Consensus        65 ~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~----------------~~~~~~~~~l--~~L~~L~L~~  126 (390)
T 3o6n_A           65 LDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIR----------------YLPPHVFQNV--PLLTVLVLER  126 (390)
T ss_dssp             HHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCC----------------CCCTTTTTTC--TTCCEEECCS
T ss_pred             hcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCC----------------cCCHHHhcCC--CCCCEEECCC
Confidence            4556666666666654          3445666666655 44                1223334444  5555555555


Q ss_pred             CccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCc
Q 040876          181 SSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN  232 (343)
Q Consensus       181 n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~  232 (343)
                      |.++...+..+.++++|++|++++|.+++..|..+..+++|++|++++|.++
T Consensus       127 n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~  178 (390)
T 3o6n_A          127 NDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT  178 (390)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCS
T ss_pred             CccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCC
Confidence            5555222222344555555555555554444444445555555555555444

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.93  E-value=4.6e-26  Score=224.68  Aligned_cols=103  Identities=23%  Similarity=0.252  Sum_probs=50.5

Q ss_pred             ccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeec
Q 040876          112 LYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRS  180 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~  180 (343)
                      +.++++|++|++++|.          .+++|++|++++| +.                +..|..++++  ++|++|++++
T Consensus        71 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~----------------~~~~~~~~~l--~~L~~L~L~~  132 (597)
T 3oja_B           71 LDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIR----------------YLPPHVFQNV--PLLTVLVLER  132 (597)
T ss_dssp             HHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCC----------------CCCTTTTTTC--TTCCEEECCS
T ss_pred             HccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCC----------------CCCHHHHcCC--CCCCEEEeeC
Confidence            4455556666665554          3344555555555 44                1223334444  5555555555


Q ss_pred             CccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCc
Q 040876          181 SSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN  232 (343)
Q Consensus       181 n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~  232 (343)
                      |.+++..+..++.+++|++|++++|.+++..|..++.+++|++|++++|.++
T Consensus       133 n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  184 (597)
T 3oja_B          133 NDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT  184 (597)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCS
T ss_pred             CCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCC
Confidence            5555322233344555555555555555444444455555555555555444

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.93  E-value=5.3e-25  Score=211.18  Aligned_cols=213  Identities=16%  Similarity=0.117  Sum_probs=169.5

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccc----ccc-CCCcc--ccCcccch
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRL----SKC-RTGAK--SSQEISDI  161 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l----~~~-~~~~~--~~~~~~~i  161 (343)
                      +|.++.. .+..+.++++|++|++++|.          .+++|+.|++++| +.+..    ..+ .+..+  ....+..+
T Consensus        89 ~n~l~~~-~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~  167 (477)
T 2id5_A           89 SNRLKLI-PLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSI  167 (477)
T ss_dssp             SSCCCSC-CTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSC
T ss_pred             CCcCCcc-CcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCccc
Confidence            6777763 33457889999999999887          4667888888888 65431    110 11100  11122344


Q ss_pred             h-hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhh
Q 040876          162 F-DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHF  240 (343)
Q Consensus       162 p-~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~  240 (343)
                      | ..+.++  ++|++|++++|.+.+..+..+..+++|++|++++|.+.+.+|.......+|++|++++|+++ .+|...+
T Consensus       168 ~~~~l~~l--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~-~~~~~~~  244 (477)
T 2id5_A          168 PTEALSHL--HGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLT-AVPYLAV  244 (477)
T ss_dssp             CHHHHTTC--TTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCC-SCCHHHH
T ss_pred             ChhHhccc--CCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCccc-ccCHHHh
Confidence            4 468888  99999999999999877788999999999999999988888888777789999999999998 7886688


Q ss_pred             hcCCCCCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcE
Q 040876          241 VNLTKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVY  304 (343)
Q Consensus       241 ~~l~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~  304 (343)
                      ..+++|+.|++++|.++            ++.|++++|++++..|..+... +|++|++++|++++..+..   +++|++
T Consensus       245 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~  324 (477)
T 2id5_A          245 RHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLET  324 (477)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCEEECCSSCCSCCCGGGBSCGGGCCE
T ss_pred             cCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceECHHHhcCcccCCEEECCCCcCceeCHhHcCCCcccCE
Confidence            99999999999999875            6779999999999888877777 9999999999999876654   678999


Q ss_pred             EEccCCcccccc
Q 040876          305 LDLFNNSFLGSI  316 (343)
Q Consensus       305 L~Ls~N~l~~~~  316 (343)
                      |++++|.+....
T Consensus       325 L~l~~N~l~c~c  336 (477)
T 2id5_A          325 LILDSNPLACDC  336 (477)
T ss_dssp             EECCSSCEECSG
T ss_pred             EEccCCCccCcc
Confidence            999999998653

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.93  E-value=2.2e-25  Score=219.95  Aligned_cols=233  Identities=19%  Similarity=0.174  Sum_probs=177.2

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCcc-------c-cCcccc
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAK-------S-SQEISD  160 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~-------~-~~~~~~  160 (343)
                      +|.++.  +|+.+..+++|++|++++|.          .+++|+.|++++| +.+.+....+...       + ...+..
T Consensus       287 ~n~l~~--lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~  364 (606)
T 3t6q_A          287 ATHLSE--LPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIET  364 (606)
T ss_dssp             TSCCSC--CCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCE
T ss_pred             CCccCC--CChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCcccc
Confidence            677774  88888889999999999887          4667888888888 6543222111100       0 111122


Q ss_pred             ---hhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCcc-ccCCCCCcEEEccCccCccccC
Q 040876          161 ---IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLS-LNELSKLRILHLSDNKLNGTLS  236 (343)
Q Consensus       161 ---ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~~L~~L~l~~N~l~g~~p  236 (343)
                         .|..+.++  ++|++|++++|.+.+..|..+..+++|++|++++|.+++..|.. +..+++|++|++++|.+++..|
T Consensus       365 ~~~~~~~~~~l--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  442 (606)
T 3t6q_A          365 SDCCNLQLRNL--SHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSE  442 (606)
T ss_dssp             EEESTTTTTTC--TTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCT
T ss_pred             ccCcchhcccC--CCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCH
Confidence               26677888  88889999888888777888888888999999998888766544 7888889999999998886666


Q ss_pred             hHhhhcCCCCCeEEecCceee---------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--
Q 040876          237 EIHFVNLTKLSVFSVNENNLT---------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--  298 (343)
Q Consensus       237 ~~~~~~l~~L~~L~l~~n~l~---------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--  298 (343)
                      . .+..+++|++|++++|.++               ++.|++++|++++..|..+... +|++|++++|++++.+|..  
T Consensus       443 ~-~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~  521 (606)
T 3t6q_A          443 Q-LFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALS  521 (606)
T ss_dssp             T-TTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCGGGGGGGT
T ss_pred             H-HHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCCccCcCChhHhC
Confidence            5 7888889999999888763               5668899999888877777666 8999999999998877765  


Q ss_pred             -CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          299 -SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       299 -~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                       ++.| +|++++|.+++..|    ..+..+++|+.|++++|++++
T Consensus       522 ~l~~L-~L~L~~N~l~~~~~----~~~~~l~~L~~L~l~~N~~~c  561 (606)
T 3t6q_A          522 HLKGI-YLNLASNHISIILP----SLLPILSQQRTINLRQNPLDC  561 (606)
T ss_dssp             TCCSC-EEECCSSCCCCCCG----GGHHHHHTSSEEECTTCCEEC
T ss_pred             ccccc-EEECcCCcccccCH----hhcccCCCCCEEeCCCCCccc
Confidence             5667 88999999887544    445678889999999998875

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.93  E-value=7.5e-25  Score=216.09  Aligned_cols=234  Identities=19%  Similarity=0.159  Sum_probs=135.1

Q ss_pred             CCCCCCCCCccccCCCCCCEecCCCCC---------CCCCCcccccchh-hccccc----cc-CCCcc-ccC--cccchh
Q 040876          101 MLVGKGPIPSWLYRLTHLEQLSVADRP---------SLASREDQDLLSN-IRQRLS----KC-RTGAK-SSQ--EISDIF  162 (343)
Q Consensus       101 n~~~~~~ip~~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~n-l~~~l~----~~-~~~~~-~~~--~~~~ip  162 (343)
                      |.+++. .+..++.+++|++|++++|.         .+++|++|++++| +.+...    .. .+..+ +.+  ..+.+|
T Consensus       264 n~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          264 HYFFNI-SSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELG  342 (606)
T ss_dssp             CCCSSC-CTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCC
T ss_pred             CccCcc-CHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccc
Confidence            466664 55669999999999999998         4567999999999 763211    00 00000 000  012333


Q ss_pred             h-hhhcCCCCCccEEEeecCcccccc--chhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          163 D-IFSGCVSKGLEILVLRSSSISGHL--TEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       163 ~-~l~~l~~~~L~~L~L~~n~l~~~~--p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      . .+.++  ++|++|++++|.+++..  +..+..+++|++|++++|.+++..|..+..+++|++|++++|.+++..|...
T Consensus       343 ~~~~~~l--~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~  420 (606)
T 3t6q_A          343 TGCLENL--ENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSP  420 (606)
T ss_dssp             SSTTTTC--TTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCT
T ss_pred             hhhhhcc--CcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchh
Confidence            2 24555  56666666666655433  4455566666666666666655555556666666666666666654444323


Q ss_pred             hhcCCCCCeEEecCceee------------EeEEeccCCccccc-C--CCccccc-CCCeEeCcCCcccCccccc---CC
Q 040876          240 FVNLTKLSVFSVNENNLT------------LKFLDLGENQIHGE-M--TNLTNAT-QLWYLRLHSNNFSGPLSLI---SS  300 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~-~--~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~  300 (343)
                      +..+++|+.|++++|.++            ++.|++++|++++. +  +..+... +|++|++++|++++.+|..   ++
T Consensus       421 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~  500 (606)
T 3t6q_A          421 FQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLK  500 (606)
T ss_dssp             TTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCT
T ss_pred             hhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhcccc
Confidence            555666666666666543            45566666666542 1  1233333 6666666666666555443   45


Q ss_pred             CCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          301 NLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       301 ~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +|++|++++|++++..|    ..+..++.| .|++++|++++
T Consensus       501 ~L~~L~Ls~N~l~~~~~----~~l~~l~~L-~L~L~~N~l~~  537 (606)
T 3t6q_A          501 MMNHVDLSHNRLTSSSI----EALSHLKGI-YLNLASNHISI  537 (606)
T ss_dssp             TCCEEECCSSCCCGGGG----GGGTTCCSC-EEECCSSCCCC
T ss_pred             CCCEEECCCCccCcCCh----hHhCccccc-EEECcCCcccc
Confidence            66666666666665432    444556666 66666666654

>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=99.93  E-value=3.8e-24  Score=195.55  Aligned_cols=248  Identities=19%  Similarity=0.211  Sum_probs=150.6

Q ss_pred             CCccccceEeCCC---------CCcEEEEecCCCccccccccceeC-------------CCCCCCCCCCCCccccCCCCC
Q 040876           61 DCCTWAGIVCDNV---------TGHIIELNLRNPFTYYRRSRYKAN-------------PRSMLVGKGPIPSWLYRLTHL  118 (343)
Q Consensus        61 ~~c~w~gv~c~~~---------~~~v~~l~l~~~~~~~~~~~g~~~-------------~~~n~~~~~~ip~~l~~l~~L  118 (343)
                      ..|.|+.+.|...         ...++.++++++     .+.+..+             ..+|.+++. .|..++++++|
T Consensus        29 c~c~l~~l~~~~~~l~~lp~~~~~~l~~L~L~~n-----~i~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L  102 (330)
T 1xku_A           29 CQCHLRVVQCSDLGLEKVPKDLPPDTALLDLQNN-----KITEIKDGDFKNLKNLHTLILINNKISKI-SPGAFAPLVKL  102 (330)
T ss_dssp             CEEETTEEECTTSCCCSCCCSCCTTCCEEECCSS-----CCCCBCTTTTTTCTTCCEEECCSSCCCCB-CTTTTTTCTTC
T ss_pred             CcCCCeEEEecCCCccccCccCCCCCeEEECCCC-----cCCEeChhhhccCCCCCEEECCCCcCCee-CHHHhcCCCCC
Confidence            3578999999642         135667777765     2222111             114444443 34455555555


Q ss_pred             CEecCCCCC-------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcccc--ccc
Q 040876          119 EQLSVADRP-------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISG--HLT  188 (343)
Q Consensus       119 ~~L~Ls~n~-------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~--~~p  188 (343)
                      ++|++++|.       ..++|++|++++| +.                +..+..+.++  ++|++|++++|.++.  ..+
T Consensus       103 ~~L~Ls~n~l~~l~~~~~~~L~~L~l~~n~l~----------------~~~~~~~~~l--~~L~~L~l~~n~l~~~~~~~  164 (330)
T 1xku_A          103 ERLYLSKNQLKELPEKMPKTLQELRVHENEIT----------------KVRKSVFNGL--NQMIVVELGTNPLKSSGIEN  164 (330)
T ss_dssp             CEEECCSSCCSBCCSSCCTTCCEEECCSSCCC----------------BBCHHHHTTC--TTCCEEECCSSCCCGGGBCT
T ss_pred             CEEECCCCcCCccChhhcccccEEECCCCccc----------------ccCHhHhcCC--ccccEEECCCCcCCccCcCh
Confidence            555555554       1133555555555 43                2334456777  778888888777753  556


Q ss_pred             hhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee-----------
Q 040876          189 EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-----------  257 (343)
Q Consensus       189 ~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~-----------  257 (343)
                      ..+.++++|++|++++|.++ .+|..+.  ++|++|++++|.+++..|. .+..+++|+.|++++|.++           
T Consensus       165 ~~~~~l~~L~~L~l~~n~l~-~l~~~~~--~~L~~L~l~~n~l~~~~~~-~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~  240 (330)
T 1xku_A          165 GAFQGMKKLSYIRIADTNIT-TIPQGLP--PSLTELHLDGNKITKVDAA-SLKGLNNLAKLGLSFNSISAVDNGSLANTP  240 (330)
T ss_dssp             TGGGGCTTCCEEECCSSCCC-SCCSSCC--TTCSEEECTTSCCCEECTG-GGTTCTTCCEEECCSSCCCEECTTTGGGST
T ss_pred             hhccCCCCcCEEECCCCccc-cCCcccc--ccCCEEECCCCcCCccCHH-HhcCCCCCCEEECCCCcCceeChhhccCCC
Confidence            66777778888888887777 4555443  6778888888877744444 6777778888888777664           


Q ss_pred             -EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---------CCCCcEEEccCCccccccCchhhccCCc
Q 040876          258 -LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---------SSNLVYLDLFNNSFLGSISHFWCYRSNE  326 (343)
Q Consensus       258 -l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---------~~~L~~L~Ls~N~l~~~~~~~l~~~l~~  326 (343)
                       ++.|++++|+++ .+|..+... +|++|++++|++++..+..         ...++.+++++|.+....  ..|..+..
T Consensus       241 ~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~--i~~~~f~~  317 (330)
T 1xku_A          241 HLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWE--IQPSTFRC  317 (330)
T ss_dssp             TCCEEECCSSCCS-SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGG--SCGGGGTT
T ss_pred             CCCEEECCCCcCc-cCChhhccCCCcCEEECCCCcCCccChhhcCCcccccccccccceEeecCcccccc--cCcccccc
Confidence             556777777777 455545444 7777777777777654433         245677777777765321  11345666


Q ss_pred             cccCceEecCCCc
Q 040876          327 TKRLRALSLGDNY  339 (343)
Q Consensus       327 l~~L~~L~ls~N~  339 (343)
                      +++++.+++++|+
T Consensus       318 ~~~l~~l~L~~N~  330 (330)
T 1xku_A          318 VYVRAAVQLGNYK  330 (330)
T ss_dssp             CCCGGGEEC----
T ss_pred             ccceeEEEecccC
Confidence            7777777777774

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.93  E-value=2.1e-25  Score=221.46  Aligned_cols=247  Identities=17%  Similarity=0.198  Sum_probs=179.3

Q ss_pred             cEEEEecCCCccccccccceeCCC-------------CCC-CCC-CCCCccccCC------CCCCEecCCCCC-------
Q 040876           76 HIIELNLRNPFTYYRRSRYKANPR-------------SML-VGK-GPIPSWLYRL------THLEQLSVADRP-------  127 (343)
Q Consensus        76 ~v~~l~l~~~~~~~~~~~g~~~~~-------------~n~-~~~-~~ip~~l~~l------~~L~~L~Ls~n~-------  127 (343)
                      +++.|+++++     .+.|.+|..             +|. +++ . +|..++++      ++|++|++++|.       
T Consensus       250 ~L~~L~L~~n-----~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~-lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~  323 (636)
T 4eco_A          250 DLTDVEVYNC-----PNLTKLPTFLKALPEMQLINVACNRGISGEQ-LKDDWQALADAPVGEKIQIIYIGYNNLKTFPVE  323 (636)
T ss_dssp             TCCEEEEECC-----TTCSSCCTTTTTCSSCCEEECTTCTTSCHHH-HHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCH
T ss_pred             CCCEEEecCC-----cCCccChHHHhcCCCCCEEECcCCCCCcccc-chHHHHhhhccccCCCCCEEECCCCcCCccCch
Confidence            4667777765     455555533             454 555 3 66666555      666666666665       


Q ss_pred             ----CCCCCcccccchh-hcccccccCCCcc--------ccCcccchhhhhhcCCCCC-ccEEEeecCccccccchhccC
Q 040876          128 ----SLASREDQDLLSN-IRQRLSKCRTGAK--------SSQEISDIFDIFSGCVSKG-LEILVLRSSSISGHLTEQIGH  193 (343)
Q Consensus       128 ----~l~~L~~L~l~~n-l~~~l~~~~~~~~--------~~~~~~~ip~~l~~l~~~~-L~~L~L~~n~l~~~~p~~l~~  193 (343)
                          .+++|++|++++| +.|.++  .++..        ....+..+|+.+.++  ++ |++|++++|.++ .+|..+..
T Consensus       324 ~~l~~l~~L~~L~L~~N~l~g~ip--~~~~l~~L~~L~L~~N~l~~lp~~l~~l--~~~L~~L~Ls~N~l~-~lp~~~~~  398 (636)
T 4eco_A          324 TSLQKMKKLGMLECLYNQLEGKLP--AFGSEIKLASLNLAYNQITEIPANFCGF--TEQVENLSFAHNKLK-YIPNIFDA  398 (636)
T ss_dssp             HHHTTCTTCCEEECCSCCCEEECC--CCEEEEEESEEECCSSEEEECCTTSEEE--CTTCCEEECCSSCCS-SCCSCCCT
T ss_pred             hhhccCCCCCEEeCcCCcCccchh--hhCCCCCCCEEECCCCccccccHhhhhh--cccCcEEEccCCcCc-ccchhhhh
Confidence                2344666666666 554433  11110        112235788888888  88 999999999988 78887776


Q ss_pred             CC--CCCEEECcCCcccccCCcccc-------CCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee-------
Q 040876          194 FK--NLDTLDLGNNSIVGLVPLSLN-------ELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-------  257 (343)
Q Consensus       194 l~--~L~~L~Ls~N~l~~~~p~~l~-------~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~-------  257 (343)
                      ++  +|++|++++|.+++.+|..+.       .+++|++|++++|.++ .+|...+..+++|+.|++++|.++       
T Consensus       399 ~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~  477 (636)
T 4eco_A          399 KSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQIS-KFPKELFSTGSPLSSINLMGNMLTEIPKNSL  477 (636)
T ss_dssp             TCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCC-SCCTHHHHTTCCCSEEECCSSCCSBCCSSSS
T ss_pred             cccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccC-cCCHHHHccCCCCCEEECCCCCCCCcCHHHh
Confidence            55  899999999999988888887       7789999999999998 788756677899999999998763       


Q ss_pred             ------------EeEEeccCCcccccCCCccc--cc-CCCeEeCcCCcccCccccc---CCCCcEEEcc------CCccc
Q 040876          258 ------------LKFLDLGENQIHGEMTNLTN--AT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLF------NNSFL  313 (343)
Q Consensus       258 ------------l~~L~ls~n~l~~~~~~~~~--~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls------~N~l~  313 (343)
                                  ++.|++++|+++ .+|..+.  .. +|++|++++|++++ +|..   +++|++|+++      +|.+.
T Consensus       478 ~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~Ls~N~~ls~N~l~  555 (636)
T 4eco_A          478 KDENENFKNTYLLTSIDLRFNKLT-KLSDDFRATTLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTL  555 (636)
T ss_dssp             EETTEECTTGGGCCEEECCSSCCC-BCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCSSCCEEECCSCBCTTCCBCC
T ss_pred             ccccccccccCCccEEECcCCcCC-ccChhhhhccCCCcCEEECCCCCCCC-cChhhhcCCCCCEEECCCCcccccCccc
Confidence                        567999999998 5666554  44 99999999999998 5544   7889999984      56666


Q ss_pred             cccCchhhccCCccccCceEecCCCcc
Q 040876          314 GSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       314 ~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      +.+|    ..+..+++|++|++++|+|
T Consensus       556 ~~~p----~~l~~l~~L~~L~Ls~N~l  578 (636)
T 4eco_A          556 REWP----EGITLCPSLTQLQIGSNDI  578 (636)
T ss_dssp             CCCC----TTGGGCSSCCEEECCSSCC
T ss_pred             ccCh----HHHhcCCCCCEEECCCCcC
Confidence            6654    5566788888888888887

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.93  E-value=1.8e-24  Score=192.32  Aligned_cols=213  Identities=22%  Similarity=0.249  Sum_probs=145.4

Q ss_pred             CCCccccceEeCCCCCcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccch
Q 040876           60 GDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLS  139 (343)
Q Consensus        60 ~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~  139 (343)
                      .++|.|.|+.|.- .+.++.+++++.                .++.  +|..+.  +++++|++++|.            
T Consensus         2 ~~~C~~~~~~C~c-~~~~~~l~~~~~----------------~l~~--ip~~~~--~~l~~L~l~~n~------------   48 (270)
T 2o6q_A            2 EALCKKDGGVCSC-NNNKNSVDCSSK----------------KLTA--IPSNIP--ADTKKLDLQSNK------------   48 (270)
T ss_dssp             CCCBGGGTCSBEE-ETTTTEEECTTS----------------CCSS--CCSCCC--TTCSEEECCSSC------------
T ss_pred             CccCCCCCCCCEe-CCCCCEEEccCC----------------CCCc--cCCCCC--CCCCEEECcCCC------------
Confidence            4789999998854 244567888775                3443  565544  578888888876            


Q ss_pred             hhcccccccCCCccccCcccchh-hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCC
Q 040876          140 NIRQRLSKCRTGAKSSQEISDIF-DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNEL  218 (343)
Q Consensus       140 nl~~~l~~~~~~~~~~~~~~~ip-~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l  218 (343)
                       +.                 .+| ..+.++  ++|++|++++|.++...+..+.++++|++|++++|.+++..+..+..+
T Consensus        49 -l~-----------------~~~~~~~~~l--~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l  108 (270)
T 2o6q_A           49 -LS-----------------SLPSKAFHRL--TKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQL  108 (270)
T ss_dssp             -CS-----------------CCCTTSSSSC--TTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTC
T ss_pred             -CC-----------------eeCHHHhcCC--CCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccc
Confidence             22                 333 356777  788888888888875444556778888888888888876555566778


Q ss_pred             CCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcccc
Q 040876          219 SKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSL  297 (343)
Q Consensus       219 ~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~  297 (343)
                      ++|++|++++|.++ .++...+..+++|++|++++|.            +++..+..+... +|++|++++|++++..+.
T Consensus       109 ~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~------------l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  175 (270)
T 2o6q_A          109 VNLAELRLDRNQLK-SLPPRVFDSLTKLTYLSLGYNE------------LQSLPKGVFDKLTSLKELRLYNNQLKRVPEG  175 (270)
T ss_dssp             SSCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSC------------CCCCCTTTTTTCTTCCEEECCSSCCSCCCTT
T ss_pred             cCCCEEECCCCccC-eeCHHHhCcCcCCCEEECCCCc------------CCccCHhHccCCcccceeEecCCcCcEeChh
Confidence            88888888888887 4444367777887777666544            333334444444 778888888877776554


Q ss_pred             c---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          298 I---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       298 ~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      .   +++|++|++++|.+++..+    ..+..+++|+.|++++|+++.
T Consensus       176 ~~~~l~~L~~L~L~~N~l~~~~~----~~~~~l~~L~~L~l~~N~~~c  219 (270)
T 2o6q_A          176 AFDKLTELKTLKLDNNQLKRVPE----GAFDSLEKLKMLQLQENPWDC  219 (270)
T ss_dssp             TTTTCTTCCEEECCSSCCSCCCT----TTTTTCTTCCEEECCSSCBCC
T ss_pred             HhccCCCcCEEECCCCcCCcCCH----HHhccccCCCEEEecCCCeeC
Confidence            3   5677788888887775322    345667778888888877653

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.92  E-value=1.3e-24  Score=210.59  Aligned_cols=145  Identities=19%  Similarity=0.244  Sum_probs=116.0

Q ss_pred             cCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCcc--ccChHhhhcCCCCCeEEecCceee------------
Q 040876          192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNG--TLSEIHFVNLTKLSVFSVNENNLT------------  257 (343)
Q Consensus       192 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g--~~p~~~~~~l~~L~~L~l~~n~l~------------  257 (343)
                      ..+++|++|++++|++++.+|..++.+++|++|++++|++++  .+|. .+..+++|++|++++|.++            
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~-~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~  399 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAE-MTTQMKSLQQLDISQNSVSYDEKKGDCSWTK  399 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHH-HHTTCTTCCEEECCSSCCBCCGGGCSCCCCT
T ss_pred             hhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchH-HHhhCCCCCEEECCCCcCCcccccchhccCc
Confidence            567888899999999988888888889999999999998874  4455 6788899999999988875            


Q ss_pred             -EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCceE
Q 040876          258 -LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRAL  333 (343)
Q Consensus       258 -l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L  333 (343)
                       ++.|++++|++++.+|..+. .+|++|++++|+++. +|..   +++|++|++++|++++ +|.   ..+..+++|++|
T Consensus       400 ~L~~L~Ls~N~l~~~~~~~l~-~~L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~L~~N~l~~-l~~---~~~~~l~~L~~L  473 (520)
T 2z7x_B          400 SLLSLNMSSNILTDTIFRCLP-PRIKVLDLHSNKIKS-IPKQVVKLEALQELNVASNQLKS-VPD---GIFDRLTSLQKI  473 (520)
T ss_dssp             TCCEEECCSSCCCGGGGGSCC-TTCCEEECCSSCCCC-CCGGGGGCTTCCEEECCSSCCCC-CCT---TTTTTCTTCCEE
T ss_pred             cCCEEECcCCCCCcchhhhhc-ccCCEEECCCCcccc-cchhhhcCCCCCEEECCCCcCCc-cCH---HHhccCCcccEE
Confidence             45688999988877665443 489999999999984 4442   7889999999999884 442   236788999999


Q ss_pred             ecCCCccccC
Q 040876          334 SLGDNYLQGE  343 (343)
Q Consensus       334 ~ls~N~l~g~  343 (343)
                      ++++|++++.
T Consensus       474 ~l~~N~~~c~  483 (520)
T 2z7x_B          474 WLHTNPWDCS  483 (520)
T ss_dssp             ECCSSCBCCC
T ss_pred             ECcCCCCccc
Confidence            9999998863

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.92  E-value=7.1e-25  Score=212.44  Aligned_cols=121  Identities=26%  Similarity=0.314  Sum_probs=101.2

Q ss_pred             cCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee--------------EeEEeccCCcccccCCC-ccccc-
Q 040876          216 NELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------------LKFLDLGENQIHGEMTN-LTNAT-  279 (343)
Q Consensus       216 ~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~--------------l~~L~ls~n~l~~~~~~-~~~~~-  279 (343)
                      ..+++|++|++++|++++.+|. .+..+++|+.|++++|.++              ++.|++++|++++.+|. .+... 
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~-~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~  399 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFE-NCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTK  399 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTT-TCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCT
T ss_pred             hhCCcccEEEeECCccChhhhh-hhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCc
Confidence            5778899999999999877777 7888999999999999875              56799999999985554 34445 


Q ss_pred             CCCeEeCcCCcccCcccccC-CCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          280 QLWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       280 ~L~~L~Ls~N~l~~~~~~~~-~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +|++|++++|++++..|..+ ++|++|++++|+++ .+|    ..+..+++|++|++++|+|++
T Consensus       400 ~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~l~-~ip----~~~~~l~~L~~L~L~~N~l~~  458 (520)
T 2z7x_B          400 SLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIK-SIP----KQVVKLEALQELNVASNQLKS  458 (520)
T ss_dssp             TCCEEECCSSCCCGGGGGSCCTTCCEEECCSSCCC-CCC----GGGGGCTTCCEEECCSSCCCC
T ss_pred             cCCEEECcCCCCCcchhhhhcccCCEEECCCCccc-ccc----hhhhcCCCCCEEECCCCcCCc
Confidence            99999999999988877775 69999999999998 444    555689999999999999874

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.92  E-value=1.4e-24  Score=212.60  Aligned_cols=145  Identities=20%  Similarity=0.217  Sum_probs=111.9

Q ss_pred             cCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCcc--ccChHhhhcCCCCCeEEecCceee------------
Q 040876          192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNG--TLSEIHFVNLTKLSVFSVNENNLT------------  257 (343)
Q Consensus       192 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g--~~p~~~~~~l~~L~~L~l~~n~l~------------  257 (343)
                      ..+++|++|++++|.+++.+|..++.+++|++|++++|++++  .+|. .+..+++|++|++++|.++            
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~-~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~  428 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVAL-MTKNMSSLETLDVSLNSLNSHAYDRTCAWAE  428 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHH-TTTTCTTCCEEECTTSCCBSCCSSCCCCCCT
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchh-hhcCCCCCCEEECCCCcCCCccChhhhcCcc
Confidence            567788888888888888788888888888888888888873  2233 5778888888888888775            


Q ss_pred             -EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc--CCCCcEEEccCCccccccCchhhccCCccccCceEe
Q 040876          258 -LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALS  334 (343)
Q Consensus       258 -l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~  334 (343)
                       ++.|++++|++++.+|..+. .+|++|++++|+++..++..  +++|++|++++|++++ +|.   ..+..+++|+.|+
T Consensus       429 ~L~~L~l~~n~l~~~~~~~l~-~~L~~L~L~~N~l~~ip~~~~~l~~L~~L~L~~N~l~~-l~~---~~~~~l~~L~~L~  503 (562)
T 3a79_B          429 SILVLNLSSNMLTGSVFRCLP-PKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKS-VPD---GVFDRLTSLQYIW  503 (562)
T ss_dssp             TCCEEECCSSCCCGGGGSSCC-TTCSEEECCSSCCCCCCTTTTSSCCCSEEECCSSCCCC-CCT---TSTTTCTTCCCEE
T ss_pred             cCCEEECCCCCCCcchhhhhc-CcCCEEECCCCcCcccChhhcCCCCCCEEECCCCCCCC-CCH---HHHhcCCCCCEEE
Confidence             45688888888876665443 47889999999888543333  6788999999999884 442   2367888999999


Q ss_pred             cCCCcccc
Q 040876          335 LGDNYLQG  342 (343)
Q Consensus       335 ls~N~l~g  342 (343)
                      +++|++++
T Consensus       504 l~~N~~~c  511 (562)
T 3a79_B          504 LHDNPWDC  511 (562)
T ss_dssp             CCSCCBCC
T ss_pred             ecCCCcCC
Confidence            99999876

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.92  E-value=2.3e-24  Score=197.29  Aligned_cols=236  Identities=20%  Similarity=0.253  Sum_probs=153.7

Q ss_pred             CccccceEeCCCC---------CcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC-----
Q 040876           62 CCTWAGIVCDNVT---------GHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP-----  127 (343)
Q Consensus        62 ~c~w~gv~c~~~~---------~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~-----  127 (343)
                      .|.|+.+.|....         .+++.|++++                |.+++. .|..+.++++|++|++++|.     
T Consensus        32 ~c~l~~l~~~~~~l~~ip~~~~~~l~~L~l~~----------------n~i~~~-~~~~~~~l~~L~~L~L~~n~l~~~~   94 (332)
T 2ft3_A           32 HCHLRVVQCSDLGLKAVPKEISPDTTLLDLQN----------------NDISEL-RKDDFKGLQHLYALVLVNNKISKIH   94 (332)
T ss_dssp             EEETTEEECCSSCCSSCCSCCCTTCCEEECCS----------------SCCCEE-CTTTTTTCTTCCEEECCSSCCCEEC
T ss_pred             cccCCEEECCCCCccccCCCCCCCCeEEECCC----------------CcCCcc-CHhHhhCCCCCcEEECCCCccCccC
Confidence            3789999886421         2455566655                355543 45578888999999998887     


Q ss_pred             -----CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEE
Q 040876          128 -----SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLD  201 (343)
Q Consensus       128 -----~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~  201 (343)
                           .+++|++|++++| +.                 .+|..+.    ++|++|++++|.+++..+..+.++++|++|+
T Consensus        95 ~~~~~~l~~L~~L~L~~n~l~-----------------~l~~~~~----~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~  153 (332)
T 2ft3_A           95 EKAFSPLRKLQKLYISKNHLV-----------------EIPPNLP----SSLVELRIHDNRIRKVPKGVFSGLRNMNCIE  153 (332)
T ss_dssp             GGGSTTCTTCCEEECCSSCCC-----------------SCCSSCC----TTCCEEECCSSCCCCCCSGGGSSCSSCCEEE
T ss_pred             HhHhhCcCCCCEEECCCCcCC-----------------ccCcccc----ccCCEEECCCCccCccCHhHhCCCccCCEEE
Confidence                 4566777777777 54                 4444433    5677777777777755555677777777777


Q ss_pred             CcCCccc--ccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee------------EeEEeccCCc
Q 040876          202 LGNNSIV--GLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGENQ  267 (343)
Q Consensus       202 Ls~N~l~--~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~------------l~~L~ls~n~  267 (343)
                      +++|.++  +..|..+..+ +|++|++++|.++ .+|. .+  .++|++|++++|.++            ++.|++++|+
T Consensus       154 l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~-~l~~-~~--~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~  228 (332)
T 2ft3_A          154 MGGNPLENSGFEPGAFDGL-KLNYLRISEAKLT-GIPK-DL--PETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ  228 (332)
T ss_dssp             CCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCS-SCCS-SS--CSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSC
T ss_pred             CCCCccccCCCCcccccCC-ccCEEECcCCCCC-ccCc-cc--cCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc
Confidence            7777774  2455566666 7777777777776 4665 22  257777777777664            4557777777


Q ss_pred             ccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccC--CccccCceEecCCCccc
Q 040876          268 IHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRS--NETKRLRALSLGDNYLQ  341 (343)
Q Consensus       268 l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l--~~l~~L~~L~ls~N~l~  341 (343)
                      +++..+..+... +|++|++++|+++. +|..   +++|++|++++|.+++..+..+....  ...+.|+.|++++|++.
T Consensus       229 l~~~~~~~~~~l~~L~~L~L~~N~l~~-lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~  307 (332)
T 2ft3_A          229 IRMIENGSLSFLPTLRELHLDNNKLSR-VPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVP  307 (332)
T ss_dssp             CCCCCTTGGGGCTTCCEEECCSSCCCB-CCTTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSC
T ss_pred             CCcCChhHhhCCCCCCEEECCCCcCee-cChhhhcCccCCEEECCCCCCCccChhHccccccccccccccceEeecCccc
Confidence            776666555555 77777777777774 3332   66777777777777765433322110  12456777777777764

>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=99.92  E-value=4.6e-24  Score=195.05  Aligned_cols=216  Identities=19%  Similarity=0.225  Sum_probs=132.4

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGC  168 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l  168 (343)
                      +|.+++. .+..++++++|++|++++|.          .+++|++|++++| ++                 .+|..+.  
T Consensus        61 ~n~i~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-----------------~l~~~~~--  120 (330)
T 1xku_A           61 NNKITEI-KDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK-----------------ELPEKMP--  120 (330)
T ss_dssp             SSCCCCB-CTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCS-----------------BCCSSCC--
T ss_pred             CCcCCEe-ChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCC-----------------ccChhhc--
Confidence            6666663 34467777777777777776          3455666666666 54                 4444332  


Q ss_pred             CCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccc--cCCccccCCCCCcEEEccCccCccccChHhhhcCCCC
Q 040876          169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVG--LVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKL  246 (343)
Q Consensus       169 ~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~--~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L  246 (343)
                        ++|++|++++|.+++..+..+.++++|++|++++|.++.  ..+..+..+++|++|++++|.++ .+|. .+  .++|
T Consensus       121 --~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~-~~--~~~L  194 (330)
T 1xku_A          121 --KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQ-GL--PPSL  194 (330)
T ss_dssp             --TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCC-SCCS-SC--CTTC
T ss_pred             --ccccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccc-cCCc-cc--cccC
Confidence              566777777777776555566777777777777776642  45556667777777777777776 4554 22  2667


Q ss_pred             CeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCc
Q 040876          247 SVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNS  311 (343)
Q Consensus       247 ~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~  311 (343)
                      ++|++++|.++            ++.|++++|.+++..+..+... +|++|++++|+++..+...  +++|++|++++|.
T Consensus       195 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~~N~  274 (330)
T 1xku_A          195 TELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNN  274 (330)
T ss_dssp             SEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECCSSC
T ss_pred             CEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCccCChhhccCCCcCEEECCCCc
Confidence            77777776654            4557777777766555555544 6777777777766332222  5667777777777


Q ss_pred             cccccCchhhcc--CCccccCceEecCCCccc
Q 040876          312 FLGSISHFWCYR--SNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       312 l~~~~~~~l~~~--l~~l~~L~~L~ls~N~l~  341 (343)
                      +++..+..+...  ....+.++.+++++|++.
T Consensus       275 i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~  306 (330)
T 1xku_A          275 ISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  306 (330)
T ss_dssp             CCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             CCccChhhcCCcccccccccccceEeecCccc
Confidence            765443322111  112356667777777653

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

Probab=99.92  E-value=3.2e-24  Score=214.42  Aligned_cols=231  Identities=26%  Similarity=0.230  Sum_probs=127.3

Q ss_pred             CcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcc
Q 040876           75 GHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQ  143 (343)
Q Consensus        75 ~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~  143 (343)
                      .+++.|+++++                .+++. .|..++++++|++|++++|.          .+++|++|++++| +. 
T Consensus        25 ~~l~~L~Ls~n----------------~l~~~-~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-   86 (680)
T 1ziw_A           25 TNITVLNLTHN----------------QLRRL-PAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELS-   86 (680)
T ss_dssp             TTCSEEECCSS----------------CCCCC-CGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCC-
T ss_pred             CCCcEEECCCC----------------CCCCc-CHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccC-
Confidence            46778888775                44442 33446666666666666664          3445666666665 44 


Q ss_pred             cccccCCCccccCcccchhh-hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCc
Q 040876          144 RLSKCRTGAKSSQEISDIFD-IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR  222 (343)
Q Consensus       144 ~l~~~~~~~~~~~~~~~ip~-~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~  222 (343)
                                      .+|+ .+.++  ++|++|++++|.+++..|..++++++|++|++++|.+++..|..++++++|+
T Consensus        87 ----------------~l~~~~~~~l--~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  148 (680)
T 1ziw_A           87 ----------------QLSDKTFAFC--TNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQ  148 (680)
T ss_dssp             ----------------CCCTTTTTTC--TTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCC
T ss_pred             ----------------ccChhhhccC--CCCCEEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCC
Confidence                            2332 34444  5555555555555443334455555555555555555544444444555555


Q ss_pred             EEEccCccCccccChHhhh--cCCCCCeEEecCceee---------------------------------------EeEE
Q 040876          223 ILHLSDNKLNGTLSEIHFV--NLTKLSVFSVNENNLT---------------------------------------LKFL  261 (343)
Q Consensus       223 ~L~l~~N~l~g~~p~~~~~--~l~~L~~L~l~~n~l~---------------------------------------l~~L  261 (343)
                      +|++++|.+++..+. .+.  .+++|+.|++++|.++                                       ++.|
T Consensus       149 ~L~L~~n~l~~~~~~-~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L  227 (680)
T 1ziw_A          149 ELLLSNNKIQALKSE-ELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNL  227 (680)
T ss_dssp             EEECCSSCCCCBCHH-HHGGGTTCEESEEECTTCCCCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEE
T ss_pred             EEEccCCcccccCHH-HhhccccccccEEECCCCcccccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEE
Confidence            555555554422221 222  2244444444444321                                       3556


Q ss_pred             eccCCcccccCCCccccc---CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchh---------------
Q 040876          262 DLGENQIHGEMTNLTNAT---QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFW---------------  320 (343)
Q Consensus       262 ~ls~n~l~~~~~~~~~~~---~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l---------------  320 (343)
                      ++++|.+++..|..+...   +|++|++++|.+++..|..   +++|++|++++|.+++..|..+               
T Consensus       228 ~L~~n~l~~~~~~~~~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~~~  307 (680)
T 1ziw_A          228 SLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSF  307 (680)
T ss_dssp             ECTTSCCCEECTTTTGGGGGSCCCEEECTTSCCCEECTTTTTTCTTCCEEECCSCCBSEECTTTTTTCTTCCEEECTTCB
T ss_pred             EccCCcccccChhHhhccCcCCCCEEECCCCCcCccCcccccCcccccEeeCCCCccCccChhhhcCCCCccEEeccchh
Confidence            777777776666655543   3777777777777665543   5677777777777766544221               


Q ss_pred             ----------hc----cCCccccCceEecCCCcccc
Q 040876          321 ----------CY----RSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       321 ----------~~----~l~~l~~L~~L~ls~N~l~g  342 (343)
                                |.    .+..+++|++|++++|.+++
T Consensus       308 ~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n~l~~  343 (680)
T 1ziw_A          308 TKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPG  343 (680)
T ss_dssp             CCC------CCEECTTTTTTCTTCCEEECCSCCBCC
T ss_pred             hhcccccccccccChhhcccCCCCCEEECCCCccCC
Confidence                      11    45566777777777777664

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.92  E-value=1.5e-24  Score=221.98  Aligned_cols=95  Identities=22%  Similarity=0.200  Sum_probs=56.9

Q ss_pred             CCCCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEc
Q 040876          244 TKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDL  307 (343)
Q Consensus       244 ~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~L  307 (343)
                      ++|+.|++++|.++            ++.|++++|++++..|..+... +|++|++++|.+++..|..   +++|++|++
T Consensus       266 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  345 (844)
T 3j0a_A          266 SSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDL  345 (844)
T ss_dssp             SCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCCCSCSCSSCTTCCEEEC
T ss_pred             CCccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCccCHHHhcCCCCCCEEEC
Confidence            34556666655542            4456666666666555555444 6666666666666554443   556666666


Q ss_pred             cCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          308 FNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       308 s~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++|.+++..+    ..+..+++|+.|++++|.+++
T Consensus       346 ~~N~i~~~~~----~~~~~l~~L~~L~Ls~N~l~~  376 (844)
T 3j0a_A          346 QKNHIAIIQD----QTFKFLEKLQTLDLRDNALTT  376 (844)
T ss_dssp             CSCCCCCCCS----SCSCSCCCCCEEEEETCCSCC
T ss_pred             CCCCCCccCh----hhhcCCCCCCEEECCCCCCCc
Confidence            6666654332    345667777777777777653

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.92  E-value=2.8e-24  Score=210.39  Aligned_cols=163  Identities=20%  Similarity=0.317  Sum_probs=125.2

Q ss_pred             CccEEEeecCccccccchhc-----cCCC--------------------------CCCEEECcCCcccccCCccccCCCC
Q 040876          172 GLEILVLRSSSISGHLTEQI-----GHFK--------------------------NLDTLDLGNNSIVGLVPLSLNELSK  220 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p~~l-----~~l~--------------------------~L~~L~Ls~N~l~~~~p~~l~~l~~  220 (343)
                      +|++|++++|.++|.+|..+     .+++                          +|++|++++|.+....  ....+++
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            67777777777777777655     2222                          3555555555554211  1167889


Q ss_pred             CcEEEccCccCccccChHhhhcCCCCCeEEecCceee--------------EeEEeccCCcccccCCC-ccccc-CCCeE
Q 040876          221 LRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------------LKFLDLGENQIHGEMTN-LTNAT-QLWYL  284 (343)
Q Consensus       221 L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~--------------l~~L~ls~n~l~~~~~~-~~~~~-~L~~L  284 (343)
                      |++|++++|.+++.+|. .+..+++|+.|++++|.++              ++.|++++|++++.+|. .+... +|++|
T Consensus       355 L~~L~l~~n~l~~~~~~-~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L  433 (562)
T 3a79_B          355 FTFLNFTQNVFTDSVFQ-GCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVL  433 (562)
T ss_dssp             CCEEECCSSCCCTTTTT-TCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTTCCEE
T ss_pred             ceEEECCCCccccchhh-hhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCcccCCEE
Confidence            99999999999977777 7889999999999999875              56799999999985554 35555 99999


Q ss_pred             eCcCCcccCcccccC-CCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          285 RLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       285 ~Ls~N~l~~~~~~~~-~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++++|++++.+|..+ ++|++|++++|+++. +    |..+..+++|++|++++|+|++
T Consensus       434 ~l~~n~l~~~~~~~l~~~L~~L~L~~N~l~~-i----p~~~~~l~~L~~L~L~~N~l~~  487 (562)
T 3a79_B          434 NLSSNMLTGSVFRCLPPKVKVLDLHNNRIMS-I----PKDVTHLQALQELNVASNQLKS  487 (562)
T ss_dssp             ECCSSCCCGGGGSSCCTTCSEEECCSSCCCC-C----CTTTTSSCCCSEEECCSSCCCC
T ss_pred             ECCCCCCCcchhhhhcCcCCEEECCCCcCcc-c----ChhhcCCCCCCEEECCCCCCCC
Confidence            999999998887776 689999999999983 4    4555688999999999999874

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.92  E-value=7.4e-24  Score=208.97  Aligned_cols=107  Identities=15%  Similarity=0.046  Sum_probs=61.7

Q ss_pred             CcEEEEecCCCccccccccceeC-------------CCCCCCCCCCCCccccCCCCCCEecCCCCC----------CCCC
Q 040876           75 GHIIELNLRNPFTYYRRSRYKAN-------------PRSMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLAS  131 (343)
Q Consensus        75 ~~v~~l~l~~~~~~~~~~~g~~~-------------~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~  131 (343)
                      .+++.++++++     .+.+..+             .++|.+++. .|..++++++|++|++++|.          .+++
T Consensus        32 ~~l~~L~Ls~n-----~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i-~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~  105 (606)
T 3vq2_A           32 SSTKNIDLSFN-----PLKILKSYSFSNFSELQWLDLSRCEIETI-EDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTS  105 (606)
T ss_dssp             TTCCEEECTTS-----CCCEECTTTTTTCTTCCEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTT
T ss_pred             CCcCEEECCCC-----CcCEeChhhccCCccCcEEeCCCCccccc-CHHHhhchhhcCEeECCCCcccccChhhcCCccc
Confidence            46788888876     3333222             125666664 45667777777777777775          4556


Q ss_pred             Ccccccchh-hccccc--ccCCCc---c-cc-Ccc--cchhhhhhcCCCCCccEEEeecCccccccch
Q 040876          132 REDQDLLSN-IRQRLS--KCRTGA---K-SS-QEI--SDIFDIFSGCVSKGLEILVLRSSSISGHLTE  189 (343)
Q Consensus       132 L~~L~l~~n-l~~~l~--~~~~~~---~-~~-~~~--~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~  189 (343)
                      |++|++++| +.+.-.  -..+..   + +. ..+  ..+|..++++  ++|++|++++|++++..|.
T Consensus       106 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l--~~L~~L~Ls~n~l~~~~~~  171 (606)
T 3vq2_A          106 LENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNL--TNLVHVDLSYNYIQTITVN  171 (606)
T ss_dssp             CCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTC--TTCCEEECCSSCCCEECTT
T ss_pred             CCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhc--CCCCEEEccCCcceecChh
Confidence            777777777 543210  000000   0 00 111  2467788888  8888888888877754443

>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=99.92  E-value=1.7e-24  Score=197.93  Aligned_cols=189  Identities=19%  Similarity=0.202  Sum_probs=166.1

Q ss_pred             CCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCC
Q 040876          115 LTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHF  194 (343)
Q Consensus       115 l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l  194 (343)
                      .+++++|++++|.             +                 ..+|+.+.++  ++|++|++++|.++ .+|..++++
T Consensus        80 ~~~l~~L~L~~n~-------------l-----------------~~lp~~l~~l--~~L~~L~L~~n~l~-~lp~~~~~l  126 (328)
T 4fcg_A           80 QPGRVALELRSVP-------------L-----------------PQFPDQAFRL--SHLQHMTIDAAGLM-ELPDTMQQF  126 (328)
T ss_dssp             STTCCEEEEESSC-------------C-----------------SSCCSCGGGG--TTCSEEEEESSCCC-CCCSCGGGG
T ss_pred             ccceeEEEccCCC-------------c-----------------hhcChhhhhC--CCCCEEECCCCCcc-chhHHHhcc
Confidence            4678888888776             3                 3788888899  99999999999999 899999999


Q ss_pred             CCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhh---------cCCCCCeEEecCceee--------
Q 040876          195 KNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFV---------NLTKLSVFSVNENNLT--------  257 (343)
Q Consensus       195 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~---------~l~~L~~L~l~~n~l~--------  257 (343)
                      ++|++|++++|.++ .+|..++++++|++|++++|++.+.+|. .+.         .+++|++|++++|.++        
T Consensus       127 ~~L~~L~Ls~n~l~-~lp~~l~~l~~L~~L~L~~n~~~~~~p~-~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~  204 (328)
T 4fcg_A          127 AGLETLTLARNPLR-ALPASIASLNRLRELSIRACPELTELPE-PLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIAN  204 (328)
T ss_dssp             TTCSEEEEESCCCC-CCCGGGGGCTTCCEEEEEEETTCCCCCS-CSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGG
T ss_pred             CCCCEEECCCCccc-cCcHHHhcCcCCCEEECCCCCCccccCh-hHhhccchhhhccCCCCCEEECcCCCcCcchHhhcC
Confidence            99999999999999 8899999999999999999998888987 554         4999999999999875        


Q ss_pred             ---EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccC
Q 040876          258 ---LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRL  330 (343)
Q Consensus       258 ---l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L  330 (343)
                         ++.|++++|++++..+ .+... +|++|++++|.+.+.+|..   +++|++|++++|.+.+.+|    ..+..+++|
T Consensus       205 l~~L~~L~L~~N~l~~l~~-~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p----~~~~~l~~L  279 (328)
T 4fcg_A          205 LQNLKSLKIRNSPLSALGP-AIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLP----LDIHRLTQL  279 (328)
T ss_dssp             CTTCCEEEEESSCCCCCCG-GGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCC----TTGGGCTTC
T ss_pred             CCCCCEEEccCCCCCcCch-hhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcc----hhhhcCCCC
Confidence               6789999999996444 45555 9999999999999988876   7899999999999988776    556789999


Q ss_pred             ceEecCCCccccC
Q 040876          331 RALSLGDNYLQGE  343 (343)
Q Consensus       331 ~~L~ls~N~l~g~  343 (343)
                      +.|++++|++.|+
T Consensus       280 ~~L~L~~n~~~~~  292 (328)
T 4fcg_A          280 EKLDLRGCVNLSR  292 (328)
T ss_dssp             CEEECTTCTTCCC
T ss_pred             CEEeCCCCCchhh
Confidence            9999999998774

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

Probab=99.91  E-value=2.5e-24  Score=218.85  Aligned_cols=170  Identities=18%  Similarity=0.186  Sum_probs=81.4

Q ss_pred             chhh--hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCC-CcEEEccCccCccccC
Q 040876          160 DIFD--IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSK-LRILHLSDNKLNGTLS  236 (343)
Q Consensus       160 ~ip~--~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~-L~~L~l~~N~l~g~~p  236 (343)
                      .+|.  .++++  ++|++|++++|.++ .+| .++.+++|++|++++|.++ .+|..+..+++ |++|++++|.++ .+|
T Consensus       562 ~ip~~~~l~~L--~~L~~L~Ls~N~l~-~lp-~~~~L~~L~~L~Ls~N~l~-~lp~~l~~l~~~L~~L~Ls~N~L~-~lp  635 (876)
T 4ecn_A          562 EFPASASLQKM--VKLGLLDCVHNKVR-HLE-AFGTNVKLTDLKLDYNQIE-EIPEDFCAFTDQVEGLGFSHNKLK-YIP  635 (876)
T ss_dssp             BCCCHHHHTTC--TTCCEEECTTSCCC-BCC-CCCTTSEESEEECCSSCCS-CCCTTSCEECTTCCEEECCSSCCC-SCC
T ss_pred             ccCChhhhhcC--CCCCEEECCCCCcc-cch-hhcCCCcceEEECcCCccc-cchHHHhhccccCCEEECcCCCCC-cCc
Confidence            4444  45555  55555555555554 444 4455555555555555554 44444555554 555555555554 444


Q ss_pred             hHhhhcCC--CCCeEEecCcee-----------------eEeEEeccCCcccccCCCcc-ccc-CCCeEeCcCCcccCcc
Q 040876          237 EIHFVNLT--KLSVFSVNENNL-----------------TLKFLDLGENQIHGEMTNLT-NAT-QLWYLRLHSNNFSGPL  295 (343)
Q Consensus       237 ~~~~~~l~--~L~~L~l~~n~l-----------------~l~~L~ls~n~l~~~~~~~~-~~~-~L~~L~Ls~N~l~~~~  295 (343)
                      . .+..++  +|+.|++++|.+                 .++.|++++|+++ .+|..+ ... +|+.|+|++|+++...
T Consensus       636 ~-~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~-~lp~~~~~~l~~L~~L~Ls~N~L~~ip  713 (876)
T 4ecn_A          636 N-IFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQ-KFPTELFATGSPISTIILSNNLMTSIP  713 (876)
T ss_dssp             S-CCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCC-SCCHHHHHTTCCCSEEECCSCCCSCCC
T ss_pred             h-hhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCC-ccCHHHHccCCCCCEEECCCCcCCccC
Confidence            3 333332  244444444443                 1334444444444 222222 122 5566666666555222


Q ss_pred             cccCC----------CCcEEEccCCccccccCchhhccCC--ccccCceEecCCCcccc
Q 040876          296 SLISS----------NLVYLDLFNNSFLGSISHFWCYRSN--ETKRLRALSLGDNYLQG  342 (343)
Q Consensus       296 ~~~~~----------~L~~L~Ls~N~l~~~~~~~l~~~l~--~l~~L~~L~ls~N~l~g  342 (343)
                      +..+.          +|++|+|++|+++ .+|    ..+.  .+++|+.|++++|+|++
T Consensus       714 ~~~~~~~~~~l~nl~~L~~L~Ls~N~L~-~lp----~~l~~~~l~~L~~L~Ls~N~L~~  767 (876)
T 4ecn_A          714 ENSLKPKDGNYKNTYLLTTIDLRFNKLT-SLS----DDFRATTLPYLSNMDVSYNCFSS  767 (876)
T ss_dssp             TTSSSCTTSCCTTGGGCCEEECCSSCCC-CCC----GGGSTTTCTTCCEEECCSSCCSS
T ss_pred             hHHhccccccccccCCccEEECCCCCCc-cch----HHhhhccCCCcCEEEeCCCCCCc
Confidence            21111          5666666666665 233    3333  55666666666666553

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.91  E-value=6.2e-24  Score=209.52  Aligned_cols=216  Identities=21%  Similarity=0.167  Sum_probs=182.5

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC--------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVS  170 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~  170 (343)
                      +|.+ +. +| .+ .+++|++|++++|.        .+++|++|++++| +.+              .+.+|..+..+  
T Consensus       316 ~n~l-~~-lp-~~-~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~--------------~~~~~~~~~~~--  375 (606)
T 3vq2_A          316 RCQL-KQ-FP-TL-DLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSF--------------SGCCSYSDLGT--  375 (606)
T ss_dssp             SCCC-SS-CC-CC-CCSSCCEEEEESCSSCEECCCCCCTTCCEEECCSSCEEE--------------EEECCHHHHCC--
T ss_pred             cccC-cc-cc-cC-CCCccceeeccCCcCccchhhccCCCCCEEECcCCccCC--------------CcchhhhhccC--
Confidence            5666 33 77 45 88999999999884        5678999999988 662              12357888899  


Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCC-ccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVP-LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      ++|++|++++|.+++ +|..+..+++|++|++++|.+++..| ..+..+++|++|++++|.+++..|. .+..+++|++|
T Consensus       376 ~~L~~L~L~~n~l~~-~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~~~~l~~L~~L  453 (606)
T 3vq2_A          376 NSLRHLDLSFNGAII-MSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDG-IFLGLTSLNTL  453 (606)
T ss_dssp             SCCCEEECCSCSEEE-ECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTT-TTTTCTTCCEE
T ss_pred             CcccEeECCCCcccc-chhhccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchh-hhcCCCCCCEE
Confidence            999999999999984 77889999999999999999997777 6788999999999999999877776 78899999999


Q ss_pred             EecCceee-------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcc
Q 040876          250 SVNENNLT-------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSF  312 (343)
Q Consensus       250 ~l~~n~l~-------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l  312 (343)
                      ++++|.++             ++.|++++|++++..|..+... +|++|++++|++++.+|..   +++|++|++++|++
T Consensus       454 ~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~l  533 (606)
T 3vq2_A          454 KMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRI  533 (606)
T ss_dssp             ECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTSCC
T ss_pred             ECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCCcC
Confidence            99999875             5669999999999888877777 9999999999999987765   67899999999999


Q ss_pred             ccccCchhhccCCccc-cCceEecCCCcccc
Q 040876          313 LGSISHFWCYRSNETK-RLRALSLGDNYLQG  342 (343)
Q Consensus       313 ~~~~~~~l~~~l~~l~-~L~~L~ls~N~l~g  342 (343)
                      +. +    |..+..++ +|++|++++|++.+
T Consensus       534 ~~-~----p~~~~~l~~~L~~l~l~~N~~~c  559 (606)
T 3vq2_A          534 ET-S----KGILQHFPKSLAFFNLTNNSVAC  559 (606)
T ss_dssp             CC-E----ESCGGGSCTTCCEEECCSCCCCC
T ss_pred             cc-c----CHhHhhhcccCcEEEccCCCccc
Confidence            84 3    44567776 59999999999875

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.91  E-value=1.5e-24  Score=211.32  Aligned_cols=230  Identities=19%  Similarity=0.196  Sum_probs=110.6

Q ss_pred             CccccceEeCCCC-----------CcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC---
Q 040876           62 CCTWAGIVCDNVT-----------GHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP---  127 (343)
Q Consensus        62 ~c~w~gv~c~~~~-----------~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~---  127 (343)
                      .|.|.|+ |+...           .+++.|++++                |.+++. .|..+.++++|++|++++|.   
T Consensus         3 ~C~~~~~-c~~~~~~l~~ip~~~~~~L~~L~Ls~----------------n~l~~~-~~~~~~~l~~L~~L~Ls~n~i~~   64 (549)
T 2z81_A            3 SCDASGV-CDGRSRSFTSIPSGLTAAMKSLDLSF----------------NKITYI-GHGDLRACANLQVLILKSSRINT   64 (549)
T ss_dssp             EECTTSE-EECTTSCCSSCCSCCCTTCCEEECCS----------------SCCCEE-CSSTTSSCTTCCEEECTTSCCCE
T ss_pred             cCCCCce-EECCCCccccccccCCCCccEEECcC----------------CccCcc-ChhhhhcCCcccEEECCCCCcCc
Confidence            4899998 86432           2345555554                344443 45567777777777777775   


Q ss_pred             -------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcccc-ccchhccCCCCCC
Q 040876          128 -------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISG-HLTEQIGHFKNLD  198 (343)
Q Consensus       128 -------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~-~~p~~l~~l~~L~  198 (343)
                             .+++|++|++++| +.                +..|..++++  ++|++|++++|.+++ ..|..++++++|+
T Consensus        65 ~~~~~~~~l~~L~~L~Ls~n~l~----------------~~~~~~~~~l--~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~  126 (549)
T 2z81_A           65 IEGDAFYSLGSLEHLDLSDNHLS----------------SLSSSWFGPL--SSLKYLNLMGNPYQTLGVTSLFPNLTNLQ  126 (549)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCC----------------SCCHHHHTTC--TTCCEEECTTCCCSSSCSSCSCTTCTTCC
T ss_pred             cChhhccccccCCEEECCCCccC----------------ccCHHHhccC--CCCcEEECCCCcccccchhhhhhccCCcc
Confidence                   2334444444444 43                1223334444  444444444444443 2233444444444


Q ss_pred             EEECcCCcccccCC-ccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCcc-
Q 040876          199 TLDLGNNSIVGLVP-LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLT-  276 (343)
Q Consensus       199 ~L~Ls~N~l~~~~p-~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~-  276 (343)
                      +|++++|.+.+.+| ..++++++|++|++++|.+++.+|. .+..+++|++|            +++.|.+.. +|..+ 
T Consensus       127 ~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~l~~l~~L~~L------------~l~~n~~~~-~~~~~~  192 (549)
T 2z81_A          127 TLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQ-SLKSIRDIHHL------------TLHLSESAF-LLEIFA  192 (549)
T ss_dssp             EEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTT-TTTTCSEEEEE------------EEECSBSTT-HHHHHH
T ss_pred             EEECCCCccccccCHhhhhcccccCeeeccCCcccccChh-hhhccccCceE------------ecccCcccc-cchhhH
Confidence            44444444222222 2344444444444444444443443 44444444444            444444432 12211 


Q ss_pred             ccc-CCCeEeCcCCcccCcc----c--ccCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          277 NAT-QLWYLRLHSNNFSGPL----S--LISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       277 ~~~-~L~~L~Ls~N~l~~~~----~--~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      ... +|++|++++|++++..    +  ..+++|+.|++++|.+++..+..++..+..+++|+.+++++|.+.
T Consensus       193 ~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~~~~~~  264 (549)
T 2z81_A          193 DILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLN  264 (549)
T ss_dssp             HSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEESCEEE
T ss_pred             hhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhcccccccccccccc
Confidence            222 5555555555555421    1  114455555555555555444444444444455555555555443

>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=99.91  E-value=1.7e-23  Score=187.29  Aligned_cols=204  Identities=22%  Similarity=0.170  Sum_probs=142.5

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGC  168 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l  168 (343)
                      .+.++.  +|..+  .++|++|++++|.          .+++|++|++++| +.                +..|..+.++
T Consensus        20 ~~~l~~--ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~----------------~~~~~~~~~l   79 (285)
T 1ozn_A           20 QQGLQA--VPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLA----------------RIDAAAFTGL   79 (285)
T ss_dssp             SSCCSS--CCTTC--CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCC----------------EECTTTTTTC
T ss_pred             cCCccc--CCcCC--CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccc----------------eeCHhhcCCc
Confidence            344554  66544  4689999999987          3455777777766 55                2335666666


Q ss_pred             CCCCccEEEeecCc-cccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCC
Q 040876          169 VSKGLEILVLRSSS-ISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLS  247 (343)
Q Consensus       169 ~~~~L~~L~L~~n~-l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~  247 (343)
                        ++|++|++++|. ++...|..+..+++|++|++++|.+++..|..+..+++|++|++++|.++ .++...+..+++|+
T Consensus        80 --~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~  156 (285)
T 1ozn_A           80 --ALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLT  156 (285)
T ss_dssp             --TTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCC
T ss_pred             --cCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCccc-ccCHhHhccCCCcc
Confidence              777777777775 66544666777777777777777777665666677777777777777776 44433566667776


Q ss_pred             eEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhcc
Q 040876          248 VFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYR  323 (343)
Q Consensus       248 ~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~  323 (343)
                      +|++++            |++++..+..+... +|++|++++|.+++..|..   +++|++|++++|.+++..    +..
T Consensus       157 ~L~l~~------------n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~~~  220 (285)
T 1ozn_A          157 HLFLHG------------NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALP----TEA  220 (285)
T ss_dssp             EEECCS------------SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCC----HHH
T ss_pred             EEECCC------------CcccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCcCCcCC----HHH
Confidence            666555            55555445445555 8999999999998876655   678999999999988743    244


Q ss_pred             CCccccCceEecCCCcccc
Q 040876          324 SNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       324 l~~l~~L~~L~ls~N~l~g  342 (343)
                      +..+++|+.|++++|++++
T Consensus       221 ~~~l~~L~~L~l~~N~~~c  239 (285)
T 1ozn_A          221 LAPLRALQYLRLNDNPWVC  239 (285)
T ss_dssp             HTTCTTCCEEECCSSCEEC
T ss_pred             cccCcccCEEeccCCCccC
Confidence            6778899999999998864

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.91  E-value=3.7e-23  Score=204.31  Aligned_cols=121  Identities=26%  Similarity=0.328  Sum_probs=87.4

Q ss_pred             cEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hccc
Q 040876           76 HIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQR  144 (343)
Q Consensus        76 ~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~  144 (343)
                      .++.|||+++                ++++. .|..|.++++|++|+|++|.          .+++|++|+|++| ++  
T Consensus        53 ~~~~LdLs~N----------------~i~~l-~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~--  113 (635)
T 4g8a_A           53 STKNLDLSFN----------------PLRHL-GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ--  113 (635)
T ss_dssp             TCCEEECTTS----------------CCCEE-CTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCC--
T ss_pred             CCCEEEeeCC----------------CCCCC-CHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCC--
Confidence            5677888764                56553 34568888888888888886          4677888888888 76  


Q ss_pred             ccccCCCccccCcccchh-hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccc-cCCccccCCCCCc
Q 040876          145 LSKCRTGAKSSQEISDIF-DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVG-LVPLSLNELSKLR  222 (343)
Q Consensus       145 l~~~~~~~~~~~~~~~ip-~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~-~~p~~l~~l~~L~  222 (343)
                                     .+| ..|.++  ++|++|++++|++++..+..|+++++|++|++++|.+++ ..|..++.+++|+
T Consensus       114 ---------------~l~~~~f~~L--~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~  176 (635)
T 4g8a_A          114 ---------------SLALGAFSGL--SSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLE  176 (635)
T ss_dssp             ---------------EECGGGGTTC--TTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCC
T ss_pred             ---------------CCCHHHhcCC--CCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhh
Confidence                           333 456777  777777777777776555567777777777777777754 3566677777777


Q ss_pred             EEEccCccCc
Q 040876          223 ILHLSDNKLN  232 (343)
Q Consensus       223 ~L~l~~N~l~  232 (343)
                      +|++++|+++
T Consensus       177 ~L~L~~N~l~  186 (635)
T 4g8a_A          177 HLDLSSNKIQ  186 (635)
T ss_dssp             EEECCSSCCC
T ss_pred             hhcccCcccc
Confidence            7777777665

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.90  E-value=7.7e-24  Score=206.35  Aligned_cols=172  Identities=19%  Similarity=0.187  Sum_probs=139.4

Q ss_pred             chhhhh-hcCCCCCccEEEeecCccccccch---hccCCCCCCEEECcCCcccccCC--ccccCCCCCcEEEccCccCcc
Q 040876          160 DIFDIF-SGCVSKGLEILVLRSSSISGHLTE---QIGHFKNLDTLDLGNNSIVGLVP--LSLNELSKLRILHLSDNKLNG  233 (343)
Q Consensus       160 ~ip~~l-~~l~~~~L~~L~L~~n~l~~~~p~---~l~~l~~L~~L~Ls~N~l~~~~p--~~l~~l~~L~~L~l~~N~l~g  233 (343)
                      .+|..+ .++  ++|++|++++|.+++.+|.   .++.+++|++|++++|++++..+  ..+..+++|++|++++|+++ 
T Consensus       324 ~ip~~~~~~l--~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~-  400 (549)
T 2z81_A          324 LVPCSFSQHL--KSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFH-  400 (549)
T ss_dssp             CCCHHHHHHC--TTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCCEEECTTCCCC-
T ss_pred             cCCHHHHhcC--ccccEEEccCCccccccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCCEEECCCCCCc-
Confidence            356555 467  8899999999999877654   36788999999999999874422  45788999999999999998 


Q ss_pred             ccChHhhhcCCCCCeEEecCceee---------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc--CCCC
Q 040876          234 TLSEIHFVNLTKLSVFSVNENNLT---------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI--SSNL  302 (343)
Q Consensus       234 ~~p~~~~~~l~~L~~L~l~~n~l~---------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~--~~~L  302 (343)
                      .+|. .+..+++|++|++++|.++         ++.|++++|++++.++   ...+|++|++++|+++. +|..  +++|
T Consensus       401 ~lp~-~~~~~~~L~~L~Ls~N~l~~l~~~~~~~L~~L~Ls~N~l~~~~~---~l~~L~~L~Ls~N~l~~-ip~~~~l~~L  475 (549)
T 2z81_A          401 PMPD-SCQWPEKMRFLNLSSTGIRVVKTCIPQTLEVLDVSNNNLDSFSL---FLPRLQELYISRNKLKT-LPDASLFPVL  475 (549)
T ss_dssp             CCCS-CCCCCTTCCEEECTTSCCSCCCTTSCTTCSEEECCSSCCSCCCC---CCTTCCEEECCSSCCSS-CCCGGGCTTC
T ss_pred             cCCh-hhcccccccEEECCCCCcccccchhcCCceEEECCCCChhhhcc---cCChhcEEECCCCccCc-CCCcccCccC
Confidence            7887 7788899999999999873         7789999999987542   23389999999999985 4443  8899


Q ss_pred             cEEEccCCccccccCchhhccCCccccCceEecCCCccccC
Q 040876          303 VYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       303 ~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g~  343 (343)
                      ++|++++|++++..|    ..+..+++|+.|++++|+++|.
T Consensus       476 ~~L~Ls~N~l~~~~~----~~~~~l~~L~~L~l~~N~~~~~  512 (549)
T 2z81_A          476 LVMKISRNQLKSVPD----GIFDRLTSLQKIWLHTNPWDCS  512 (549)
T ss_dssp             CEEECCSSCCCCCCT----TGGGGCTTCCEEECCSSCBCCC
T ss_pred             CEEecCCCccCCcCH----HHHhcCcccCEEEecCCCccCC
Confidence            999999999998654    4567899999999999999873

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.90  E-value=4.4e-23  Score=192.82  Aligned_cols=91  Identities=11%  Similarity=0.090  Sum_probs=71.7

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhh-hhc
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDI-FSG  167 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~-l~~  167 (343)
                      +|.+++. .|..+..+++|++|++++|.          .+++|++|++++| +.                 .+|.. +.+
T Consensus        78 ~n~i~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------------~l~~~~~~~  139 (390)
T 3o6n_A           78 DLQIEEI-DTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-----------------SLPRGIFHN  139 (390)
T ss_dssp             TSCCCEE-CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-----------------CCCTTTTTT
T ss_pred             CCccccc-ChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccC-----------------cCCHHHhcC
Confidence            6777764 45588999999999999987          4667899999988 76                 45554 467


Q ss_pred             CCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccccc
Q 040876          168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL  210 (343)
Q Consensus       168 l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  210 (343)
                      +  ++|++|++++|.+++..|..+..+++|++|++++|.+++.
T Consensus       140 l--~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~  180 (390)
T 3o6n_A          140 T--PKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHV  180 (390)
T ss_dssp             C--TTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBC
T ss_pred             C--CCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCcc
Confidence            7  8888888888888877777788888888888888888743

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.90  E-value=2.1e-23  Score=213.51  Aligned_cols=249  Identities=19%  Similarity=0.195  Sum_probs=153.1

Q ss_pred             ccccceEeCCCCCcEEEEecCCCccccccccceeCCC-------------CCCCCCCCC-CccccCCCCCCEecCCCCC-
Q 040876           63 CTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPR-------------SMLVGKGPI-PSWLYRLTHLEQLSVADRP-  127 (343)
Q Consensus        63 c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~-------------~n~~~~~~i-p~~l~~l~~L~~L~Ls~n~-  127 (343)
                      |.|..|-+  ...+++.||++++     .+.+..+..             +|.+.+. + |..++++++|++|+|++|. 
T Consensus        14 ~~L~~vP~--lp~~l~~LdLs~N-----~i~~i~~~~~~~l~~L~~LdLs~n~~~~~-i~~~~f~~L~~L~~L~Ls~N~l   85 (844)
T 3j0a_A           14 CNLTQVPQ--VLNTTERLLLSFN-----YIRTVTASSFPFLEQLQLLELGSQYTPLT-IDKEAFRNLPNLRILDLGSSKI   85 (844)
T ss_dssp             CCSSCCCS--SCTTCCEEEEESC-----CCCEECSSSCSSCCSCSEEEECTTCCCCE-ECTTTTSSCTTCCEEECTTCCC
T ss_pred             CCCCCCCC--CCCCcCEEECCCC-----cCCccChhHCcccccCeEEeCCCCCCccc-cCHHHhcCCCCCCEEECCCCcC
Confidence            45666665  3567888888876     444433322             4444444 5 6778999999999999987 


Q ss_pred             ---------CCCCCcccccchh-hcccccccCCCccccCcccchhhh--hhcCCCCCccEEEeecCccccccc-hhccCC
Q 040876          128 ---------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDI--FSGCVSKGLEILVLRSSSISGHLT-EQIGHF  194 (343)
Q Consensus       128 ---------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~--l~~l~~~~L~~L~L~~n~l~~~~p-~~l~~l  194 (343)
                               .+++|++|++++| +.+                .+|..  +.++  ++|++|++++|.+++..+ ..++++
T Consensus        86 ~~~~p~~~~~l~~L~~L~Ls~n~l~~----------------~~~~~~~~~~L--~~L~~L~Ls~N~l~~~~~~~~~~~L  147 (844)
T 3j0a_A           86 YFLHPDAFQGLFHLFELRLYFCGLSD----------------AVLKDGYFRNL--KALTRLDLSKNQIRSLYLHPSFGKL  147 (844)
T ss_dssp             CEECTTSSCSCSSCCCEECTTCCCSS----------------CCSTTCCCSSC--SSCCEEEEESCCCCCCCCCGGGGTC
T ss_pred             cccCHhHccCCcccCEeeCcCCCCCc----------------ccccCcccccc--CCCCEEECCCCcccccccchhHhhC
Confidence                     5677899999988 763                33433  5566  666666666666665433 356666


Q ss_pred             CCCCEEECcCCcccccCCccccCC--CCCcEEEccCccCccccChHhhhcCCC------CCeEEecCcee----------
Q 040876          195 KNLDTLDLGNNSIVGLVPLSLNEL--SKLRILHLSDNKLNGTLSEIHFVNLTK------LSVFSVNENNL----------  256 (343)
Q Consensus       195 ~~L~~L~Ls~N~l~~~~p~~l~~l--~~L~~L~l~~N~l~g~~p~~~~~~l~~------L~~L~l~~n~l----------  256 (343)
                      ++|++|++++|.+++..|..+..+  ++|+.|++++|.+.+..|. .+..+++      |+.|++++|.+          
T Consensus       148 ~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~L~~n~l~~~~~~-~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~  226 (844)
T 3j0a_A          148 NSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSV-DWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSN  226 (844)
T ss_dssp             SSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCEECCSBSCCCCCC-CCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGG
T ss_pred             CCCCEEECCCCcCCeeCHHHcccccCCccceEECCCCcccccccc-chhhcCCccccCceeEEecCCCcCchhHHHHHHh
Confidence            666666666666665555555544  5555555555555544443 3333322      55555555421          


Q ss_pred             ----------------------------------------eEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcc
Q 040876          257 ----------------------------------------TLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPL  295 (343)
Q Consensus       257 ----------------------------------------~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~  295 (343)
                                                              .++.|++++|.+.+..+..+... +|+.|++++|++++..
T Consensus       227 ~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~  306 (844)
T 3j0a_A          227 AISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIA  306 (844)
T ss_dssp             TSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEEC
T ss_pred             hcCcccccceecccccccccccccccCCCChhhhhccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCC
Confidence                                                    24456666666666555555555 6777777777766655


Q ss_pred             ccc---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          296 SLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       296 ~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      |..   +++|++|++++|.+++..|    ..+..+++|+.|++++|.+++
T Consensus       307 ~~~~~~l~~L~~L~Ls~N~l~~~~~----~~~~~l~~L~~L~L~~N~i~~  352 (844)
T 3j0a_A          307 DEAFYGLDNLQVLNLSYNLLGELYS----SNFYGLPKVAYIDLQKNHIAI  352 (844)
T ss_dssp             TTTTTTCSSCCEEEEESCCCSCCCS----CSCSSCTTCCEEECCSCCCCC
T ss_pred             hHHhcCCCCCCEEECCCCCCCccCH----HHhcCCCCCCEEECCCCCCCc
Confidence            543   5566777777776665432    445566667777777766643

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

Probab=99.90  E-value=8.3e-23  Score=204.16  Aligned_cols=235  Identities=19%  Similarity=0.190  Sum_probs=130.7

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC--------------CCCCCcccccchh-hcccccc----c-CCCcc-cc-Cc
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP--------------SLASREDQDLLSN-IRQRLSK----C-RTGAK-SS-QE  157 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------------~l~~L~~L~l~~n-l~~~l~~----~-~~~~~-~~-~~  157 (343)
                      +|.+++. .|..+..+++|++|++++|.              ..++|+.|++++| +.+....    + .+..+ +. ..
T Consensus       338 ~n~l~~~-~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~  416 (680)
T 1ziw_A          338 DNDIPGI-KSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNE  416 (680)
T ss_dssp             SCCBCCC-CTTTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CCccCCC-ChhHhccccCCcEEECCCCchhhhhcchhhhcccccCcCceEECCCCCCCeEChhhhhCCCCCCEEeCCCCc
Confidence            5677765 56667788888888888764              1135777777777 6532110    0 00000 00 00


Q ss_pred             c-cchh-hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccc--ccCCccccCCCCCcEEEccCccCcc
Q 040876          158 I-SDIF-DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV--GLVPLSLNELSKLRILHLSDNKLNG  233 (343)
Q Consensus       158 ~-~~ip-~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~--~~~p~~l~~l~~L~~L~l~~N~l~g  233 (343)
                      + +.+| ..+.++  ++|++|++++|++.+..+..+..+++|++|++++|.++  +.+|..+..+++|++|++++|+++ 
T Consensus       417 l~~~~~~~~~~~l--~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~~~l~~L~~L~Ls~N~l~-  493 (680)
T 1ziw_A          417 IGQELTGQEWRGL--ENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIA-  493 (680)
T ss_dssp             CEEECCSGGGTTC--TTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCTTTTCTTCCEEECCSSCCC-
T ss_pred             CccccCcccccCc--ccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCcccccCCCCCEEECCCCCCC-
Confidence            0 1233 344444  55555555555555444445555555555555555543  345566666666666666666666 


Q ss_pred             ccChHhhhcCCCCCeEEecCceee--------------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCccc
Q 040876          234 TLSEIHFVNLTKLSVFSVNENNLT--------------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFS  292 (343)
Q Consensus       234 ~~p~~~~~~l~~L~~L~l~~n~l~--------------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~  292 (343)
                      .+|...+..+++|++|++++|.++                    ++.|++++|+++...+..+... +|++|++++|+++
T Consensus       494 ~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~  573 (680)
T 1ziw_A          494 NINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLN  573 (680)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             cCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCCEEECCCCCCCCCCHHHcccccCcceeECCCCCCC
Confidence            344335666666777776666543                    3456666666664333344444 6677777777666


Q ss_pred             Cccccc---CCCCcEEEccCCccccccCchhhccCC-ccccCceEecCCCcccc
Q 040876          293 GPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSN-ETKRLRALSLGDNYLQG  342 (343)
Q Consensus       293 ~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~-~l~~L~~L~ls~N~l~g  342 (343)
                      +.++..   +++|+.|++++|++++..+.    .+. .+++|+.+++++|++.+
T Consensus       574 ~l~~~~~~~l~~L~~L~L~~N~l~~~~~~----~~~~~~~~L~~l~l~~N~~~c  623 (680)
T 1ziw_A          574 TLPASVFNNQVSLKSLNLQKNLITSVEKK----VFGPAFRNLTELDMRFNPFDC  623 (680)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSCCCBCCHH----HHHHHHTTCSEEECTTCCCCB
T ss_pred             cCCHhHhCCCCCCCEEECCCCcCCccChh----HhcccccccCEEEccCCCccc
Confidence            544433   45666777777766654332    222 45666777777776653

>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=99.90  E-value=9.5e-23  Score=181.57  Aligned_cols=192  Identities=19%  Similarity=0.156  Sum_probs=130.2

Q ss_pred             CCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccc
Q 040876          116 THLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSIS  184 (343)
Q Consensus       116 ~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~  184 (343)
                      ++|++|++++|.          .+++|++|++++| +.                +..+..+.++  ++|++|++++|.++
T Consensus        28 ~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~----------------~~~~~~~~~l--~~L~~L~L~~n~l~   89 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ----------------TIEDGAYQSL--SHLSTLILTGNPIQ   89 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCC----------------EECTTTTTTC--TTCCEEECTTCCCC
T ss_pred             CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCC----------------ccCHHHccCC--cCCCEEECCCCccC
Confidence            356666666665          3445666666666 55                2334467778  88889999888888


Q ss_pred             cccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCcc-ccChHhhhcCCCCCeEEecCceeeEeEEec
Q 040876          185 GHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNG-TLSEIHFVNLTKLSVFSVNENNLTLKFLDL  263 (343)
Q Consensus       185 ~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g-~~p~~~~~~l~~L~~L~l~~n~l~l~~L~l  263 (343)
                      +..+..+.++++|++|++++|.+++..+..++.+++|++|++++|.+++ .+|. .+..+++|++|++++|.++      
T Consensus        90 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~-~~~~l~~L~~L~Ls~N~l~------  162 (276)
T 2z62_A           90 SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPE-YFSNLTNLEHLDLSSNKIQ------  162 (276)
T ss_dssp             EECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCG-GGGGCTTCCEEECCSSCCC------
T ss_pred             ccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCch-hhccCCCCCEEECCCCCCC------
Confidence            7777788888889999998888886666678888889999998888874 2566 7888888888777766543      


Q ss_pred             cCCcccccCCCccccc-CCC----eEeCcCCcccCccccc--CCCCcEEEccCCccccccCchhhccCCccccCceEecC
Q 040876          264 GENQIHGEMTNLTNAT-QLW----YLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLG  336 (343)
Q Consensus       264 s~n~l~~~~~~~~~~~-~L~----~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls  336 (343)
                            +..+..+... +|+    +|++++|.+++..+..  ..+|++|++++|.+++..    +..+..+++|+.|+++
T Consensus       163 ------~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~~~~----~~~~~~l~~L~~L~l~  232 (276)
T 2z62_A          163 ------SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVP----DGIFDRLTSLQKIWLH  232 (276)
T ss_dssp             ------EECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSCCSCCC----TTTTTTCCSCCEEECC
T ss_pred             ------cCCHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECCCCceeecC----HhHhcccccccEEEcc
Confidence                  3333333333 444    6677777766554443  335677777777766432    1334566677777777


Q ss_pred             CCcccc
Q 040876          337 DNYLQG  342 (343)
Q Consensus       337 ~N~l~g  342 (343)
                      +|++++
T Consensus       233 ~N~~~c  238 (276)
T 2z62_A          233 TNPWDC  238 (276)
T ss_dssp             SSCBCC
T ss_pred             CCcccc
Confidence            776654

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.90  E-value=5.3e-23  Score=202.77  Aligned_cols=91  Identities=11%  Similarity=0.090  Sum_probs=75.6

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhh-hhc
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDI-FSG  167 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~-l~~  167 (343)
                      +|.+++. .|..++.+++|++|+|++|.          .+++|++|++++| +.                 .+|.. +.+
T Consensus        84 ~n~l~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------------~l~~~~~~~  145 (597)
T 3oja_B           84 DLQIEEI-DTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-----------------SLPRGIFHN  145 (597)
T ss_dssp             TSCCCEE-CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-----------------CCCTTTTTT
T ss_pred             CCCCCCC-ChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCC-----------------CCCHHHhcc
Confidence            7788875 56689999999999999997          4677999999999 76                 45544 577


Q ss_pred             CCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccccc
Q 040876          168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL  210 (343)
Q Consensus       168 l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  210 (343)
                      +  ++|++|++++|.+++..|..++.+++|++|++++|.+++.
T Consensus       146 l--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  186 (597)
T 3oja_B          146 T--PKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHV  186 (597)
T ss_dssp             C--TTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBC
T ss_pred             C--CCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCc
Confidence            8  8899999999999887788888899999999999988754

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.90  E-value=4.7e-23  Score=188.50  Aligned_cols=205  Identities=20%  Similarity=0.196  Sum_probs=164.1

Q ss_pred             CCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEE
Q 040876          108 IPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEIL  176 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L  176 (343)
                      +|..+.  ++|++|++++|.          .+++|++|++++| +.                +..|..+.++  ++|++|
T Consensus        48 ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~----------------~~~~~~~~~l--~~L~~L  107 (332)
T 2ft3_A           48 VPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKIS----------------KIHEKAFSPL--RKLQKL  107 (332)
T ss_dssp             CCSCCC--TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC----------------EECGGGSTTC--TTCCEE
T ss_pred             cCCCCC--CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccC----------------ccCHhHhhCc--CCCCEE
Confidence            666553  688999999887          5667888999888 76                3557788888  899999


Q ss_pred             EeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCcc--ccChHhhhcCCCCCeEEecCc
Q 040876          177 VLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNG--TLSEIHFVNLTKLSVFSVNEN  254 (343)
Q Consensus       177 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g--~~p~~~~~~l~~L~~L~l~~n  254 (343)
                      ++++|.++ .+|..+.  ++|++|++++|.+++..+..+..+++|++|++++|.++.  ..|. .+..+ +|+.|++++|
T Consensus       108 ~L~~n~l~-~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~-~~~~l-~L~~L~l~~n  182 (332)
T 2ft3_A          108 YISKNHLV-EIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPG-AFDGL-KLNYLRISEA  182 (332)
T ss_dssp             ECCSSCCC-SCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTT-SSCSC-CCSCCBCCSS
T ss_pred             ECCCCcCC-ccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcc-cccCC-ccCEEECcCC
Confidence            99999988 5676655  789999999999986655668889999999999998862  3444 66666 8999999998


Q ss_pred             eee---------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhh
Q 040876          255 NLT---------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWC  321 (343)
Q Consensus       255 ~l~---------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~  321 (343)
                      .++         ++.|++++|.+++..+..+... +|++|++++|++++..+..   +++|++|++++|.++ .+    |
T Consensus       183 ~l~~l~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~-~l----p  257 (332)
T 2ft3_A          183 KLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLS-RV----P  257 (332)
T ss_dssp             BCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCC-BC----C
T ss_pred             CCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCe-ec----C
Confidence            874         6778999999988776666666 8999999999998876643   788999999999987 34    3


Q ss_pred             ccCCccccCceEecCCCcccc
Q 040876          322 YRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       322 ~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ..+..+++|+.|++++|+|++
T Consensus       258 ~~l~~l~~L~~L~l~~N~l~~  278 (332)
T 2ft3_A          258 AGLPDLKLLQVVYLHTNNITK  278 (332)
T ss_dssp             TTGGGCTTCCEEECCSSCCCB
T ss_pred             hhhhcCccCCEEECCCCCCCc
Confidence            556788899999999998875

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.90  E-value=7.7e-23  Score=185.38  Aligned_cols=203  Identities=18%  Similarity=0.163  Sum_probs=143.8

Q ss_pred             CCCEecCCCCC-------------CCCCCcccccchh-hcccccccCCCccccCcccchhhhh--hcCCCCCccEEEeec
Q 040876          117 HLEQLSVADRP-------------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIF--SGCVSKGLEILVLRS  180 (343)
Q Consensus       117 ~L~~L~Ls~n~-------------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l--~~l~~~~L~~L~L~~  180 (343)
                      .++.+.+.++.             .+++|++|++++| +.                +..|..+  ..+  ++|++|++++
T Consensus        65 ~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~----------------~~~~~~~~~~~~--~~L~~L~Ls~  126 (310)
T 4glp_A           65 RVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDLKIT----------------GTMPPLPLEATG--LALSSLRLRN  126 (310)
T ss_dssp             CCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESCCCB----------------SCCCCCSSSCCC--BCCSSCEEES
T ss_pred             ceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCCEec----------------cchhhhhhhccC--CCCCEEEeec
Confidence            45666666654             2344777777777 65                3555555  666  7777778877


Q ss_pred             Cccccccc----hhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccc--cC-hHhhhcCCCCCeEEecC
Q 040876          181 SSISGHLT----EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGT--LS-EIHFVNLTKLSVFSVNE  253 (343)
Q Consensus       181 n~l~~~~p----~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~--~p-~~~~~~l~~L~~L~l~~  253 (343)
                      |.+++..+    ..+..+++|++|++++|.+++..|..++.+++|++|++++|++.+.  ++ ...+..+++|++|++++
T Consensus       127 n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~  206 (310)
T 4glp_A          127 VSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRN  206 (310)
T ss_dssp             CCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCS
T ss_pred             ccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCC
Confidence            77776444    3345677777888877777766667777777788888877776542  21 11235677777777777


Q ss_pred             ceee---------------EeEEeccCCcccccCCCcccc----cCCCeEeCcCCcccCcccccCCCCcEEEccCCcccc
Q 040876          254 NNLT---------------LKFLDLGENQIHGEMTNLTNA----TQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLG  314 (343)
Q Consensus       254 n~l~---------------l~~L~ls~n~l~~~~~~~~~~----~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~  314 (343)
                      |+++               ++.|++++|++++..|..+..    .+|++|++++|+++..+....++|++|++++|++++
T Consensus       207 N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~L~~L~Ls~N~l~~  286 (310)
T 4glp_A          207 TGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLEQVPKGLPAKLRVLDLSSNRLNR  286 (310)
T ss_dssp             SCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSCCSCCCSCCSCEECCSCCCCS
T ss_pred             CCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCCchhhhhcCCCCEEECCCCcCCC
Confidence            7764               456888888888876544433    389999999999995444447899999999999997


Q ss_pred             ccCchhhccCCccccCceEecCCCccccC
Q 040876          315 SISHFWCYRSNETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       315 ~~~~~l~~~l~~l~~L~~L~ls~N~l~g~  343 (343)
                      . |     .+..+++|+.|++++|+|+.+
T Consensus       287 ~-~-----~~~~l~~L~~L~L~~N~l~~~  309 (310)
T 4glp_A          287 A-P-----QPDELPEVDNLTLDGNPFLVP  309 (310)
T ss_dssp             C-C-----CTTSCCCCSCEECSSTTTSCC
T ss_pred             C-c-----hhhhCCCccEEECcCCCCCCC
Confidence            3 2     146789999999999999864

>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=99.90  E-value=8.2e-24  Score=208.36  Aligned_cols=252  Identities=18%  Similarity=0.193  Sum_probs=158.6

Q ss_pred             CCCCCCCCCCccccceEe------CCCCCcEEEEecCCCccccccccceeCC----C-------CCCCCCCCCCccccCC
Q 040876           53 LASWNIGGDCCTWAGIVC------DNVTGHIIELNLRNPFTYYRRSRYKANP----R-------SMLVGKGPIPSWLYRL  115 (343)
Q Consensus        53 ~~~W~~~~~~c~w~gv~c------~~~~~~v~~l~l~~~~~~~~~~~g~~~~----~-------~n~~~~~~ip~~l~~l  115 (343)
                      ...|....+||.|+|..|      .-....++.+++++.     ++. .+|.    .       +|.++.  +|.   .+
T Consensus        12 w~~W~~~~~~~~~~~r~~~~~~~~~c~~~~l~~L~ls~n-----~L~-~lp~~l~~~L~~L~L~~N~l~~--lp~---~l   80 (622)
T 3g06_A           12 WSAWRRAAPAEESRGRAAVVQKMRACLNNGNAVLNVGES-----GLT-TLPDCLPAHITTLVIPDNNLTS--LPA---LP   80 (622)
T ss_dssp             HHHHHHTCCGGGHHHHHHHHHHHHHHHHHCCCEEECCSS-----CCS-CCCSCCCTTCSEEEECSCCCSC--CCC---CC
T ss_pred             HHHHHhcCCcchhccccccCcccccccCCCCcEEEecCC-----CcC-ccChhhCCCCcEEEecCCCCCC--CCC---cC
Confidence            455766778899976421      111234788888876     332 2222    1       666664  565   56


Q ss_pred             CCCCEecCCCCC------CCCCCcccccchh-hcccccc-cCCCc--cccCcccchhhhhhcCCCCCccEEEeecCcccc
Q 040876          116 THLEQLSVADRP------SLASREDQDLLSN-IRQRLSK-CRTGA--KSSQEISDIFDIFSGCVSKGLEILVLRSSSISG  185 (343)
Q Consensus       116 ~~L~~L~Ls~n~------~l~~L~~L~l~~n-l~~~l~~-~~~~~--~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~  185 (343)
                      ++|++|++++|.      .+++|++|++++| +++.-.. .++..  +....+..+|..   +  ++|++|++++|.+++
T Consensus        81 ~~L~~L~Ls~N~l~~lp~~l~~L~~L~Ls~N~l~~l~~~l~~L~~L~L~~N~l~~lp~~---l--~~L~~L~Ls~N~l~~  155 (622)
T 3g06_A           81 PELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVL---P--PGLQELSVSDNQLAS  155 (622)
T ss_dssp             TTCCEEEECSCCCSCCCCCCTTCCEEEECSCCCCCCCCCCTTCCEEECCSSCCSCCCCC---C--TTCCEEECCSSCCSC
T ss_pred             CCCCEEEcCCCcCCcCCCCCCCCCEEECcCCcCCCCCCCCCCcCEEECCCCCCCcCCCC---C--CCCCEEECcCCcCCC
Confidence            778888888877      4556777777777 5521000 00000  000111223321   2  445555555555542


Q ss_pred             ccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee--------
Q 040876          186 HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------  257 (343)
Q Consensus       186 ~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~--------  257 (343)
                       +|.   .+++|+.|++++|.++ .+|   ..+++|+.|++++|.++ .+|.    ..++|+.|++++|.++        
T Consensus       156 -l~~---~~~~L~~L~L~~N~l~-~l~---~~~~~L~~L~Ls~N~l~-~l~~----~~~~L~~L~L~~N~l~~l~~~~~~  222 (622)
T 3g06_A          156 -LPA---LPSELCKLWAYNNQLT-SLP---MLPSGLQELSVSDNQLA-SLPT----LPSELYKLWAYNNRLTSLPALPSG  222 (622)
T ss_dssp             -CCC---CCTTCCEEECCSSCCS-CCC---CCCTTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCCSSCCCCCTT
T ss_pred             -cCC---ccCCCCEEECCCCCCC-CCc---ccCCCCcEEECCCCCCC-CCCC----ccchhhEEECcCCcccccCCCCCC
Confidence             232   2244555555555555 233   23477888888888887 4664    2477888888888764        


Q ss_pred             EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEccCCccccccCchhhccCCccccCceEecCC
Q 040876          258 LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGD  337 (343)
Q Consensus       258 l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~  337 (343)
                      ++.|++++|++++ +|.  ...+|++|++++|+++. +|..+++|+.|++++|.++ .+|    ..+.++++|+.|++++
T Consensus       223 L~~L~Ls~N~L~~-lp~--~l~~L~~L~Ls~N~L~~-lp~~~~~L~~L~Ls~N~L~-~lp----~~l~~l~~L~~L~L~~  293 (622)
T 3g06_A          223 LKELIVSGNRLTS-LPV--LPSELKELMVSGNRLTS-LPMLPSGLLSLSVYRNQLT-RLP----ESLIHLSSETTVNLEG  293 (622)
T ss_dssp             CCEEECCSSCCSC-CCC--CCTTCCEEECCSSCCSC-CCCCCTTCCEEECCSSCCC-SCC----GGGGGSCTTCEEECCS
T ss_pred             CCEEEccCCccCc-CCC--CCCcCcEEECCCCCCCc-CCcccccCcEEeCCCCCCC-cCC----HHHhhccccCEEEecC
Confidence            6779999999886 442  12389999999999986 4447889999999999998 444    5677899999999999


Q ss_pred             Ccccc
Q 040876          338 NYLQG  342 (343)
Q Consensus       338 N~l~g  342 (343)
                      |+|+|
T Consensus       294 N~l~~  298 (622)
T 3g06_A          294 NPLSE  298 (622)
T ss_dssp             CCCCH
T ss_pred             CCCCC
Confidence            99986

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.90  E-value=3.5e-24  Score=194.49  Aligned_cols=206  Identities=22%  Similarity=0.196  Sum_probs=167.9

Q ss_pred             cccCCCCCCEecCCCCC-CCCC-----Ccccccchh-hcccccccCCCccccCcccchhhhhh-------cCCCCCccEE
Q 040876          111 WLYRLTHLEQLSVADRP-SLAS-----REDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFS-------GCVSKGLEIL  176 (343)
Q Consensus       111 ~l~~l~~L~~L~Ls~n~-~l~~-----L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~-------~l~~~~L~~L  176 (343)
                      .++..++|++|++++|. ..+.     ++.|++++| +..               ..+|..+.       ++  ++|++|
T Consensus        38 ~~~~~~~L~~l~l~~n~l~~p~~~~~~L~~L~L~~n~l~~---------------~~~~~~~~~~~~~~~~l--~~L~~L  100 (312)
T 1wwl_A           38 LYGGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRLTVRA---------------ARIPSRILFGALRVLGI--SGLQEL  100 (312)
T ss_dssp             EEEEEEECTTHHHHCCTTCCCHHHHHHHHHCCCCEEEEEE---------------EECBHHHHHHHHHHHTT--SCCCEE
T ss_pred             EEccCCCceeEeecccccccHHHHHHHHhhcccccccccC---------------CCcCHHHHHHHHHhcCc--CCccEE
Confidence            35567789999998887 2222     788888888 642               35666665       68  999999


Q ss_pred             EeecCccccccchhc--cCCCCCCEEECcCCcccccCCccccCC-----CCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          177 VLRSSSISGHLTEQI--GHFKNLDTLDLGNNSIVGLVPLSLNEL-----SKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       177 ~L~~n~l~~~~p~~l--~~l~~L~~L~Ls~N~l~~~~p~~l~~l-----~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      ++++|.+++.+|..+  ..+++|++|++++|++++. |..++.+     ++|++|++++|++++..|. .++.+++|++|
T Consensus       101 ~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~-~~~~l~~L~~L  178 (312)
T 1wwl_A          101 TLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFSCE-QVRVFPALSTL  178 (312)
T ss_dssp             EEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCCTT-TCCCCSSCCEE
T ss_pred             EccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCccchHH-HhccCCCCCEE
Confidence            999999999999886  8999999999999999977 8888877     9999999999999855445 89999999999


Q ss_pred             EecCceee----------------EeEEeccCCcccc--cCC-Cccccc-CCCeEeCcCCcccCccccc----CCCCcEE
Q 040876          250 SVNENNLT----------------LKFLDLGENQIHG--EMT-NLTNAT-QLWYLRLHSNNFSGPLSLI----SSNLVYL  305 (343)
Q Consensus       250 ~l~~n~l~----------------l~~L~ls~n~l~~--~~~-~~~~~~-~L~~L~Ls~N~l~~~~~~~----~~~L~~L  305 (343)
                      ++++|++.                ++.|++++|++++  .++ ..+... +|++|++++|++++.+|..    +++|++|
T Consensus       179 ~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L  258 (312)
T 1wwl_A          179 DLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSL  258 (312)
T ss_dssp             ECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEE
T ss_pred             ECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEE
Confidence            99999842                6779999999984  222 233344 9999999999999976432    6899999


Q ss_pred             EccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          306 DLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       306 ~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++++|.++ .+|    ..+.  ++|++|++++|+|++
T Consensus       259 ~Ls~N~l~-~ip----~~~~--~~L~~L~Ls~N~l~~  288 (312)
T 1wwl_A          259 NLSFTGLK-QVP----KGLP--AKLSVLDLSYNRLDR  288 (312)
T ss_dssp             ECTTSCCS-SCC----SSCC--SEEEEEECCSSCCCS
T ss_pred             ECCCCccC-hhh----hhcc--CCceEEECCCCCCCC
Confidence            99999998 455    3333  789999999999986

>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=99.89  E-value=1.7e-23  Score=193.14  Aligned_cols=217  Identities=20%  Similarity=0.171  Sum_probs=160.2

Q ss_pred             CCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCC
Q 040876          102 LVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVS  170 (343)
Q Consensus       102 ~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~  170 (343)
                      .++.  +|..+.  ++|++|++++|.          .+++|++|++++| +.                +..|..+.++  
T Consensus        42 ~l~~--iP~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~----------------~~~~~~~~~l--   99 (353)
T 2z80_A           42 SLNS--IPSGLT--EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGIN----------------TIEEDSFSSL--   99 (353)
T ss_dssp             TCSS--CCTTCC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCC----------------EECTTTTTTC--
T ss_pred             Cccc--cccccc--ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccC----------------ccCHhhcCCC--
Confidence            4443  777655  489999999997          4667888888888 76                3445678888  


Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCc--cccCCCCCcEEEccCcc-CccccChHhhhcCCCCC
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL--SLNELSKLRILHLSDNK-LNGTLSEIHFVNLTKLS  247 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~--~l~~l~~L~~L~l~~N~-l~g~~p~~~~~~l~~L~  247 (343)
                      ++|++|++++|++++..+..+.++++|++|++++|+++ .+|.  .+..+++|++|++++|. ++ .++...+..+++|+
T Consensus       100 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~~~~~~~~l~~L~~L~l~~n~~~~-~~~~~~~~~l~~L~  177 (353)
T 2z80_A          100 GSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYK-TLGETSLFSHLTKLQILRVGNMDTFT-KIQRKDFAGLTFLE  177 (353)
T ss_dssp             TTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTTCCCS-SSCSSCSCTTCTTCCEEEEEESSSCC-EECTTTTTTCCEEE
T ss_pred             CCCCEEECCCCcCCcCCHhHhCCCccCCEEECCCCCCc-ccCchhhhccCCCCcEEECCCCcccc-ccCHHHccCCCCCC
Confidence            88888898888888655555888888889999888888 4454  67888888888888884 54 55444778888888


Q ss_pred             eEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc------CCCCcEEEcc
Q 040876          248 VFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI------SSNLVYLDLF  308 (343)
Q Consensus       248 ~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~------~~~L~~L~Ls  308 (343)
                      +|++++|.++            ++.|++++|.++...+..+... +|++|++++|.+++..+..      ...++.++++
T Consensus       178 ~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~  257 (353)
T 2z80_A          178 ELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFR  257 (353)
T ss_dssp             EEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEE
T ss_pred             EEECCCCCcCccCHHHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccccccccccccchhhccccc
Confidence            8888887764            5667888887754333333333 7888888888887644332      4567777888


Q ss_pred             CCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          309 NNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       309 ~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++.+++..-..+|..+..+++|+.|++++|+|+.
T Consensus       258 ~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~  291 (353)
T 2z80_A          258 NVKITDESLFQVMKLLNQISGLLELEFSRNQLKS  291 (353)
T ss_dssp             SCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCCC
T ss_pred             cccccCcchhhhHHHHhcccCCCEEECCCCCCCc
Confidence            8877764444567778889999999999999873

>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=99.89  E-value=1.3e-22  Score=183.26  Aligned_cols=199  Identities=17%  Similarity=0.205  Sum_probs=148.7

Q ss_pred             CCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEE
Q 040876          108 IPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEIL  176 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L  176 (343)
                      +|..+.  ++|++|++++|.          .+++|++|++++| +..              .+.+|..+.++  ++|++|
T Consensus        22 ip~~~~--~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~--------------~~~~~~~~~~~--~~L~~L   83 (306)
T 2z66_A           22 VPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSF--------------KGCCSQSDFGT--TSLKYL   83 (306)
T ss_dssp             CCSCCC--TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCE--------------EEEEEHHHHSC--SCCCEE
T ss_pred             CCCCCC--CCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCc--------------ccCcccccccc--cccCEE
Confidence            666443  689999999987          4456777777777 541              12345666667  788888


Q ss_pred             EeecCccccccchhccCCCCCCEEECcCCcccccCC-ccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCce
Q 040876          177 VLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVP-LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN  255 (343)
Q Consensus       177 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~  255 (343)
                      ++++|.++ .+|..+..+++|++|++++|.+++..+ ..+..+++|++|++++|.+++..+. .+..+++|++|++++|.
T Consensus        84 ~Ls~n~i~-~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~~~~l~~L~~L~l~~n~  161 (306)
T 2z66_A           84 DLSFNGVI-TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG-IFNGLSSLEVLKMAGNS  161 (306)
T ss_dssp             ECCSCSEE-EEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTT-TTTTCTTCCEEECTTCE
T ss_pred             ECCCCccc-cChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchh-hcccCcCCCEEECCCCc
Confidence            88888877 466667778888888888888775443 4677778888888888887755555 67777777777666654


Q ss_pred             eeEeEEeccCCcccc-cCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccC
Q 040876          256 LTLKFLDLGENQIHG-EMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRL  330 (343)
Q Consensus       256 l~l~~L~ls~n~l~~-~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L  330 (343)
                                  +++ .+|..+... +|++|++++|++++..|..   +++|++|++++|.+++..+    ..+..+++|
T Consensus       162 ------------l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~----~~~~~l~~L  225 (306)
T 2z66_A          162 ------------FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDT----FPYKCLNSL  225 (306)
T ss_dssp             ------------EGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCS----GGGTTCTTC
T ss_pred             ------------cccccchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccCh----hhccCcccC
Confidence                        444 456666666 9999999999999876655   6899999999999987543    346789999


Q ss_pred             ceEecCCCcccc
Q 040876          331 RALSLGDNYLQG  342 (343)
Q Consensus       331 ~~L~ls~N~l~g  342 (343)
                      +.|++++|++++
T Consensus       226 ~~L~L~~N~l~~  237 (306)
T 2z66_A          226 QVLDYSLNHIMT  237 (306)
T ss_dssp             CEEECTTSCCCB
T ss_pred             CEeECCCCCCcc
Confidence            999999999986

>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=99.89  E-value=4.6e-23  Score=184.46  Aligned_cols=189  Identities=21%  Similarity=0.203  Sum_probs=154.2

Q ss_pred             eCCCCCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccch-hh
Q 040876           96 ANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDI-FD  163 (343)
Q Consensus        96 ~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~i-p~  163 (343)
                      +...+|.+++. .+..+.++++|++|++++|.          .+++|++|++++| ..                +.+ |.
T Consensus        37 L~l~~n~i~~~-~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l----------------~~~~~~   99 (285)
T 1ozn_A           37 IFLHGNRISHV-PAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQL----------------RSVDPA   99 (285)
T ss_dssp             EECTTSCCCEE-CTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTC----------------CCCCTT
T ss_pred             EEeeCCcCCcc-CHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCc----------------cccCHH
Confidence            33447888874 45679999999999999997          5677999999988 33                244 67


Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+..+  ++|++|++++|.+++..|..+.++++|++|++++|.+++..+..++.+++|++|++++|+++ .+|...+..+
T Consensus       100 ~~~~l--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l  176 (285)
T 1ozn_A          100 TFHGL--GRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRIS-SVPERAFRGL  176 (285)
T ss_dssp             TTTTC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-EECTTTTTTC
T ss_pred             HhcCC--cCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCccc-ccCHHHhcCc
Confidence            88889  99999999999999888888999999999999999999766667899999999999999998 5665468889


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccccc
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSI  316 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~  316 (343)
                      ++|+.|++++|            .+++..|..+... +|++|++++|.+++..+..   +++|++|++++|.+....
T Consensus       177 ~~L~~L~l~~n------------~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~c~~  241 (285)
T 1ozn_A          177 HSLDRLLLHQN------------RVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDC  241 (285)
T ss_dssp             TTCCEEECCSS------------CCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEECSG
T ss_pred             cccCEEECCCC------------cccccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCccCCC
Confidence            99998877765            4455556666655 8999999999888866543   678889999999887543

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.89  E-value=5.9e-23  Score=186.78  Aligned_cols=195  Identities=23%  Similarity=0.222  Sum_probs=129.3

Q ss_pred             cEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC--------CCCCCcccccchh-hccccc
Q 040876           76 HIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRLS  146 (343)
Q Consensus        76 ~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l~  146 (343)
                      +++.|++++                |.+++. .|..+.++++|++|++++|.        .+++|++|++++| ++    
T Consensus        35 ~L~~L~L~~----------------n~l~~~-~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~----   93 (317)
T 3o53_A           35 NVKELDLSG----------------NPLSQI-SAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQ----   93 (317)
T ss_dssp             GCSEEECTT----------------SCCCCC-CHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEE----
T ss_pred             CCCEEECcC----------------CccCcC-CHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCccc----
Confidence            567777776                466664 56789999999999999998        5778889999888 66    


Q ss_pred             ccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEc
Q 040876          147 KCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHL  226 (343)
Q Consensus       147 ~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  226 (343)
                                   .++    ..  ++|++|++++|.+++..+.   .+++|++|++++|++++..|..++.+++|++|++
T Consensus        94 -------------~l~----~~--~~L~~L~l~~n~l~~~~~~---~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~L  151 (317)
T 3o53_A           94 -------------ELL----VG--PSIETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDL  151 (317)
T ss_dssp             -------------EEE----EC--TTCCEEECCSSCCSEEEEC---CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEEC
T ss_pred             -------------ccc----CC--CCcCEEECCCCccCCcCcc---ccCCCCEEECCCCCCCCccchhhhccCCCCEEEC
Confidence                         222    33  7888999999988865443   3677899999999998777778888899999999


Q ss_pred             cCccCccccChHhhhcCCCCCeEEecCceee----------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccc
Q 040876          227 SDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLS  296 (343)
Q Consensus       227 ~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~  296 (343)
                      ++|.+++..+...+..+++|++|++++|.++          ++.|++++|++++..+......+|++|++++|++++..+
T Consensus       152 s~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~~l~~  231 (317)
T 3o53_A          152 KLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEK  231 (317)
T ss_dssp             TTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEECT
T ss_pred             CCCCCCcccHHHHhhccCcCCEEECCCCcCcccccccccccCCEEECCCCcCCcchhhhcccCcccEEECcCCcccchhh
Confidence            9999885555522346788888888887764          333444444444332221111144444444444443211


Q ss_pred             cc--CCCCcEEEccCCccc
Q 040876          297 LI--SSNLVYLDLFNNSFL  313 (343)
Q Consensus       297 ~~--~~~L~~L~Ls~N~l~  313 (343)
                      ..  +++|+.|++++|.+.
T Consensus       232 ~~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          232 ALRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             TCCCCTTCCEEECTTCCCB
T ss_pred             HhhcCCCCCEEEccCCCcc
Confidence            11  344444444444444

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.89  E-value=6.1e-23  Score=200.73  Aligned_cols=216  Identities=17%  Similarity=0.196  Sum_probs=156.4

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC-------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP-------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSK  171 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~-------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~  171 (343)
                      +|.+++  +|..+..+ +|++|++++|.       .+++|+.|++++| +.+                .++.  ..+  +
T Consensus       291 ~~~l~~--l~~~~~~~-~L~~L~l~~n~~~~l~~~~l~~L~~L~l~~n~~~~----------------~~~~--~~~--~  347 (570)
T 2z63_A          291 SVTIER--VKDFSYNF-GWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGN----------------AFSE--VDL--P  347 (570)
T ss_dssp             SCEECS--CCBCCSCC-CCSEEEEESCBCSSCCBCBCSSCCEEEEESCBSCC----------------BCCC--CBC--T
T ss_pred             Cccchh--hhhhhccC-CccEEeeccCcccccCcccccccCEEeCcCCcccc----------------cccc--ccC--C
Confidence            344443  67777777 77777777776       3556777777766 442                2222  455  7


Q ss_pred             CccEEEeecCcccccc--chhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          172 GLEILVLRSSSISGHL--TEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~--p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      +|++|++++|.+++..  |..+..+++|++|++++|.+++. |..+..+++|++|++++|.+++..|...+..+++|++|
T Consensus       348 ~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~-~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  426 (570)
T 2z63_A          348 SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITM-SSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYL  426 (570)
T ss_dssp             TCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEE-EEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEE
T ss_pred             CCCEEeCcCCccCccccccccccccCccCEEECCCCccccc-cccccccCCCCEEEccCCccccccchhhhhcCCCCCEE
Confidence            7777777777777543  56677777777777777777643 33477777777777777777655443356677777777


Q ss_pred             EecCceee------------EeEEeccCCccc-ccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcc
Q 040876          250 SVNENNLT------------LKFLDLGENQIH-GEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSF  312 (343)
Q Consensus       250 ~l~~n~l~------------l~~L~ls~n~l~-~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l  312 (343)
                      ++++|.++            ++.|++++|.++ +.+|..+... +|++|++++|++++..|..   +++|++|++++|.+
T Consensus       427 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  506 (570)
T 2z63_A          427 DISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQL  506 (570)
T ss_dssp             ECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             eCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCCCcC
Confidence            77777654            556788888887 5677777777 9999999999999887765   68899999999999


Q ss_pred             ccccCchhhccCCccccCceEecCCCccccC
Q 040876          313 LGSISHFWCYRSNETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       313 ~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g~  343 (343)
                      ++..+    ..+..+++|+.|++++|+++|.
T Consensus       507 ~~~~~----~~~~~l~~L~~L~l~~N~~~~~  533 (570)
T 2z63_A          507 KSVPD----GIFDRLTSLQKIWLHTNPWDCS  533 (570)
T ss_dssp             SCCCT----TTTTTCTTCCEEECCSSCBCCC
T ss_pred             CCCCH----HHhhcccCCcEEEecCCcccCC
Confidence            88643    5567899999999999999873

>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=99.89  E-value=2.7e-22  Score=191.19  Aligned_cols=196  Identities=26%  Similarity=0.268  Sum_probs=165.7

Q ss_pred             CCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcccccc
Q 040876          108 IPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHL  187 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~  187 (343)
                      +|..+.  +++++|+|++|.             +.                +..|+.+.++  ++|++|++++|.+++..
T Consensus        69 iP~~~~--~~l~~L~L~~n~-------------i~----------------~~~~~~~~~l--~~L~~L~Ls~n~i~~~~  115 (452)
T 3zyi_A           69 VPQGIP--SNTRYLNLMENN-------------IQ----------------MIQADTFRHL--HHLEVLQLGRNSIRQIE  115 (452)
T ss_dssp             CCSCCC--TTCSEEECCSSC-------------CC----------------EECTTTTTTC--TTCCEEECCSSCCCEEC
T ss_pred             cCCCCC--CCccEEECcCCc-------------Cc----------------eECHHHcCCC--CCCCEEECCCCccCCcC
Confidence            555443  578899998886             33                3446788899  99999999999999888


Q ss_pred             chhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCce-e----------
Q 040876          188 TEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN-L----------  256 (343)
Q Consensus       188 p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~-l----------  256 (343)
                      |..+.++++|++|++++|.+++..+..+..+++|++|++++|.++ .+|...+..+++|+.|++++|. +          
T Consensus       116 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  194 (452)
T 3zyi_A          116 VGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEG  194 (452)
T ss_dssp             TTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCCCC-EECTTTTTTCTTCCEEECCCCTTCCEECTTTTTT
T ss_pred             hhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCCCCcc-eeCHhHHhcCCcccEEeCCCCCCccccChhhccC
Confidence            889999999999999999999766667899999999999999998 6666588999999999999843 2          


Q ss_pred             --eEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCc
Q 040876          257 --TLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLR  331 (343)
Q Consensus       257 --~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~  331 (343)
                        .++.|++++|++++. |......+|++|++++|++++..|..   +++|++|++++|.+++..+    ..+..+++|+
T Consensus       195 l~~L~~L~L~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~----~~~~~l~~L~  269 (452)
T 3zyi_A          195 LFNLKYLNLGMCNIKDM-PNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIER----NAFDGLASLV  269 (452)
T ss_dssp             CTTCCEEECTTSCCSSC-CCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECT----TTTTTCTTCC
T ss_pred             CCCCCEEECCCCccccc-ccccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECH----HHhcCCCCCC
Confidence              278899999999854 55444449999999999999877765   7899999999999998654    5677899999


Q ss_pred             eEecCCCcccc
Q 040876          332 ALSLGDNYLQG  342 (343)
Q Consensus       332 ~L~ls~N~l~g  342 (343)
                      .|++++|+|++
T Consensus       270 ~L~L~~N~l~~  280 (452)
T 3zyi_A          270 ELNLAHNNLSS  280 (452)
T ss_dssp             EEECCSSCCSC
T ss_pred             EEECCCCcCCc
Confidence            99999999875

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.89  E-value=9.2e-23  Score=196.19  Aligned_cols=204  Identities=20%  Similarity=0.186  Sum_probs=143.3

Q ss_pred             cEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC--------CCCCCcccccchh-hccccc
Q 040876           76 HIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRLS  146 (343)
Q Consensus        76 ~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l~  146 (343)
                      +++.|+++++                .+++. .|..++.+++|++|+|++|.        .+++|++|++++| +.    
T Consensus        35 ~L~~L~Ls~n----------------~l~~~-~~~~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~----   93 (487)
T 3oja_A           35 NVKELDLSGN----------------PLSQI-SAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQ----   93 (487)
T ss_dssp             GCCEEECCSS----------------CCCCC-CGGGGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEE----
T ss_pred             CccEEEeeCC----------------cCCCC-CHHHHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCC----
Confidence            6888888874                66664 67789999999999999998        5778999999998 76    


Q ss_pred             ccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEc
Q 040876          147 KCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHL  226 (343)
Q Consensus       147 ~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l  226 (343)
                                   .+|    ..  ++|++|++++|.+++..+.   .+++|++|++++|.+++..|..++.+++|++|++
T Consensus        94 -------------~l~----~~--~~L~~L~L~~N~l~~~~~~---~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  151 (487)
T 3oja_A           94 -------------ELL----VG--PSIETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDL  151 (487)
T ss_dssp             -------------EEE----EC--TTCCEEECCSSCCCCEEEC---CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEEC
T ss_pred             -------------CCC----CC--CCcCEEECcCCcCCCCCcc---ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEEC
Confidence                         233    23  7889999999999875554   4578999999999999888888889999999999


Q ss_pred             cCccCccccChHhhh-cCCCCCeEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc--CCCCc
Q 040876          227 SDNKLNGTLSEIHFV-NLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI--SSNLV  303 (343)
Q Consensus       227 ~~N~l~g~~p~~~~~-~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~--~~~L~  303 (343)
                      ++|.+++..|. .+. .+++|+.|++++|.++            +. +......+|++|+|++|.+++.+|..  +++|+
T Consensus       152 s~N~l~~~~~~-~l~~~l~~L~~L~Ls~N~l~------------~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~  217 (487)
T 3oja_A          152 KLNEIDTVNFA-ELAASSDTLEHLNLQYNFIY------------DV-KGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVT  217 (487)
T ss_dssp             TTSCCCEEEGG-GGGGGTTTCCEEECTTSCCC------------EE-ECCCCCTTCCEEECCSSCCCEECGGGGGGTTCS
T ss_pred             CCCCCCCcChH-HHhhhCCcccEEecCCCccc------------cc-cccccCCCCCEEECCCCCCCCCCHhHcCCCCcc
Confidence            99999876776 554 7889999888887664            21 11112225555555555555544433  45555


Q ss_pred             EEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          304 YLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       304 ~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      .|++++|.+++ +    |..+..+++|+.|++++|+++
T Consensus       218 ~L~Ls~N~l~~-l----p~~l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          218 WISLRNNKLVL-I----EKALRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             EEECTTSCCCE-E----CTTCCCCTTCCEEECTTCCBC
T ss_pred             EEEecCCcCcc-c----chhhccCCCCCEEEcCCCCCc
Confidence            55555555553 1    233444555555555555544

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

Probab=99.89  E-value=3.2e-22  Score=183.79  Aligned_cols=160  Identities=23%  Similarity=0.332  Sum_probs=122.3

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      +..+  ++|++|++++|.+.+. +. +..+++|++|++++|.+++..+  +..+++|++|++++|.++ .++.  +..++
T Consensus       173 ~~~l--~~L~~L~l~~n~l~~~-~~-~~~l~~L~~L~l~~n~l~~~~~--~~~~~~L~~L~l~~n~l~-~~~~--~~~l~  243 (347)
T 4fmz_A          173 IANL--TDLYSLSLNYNQIEDI-SP-LASLTSLHYFTAYVNQITDITP--VANMTRLNSLKIGNNKIT-DLSP--LANLS  243 (347)
T ss_dssp             GGGC--TTCSEEECTTSCCCCC-GG-GGGCTTCCEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCC-CCGG--GTTCT
T ss_pred             hccC--CCCCEEEccCCccccc-cc-ccCCCccceeecccCCCCCCch--hhcCCcCCEEEccCCccC-CCcc--hhcCC
Confidence            6677  8888888888888743 33 7778888888888888875433  778888888888888887 4443  67788


Q ss_pred             CCCeEEecCceee----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCC
Q 040876          245 KLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNN  310 (343)
Q Consensus       245 ~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N  310 (343)
                      +|++|++++|.++          ++.|++++|++++. +. +... +|++|++++|++++..+..   +++|++|++++|
T Consensus       244 ~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~-~~-~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n  321 (347)
T 4fmz_A          244 QLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQISDI-SV-LNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN  321 (347)
T ss_dssp             TCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCC-GG-GGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSS
T ss_pred             CCCEEECCCCccCCChhHhcCCCcCEEEccCCccCCC-hh-hcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCC
Confidence            8888888888765          67788888888764 33 3444 8999999999998776654   788999999999


Q ss_pred             ccccccCchhhccCCccccCceEecCCCccc
Q 040876          311 SFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       311 ~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      .+++..|      +..+++|++|++++|.|+
T Consensus       322 ~l~~~~~------~~~l~~L~~L~l~~N~i~  346 (347)
T 4fmz_A          322 HITDIRP------LASLSKMDSADFANQVIK  346 (347)
T ss_dssp             SCCCCGG------GGGCTTCSEESSSCC---
T ss_pred             ccccccC------hhhhhccceeehhhhccc
Confidence            9887532      567889999999999886

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

Probab=99.88  E-value=1.4e-21  Score=179.48  Aligned_cols=217  Identities=23%  Similarity=0.264  Sum_probs=149.4

Q ss_pred             ccCCCCCCEecCCCCC--------CCCCCcccccchh-hcccccccCCCc---c-ccCc-ccchhhhhhcCCCCCccEEE
Q 040876          112 LYRLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRLSKCRTGA---K-SSQE-ISDIFDIFSGCVSKGLEILV  177 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l~~~~~~~---~-~~~~-~~~ip~~l~~l~~~~L~~L~  177 (343)
                      +..+++|++|++++|.        .+++|++|++++| +.+.-....+..   + +.+. ....+..+..+  ++|++|+
T Consensus        84 ~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l--~~L~~L~  161 (347)
T 4fmz_A           84 LSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNM--TGLNYLT  161 (347)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTC--TTCCEEE
T ss_pred             hhcCCcCCEEEccCCcccCchHHcCCCcCCEEECcCCcccCchhhccCCceeEEECCCCCCcccccchhhC--CCCcEEE
Confidence            6666666666666665        4455666666666 442110000000   0 0000 01222336777  8888888


Q ss_pred             eecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee
Q 040876          178 LRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT  257 (343)
Q Consensus       178 L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~  257 (343)
                      +++|.+.+..+  +..+++|++|++++|.+.+. +. +..+++|+++++++|.++ .++.  +..+++|++|++++|.++
T Consensus       162 l~~~~~~~~~~--~~~l~~L~~L~l~~n~l~~~-~~-~~~l~~L~~L~l~~n~l~-~~~~--~~~~~~L~~L~l~~n~l~  234 (347)
T 4fmz_A          162 VTESKVKDVTP--IANLTDLYSLSLNYNQIEDI-SP-LASLTSLHYFTAYVNQIT-DITP--VANMTRLNSLKIGNNKIT  234 (347)
T ss_dssp             CCSSCCCCCGG--GGGCTTCSEEECTTSCCCCC-GG-GGGCTTCCEEECCSSCCC-CCGG--GGGCTTCCEEECCSSCCC
T ss_pred             ecCCCcCCchh--hccCCCCCEEEccCCccccc-cc-ccCCCccceeecccCCCC-CCch--hhcCCcCCEEEccCCccC
Confidence            88888875433  77888888888888888743 33 778888888888888887 3332  678889999999998875


Q ss_pred             ----------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccc-cCCCCcEEEccCCccccccCchhhccCCc
Q 040876          258 ----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSL-ISSNLVYLDLFNNSFLGSISHFWCYRSNE  326 (343)
Q Consensus       258 ----------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~-~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~  326 (343)
                                ++.|++++|.+++. +......+|++|++++|++++.... .+++|++|++++|.+++..+    ..+..
T Consensus       235 ~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~----~~l~~  309 (347)
T 4fmz_A          235 DLSPLANLSQLTWLEIGTNQISDI-NAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDM----EVIGG  309 (347)
T ss_dssp             CCGGGTTCTTCCEEECCSSCCCCC-GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCGGGH----HHHHT
T ss_pred             CCcchhcCCCCCEEECCCCccCCC-hhHhcCCCcCEEEccCCccCCChhhcCCCCCCEEECcCCcCCCcCh----hHhhc
Confidence                      67799999988863 3333333999999999999875322 27899999999999987654    45567


Q ss_pred             cccCceEecCCCcccc
Q 040876          327 TKRLRALSLGDNYLQG  342 (343)
Q Consensus       327 l~~L~~L~ls~N~l~g  342 (343)
                      +++|++|++++|++++
T Consensus       310 l~~L~~L~L~~n~l~~  325 (347)
T 4fmz_A          310 LTNLTTLFLSQNHITD  325 (347)
T ss_dssp             CTTCSEEECCSSSCCC
T ss_pred             cccCCEEEccCCcccc
Confidence            8999999999999876

>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=99.88  E-value=3.9e-22  Score=177.62  Aligned_cols=198  Identities=23%  Similarity=0.254  Sum_probs=160.6

Q ss_pred             cEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hccc
Q 040876           76 HIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQR  144 (343)
Q Consensus        76 ~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~  144 (343)
                      .++.|+++++                .+++. .+..+.++++|++|++++|.          .+++|++|++++| +.  
T Consensus        29 ~l~~L~ls~n----------------~l~~~-~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~--   89 (276)
T 2z62_A           29 STKNLDLSFN----------------PLRHL-GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ--   89 (276)
T ss_dssp             TCCEEECTTC----------------CCCEE-CTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCC--
T ss_pred             CccEEECCCC----------------ccccc-CHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccC--
Confidence            4677777764                55553 34478999999999999997          4677999999999 77  


Q ss_pred             ccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccc-cCCccccCCCCCcE
Q 040876          145 LSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVG-LVPLSLNELSKLRI  223 (343)
Q Consensus       145 l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~-~~p~~l~~l~~L~~  223 (343)
                                    +..+..+.++  ++|++|++++|.+++..+..+..+++|++|++++|.+++ .+|..++.+++|++
T Consensus        90 --------------~~~~~~~~~l--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~  153 (276)
T 2z62_A           90 --------------SLALGAFSGL--SSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH  153 (276)
T ss_dssp             --------------EECTTTTTTC--TTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCE
T ss_pred             --------------ccChhhhcCC--ccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCE
Confidence                          3455778899  999999999999997767689999999999999999986 36899999999999


Q ss_pred             EEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc---CC
Q 040876          224 LHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI---SS  300 (343)
Q Consensus       224 L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~---~~  300 (343)
                      |++++|+++ .++...+..+++|+.+.+        .+++++|.+++..+..+...+|++|++++|++++.++..   ++
T Consensus       154 L~Ls~N~l~-~~~~~~~~~l~~L~~l~l--------~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~  224 (276)
T 2z62_A          154 LDLSSNKIQ-SIYCTDLRVLHQMPLLNL--------SLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLT  224 (276)
T ss_dssp             EECCSSCCC-EECGGGGHHHHTCTTCCE--------EEECCSSCCCEECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCC
T ss_pred             EECCCCCCC-cCCHHHhhhhhhccccce--------eeecCCCcccccCccccCCCcccEEECCCCceeecCHhHhcccc
Confidence            999999998 455447777777775433        266677777766666665559999999999999876654   78


Q ss_pred             CCcEEEccCCccccccC
Q 040876          301 NLVYLDLFNNSFLGSIS  317 (343)
Q Consensus       301 ~L~~L~Ls~N~l~~~~~  317 (343)
                      +|++|++++|.+++..+
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            89999999999998664

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

Probab=99.88  E-value=1.5e-21  Score=186.80  Aligned_cols=244  Identities=24%  Similarity=0.305  Sum_probs=131.5

Q ss_pred             CcEEEEecCCCccccccccce-----------eCCCCCCCCCCCCCccccCCCCCCEecCCCCC--------CCCCCccc
Q 040876           75 GHIIELNLRNPFTYYRRSRYK-----------ANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP--------SLASREDQ  135 (343)
Q Consensus        75 ~~v~~l~l~~~~~~~~~~~g~-----------~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------~l~~L~~L  135 (343)
                      .+++.|+++++     .+.+.           +...+|.+++  +++ ++++++|++|++++|.        .+++|++|
T Consensus        68 ~~L~~L~Ls~n-----~l~~~~~~~~l~~L~~L~l~~n~l~~--~~~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L  139 (466)
T 1o6v_A           68 NNLTQINFSNN-----QLTDITPLKNLTKLVDILMNNNQIAD--ITP-LANLTNLTGLTLFNNQITDIDPLKNLTNLNRL  139 (466)
T ss_dssp             TTCCEEECCSS-----CCCCCGGGTTCTTCCEEECCSSCCCC--CGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEE
T ss_pred             cCCCEEECCCC-----ccCCchhhhccccCCEEECCCCcccc--Chh-hcCCCCCCEEECCCCCCCCChHHcCCCCCCEE
Confidence            46778888876     33221           1122666665  444 8888888888888886        56678888


Q ss_pred             ccchh-hcccccccCC---Ccc-ccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccccc
Q 040876          136 DLLSN-IRQRLSKCRT---GAK-SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL  210 (343)
Q Consensus       136 ~l~~n-l~~~l~~~~~---~~~-~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~  210 (343)
                      ++++| +.+.-.-..+   ..+ +...+..++ .+.++  ++|++|++++|.+++. + .+..+++|++|++++|.+++.
T Consensus       140 ~l~~n~l~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~l--~~L~~L~l~~n~l~~~-~-~l~~l~~L~~L~l~~n~l~~~  214 (466)
T 1o6v_A          140 ELSSNTISDISALSGLTSLQQLSFGNQVTDLK-PLANL--TTLERLDISSNKVSDI-S-VLAKLTNLESLIATNNQISDI  214 (466)
T ss_dssp             EEEEEEECCCGGGTTCTTCSEEEEEESCCCCG-GGTTC--TTCCEEECCSSCCCCC-G-GGGGCTTCSEEECCSSCCCCC
T ss_pred             ECCCCccCCChhhccCCcccEeecCCcccCch-hhccC--CCCCEEECcCCcCCCC-h-hhccCCCCCEEEecCCccccc
Confidence            88887 5532100000   000 000011111 14444  5555555555555431 1 244445555555555544433


Q ss_pred             CC--------------------ccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee----------EeE
Q 040876          211 VP--------------------LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKF  260 (343)
Q Consensus       211 ~p--------------------~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~----------l~~  260 (343)
                      .|                    ..+..+++|++|++++|.+++ ++.  +..+++|+.|++++|.++          ++.
T Consensus       215 ~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~-~~~--~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~  291 (466)
T 1o6v_A          215 TPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISN-LAP--LSGLTKLTELKLGANQISNISPLAGLTALTN  291 (466)
T ss_dssp             GGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCC-CGG--GTTCTTCSEEECCSSCCCCCGGGTTCTTCSE
T ss_pred             ccccccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCcccc-chh--hhcCCCCCEEECCCCccCccccccCCCccCe
Confidence            22                    234445555555555555542 221  445555555555555543          445


Q ss_pred             EeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhccCCccccCceEecCCC
Q 040876          261 LDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       261 L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      |++++|++++..+  +... +|++|++++|++++..|.. +++|++|++++|.+++.      ..+..+++|+.|++++|
T Consensus       292 L~L~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~------~~l~~l~~L~~L~l~~n  363 (466)
T 1o6v_A          292 LELNENQLEDISP--ISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDV------SSLANLTNINWLSAGHN  363 (466)
T ss_dssp             EECCSSCCSCCGG--GGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCCCC------GGGTTCTTCCEEECCSS
T ss_pred             EEcCCCcccCchh--hcCCCCCCEEECcCCcCCCchhhccCccCCEeECCCCccCCc------hhhccCCCCCEEeCCCC
Confidence            6666666654333  2233 6666666666666655433 66677777777776653      24567778888888888


Q ss_pred             cccc
Q 040876          339 YLQG  342 (343)
Q Consensus       339 ~l~g  342 (343)
                      +++|
T Consensus       364 ~l~~  367 (466)
T 1o6v_A          364 QISD  367 (466)
T ss_dssp             CCCB
T ss_pred             ccCc
Confidence            7765

>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=99.88  E-value=5.6e-22  Score=174.26  Aligned_cols=190  Identities=24%  Similarity=0.285  Sum_probs=148.7

Q ss_pred             CCCccccceEeCCCCCcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccch
Q 040876           60 GDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLS  139 (343)
Q Consensus        60 ~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~  139 (343)
                      .+||.|.|++|..   ..+.+++++.                .++.  +|..+.  +++++|++++|.            
T Consensus         2 ~~Cp~~~gC~C~~---~~~~l~~~~~----------------~l~~--~p~~~~--~~l~~L~L~~n~------------   46 (251)
T 3m19_A            2 KTCETVTGCTCNE---GKKEVDCQGK----------------SLDS--VPSGIP--ADTEKLDLQSTG------------   46 (251)
T ss_dssp             --CHHHHSSEEEG---GGTEEECTTC----------------CCSS--CCSCCC--TTCCEEECTTSC------------
T ss_pred             ccCCCCCceEcCC---CCeEEecCCC----------------Cccc--cCCCCC--CCCCEEEccCCC------------
Confidence            3688999999953   2345677764                3333  666554  578888888877            


Q ss_pred             hhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCC
Q 040876          140 NIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELS  219 (343)
Q Consensus       140 nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~  219 (343)
                       +.                +..+..+.++  ++|++|++++|.+++..+..+..+++|++|++++|.+++..+..+..++
T Consensus        47 -l~----------------~~~~~~~~~l--~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  107 (251)
T 3m19_A           47 -LA----------------TLSDATFRGL--TKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLT  107 (251)
T ss_dssp             -CC----------------CCCTTTTTTC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCT
T ss_pred             -cC----------------ccCHhHhcCc--ccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccC
Confidence             33                2345568888  9999999999999988888899999999999999999977777789999


Q ss_pred             CCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc
Q 040876          220 KLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI  298 (343)
Q Consensus       220 ~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~  298 (343)
                      +|++|++++|+++ .+|...+..+++|++|++++|            ++++..+..+... +|++|+|++|++++..+..
T Consensus       108 ~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~Ls~N------------~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~  174 (251)
T 3m19_A          108 QLDKLYLGGNQLK-SLPSGVFDRLTKLKELRLNTN------------QLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGA  174 (251)
T ss_dssp             TCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSS------------CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTT
T ss_pred             CCCEEEcCCCcCC-CcChhHhccCCcccEEECcCC------------cCCccCHHHcCcCcCCCEEECCCCcCCccCHHH
Confidence            9999999999998 566546788899888777664            4555555556555 9999999999999877654


Q ss_pred             ---CCCCcEEEccCCcccccc
Q 040876          299 ---SSNLVYLDLFNNSFLGSI  316 (343)
Q Consensus       299 ---~~~L~~L~Ls~N~l~~~~  316 (343)
                         +++|++|++++|.+.+..
T Consensus       175 ~~~l~~L~~L~l~~N~~~c~~  195 (251)
T 3m19_A          175 FDRLGKLQTITLFGNQFDCSR  195 (251)
T ss_dssp             TTTCTTCCEEECCSCCBCTTS
T ss_pred             HhCCCCCCEEEeeCCceeCCc
Confidence               678999999999998763

>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=99.88  E-value=1.3e-23  Score=196.19  Aligned_cols=228  Identities=18%  Similarity=0.199  Sum_probs=172.6

Q ss_pred             CCccccCCCCCCEecCCCCC--------------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCC
Q 040876          108 IPSWLYRLTHLEQLSVADRP--------------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKG  172 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~--------------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~  172 (343)
                      ++..+..+++|++|+|++|.              .+++|++|++++| +.. +..     ..+..+..+...+..+  ++
T Consensus        24 l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~-l~~-----~~~~~~~~l~~~l~~~--~~   95 (386)
T 2ca6_A           24 VFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGR-VKD-----EIPEALRLLLQALLKC--PK   95 (386)
T ss_dssp             TSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTS-CGG-----GSHHHHHHHHHHHTTC--TT
T ss_pred             HHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCc-ccc-----chhHHHHHHHHHHhhC--Cc
Confidence            67778889999999999987              4677899998886 321 000     0000112233344788  99


Q ss_pred             ccEEEeecCcccc----ccchhccCCCCCCEEECcCCcccccCCcccc----CC---------CCCcEEEccCccCc-cc
Q 040876          173 LEILVLRSSSISG----HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLN----EL---------SKLRILHLSDNKLN-GT  234 (343)
Q Consensus       173 L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~----~l---------~~L~~L~l~~N~l~-g~  234 (343)
                      |++|+|++|.+++    .+|..+..+++|++|++++|.++...+..+.    .+         ++|++|++++|+++ +.
T Consensus        96 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~  175 (386)
T 2ca6_A           96 LHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGS  175 (386)
T ss_dssp             CCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGG
T ss_pred             ccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHH
Confidence            9999999999997    5788889999999999999999755444443    33         89999999999997 34


Q ss_pred             cCh--HhhhcCCCCCeEEecCceee-----------------EeEEeccCCccc----ccCCCccccc-CCCeEeCcCCc
Q 040876          235 LSE--IHFVNLTKLSVFSVNENNLT-----------------LKFLDLGENQIH----GEMTNLTNAT-QLWYLRLHSNN  290 (343)
Q Consensus       235 ~p~--~~~~~l~~L~~L~l~~n~l~-----------------l~~L~ls~n~l~----~~~~~~~~~~-~L~~L~Ls~N~  290 (343)
                      ++.  ..+..+++|++|++++|.++                 ++.|++++|.++    +.+|..+... +|++|+|++|.
T Consensus       176 ~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~  255 (386)
T 2ca6_A          176 MKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL  255 (386)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC
T ss_pred             HHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCC
Confidence            542  25678899999999999875                 667999999996    4566666665 99999999999


Q ss_pred             ccCc----cccc-----CCCCcEEEccCCccccccCchhhccC-CccccCceEecCCCccccC
Q 040876          291 FSGP----LSLI-----SSNLVYLDLFNNSFLGSISHFWCYRS-NETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       291 l~~~----~~~~-----~~~L~~L~Ls~N~l~~~~~~~l~~~l-~~l~~L~~L~ls~N~l~g~  343 (343)
                      +++.    ++..     +++|++|+|++|.+++.....+|..+ .++++|++|++++|++++.
T Consensus       256 i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~  318 (386)
T 2ca6_A          256 LSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEE  318 (386)
T ss_dssp             CCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTT
T ss_pred             CchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcCCcc
Confidence            9874    3332     68899999999999884333455555 5679999999999999874

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

Probab=99.88  E-value=2.1e-21  Score=185.77  Aligned_cols=161  Identities=29%  Similarity=0.377  Sum_probs=136.2

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      ++.+  ++|++|++++|.+++ + ..+..+++|++|++++|.+++..|  +..+++|++|++++|.++ .++.  +..++
T Consensus       217 ~~~l--~~L~~L~l~~n~l~~-~-~~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~-~~~~--~~~l~  287 (466)
T 1o6v_A          217 LGIL--TNLDELSLNGNQLKD-I-GTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQIS-NISP--LAGLT  287 (466)
T ss_dssp             GGGC--TTCCEEECCSSCCCC-C-GGGGGCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCC-CCGG--GTTCT
T ss_pred             cccc--CCCCEEECCCCCccc-c-hhhhcCCCCCEEECCCCccccchh--hhcCCCCCEEECCCCccC-cccc--ccCCC
Confidence            5667  888888888888875 3 357889999999999999986544  889999999999999998 4443  77899


Q ss_pred             CCCeEEecCceee----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCcc
Q 040876          245 KLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSF  312 (343)
Q Consensus       245 ~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l  312 (343)
                      +|+.|++++|.++          ++.|++++|++++..|  +... +|++|++++|++++..... +++|++|++++|++
T Consensus       288 ~L~~L~L~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l  365 (466)
T 1o6v_A          288 ALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNKVSDVSSLANLTNINWLSAGHNQI  365 (466)
T ss_dssp             TCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSCCGG--GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCC
T ss_pred             ccCeEEcCCCcccCchhhcCCCCCCEEECcCCcCCCchh--hccCccCCEeECCCCccCCchhhccCCCCCEEeCCCCcc
Confidence            9999999999875          7789999999998766  3444 9999999999999863322 88999999999999


Q ss_pred             ccccCchhhccCCccccCceEecCCCcccc
Q 040876          313 LGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       313 ~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++..|      +..+++|+.|++++|++++
T Consensus       366 ~~~~~------~~~l~~L~~L~l~~n~~~~  389 (466)
T 1o6v_A          366 SDLTP------LANLTRITQLGLNDQAWTN  389 (466)
T ss_dssp             CBCGG------GTTCTTCCEEECCCEEEEC
T ss_pred             Cccch------hhcCCCCCEEeccCCcccC
Confidence            88643      5789999999999999886

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.87  E-value=1.1e-21  Score=191.83  Aligned_cols=146  Identities=23%  Similarity=0.282  Sum_probs=99.3

Q ss_pred             CcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcc
Q 040876           75 GHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQ  143 (343)
Q Consensus        75 ~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~  143 (343)
                      .+++.|+++++                .+++. .+..+.++++|++|++++|.          .+++|++|++++| +. 
T Consensus        28 ~~l~~L~Ls~n----------------~l~~~-~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~-   89 (570)
T 2z63_A           28 FSTKNLDLSFN----------------PLRHL-GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ-   89 (570)
T ss_dssp             SSCCEEECCSC----------------CCCEE-CTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCC-
T ss_pred             ccccEEEccCC----------------ccCcc-ChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCC-
Confidence            45778888775                44443 44567788888888888876          4567888888877 65 


Q ss_pred             cccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccc-cCCccccCCCCCc
Q 040876          144 RLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVG-LVPLSLNELSKLR  222 (343)
Q Consensus       144 ~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~-~~p~~l~~l~~L~  222 (343)
                                     +..|..+.++  ++|++|++++|.+++..+..++++++|++|++++|.+++ .+|..++++++|+
T Consensus        90 ---------------~~~~~~~~~l--~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~  152 (570)
T 2z63_A           90 ---------------SLALGAFSGL--SSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLE  152 (570)
T ss_dssp             ---------------EECTTTTTTC--TTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCC
T ss_pred             ---------------ccCHhhhcCc--cccccccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCC
Confidence                           2334567777  777777777777775444457777777777777777765 3577777777777


Q ss_pred             EEEccCccCccccChHhhhcCCCC----CeEEecCcee
Q 040876          223 ILHLSDNKLNGTLSEIHFVNLTKL----SVFSVNENNL  256 (343)
Q Consensus       223 ~L~l~~N~l~g~~p~~~~~~l~~L----~~L~l~~n~l  256 (343)
                      +|++++|.+++..+. .+..+++|    +.+++++|.+
T Consensus       153 ~L~l~~n~l~~~~~~-~~~~l~~L~~~~~~L~l~~n~l  189 (570)
T 2z63_A          153 HLDLSSNKIQSIYCT-DLRVLHQMPLLNLSLDLSLNPM  189 (570)
T ss_dssp             EEECTTSCCCEECGG-GGHHHHTCTTCCCEEECTTCCC
T ss_pred             EEeCcCCccceecHH-HccchhccchhhhhcccCCCCc
Confidence            777777777633333 56666666    5666666654

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.87  E-value=1.8e-21  Score=184.89  Aligned_cols=202  Identities=23%  Similarity=0.256  Sum_probs=168.3

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEee
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLR  179 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~  179 (343)
                      ++.++.  +|..+.  +++++|+|++|.             +.                +..+..+.++  ++|++|+|+
T Consensus        52 ~~~l~~--iP~~~~--~~l~~L~L~~n~-------------i~----------------~~~~~~~~~l--~~L~~L~Ls   96 (440)
T 3zyj_A           52 RKNLRE--VPDGIS--TNTRLLNLHENQ-------------IQ----------------IIKVNSFKHL--RHLEILQLS   96 (440)
T ss_dssp             SCCCSS--CCSCCC--TTCSEEECCSCC-------------CC----------------EECTTTTSSC--SSCCEEECC
T ss_pred             CCCcCc--CCCCCC--CCCcEEEccCCc-------------CC----------------eeCHHHhhCC--CCCCEEECC
Confidence            344554  777665  678888888876             33                2344678889  999999999


Q ss_pred             cCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCce-e--
Q 040876          180 SSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN-L--  256 (343)
Q Consensus       180 ~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~-l--  256 (343)
                      +|.+++..+..|.++++|++|++++|+++...+..+..+++|++|++++|.++ .++...|..+++|+.|++++|+ +  
T Consensus        97 ~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~-~~~~~~~~~l~~L~~L~l~~~~~l~~  175 (440)
T 3zyj_A           97 RNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIE-SIPSYAFNRIPSLRRLDLGELKRLSY  175 (440)
T ss_dssp             SSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCC-EECTTTTTTCTTCCEEECCCCTTCCE
T ss_pred             CCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCccc-ccCHHHhhhCcccCEeCCCCCCCcce
Confidence            99999887889999999999999999999666667999999999999999998 6666588999999999999853 2  


Q ss_pred             ----------eEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhcc
Q 040876          257 ----------TLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYR  323 (343)
Q Consensus       257 ----------~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~  323 (343)
                                .++.|++++|+++ .+|......+|++|+|++|++++..|..   +++|++|++++|.+++..+    ..
T Consensus       176 i~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~----~~  250 (440)
T 3zyj_A          176 ISEGAFEGLSNLRYLNLAMCNLR-EIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIER----NA  250 (440)
T ss_dssp             ECTTTTTTCSSCCEEECTTSCCS-SCCCCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECT----TS
T ss_pred             eCcchhhcccccCeecCCCCcCc-cccccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEECh----hh
Confidence                      2778999999998 4565444449999999999999877765   7899999999999998654    56


Q ss_pred             CCccccCceEecCCCcccc
Q 040876          324 SNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       324 l~~l~~L~~L~ls~N~l~g  342 (343)
                      +..+++|+.|++++|+|++
T Consensus       251 ~~~l~~L~~L~L~~N~l~~  269 (440)
T 3zyj_A          251 FDNLQSLVEINLAHNNLTL  269 (440)
T ss_dssp             STTCTTCCEEECTTSCCCC
T ss_pred             hcCCCCCCEEECCCCCCCc
Confidence            7889999999999999875

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.87  E-value=2.2e-21  Score=185.07  Aligned_cols=159  Identities=23%  Similarity=0.249  Sum_probs=91.8

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      ++.+  ++|++|++++|++++ ++  ++.+++|++|++++|...+.+  .++.+++|++|++++|++++ +|   +..++
T Consensus       123 ~~~l--~~L~~L~l~~N~l~~-l~--l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~ls~n~l~~-l~---l~~l~  191 (457)
T 3bz5_A          123 VSQN--PLLTYLNCARNTLTE-ID--VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNKITE-LD---VSQNK  191 (457)
T ss_dssp             CTTC--TTCCEEECTTSCCSC-CC--CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEECCSSCCCC-CC---CTTCT
T ss_pred             CCCC--CcCCEEECCCCccce-ec--cccCCcCCEEECCCCCccccc--ccccCCcCCEEECCCCccce-ec---cccCC
Confidence            4555  566666666666654 22  555666666666666444344  35566666666666666663 44   45566


Q ss_pred             CCCeEEecCceee---------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEcc-------
Q 040876          245 KLSVFSVNENNLT---------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLF-------  308 (343)
Q Consensus       245 ~L~~L~l~~n~l~---------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls-------  308 (343)
                      +|+.|++++|.++         ++.|++++|++++ +| .....+|++|++++|++++..+..+++|+.|+++       
T Consensus       192 ~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N~l~~-ip-~~~l~~L~~L~l~~N~l~~~~~~~l~~L~~L~l~~n~L~~L  269 (457)
T 3bz5_A          192 LLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTE-ID-VTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLLEI  269 (457)
T ss_dssp             TCCEEECCSSCCSCCCCTTCTTCSEEECCSSCCSC-CC-CTTCTTCSEEECCSSCCSCCCCTTCTTCCEEECTTCCCSCC
T ss_pred             CCCEEECcCCcCCeeccccCCCCCEEECcCCcccc-cC-ccccCCCCEEEeeCCcCCCcCHHHCCCCCEEeccCCCCCEE
Confidence            6677776666653         5566777777765 34 2222267777777777766554444444444333       


Q ss_pred             ---CCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          309 ---NNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       309 ---~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                         +|.+.+.+    |  ++.+++|+.|++++|.+.|
T Consensus       270 ~l~~n~~~~~~----~--~~~l~~L~~L~Ls~n~~l~  300 (457)
T 3bz5_A          270 DLTHNTQLIYF----Q--AEGCRKIKELDVTHNTQLY  300 (457)
T ss_dssp             CCTTCTTCCEE----E--CTTCTTCCCCCCTTCTTCC
T ss_pred             ECCCCccCCcc----c--ccccccCCEEECCCCcccc
Confidence               33333322    2  2456788888888887544

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.87  E-value=4.7e-21  Score=182.64  Aligned_cols=104  Identities=22%  Similarity=0.214  Sum_probs=62.3

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCC
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKG  172 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~  172 (343)
                      +|.+++  +| .++++++|++|++++|.      ...+|++|++++| +.+                 +| .++++  ++
T Consensus       140 ~n~l~~--lp-~~~~l~~L~~L~l~~N~l~~lp~~~~~L~~L~L~~n~l~~-----------------l~-~~~~l--~~  196 (454)
T 1jl5_A          140 NNQLEK--LP-ELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEE-----------------LP-ELQNL--PF  196 (454)
T ss_dssp             SSCCSS--CC-CCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSS-----------------CC-CCTTC--TT
T ss_pred             CCCCCC--Cc-ccCCCCCCCEEECCCCcCcccCCCcccccEEECcCCcCCc-----------------Cc-cccCC--CC
Confidence            677775  67 58889999999999887      3346888888888 663                 33 24444  44


Q ss_pred             --------------------ccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCc
Q 040876          173 --------------------LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN  232 (343)
Q Consensus       173 --------------------L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~  232 (343)
                                          |++|++++|.++ .+|. ++.+++|++|++++|++++ +|..   +++|++|++++|+++
T Consensus       197 L~~L~l~~N~l~~l~~~~~~L~~L~l~~n~l~-~lp~-~~~l~~L~~L~l~~N~l~~-l~~~---~~~L~~L~l~~N~l~  270 (454)
T 1jl5_A          197 LTAIYADNNSLKKLPDLPLSLESIVAGNNILE-ELPE-LQNLPFLTTIYADNNLLKT-LPDL---PPSLEALNVRDNYLT  270 (454)
T ss_dssp             CCEEECCSSCCSSCCCCCTTCCEEECCSSCCS-SCCC-CTTCTTCCEEECCSSCCSS-CCSC---CTTCCEEECCSSCCS
T ss_pred             CCEEECCCCcCCcCCCCcCcccEEECcCCcCC-cccc-cCCCCCCCEEECCCCcCCc-cccc---ccccCEEECCCCccc
Confidence                                445555555554 3442 5555556666666665552 3322   244555555555544

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.87  E-value=4.2e-22  Score=177.22  Aligned_cols=136  Identities=23%  Similarity=0.288  Sum_probs=74.8

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+..+  ++|++|++++|.+++..+..+..+++|++|++++|++++..+..++.+++|++|++++|.++ .+|...+..+
T Consensus        80 ~l~~l--~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l  156 (272)
T 3rfs_A           80 ALKEL--TNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQ-SLPKGVFDKL  156 (272)
T ss_dssp             GGTTC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTC
T ss_pred             hhcCC--CCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCccC-ccCHHHhccC
Confidence            45555  66666666666666555555566666666666666666554445566666666666666665 3333245556


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccc
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~  314 (343)
                      ++|+.|++++|.            +++..+..+... +|++|++++|++++.++..   +++|++|++++|.+.+
T Consensus       157 ~~L~~L~l~~n~------------l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~  219 (272)
T 3rfs_A          157 TNLTELDLSYNQ------------LQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC  219 (272)
T ss_dssp             TTCCEEECCSSC------------CCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             ccCCEEECCCCC------------cCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCCCccc
Confidence            666665555433            333333333333 5555555555555544432   4455555555555543

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.87  E-value=5.3e-22  Score=189.19  Aligned_cols=216  Identities=17%  Similarity=0.176  Sum_probs=118.4

Q ss_pred             CcEEEEecCCCccccccccceeCCC-------------CCCCCCCCCCccccCCCCC-------------CEecCCCCC-
Q 040876           75 GHIIELNLRNPFTYYRRSRYKANPR-------------SMLVGKGPIPSWLYRLTHL-------------EQLSVADRP-  127 (343)
Q Consensus        75 ~~v~~l~l~~~~~~~~~~~g~~~~~-------------~n~~~~~~ip~~l~~l~~L-------------~~L~Ls~n~-  127 (343)
                      .+++.++++++     .+ |++|..             +|.+.+. +|..++++++|             ++|++++|. 
T Consensus        11 ~~L~~L~l~~n-----~l-~~iP~~i~~L~~L~~L~l~~n~~~~~-~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l   83 (454)
T 1jl5_A           11 TFLQEPLRHSS-----NL-TEMPVEAENVKSKTEYYNAWSEWERN-APPGNGEQREMAVSRLRDCLDRQAHELELNNLGL   83 (454)
T ss_dssp             -----------------------------CCHHHHHHHHHHHHHT-SCTTSCCCHHHHHHHHHHHHHHTCSEEECTTSCC
T ss_pred             ccchhhhcccC-----ch-hhCChhHhcccchhhhhccCCccccc-CCcccccchhcchhhhhhhhccCCCEEEecCCcc
Confidence            35666666665     45 566644             4455554 77777766654             677777665 


Q ss_pred             -----CCCCCcccccchh-hccccccc--CCCcc--ccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCC
Q 040876          128 -----SLASREDQDLLSN-IRQRLSKC--RTGAK--SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNL  197 (343)
Q Consensus       128 -----~l~~L~~L~l~~n-l~~~l~~~--~~~~~--~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L  197 (343)
                           ..++|++|++++| +++. +..  .+..+  ....+..+|..   .  ++|++|++++|++++ +| .++++++|
T Consensus        84 ~~lp~~~~~L~~L~l~~n~l~~l-p~~~~~L~~L~l~~n~l~~l~~~---~--~~L~~L~L~~n~l~~-lp-~~~~l~~L  155 (454)
T 1jl5_A           84 SSLPELPPHLESLVASCNSLTEL-PELPQSLKSLLVDNNNLKALSDL---P--PLLEYLGVSNNQLEK-LP-ELQNSSFL  155 (454)
T ss_dssp             SCCCSCCTTCSEEECCSSCCSSC-CCCCTTCCEEECCSSCCSCCCSC---C--TTCCEEECCSSCCSS-CC-CCTTCTTC
T ss_pred             ccCCCCcCCCCEEEccCCcCCcc-ccccCCCcEEECCCCccCcccCC---C--CCCCEEECcCCCCCC-Cc-ccCCCCCC
Confidence                 1234666676666 5431 100  00000  00011122211   1  467788888887775 66 47778888


Q ss_pred             CEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee--------EeEEeccCCccc
Q 040876          198 DTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------LKFLDLGENQIH  269 (343)
Q Consensus       198 ~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~--------l~~L~ls~n~l~  269 (343)
                      ++|++++|++++ +|..+   ++|++|++++|++++ +|  .+..+++|++|++++|.++        ++.|++++|.++
T Consensus       156 ~~L~l~~N~l~~-lp~~~---~~L~~L~L~~n~l~~-l~--~~~~l~~L~~L~l~~N~l~~l~~~~~~L~~L~l~~n~l~  228 (454)
T 1jl5_A          156 KIIDVDNNSLKK-LPDLP---PSLEFIAAGNNQLEE-LP--ELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILE  228 (454)
T ss_dssp             CEEECCSSCCSC-CCCCC---TTCCEEECCSSCCSS-CC--CCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCS
T ss_pred             CEEECCCCcCcc-cCCCc---ccccEEECcCCcCCc-Cc--cccCCCCCCEEECCCCcCCcCCCCcCcccEEECcCCcCC
Confidence            888888887774 55433   477788888887773 55  3677788888888887764        566777777777


Q ss_pred             ccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEccCCcccc
Q 040876          270 GEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLG  314 (343)
Q Consensus       270 ~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~  314 (343)
                       .+|......+|++|++++|++++ +|..+++|++|++++|.+++
T Consensus       229 -~lp~~~~l~~L~~L~l~~N~l~~-l~~~~~~L~~L~l~~N~l~~  271 (454)
T 1jl5_A          229 -ELPELQNLPFLTTIYADNNLLKT-LPDLPPSLEALNVRDNYLTD  271 (454)
T ss_dssp             -SCCCCTTCTTCCEEECCSSCCSS-CCSCCTTCCEEECCSSCCSC
T ss_pred             -cccccCCCCCCCEEECCCCcCCc-ccccccccCEEECCCCcccc
Confidence             55543322377777777777765 33344556666666665554

>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=99.87  E-value=3.8e-21  Score=172.65  Aligned_cols=192  Identities=22%  Similarity=0.185  Sum_probs=141.9

Q ss_pred             ccCCCCCCEecCCCCC--C-----CCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcc
Q 040876          112 LYRLTHLEQLSVADRP--S-----LASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSI  183 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~--~-----l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l  183 (343)
                      +++++++++++++++.  .     .++++.|++++| +.                +..|..+.++  ++|++|++++|.+
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~~~~l~~L~L~~N~l~----------------~~~~~~~~~l--~~L~~L~L~~n~l   67 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDLPKDTTILHLSENLLY----------------TFSLATLMPY--TRLTQLNLDRAEL   67 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCCCTTCCEEECTTSCCS----------------EEEGGGGTTC--TTCCEEECTTSCC
T ss_pred             ccccCCccEEECCCCCCCcCCCCCCCCCCEEEcCCCcCC----------------ccCHHHhhcC--CCCCEEECCCCcc
Confidence            5566667777776665  1     124666666666 65                3456678888  8899999999988


Q ss_pred             ccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEec
Q 040876          184 SGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDL  263 (343)
Q Consensus       184 ~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~l  263 (343)
                      ++ ++.. +.+++|++|++++|.++ .+|..+..+++|++|++++|+++ .+|...|..+++|++|++++|         
T Consensus        68 ~~-~~~~-~~l~~L~~L~Ls~N~l~-~l~~~~~~l~~L~~L~l~~N~l~-~l~~~~~~~l~~L~~L~L~~N---------  134 (290)
T 1p9a_G           68 TK-LQVD-GTLPVLGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLKGN---------  134 (290)
T ss_dssp             CE-EECC-SCCTTCCEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCC-CCCSSTTTTCTTCCEEECTTS---------
T ss_pred             Cc-ccCC-CCCCcCCEEECCCCcCC-cCchhhccCCCCCEEECCCCcCc-ccCHHHHcCCCCCCEEECCCC---------
Confidence            85 3433 77888999999999888 77888888889999999999888 455437888888888776654         


Q ss_pred             cCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCc
Q 040876          264 GENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNY  339 (343)
Q Consensus       264 s~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~  339 (343)
                         ++++..+..+... +|+.|++++|++++..+..   +++|++|++++|.++. +    |..+...++|+.+++++|+
T Consensus       135 ---~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~-i----p~~~~~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          135 ---ELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYT-I----PKGFFGSHLLPFAFLHGNP  206 (290)
T ss_dssp             ---CCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCC-C----CTTTTTTCCCSEEECCSCC
T ss_pred             ---CCCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCCc-c----ChhhcccccCCeEEeCCCC
Confidence               4555555555555 8999999999998766543   6789999999999874 3    4556667789999999998


Q ss_pred             ccc
Q 040876          340 LQG  342 (343)
Q Consensus       340 l~g  342 (343)
                      +..
T Consensus       207 ~~C  209 (290)
T 1p9a_G          207 WLC  209 (290)
T ss_dssp             BCC
T ss_pred             ccC
Confidence            753

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.87  E-value=1.2e-22  Score=188.03  Aligned_cols=222  Identities=14%  Similarity=0.117  Sum_probs=166.4

Q ss_pred             CCCCCCCCCccccCCCCCCEecCCCCC--------------CCC-CCcccccchh-hcccccccCCCccccCcccchhhh
Q 040876          101 MLVGKGPIPSWLYRLTHLEQLSVADRP--------------SLA-SREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDI  164 (343)
Q Consensus       101 n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------------~l~-~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~  164 (343)
                      |++++. +|..+...++|++|++++|.              .++ +|++|++++| +.+                ..+..
T Consensus         8 n~~~~~-~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~----------------~~~~~   70 (362)
T 3goz_A            8 HPGSNP-VEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGF----------------KNSDE   70 (362)
T ss_dssp             CTTCCH-HHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGG----------------SCHHH
T ss_pred             ccchHH-HHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCH----------------HHHHH
Confidence            466665 77777777789999999998              455 7999999998 762                33444


Q ss_pred             hhc-----CCCCCccEEEeecCccccccchhcc----CC-CCCCEEECcCCcccccCCcccc----C-CCCCcEEEccCc
Q 040876          165 FSG-----CVSKGLEILVLRSSSISGHLTEQIG----HF-KNLDTLDLGNNSIVGLVPLSLN----E-LSKLRILHLSDN  229 (343)
Q Consensus       165 l~~-----l~~~~L~~L~L~~n~l~~~~p~~l~----~l-~~L~~L~Ls~N~l~~~~p~~l~----~-l~~L~~L~l~~N  229 (343)
                      +..     .  ++|++|++++|.+++..+..+.    .+ ++|++|++++|.+++..+..+.    . .++|++|++++|
T Consensus        71 l~~~l~~~~--~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N  148 (362)
T 3goz_A           71 LVQILAAIP--ANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGN  148 (362)
T ss_dssp             HHHHHHTSC--TTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTS
T ss_pred             HHHHHhccC--CCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCC
Confidence            433     3  6899999999999877666544    44 8999999999999876665543    3 368999999999


Q ss_pred             cCccc----cChHhhhcCC-CCCeEEecCceee-----------------EeEEeccCCccccc----CCCcccc-c-CC
Q 040876          230 KLNGT----LSEIHFVNLT-KLSVFSVNENNLT-----------------LKFLDLGENQIHGE----MTNLTNA-T-QL  281 (343)
Q Consensus       230 ~l~g~----~p~~~~~~l~-~L~~L~l~~n~l~-----------------l~~L~ls~n~l~~~----~~~~~~~-~-~L  281 (343)
                      .+++.    ++. .+...+ +|++|++++|.++                 ++.||+++|.+++.    ++..+.. . +|
T Consensus       149 ~l~~~~~~~l~~-~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L  227 (362)
T 3goz_A          149 DLGIKSSDELIQ-ILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHV  227 (362)
T ss_dssp             CGGGSCHHHHHH-HHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTC
T ss_pred             cCCHHHHHHHHH-HHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCc
Confidence            98743    333 345555 8999999999873                 66799999999863    3333433 4 89


Q ss_pred             CeEeCcCCcccCccc-------ccCCCCcEEEccCCcccccc---CchhhccCCccccCceEecCCCcccc
Q 040876          282 WYLRLHSNNFSGPLS-------LISSNLVYLDLFNNSFLGSI---SHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       282 ~~L~Ls~N~l~~~~~-------~~~~~L~~L~Ls~N~l~~~~---~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++|+|++|.+++..+       ..+++|++|++++|.+.+..   ...++..+..+++|+.||+++|++.+
T Consensus       228 ~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~l~~  298 (362)
T 3goz_A          228 VSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEIHP  298 (362)
T ss_dssp             CEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCBCCG
T ss_pred             eEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCcCCC
Confidence            999999999987554       23688999999999955433   23456677889999999999999875

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.86  E-value=6.5e-21  Score=181.83  Aligned_cols=167  Identities=19%  Similarity=0.150  Sum_probs=123.6

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      ++.+  ++|++|++++|...+.+  .+..+++|++|++++|++++ +|  ++.+++|++|++++|++++ ++   +..++
T Consensus       144 l~~l--~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~ls~n~l~~-l~--l~~l~~L~~L~l~~N~l~~-~~---l~~l~  212 (457)
T 3bz5_A          144 VSHN--TQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNKITE-LD--VSQNKLLNRLNCDTNNITK-LD---LNQNI  212 (457)
T ss_dssp             CTTC--TTCCEEECTTCSCCCCC--CCTTCTTCCEEECCSSCCCC-CC--CTTCTTCCEEECCSSCCSC-CC---CTTCT
T ss_pred             cccC--CcCCEEECCCCCccccc--ccccCCcCCEEECCCCccce-ec--cccCCCCCEEECcCCcCCe-ec---cccCC
Confidence            6677  88899999888655555  37788889999999998885 45  7788889999999998874 32   66788


Q ss_pred             CCCeEEecCceee---------EeEEeccCCcccccCCCccccc--------CCCeEeCcCCcccCccccc-CCCCcEEE
Q 040876          245 KLSVFSVNENNLT---------LKFLDLGENQIHGEMTNLTNAT--------QLWYLRLHSNNFSGPLSLI-SSNLVYLD  306 (343)
Q Consensus       245 ~L~~L~l~~n~l~---------l~~L~ls~n~l~~~~~~~~~~~--------~L~~L~Ls~N~l~~~~~~~-~~~L~~L~  306 (343)
                      +|+.|++++|+++         ++.|++++|++++..+..+...        +|+.|++++|.+.+.+|.. +++|+.|+
T Consensus       213 ~L~~L~Ls~N~l~~ip~~~l~~L~~L~l~~N~l~~~~~~~l~~L~~L~l~~n~L~~L~l~~n~~~~~~~~~~l~~L~~L~  292 (457)
T 3bz5_A          213 QLTFLDCSSNKLTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELD  292 (457)
T ss_dssp             TCSEEECCSSCCSCCCCTTCTTCSEEECCSSCCSCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCTTCCCCC
T ss_pred             CCCEEECcCCcccccCccccCCCCEEEeeCCcCCCcCHHHCCCCCEEeccCCCCCEEECCCCccCCcccccccccCCEEE
Confidence            8999999888875         6778889998887543322211        4566677777766666654 68888999


Q ss_pred             ccCCccccccCchhhc----cCCccccCceEecCCCcccc
Q 040876          307 LFNNSFLGSISHFWCY----RSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       307 Ls~N~l~~~~~~~l~~----~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +++|...+.+|...+.    .+..+++|++|++++|+|+|
T Consensus       293 Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~l~~  332 (457)
T 3bz5_A          293 VTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTELTE  332 (457)
T ss_dssp             CTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCCCSC
T ss_pred             CCCCcccceeccCCCcceEechhhcccCCEEECCCCcccc
Confidence            9998877766532111    25667888889999988876

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.85  E-value=3e-21  Score=185.65  Aligned_cols=188  Identities=22%  Similarity=0.203  Sum_probs=124.5

Q ss_pred             CCccccCCC----CCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcc
Q 040876          108 IPSWLYRLT----HLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSI  183 (343)
Q Consensus       108 ip~~l~~l~----~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l  183 (343)
                      +|..+..+.    +|++|+|++|.             +.                +..|..+..+  ++|++|+|++|.+
T Consensus        22 l~~~l~~l~~~~~~L~~L~Ls~n~-------------l~----------------~~~~~~~~~l--~~L~~L~Ls~N~l   70 (487)
T 3oja_A           22 LKQALASLRQSAWNVKELDLSGNP-------------LS----------------QISAADLAPF--TKLELLNLSSNVL   70 (487)
T ss_dssp             HHHHHHTTSTTGGGCCEEECCSSC-------------CC----------------CCCGGGGTTC--TTCCEEECTTSCC
T ss_pred             hHHHHHHhcccCCCccEEEeeCCc-------------CC----------------CCCHHHHhCC--CCCCEEEeeCCCC
Confidence            666665554    79999998887             22                1233455555  5666666666665


Q ss_pred             ccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee------
Q 040876          184 SGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------  257 (343)
Q Consensus       184 ~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~------  257 (343)
                      ++..|  +..+++|++|++++|.+++. |    ..++|++|++++|.+++..+.    .+++|+.|++++|.++      
T Consensus        71 ~~~~~--l~~l~~L~~L~Ls~N~l~~l-~----~~~~L~~L~L~~N~l~~~~~~----~l~~L~~L~L~~N~l~~~~~~~  139 (487)
T 3oja_A           71 YETLD--LESLSTLRTLDLNNNYVQEL-L----VGPSIETLHAANNNISRVSCS----RGQGKKNIYLANNKITMLRDLD  139 (487)
T ss_dssp             EEEEE--CTTCTTCCEEECCSSEEEEE-E----ECTTCCEEECCSSCCCCEEEC----CCSSCEEEECCSSCCCSGGGBC
T ss_pred             CCCcc--cccCCCCCEEEecCCcCCCC-C----CCCCcCEEECcCCcCCCCCcc----ccCCCCEEECCCCCCCCCCchh
Confidence            54443  55556666666666655522 1    125556666666655532221    2455555666555543      


Q ss_pred             ------EeEEeccCCcccccCCCccc-cc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhccCCccc
Q 040876          258 ------LKFLDLGENQIHGEMTNLTN-AT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRSNETK  328 (343)
Q Consensus       258 ------l~~L~ls~n~l~~~~~~~~~-~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~  328 (343)
                            ++.|++++|.+++.+|..+. .. +|++|+|++|.+++..+.. +++|++|+|++|.+++..     ..+..++
T Consensus       140 ~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~Ls~N~l~~~~-----~~~~~l~  214 (487)
T 3oja_A          140 EGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMG-----PEFQSAA  214 (487)
T ss_dssp             GGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEEC-----GGGGGGT
T ss_pred             hcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccccccccCCCCCEEECCCCCCCCCC-----HhHcCCC
Confidence                  45567777888877766654 34 9999999999999875544 889999999999999743     3467889


Q ss_pred             cCceEecCCCcccc
Q 040876          329 RLRALSLGDNYLQG  342 (343)
Q Consensus       329 ~L~~L~ls~N~l~g  342 (343)
                      +|+.|++++|.|++
T Consensus       215 ~L~~L~Ls~N~l~~  228 (487)
T 3oja_A          215 GVTWISLRNNKLVL  228 (487)
T ss_dssp             TCSEEECTTSCCCE
T ss_pred             CccEEEecCCcCcc
Confidence            99999999999875

>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=99.85  E-value=3.4e-22  Score=182.79  Aligned_cols=235  Identities=19%  Similarity=0.202  Sum_probs=150.0

Q ss_pred             CCCccccceEeCCCCCcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCC--CCCCEecCCCCC---------C
Q 040876           60 GDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRL--THLEQLSVADRP---------S  128 (343)
Q Consensus        60 ~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l--~~L~~L~Ls~n~---------~  128 (343)
                      .-|..|.++.|+.  ..++.+++++.     .+.               |..+..+  +++++|++++|.         .
T Consensus        34 ~vc~~W~~~~~~~--~~~~~l~l~~~-----~~~---------------~~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~   91 (336)
T 2ast_B           34 GVCKRWYRLASDE--SLWQTLDLTGK-----NLH---------------PDVTGRLLSQGVIAFRCPRSFMDQPLAEHFS   91 (336)
T ss_dssp             SSCHHHHHHHTCS--TTSSEEECTTC-----BCC---------------HHHHHHHHHTTCSEEECTTCEECSCCCSCCC
T ss_pred             HHHHHHHHHhcCc--hhheeeccccc-----cCC---------------HHHHHhhhhccceEEEcCCccccccchhhcc
Confidence            4456799888753  34677888765     111               2223333  444555554443         2


Q ss_pred             CCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCC-c
Q 040876          129 LASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNN-S  206 (343)
Q Consensus       129 l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N-~  206 (343)
                      +++|++|++++| +.+               ..+|..+..+  ++|++|++++|.+++..+..++++++|++|++++| .
T Consensus        92 ~~~L~~L~L~~~~l~~---------------~~~~~~~~~~--~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~  154 (336)
T 2ast_B           92 PFRVQHMDLSNSVIEV---------------STLHGILSQC--SKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSG  154 (336)
T ss_dssp             CBCCCEEECTTCEECH---------------HHHHHHHTTB--CCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBS
T ss_pred             CCCCCEEEccCCCcCH---------------HHHHHHHhhC--CCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCC
Confidence            344555555555 441               1267777777  78888888888777777777777888888888887 5


Q ss_pred             cccc-CCccccCCCCCcEEEccCc-cCccc-cChHhhhcCC-CCCeEEecCce--ee-------------EeEEeccCCc
Q 040876          207 IVGL-VPLSLNELSKLRILHLSDN-KLNGT-LSEIHFVNLT-KLSVFSVNENN--LT-------------LKFLDLGENQ  267 (343)
Q Consensus       207 l~~~-~p~~l~~l~~L~~L~l~~N-~l~g~-~p~~~~~~l~-~L~~L~l~~n~--l~-------------l~~L~ls~n~  267 (343)
                      +++. ++..+..+++|++|++++| .+++. ++. .+..++ +|++|++++|.  ++             ++.|++++|.
T Consensus       155 l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~  233 (336)
T 2ast_B          155 FSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQV-AVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSV  233 (336)
T ss_dssp             CCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHH-HHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCT
T ss_pred             CCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHH-HHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCC
Confidence            6642 5556677788888888888 77643 444 567777 88888887773  32             5667777787


Q ss_pred             -ccccCCCccccc-CCCeEeCcCCc-ccCccc---ccCCCCcEEEccCCccccccCchhhccCCcc-ccCceEecCCCcc
Q 040876          268 -IHGEMTNLTNAT-QLWYLRLHSNN-FSGPLS---LISSNLVYLDLFNNSFLGSISHFWCYRSNET-KRLRALSLGDNYL  340 (343)
Q Consensus       268 -l~~~~~~~~~~~-~L~~L~Ls~N~-l~~~~~---~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l-~~L~~L~ls~N~l  340 (343)
                       +++..+..+... +|++|++++|. +.....   ..+++|++|++++| ++...       +..+ ..++.|++++|++
T Consensus       234 ~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~-i~~~~-------~~~l~~~l~~L~l~~n~l  305 (336)
T 2ast_B          234 MLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI-VPDGT-------LQLLKEALPHLQINCSHF  305 (336)
T ss_dssp             TCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS-SCTTC-------HHHHHHHSTTSEESCCCS
T ss_pred             cCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc-cCHHH-------HHHHHhhCcceEEecccC
Confidence             665555555555 89999999885 332211   12788999999988 44321       1222 3467777888888


Q ss_pred             cc
Q 040876          341 QG  342 (343)
Q Consensus       341 ~g  342 (343)
                      +|
T Consensus       306 ~~  307 (336)
T 2ast_B          306 TT  307 (336)
T ss_dssp             CC
T ss_pred             cc
Confidence            76

>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=99.85  E-value=2.1e-22  Score=191.97  Aligned_cols=232  Identities=20%  Similarity=0.163  Sum_probs=156.7

Q ss_pred             CCccccCCCCCCEecCCCCC---------------CCCCCcccccchh-hcccc--------cc-cCCCcc-cc-Ccc--
Q 040876          108 IPSWLYRLTHLEQLSVADRP---------------SLASREDQDLLSN-IRQRL--------SK-CRTGAK-SS-QEI--  158 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~---------------~l~~L~~L~l~~n-l~~~l--------~~-~~~~~~-~~-~~~--  158 (343)
                      +|..+.++++|++|++++|.               ..++|++|++++| +++.-        .. ..+..+ +. ..+  
T Consensus       105 l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~  184 (461)
T 1z7x_W          105 LSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINE  184 (461)
T ss_dssp             HHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHH
T ss_pred             HHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcch
Confidence            67788899999999999987               1346899999888 65310        00 011000 00 001  


Q ss_pred             ---cchhhhhh-cCCCCCccEEEeecCccccc----cchhccCCCCCCEEECcCCcccccCC-----ccccCCCCCcEEE
Q 040876          159 ---SDIFDIFS-GCVSKGLEILVLRSSSISGH----LTEQIGHFKNLDTLDLGNNSIVGLVP-----LSLNELSKLRILH  225 (343)
Q Consensus       159 ---~~ip~~l~-~l~~~~L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~~p-----~~l~~l~~L~~L~  225 (343)
                         ..+...+. ..  ++|++|++++|.+++.    ++..+..+++|++|++++|.+++...     ..+..+++|++|+
T Consensus       185 ~~~~~l~~~l~~~~--~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~  262 (461)
T 1z7x_W          185 AGVRVLCQGLKDSP--CQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLW  262 (461)
T ss_dssp             HHHHHHHHHHHHSC--CCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEE
T ss_pred             HHHHHHHHHHhcCC--CCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEE
Confidence               11222221 13  4677777777777653    46666677788888888887764321     1122477888888


Q ss_pred             ccCccCccc----cChHhhhcCCCCCeEEecCcee-----------------eEeEEeccCCccccc----CCCccccc-
Q 040876          226 LSDNKLNGT----LSEIHFVNLTKLSVFSVNENNL-----------------TLKFLDLGENQIHGE----MTNLTNAT-  279 (343)
Q Consensus       226 l~~N~l~g~----~p~~~~~~l~~L~~L~l~~n~l-----------------~l~~L~ls~n~l~~~----~~~~~~~~-  279 (343)
                      +++|.+++.    ++. .+..+++|++|++++|.+                 .++.|++++|.+++.    ++..+... 
T Consensus       263 L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~  341 (461)
T 1z7x_W          263 IWECGITAKGCGDLCR-VLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNR  341 (461)
T ss_dssp             CTTSCCCHHHHHHHHH-HHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCS
T ss_pred             CcCCCCCHHHHHHHHH-HHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCC
Confidence            888888743    555 567788888999888876                 367788999888764    34444444 


Q ss_pred             CCCeEeCcCCcccCccccc--------CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          280 QLWYLRLHSNNFSGPLSLI--------SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       280 ~L~~L~Ls~N~l~~~~~~~--------~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +|++|++++|.+++..+..        .++|++|++++|.+++.....++..+..+++|++|++++|+|++
T Consensus       342 ~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~i~~  412 (461)
T 1z7x_W          342 FLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGD  412 (461)
T ss_dssp             SCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCH
T ss_pred             CccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCCCCH
Confidence            8999999999988643321        45899999999999875444566777788999999999999875

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.85  E-value=2.9e-20  Score=165.29  Aligned_cols=159  Identities=21%  Similarity=0.224  Sum_probs=133.2

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+..+  ++|++|++++|.+++ + ..+..+++|++|++++|.+++..+..+..+++|++|++++|+++ .++...+..+
T Consensus        58 ~l~~l--~~L~~L~l~~n~l~~-~-~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l  132 (272)
T 3rfs_A           58 GIQYL--PNVRYLALGGNKLHD-I-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQ-SLPDGVFDKL  132 (272)
T ss_dssp             TGGGC--TTCCEEECTTSCCCC-C-GGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCC-CCCTTTTTTC
T ss_pred             ccccC--CCCcEEECCCCCCCC-c-hhhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCC-ccCHHHhccC
Confidence            46778  999999999999986 3 47899999999999999999777777899999999999999998 4554368889


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCch
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHF  319 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~  319 (343)
                      ++|++|++++|            ++++..+..+... +|++|++++|++++..+..   +++|++|++++|.+++..+  
T Consensus       133 ~~L~~L~L~~n------------~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--  198 (272)
T 3rfs_A          133 TNLTYLNLAHN------------QLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPD--  198 (272)
T ss_dssp             TTCCEEECCSS------------CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT--
T ss_pred             CCCCEEECCCC------------ccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCH--
Confidence            99998777664            4555556555555 9999999999999877654   7899999999999997543  


Q ss_pred             hhccCCccccCceEecCCCccccC
Q 040876          320 WCYRSNETKRLRALSLGDNYLQGE  343 (343)
Q Consensus       320 l~~~l~~l~~L~~L~ls~N~l~g~  343 (343)
                        ..+..+++|+.|++++|+++|.
T Consensus       199 --~~~~~l~~L~~L~l~~N~~~~~  220 (272)
T 3rfs_A          199 --GVFDRLTSLQYIWLHDNPWDCT  220 (272)
T ss_dssp             --TTTTTCTTCCEEECCSSCBCCC
T ss_pred             --HHHhCCcCCCEEEccCCCcccc
Confidence              4567899999999999998863

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.85  E-value=5.3e-21  Score=186.34  Aligned_cols=197  Identities=21%  Similarity=0.220  Sum_probs=125.7

Q ss_pred             CCCCCCCCc-----cccce-EeCCCCCcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCCC
Q 040876           55 SWNIGGDCC-----TWAGI-VCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPS  128 (343)
Q Consensus        55 ~W~~~~~~c-----~w~gv-~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~  128 (343)
                      +|..+.++|     .|.|+ .|..  ++++.|+++++                .+++  +|..+.  ++|++|++++|. 
T Consensus        35 ~W~~~~~~~~~~~~~~~~l~~C~~--~~L~~L~Ls~n----------------~L~~--lp~~l~--~~L~~L~Ls~N~-   91 (571)
T 3cvr_A           35 KWEKQALPGENRNEAVSLLKECLI--NQFSELQLNRL----------------NLSS--LPDNLP--PQITVLEITQNA-   91 (571)
T ss_dssp             HHHTTCCTTCCHHHHHHHHHHHHH--TTCSEEECCSS----------------CCSC--CCSCCC--TTCSEEECCSSC-
T ss_pred             HHhccCCccccccchhhhcccccc--CCccEEEeCCC----------------CCCc--cCHhHc--CCCCEEECcCCC-
Confidence            454455566     79999 7853  57999999885                4444  666553  789999999887 


Q ss_pred             CCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccc
Q 040876          129 LASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV  208 (343)
Q Consensus       129 l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  208 (343)
                                  +                 ..+|   ..+  ++|++|++++|.+++ +|. +.+  +|++|++++|.++
T Consensus        92 ------------l-----------------~~ip---~~l--~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls~N~l~  133 (571)
T 3cvr_A           92 ------------L-----------------ISLP---ELP--ASLEYLDACDNRLST-LPE-LPA--SLKHLDVDNNQLT  133 (571)
T ss_dssp             ------------C-----------------SCCC---CCC--TTCCEEECCSSCCSC-CCC-CCT--TCCEEECCSSCCS
T ss_pred             ------------C-----------------cccc---ccc--CCCCEEEccCCCCCC-cch-hhc--CCCEEECCCCcCC
Confidence                        2                 2455   334  778888888888875 666 554  7888888888887


Q ss_pred             ccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcC
Q 040876          209 GLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHS  288 (343)
Q Consensus       209 ~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~  288 (343)
                      + +|.   .+++|++|++++|.++ .+|.    .+++|+.|++++|.+            ++ +|. +. .+|++|+|++
T Consensus       134 ~-lp~---~l~~L~~L~Ls~N~l~-~lp~----~l~~L~~L~Ls~N~L------------~~-lp~-l~-~~L~~L~Ls~  189 (571)
T 3cvr_A          134 M-LPE---LPALLEYINADNNQLT-MLPE----LPTSLEVLSVRNNQL------------TF-LPE-LP-ESLEALDVST  189 (571)
T ss_dssp             C-CCC---CCTTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCC------------SC-CCC-CC-TTCCEEECCS
T ss_pred             C-CCC---cCccccEEeCCCCccC-cCCC----cCCCcCEEECCCCCC------------CC-cch-hh-CCCCEEECcC
Confidence            5 665   5677888888888887 3664    356666666655443            33 333 22 4666666666


Q ss_pred             CcccCcccccCCCC-------cEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          289 NNFSGPLSLISSNL-------VYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       289 N~l~~~~~~~~~~L-------~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      |+++..++ ...+|       +.|+|++|.|+. +    |..+..+++|+.|++++|+|+|
T Consensus       190 N~L~~lp~-~~~~L~~~~~~L~~L~Ls~N~l~~-l----p~~l~~l~~L~~L~L~~N~l~~  244 (571)
T 3cvr_A          190 NLLESLPA-VPVRNHHSEETEIFFRCRENRITH-I----PENILSLDPTCTIILEDNPLSS  244 (571)
T ss_dssp             SCCSSCCC-CC--------CCEEEECCSSCCCC-C----CGGGGGSCTTEEEECCSSSCCH
T ss_pred             CCCCchhh-HHHhhhcccccceEEecCCCccee-c----CHHHhcCCCCCEEEeeCCcCCC
Confidence            66663322 33345       666666666653 2    2334446666666666666654

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.84  E-value=6.9e-21  Score=173.09  Aligned_cols=197  Identities=19%  Similarity=0.177  Sum_probs=160.1

Q ss_pred             ccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEe
Q 040876          110 SWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVL  178 (343)
Q Consensus       110 ~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L  178 (343)
                      ..+..+++|++|++++|.          .+++|++|++++| +.                 .+++ +..+  ++|++|++
T Consensus        28 ~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-----------------~~~~-~~~l--~~L~~L~L   87 (317)
T 3o53_A           28 SLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLY-----------------ETLD-LESL--STLRTLDL   87 (317)
T ss_dssp             HHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCE-----------------EEEE-ETTC--TTCCEEEC
T ss_pred             HHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCC-----------------cchh-hhhc--CCCCEEEC
Confidence            345567799999999998          5678999999999 76                 2232 7788  99999999


Q ss_pred             ecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee-
Q 040876          179 RSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT-  257 (343)
Q Consensus       179 ~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~-  257 (343)
                      ++|.+++ ++    ..++|++|++++|.+++..+.   .+++|++|++++|++++..+. .+..+++|++|++++|.++ 
T Consensus        88 s~n~l~~-l~----~~~~L~~L~l~~n~l~~~~~~---~~~~L~~L~l~~N~l~~~~~~-~~~~l~~L~~L~Ls~N~l~~  158 (317)
T 3o53_A           88 NNNYVQE-LL----VGPSIETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDL-DEGCRSRVQYLDLKLNEIDT  158 (317)
T ss_dssp             CSSEEEE-EE----ECTTCCEEECCSSCCSEEEEC---CCSSCEEEECCSSCCCSGGGB-CTGGGSSEEEEECTTSCCCE
T ss_pred             cCCcccc-cc----CCCCcCEEECCCCccCCcCcc---ccCCCCEEECCCCCCCCccch-hhhccCCCCEEECCCCCCCc
Confidence            9999885 33    348999999999999865443   367899999999999854444 7888999999999999875 


Q ss_pred             ------------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc--CCCCcEEEccCCccccccCchhhcc
Q 040876          258 ------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSISHFWCYR  323 (343)
Q Consensus       258 ------------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l~~~  323 (343)
                                  ++.|++++|.+++. +......+|++|++++|++++.++..  +++|++|++++|.+++ +    |..
T Consensus       159 ~~~~~~~~~l~~L~~L~L~~N~l~~~-~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~~-l----~~~  232 (317)
T 3o53_A          159 VNFAELAASSDTLEHLNLQYNFIYDV-KGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVL-I----EKA  232 (317)
T ss_dssp             EEGGGGGGGTTTCCEEECTTSCCCEE-ECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCE-E----CTT
T ss_pred             ccHHHHhhccCcCCEEECCCCcCccc-ccccccccCCEEECCCCcCCcchhhhcccCcccEEECcCCcccc-h----hhH
Confidence                        56799999999865 33333449999999999999866654  7899999999999985 3    456


Q ss_pred             CCccccCceEecCCCccc
Q 040876          324 SNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       324 l~~l~~L~~L~ls~N~l~  341 (343)
                      +..+++|+.|++++|+++
T Consensus       233 ~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          233 LRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             CCCCTTCCEEECTTCCCB
T ss_pred             hhcCCCCCEEEccCCCcc
Confidence            788999999999999987

>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=99.84  E-value=1.2e-20  Score=170.86  Aligned_cols=149  Identities=23%  Similarity=0.312  Sum_probs=94.8

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      +..+  ++|++|++++|.+++ ++ .+..+++|++|++++|.+++ ++ .+..+++|++|++++|.++ .++.  +..++
T Consensus        81 ~~~l--~~L~~L~L~~n~l~~-~~-~~~~l~~L~~L~l~~n~l~~-~~-~l~~l~~L~~L~l~~n~l~-~~~~--l~~l~  151 (308)
T 1h6u_A           81 LKNL--TKITELELSGNPLKN-VS-AIAGLQSIKTLDLTSTQITD-VT-PLAGLSNLQVLYLDLNQIT-NISP--LAGLT  151 (308)
T ss_dssp             GTTC--CSCCEEECCSCCCSC-CG-GGTTCTTCCEEECTTSCCCC-CG-GGTTCTTCCEEECCSSCCC-CCGG--GGGCT
T ss_pred             HccC--CCCCEEEccCCcCCC-ch-hhcCCCCCCEEECCCCCCCC-ch-hhcCCCCCCEEECCCCccC-cCcc--ccCCC
Confidence            6666  677777777777664 33 46667777777777777764 33 2666777777777777765 3332  55666


Q ss_pred             CCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhc
Q 040876          245 KLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCY  322 (343)
Q Consensus       245 ~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~  322 (343)
                      +|+.|++++|.            +++..+  +... +|+.|++++|++++..+.. +++|++|++++|.+++..      
T Consensus       152 ~L~~L~l~~n~------------l~~~~~--l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~N~l~~~~------  211 (308)
T 1h6u_A          152 NLQYLSIGNAQ------------VSDLTP--LANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVS------  211 (308)
T ss_dssp             TCCEEECCSSC------------CCCCGG--GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECTTSCCCBCG------
T ss_pred             CccEEEccCCc------------CCCChh--hcCCCCCCEEECCCCccCcChhhcCCCCCCEEEccCCccCccc------
Confidence            66666665544            443222  3333 7777777777777655432 677777777777776532      


Q ss_pred             cCCccccCceEecCCCcccc
Q 040876          323 RSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       323 ~l~~l~~L~~L~ls~N~l~g  342 (343)
                      .+..+++|+.|++++|++++
T Consensus       212 ~l~~l~~L~~L~l~~N~i~~  231 (308)
T 1h6u_A          212 PLANTSNLFIVTLTNQTITN  231 (308)
T ss_dssp             GGTTCTTCCEEEEEEEEEEC
T ss_pred             cccCCCCCCEEEccCCeeec
Confidence            25667777777777777765

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.84  E-value=9.8e-20  Score=161.62  Aligned_cols=202  Identities=24%  Similarity=0.304  Sum_probs=152.5

Q ss_pred             CCCCCCCCCCC-c--cccceEeCCC---------CCcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCC
Q 040876           52 RLASWNIGGDC-C--TWAGIVCDNV---------TGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLE  119 (343)
Q Consensus        52 ~~~~W~~~~~~-c--~w~gv~c~~~---------~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~  119 (343)
                      ..+.| .+..| |  .|..|.|...         ...++.|++++                |++++. .+..+.++++|+
T Consensus         3 ~~C~~-~~~~C~c~~~~~~l~~~~~~l~~ip~~~~~~l~~L~l~~----------------n~l~~~-~~~~~~~l~~L~   64 (270)
T 2o6q_A            3 ALCKK-DGGVCSCNNNKNSVDCSSKKLTAIPSNIPADTKKLDLQS----------------NKLSSL-PSKAFHRLTKLR   64 (270)
T ss_dssp             CCBGG-GTCSBEEETTTTEEECTTSCCSSCCSCCCTTCSEEECCS----------------SCCSCC-CTTSSSSCTTCC
T ss_pred             ccCCC-CCCCCEeCCCCCEEEccCCCCCccCCCCCCCCCEEECcC----------------CCCCee-CHHHhcCCCCCC
Confidence            34567 34333 4  4778999642         12355666655                466653 445799999999


Q ss_pred             EecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhh-hhhcCCCCCccEEEeecCccccccchhccCCCCCC
Q 040876          120 QLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFD-IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLD  198 (343)
Q Consensus       120 ~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~-~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~  198 (343)
                      +|++++|.             +                 ..+|. .+.++  ++|++|++++|.+++..+..+..+++|+
T Consensus        65 ~L~l~~n~-------------l-----------------~~i~~~~~~~l--~~L~~L~l~~n~l~~~~~~~~~~l~~L~  112 (270)
T 2o6q_A           65 LLYLNDNK-------------L-----------------QTLPAGIFKEL--KNLETLWVTDNKLQALPIGVFDQLVNLA  112 (270)
T ss_dssp             EEECCSSC-------------C-----------------SCCCTTTTSSC--TTCCEEECCSSCCCCCCTTTTTTCSSCC
T ss_pred             EEECCCCc-------------c-----------------CeeChhhhcCC--CCCCEEECCCCcCCcCCHhHcccccCCC
Confidence            99999987             2                 24444 35678  8999999999999976667788999999


Q ss_pred             EEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCcccc
Q 040876          199 TLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNA  278 (343)
Q Consensus       199 ~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~  278 (343)
                      +|++++|.+++..+..+..+++|++|++++|.++ .+|...+..+++|+.|++++|            ++++..+..+..
T Consensus       113 ~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~n------------~l~~~~~~~~~~  179 (270)
T 2o6q_A          113 ELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQ-SLPKGVFDKLTSLKELRLYNN------------QLKRVPEGAFDK  179 (270)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSS------------CCSCCCTTTTTT
T ss_pred             EEECCCCccCeeCHHHhCcCcCCCEEECCCCcCC-ccCHhHccCCcccceeEecCC------------cCcEeChhHhcc
Confidence            9999999999777777899999999999999998 566546888899988777665            444444555555


Q ss_pred             c-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccccc
Q 040876          279 T-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSI  316 (343)
Q Consensus       279 ~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~  316 (343)
                      . +|++|++++|++++..+..   +++|+.|++++|.+....
T Consensus       180 l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c  221 (270)
T 2o6q_A          180 LTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENPWDCTC  221 (270)
T ss_dssp             CTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCSS
T ss_pred             CCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCCCeeCCC
Confidence            5 9999999999998766543   678999999999987654

>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=99.84  E-value=3.9e-22  Score=190.11  Aligned_cols=220  Identities=17%  Similarity=0.169  Sum_probs=139.4

Q ss_pred             CCccccCCCCCCEecCCCCC-----------CCC----CCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCC
Q 040876          108 IPSWLYRLTHLEQLSVADRP-----------SLA----SREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSK  171 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~-----------~l~----~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~  171 (343)
                      +|..+..+++|++|++++|.           .+.    +|++|++++| +..            .....+|..+..+  +
T Consensus        48 l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~------------~~~~~l~~~l~~~--~  113 (461)
T 1z7x_W           48 ISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTG------------AGCGVLSSTLRTL--P  113 (461)
T ss_dssp             HHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBG------------GGHHHHHHHTTSC--T
T ss_pred             HHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCH------------HHHHHHHHHHccC--C
Confidence            45566667777777777766           233    4777777766 541            0012567777777  7


Q ss_pred             CccEEEeecCccccccchhcc-----CCCCCCEEECcCCcccccC----CccccCCCCCcEEEccCccCccccChHhhh-
Q 040876          172 GLEILVLRSSSISGHLTEQIG-----HFKNLDTLDLGNNSIVGLV----PLSLNELSKLRILHLSDNKLNGTLSEIHFV-  241 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p~~l~-----~l~~L~~L~Ls~N~l~~~~----p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~-  241 (343)
                      +|++|++++|.+++..+..+.     ..++|++|++++|.+++..    +..+..+++|++|++++|.+++..+. .+. 
T Consensus       114 ~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~-~l~~  192 (461)
T 1z7x_W          114 TLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVR-VLCQ  192 (461)
T ss_dssp             TCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHH-HHHH
T ss_pred             ceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHH-HHHH
Confidence            888888888877754444332     2456888888888777533    44556677888888888877643222 222 


Q ss_pred             ----cCCCCCeEEecCceee----------------EeEEeccCCcccccC-----CCccccc-CCCeEeCcCCcccCc-
Q 040876          242 ----NLTKLSVFSVNENNLT----------------LKFLDLGENQIHGEM-----TNLTNAT-QLWYLRLHSNNFSGP-  294 (343)
Q Consensus       242 ----~l~~L~~L~l~~n~l~----------------l~~L~ls~n~l~~~~-----~~~~~~~-~L~~L~Ls~N~l~~~-  294 (343)
                          ..++|++|++++|.++                ++.|++++|.+++..     +...... +|++|++++|.+++. 
T Consensus       193 ~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~  272 (461)
T 1z7x_W          193 GLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKG  272 (461)
T ss_dssp             HHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHH
T ss_pred             HHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHH
Confidence                2557888888877664                556788887776531     1122223 788888888877753 


Q ss_pred             ---cccc---CCCCcEEEccCCccccccCchhhccCCc-cccCceEecCCCcccc
Q 040876          295 ---LSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNE-TKRLRALSLGDNYLQG  342 (343)
Q Consensus       295 ---~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~-l~~L~~L~ls~N~l~g  342 (343)
                         ++..   +++|++|++++|.+++..+..++..+.. .++|++|++++|.+++
T Consensus       273 ~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~  327 (461)
T 1z7x_W          273 CGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTA  327 (461)
T ss_dssp             HHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBG
T ss_pred             HHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCch
Confidence               3332   6778888888888776555445444332 3578888888887765

>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=99.83  E-value=4.4e-20  Score=160.81  Aligned_cols=156  Identities=16%  Similarity=0.160  Sum_probs=111.4

Q ss_pred             chhh-hhhcCCCCCccEEEeec-CccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCc---EEEccCc-cCcc
Q 040876          160 DIFD-IFSGCVSKGLEILVLRS-SSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLR---ILHLSDN-KLNG  233 (343)
Q Consensus       160 ~ip~-~l~~l~~~~L~~L~L~~-n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~---~L~l~~N-~l~g  233 (343)
                      .+++ .+.++  ++|++|++++ |.+++..+..+.++++|++|++++|.+++ +|. +..+++|+   +|++++| .++ 
T Consensus        70 ~i~~~~f~~l--~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~l~~-lp~-~~~l~~L~~L~~L~l~~N~~l~-  144 (239)
T 2xwt_C           70 QLESHSFYNL--SKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKM-FPD-LTKVYSTDIFFILEITDNPYMT-  144 (239)
T ss_dssp             EECTTTEESC--TTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEECCCS-CCC-CTTCCBCCSEEEEEEESCTTCC-
T ss_pred             eeCHhHcCCC--cCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCCCcc-ccc-cccccccccccEEECCCCcchh-
Confidence            4443 56777  7888888887 88886555677788888888888888874 665 77777777   8888888 776 


Q ss_pred             ccChHhhhcCCCCC-eEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCc-ccCccccc---C-CCCcEEEc
Q 040876          234 TLSEIHFVNLTKLS-VFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNN-FSGPLSLI---S-SNLVYLDL  307 (343)
Q Consensus       234 ~~p~~~~~~l~~L~-~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~-l~~~~~~~---~-~~L~~L~L  307 (343)
                      .+|...|..+++|+ .|++++|            +++...+..+...+|++|++++|+ +++..+..   + ++|++|++
T Consensus       145 ~i~~~~~~~l~~L~~~L~l~~n------------~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l  212 (239)
T 2xwt_C          145 SIPVNAFQGLCNETLTLKLYNN------------GFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDV  212 (239)
T ss_dssp             EECTTTTTTTBSSEEEEECCSC------------CCCEECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEEC
T ss_pred             hcCcccccchhcceeEEEcCCC------------CCcccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEEC
Confidence            55554677777777 7666655            444222233333489999999995 88665544   5 78999999


Q ss_pred             cCCccccccCchhhccCCccccCceEecCCCc
Q 040876          308 FNNSFLGSISHFWCYRSNETKRLRALSLGDNY  339 (343)
Q Consensus       308 s~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~  339 (343)
                      ++|.+++. |    .  ..+++|+.|+++++.
T Consensus       213 ~~N~l~~l-~----~--~~~~~L~~L~l~~~~  237 (239)
T 2xwt_C          213 SQTSVTAL-P----S--KGLEHLKELIARNTW  237 (239)
T ss_dssp             TTCCCCCC-C----C--TTCTTCSEEECTTC-
T ss_pred             CCCccccC-C----h--hHhccCceeeccCcc
Confidence            99999863 3    2  157789999998864

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.83  E-value=7.5e-21  Score=172.27  Aligned_cols=145  Identities=22%  Similarity=0.261  Sum_probs=98.1

Q ss_pred             hcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccccc--CC--ccccCCCCCcEEEccCccCccccChH---
Q 040876          166 SGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGL--VP--LSLNELSKLRILHLSDNKLNGTLSEI---  238 (343)
Q Consensus       166 ~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~--~p--~~l~~l~~L~~L~l~~N~l~g~~p~~---  238 (343)
                      ..+  ++|++|++++|.+++..|..++.+++|++|++++|++.+.  ++  ..++.+++|++|++++|+++ .++..   
T Consensus       142 ~~~--~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~~~~  218 (310)
T 4glp_A          142 WLK--PGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGME-TPTGVCAA  218 (310)
T ss_dssp             TBC--SCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCC-CHHHHHHH
T ss_pred             hhc--cCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCC-chHHHHHH
Confidence            345  6677777777777666666666777777777777765432  11  22356666777777777665 33221   


Q ss_pred             hhhcCCCCCeEEecCceee---------------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccC-cccccCCCC
Q 040876          239 HFVNLTKLSVFSVNENNLT---------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSG-PLSLISSNL  302 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~---------------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~-~~~~~~~~L  302 (343)
                      .+..+++|++|++++|.++               ++.|++++|+++ .+|..+. .+|++|++++|++++ +.+..+++|
T Consensus       219 l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~-~~L~~L~Ls~N~l~~~~~~~~l~~L  296 (310)
T 4glp_A          219 LAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE-QVPKGLP-AKLRVLDLSSNRLNRAPQPDELPEV  296 (310)
T ss_dssp             HHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC-SCCSCCC-SCCSCEECCSCCCCSCCCTTSCCCC
T ss_pred             HHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC-chhhhhc-CCCCEEECCCCcCCCCchhhhCCCc
Confidence            2455667777777776653               345777788888 5565443 499999999999998 455558999


Q ss_pred             cEEEccCCccccc
Q 040876          303 VYLDLFNNSFLGS  315 (343)
Q Consensus       303 ~~L~Ls~N~l~~~  315 (343)
                      ++|++++|.+++.
T Consensus       297 ~~L~L~~N~l~~~  309 (310)
T 4glp_A          297 DNLTLDGNPFLVP  309 (310)
T ss_dssp             SCEECSSTTTSCC
T ss_pred             cEEECcCCCCCCC
Confidence            9999999999763

>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=99.83  E-value=5.2e-20  Score=160.36  Aligned_cols=184  Identities=15%  Similarity=0.202  Sum_probs=143.2

Q ss_pred             CCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhh-hhhcCCCCCccEEEeecCc-ccc
Q 040876          108 IPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFD-IFSGCVSKGLEILVLRSSS-ISG  185 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~-~l~~l~~~~L~~L~L~~n~-l~~  185 (343)
                      +|. +.  ++|++|++++|.             ++                 .+|. .+.++  ++|++|++++|. ++.
T Consensus        26 ip~-~~--~~l~~L~l~~n~-------------l~-----------------~i~~~~~~~l--~~L~~L~l~~n~~l~~   70 (239)
T 2xwt_C           26 IPS-LP--PSTQTLKLIETH-------------LR-----------------TIPSHAFSNL--PNISRIYVSIDVTLQQ   70 (239)
T ss_dssp             CCC-CC--TTCCEEEEESCC-------------CS-----------------EECTTTTTTC--TTCCEEEEECCSSCCE
T ss_pred             cCC-CC--CcccEEEEeCCc-------------ce-----------------EECHHHccCC--CCCcEEeCCCCCCcce
Confidence            666 33  378888888876             33                 4444 78888  999999999997 886


Q ss_pred             ccchhccCCCCCCEEECcC-CcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEecc
Q 040876          186 HLTEQIGHFKNLDTLDLGN-NSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLG  264 (343)
Q Consensus       186 ~~p~~l~~l~~L~~L~Ls~-N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls  264 (343)
                      ..+..+.++++|++|++++ |++++..+..+..+++|++|++++|.++ .+|.  +..+++|+.         ++.|+++
T Consensus        71 i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~l~-~lp~--~~~l~~L~~---------L~~L~l~  138 (239)
T 2xwt_C           71 LESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLK-MFPD--LTKVYSTDI---------FFILEIT  138 (239)
T ss_dssp             ECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEECCC-SCCC--CTTCCBCCS---------EEEEEEE
T ss_pred             eCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCCCc-cccc--ccccccccc---------ccEEECC
Confidence            6666899999999999999 9999766678999999999999999998 4775  677777772         1234445


Q ss_pred             CC-cccccCCCccccc-CCC-eEeCcCCcccCccccc--CCCCcEEEccCCc-cccccCchhhccCCcc-ccCceEecCC
Q 040876          265 EN-QIHGEMTNLTNAT-QLW-YLRLHSNNFSGPLSLI--SSNLVYLDLFNNS-FLGSISHFWCYRSNET-KRLRALSLGD  337 (343)
Q Consensus       265 ~n-~l~~~~~~~~~~~-~L~-~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~l-~~L~~L~ls~  337 (343)
                      +| ++++..+..+... +|+ +|++++|+++...+..  .++|++|++++|+ +++..+    ..+..+ ++|+.|++++
T Consensus       139 ~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~~----~~~~~l~~~L~~L~l~~  214 (239)
T 2xwt_C          139 DNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDK----DAFGGVYSGPSLLDVSQ  214 (239)
T ss_dssp             SCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECTTTTTTCEEEEEECTTCTTCCEECT----TTTTTCSBCCSEEECTT
T ss_pred             CCcchhhcCcccccchhcceeEEEcCCCCCcccCHhhcCCCCCCEEEcCCCCCcccCCH----HHhhccccCCcEEECCC
Confidence            56 6665555556656 999 9999999998544333  4679999999995 886433    456778 9999999999


Q ss_pred             Ccccc
Q 040876          338 NYLQG  342 (343)
Q Consensus       338 N~l~g  342 (343)
                      |+|++
T Consensus       215 N~l~~  219 (239)
T 2xwt_C          215 TSVTA  219 (239)
T ss_dssp             CCCCC
T ss_pred             Ccccc
Confidence            99875

>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=99.82  E-value=2e-19  Score=161.46  Aligned_cols=171  Identities=22%  Similarity=0.168  Sum_probs=125.5

Q ss_pred             CCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEE
Q 040876          108 IPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEIL  176 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L  176 (343)
                      +|..+.  +++++|++++|.          .+++|++|++++| ++                 .++.. ..+  ++|++|
T Consensus        25 ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------------~~~~~-~~l--~~L~~L   82 (290)
T 1p9a_G           25 LPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-----------------KLQVD-GTL--PVLGTL   82 (290)
T ss_dssp             CCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-----------------EEECC-SCC--TTCCEE
T ss_pred             CCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccC-----------------cccCC-CCC--CcCCEE
Confidence            454443  567777777776          4556777777777 65                 33333 566  889999


Q ss_pred             EeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCcee
Q 040876          177 VLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNL  256 (343)
Q Consensus       177 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l  256 (343)
                      ++++|+++ .+|..+..+++|++|++++|++++..|..+..+++|++|++++|+++ .+|...|..+++|+.|++++|  
T Consensus        83 ~Ls~N~l~-~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~L~~N--  158 (290)
T 1p9a_G           83 DLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELK-TLPPGLLTPTPKLEKLSLANN--  158 (290)
T ss_dssp             ECCSSCCS-SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECTTS--
T ss_pred             ECCCCcCC-cCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCC-ccChhhcccccCCCEEECCCC--
Confidence            99999988 67888888999999999999998666677888999999999999998 555546778888888777654  


Q ss_pred             eEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCcccc
Q 040876          257 TLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       257 ~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~  314 (343)
                                ++++..+..+... +|++|++++|+++..++..  ..+|+.+++++|.+..
T Consensus       159 ----------~l~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~~Np~~C  209 (290)
T 1p9a_G          159 ----------NLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWLC  209 (290)
T ss_dssp             ----------CCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCCBCC
T ss_pred             ----------cCCccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeCCCCccC
Confidence                      4444444455544 8888888888888544433  5678888888888754

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.82  E-value=1.4e-19  Score=154.28  Aligned_cols=137  Identities=23%  Similarity=0.356  Sum_probs=103.2

Q ss_pred             hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhc
Q 040876          163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVN  242 (343)
Q Consensus       163 ~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~  242 (343)
                      ..+.++  ++|++|++++|++++..+..+..+++|++|++++|++++..+..+..+++|++|++++|+++ .++...+..
T Consensus        46 ~~~~~l--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~  122 (208)
T 2o6s_A           46 GVFDEL--TSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQ-SLPDGVFDK  122 (208)
T ss_dssp             TTTTTC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTT
T ss_pred             hhhccc--ccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcCCCcCc-ccCHhHhcc
Confidence            346677  88899999998888665566788889999999999888655556788888999999999887 455436777


Q ss_pred             CCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcccccCCCCcEEEccCCccccccCc
Q 040876          243 LTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISH  318 (343)
Q Consensus       243 l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~  318 (343)
                      +++|++|++++|            ++++..+..+... +|++|++++|.+.+.    +++|++|+++.|.++|.+|.
T Consensus       123 l~~L~~L~l~~N------------~l~~~~~~~~~~l~~L~~L~l~~N~~~~~----~~~l~~L~~~~n~~~g~ip~  183 (208)
T 2o6s_A          123 LTQLKDLRLYQN------------QLKSVPDGVFDRLTSLQYIWLHDNPWDCT----CPGIRYLSEWINKHSGVVRN  183 (208)
T ss_dssp             CTTCCEEECCSS------------CCSCCCTTTTTTCTTCCEEECCSCCBCCC----TTTTHHHHHHHHHCTTTBBC
T ss_pred             CCcCCEEECCCC------------ccceeCHHHhccCCCccEEEecCCCeecC----CCCHHHHHHHHHhCCceeec
Confidence            888888766654            4444444445545 888999998877764    34688888888888887763

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.81  E-value=2.5e-20  Score=172.45  Aligned_cols=197  Identities=18%  Similarity=0.212  Sum_probs=152.1

Q ss_pred             CCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCC-CccEEEeecCccccccchhccCC-----CCCCEEEC
Q 040876          130 ASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSK-GLEILVLRSSSISGHLTEQIGHF-----KNLDTLDL  202 (343)
Q Consensus       130 ~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~-~L~~L~L~~n~l~~~~p~~l~~l-----~~L~~L~L  202 (343)
                      .+|++|++++| +.+.-            ...+.+.+.++  + +|++|++++|.+++..+..+..+     ++|++|++
T Consensus        22 ~~L~~L~Ls~n~l~~~~------------~~~l~~~l~~~--~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~L   87 (362)
T 3goz_A           22 HGVTSLDLSLNNLYSIS------------TVELIQAFANT--PASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNL   87 (362)
T ss_dssp             TTCCEEECTTSCGGGSC------------HHHHHHHHHTC--CTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEEC
T ss_pred             CCceEEEccCCCCChHH------------HHHHHHHHHhC--CCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEEC
Confidence            34999999999 76200            01223677788  8 89999999999998777777665     99999999


Q ss_pred             cCCcccccCCccccC----C-CCCcEEEccCccCccccChHhhh----c-CCCCCeEEecCceee---------------
Q 040876          203 GNNSIVGLVPLSLNE----L-SKLRILHLSDNKLNGTLSEIHFV----N-LTKLSVFSVNENNLT---------------  257 (343)
Q Consensus       203 s~N~l~~~~p~~l~~----l-~~L~~L~l~~N~l~g~~p~~~~~----~-l~~L~~L~l~~n~l~---------------  257 (343)
                      ++|.+++..+..++.    + ++|++|++++|.+++. +...+.    . .++|++|++++|.++               
T Consensus        88 s~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~-~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~  166 (362)
T 3goz_A           88 SGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSK-SSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIP  166 (362)
T ss_dssp             CSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGS-CHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSC
T ss_pred             cCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcH-HHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCC
Confidence            999999777665444    4 8999999999999744 432433    3 369999999999875               


Q ss_pred             --EeEEeccCCcccccCCCccc-----c-cCCCeEeCcCCcccCcc----ccc----CCCCcEEEccCCccccccCchhh
Q 040876          258 --LKFLDLGENQIHGEMTNLTN-----A-TQLWYLRLHSNNFSGPL----SLI----SSNLVYLDLFNNSFLGSISHFWC  321 (343)
Q Consensus       258 --l~~L~ls~n~l~~~~~~~~~-----~-~~L~~L~Ls~N~l~~~~----~~~----~~~L~~L~Ls~N~l~~~~~~~l~  321 (343)
                        ++.|++++|++++..+..+.     . .+|++|+|++|.+++..    +..    .++|++|++++|.+++..+..+.
T Consensus       167 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~  246 (362)
T 3goz_A          167 ANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLK  246 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHH
T ss_pred             ccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHH
Confidence              67799999999876543222     2 38999999999998732    222    35899999999999987776777


Q ss_pred             ccCCccccCceEecCCCccc
Q 040876          322 YRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       322 ~~l~~l~~L~~L~ls~N~l~  341 (343)
                      ..+..+++|+.|++++|.++
T Consensus       247 ~~~~~l~~L~~L~L~~n~l~  266 (362)
T 3goz_A          247 LLKDSLKHLQTVYLDYDIVK  266 (362)
T ss_dssp             HTTTTTTTCSEEEEEHHHHT
T ss_pred             HHHhcCCCccEEEeccCCcc
Confidence            77788999999999999843

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.80  E-value=3.3e-21  Score=193.67  Aligned_cols=252  Identities=17%  Similarity=0.149  Sum_probs=111.5

Q ss_pred             CCcHHHHHHHHHhhhhCCC-CCCCCCCCC-CCCCCccccceEeCCCCCcEEEEecCCCccccccccce-------eCCC-
Q 040876           30 GCLESEREALLRFKQDLQD-PSNRLASWN-IGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYK-------ANPR-   99 (343)
Q Consensus        30 ~~~~~~~~~L~~~k~~~~~-~~~~~~~W~-~~~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~-------~~~~-   99 (343)
                      ...+.++++++++...... ....-..|. .....+.|.++.+..  .+++.+++.+.     .+...       +... 
T Consensus       128 s~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~--~~~~~l~L~~n-----~~~~~~~~~l~~l~Ls~  200 (727)
T 4b8c_D          128 SLVDCTKQALMEMADTLTDSKTAKKQQPTGDSTPSGTATNSAVST--PLTPKIELFAN-----GKDEANQALLQHKKLSQ  200 (727)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTTC--------------------------------------------------------
T ss_pred             hccccchhhhhhhhhhcccccCcccCCCcCCCCccccCCCceecC--CccceEEeeCC-----CCCcchhhHhhcCccCc
Confidence            3445678889988877632 122334564 345567899988854  67888888664     11110       0000 


Q ss_pred             ---------CCCCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCC
Q 040876          100 ---------SMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVS  170 (343)
Q Consensus       100 ---------~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~  170 (343)
                               .|.+. . .|..+..++.|+.|+|++|.             +.                 .+|..+.++  
T Consensus       201 ~~i~~~~~~~n~~~-~-~~~~~~~l~~L~~L~Ls~n~-------------l~-----------------~l~~~~~~l--  246 (727)
T 4b8c_D          201 YSIDEDDDIENRMV-M-PKDSKYDDQLWHALDLSNLQ-------------IF-----------------NISANIFKY--  246 (727)
T ss_dssp             -----------------------CCCCCCEEECTTSC-------------CS-----------------CCCGGGGGC--
T ss_pred             ccccCcccccccee-c-ChhhhccCCCCcEEECCCCC-------------CC-----------------CCChhhcCC--
Confidence                     12222 1 34445555666666665554             32                 567677777  


Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      ++|++|+|++|.|+ .+|..|+.+++|++|+|++|.|+ .+|..++.+++|++|+|++|.++ .+|. .|+.+++|+.|+
T Consensus       247 ~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~L~~N~l~-~lp~-~~~~l~~L~~L~  322 (727)
T 4b8c_D          247 DFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPAELGSCFQLKYFYFFDNMVT-TLPW-EFGNLCNLQFLG  322 (727)
T ss_dssp             CSCSCCBCTTSCCS-CCCGGGGGGTTCCEEECTTSCCS-SCCSSGGGGTTCSEEECCSSCCC-CCCS-STTSCTTCCCEE
T ss_pred             CCCCEEEeeCCcCc-ccChhhhCCCCCCEEeCcCCcCC-ccChhhcCCCCCCEEECCCCCCC-ccCh-hhhcCCCccEEe
Confidence            88888888888888 77888888888888888888888 77888888888888888888886 7787 577888888766


Q ss_pred             ecCceeeEeEEeccCCcccccCCCccccc--CCCeEeCcCCcccCcccccCCCCcEEEccCC----ccccccCchhhccC
Q 040876          251 VNENNLTLKFLDLGENQIHGEMTNLTNAT--QLWYLRLHSNNFSGPLSLISSNLVYLDLFNN----SFLGSISHFWCYRS  324 (343)
Q Consensus       251 l~~n~l~l~~L~ls~n~l~~~~~~~~~~~--~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N----~l~~~~~~~l~~~l  324 (343)
                      |++|            .|++.+|..+...  .+..++|++|.+++.+|..   |+.|+++.|    ...|.++...+..+
T Consensus       323 L~~N------------~l~~~~p~~~~~~~~~~~~l~l~~N~l~~~~p~~---l~~l~l~~n~~~~~~~~~l~~~~~~~~  387 (727)
T 4b8c_D          323 VEGN------------PLEKQFLKILTEKSVTGLIFYLRDNRPEIPLPHE---RRFIEINTDGEPQREYDSLQQSTEHLA  387 (727)
T ss_dssp             CTTS------------CCCSHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC------------------------------
T ss_pred             CCCC------------ccCCCChHHHhhcchhhhHHhhccCcccCcCccc---cceeEeecccccccccCCccccccchh
Confidence            6654            4455555554433  2334667777777666543   445556655    23334444444444


Q ss_pred             CccccCceEecCCCccc
Q 040876          325 NETKRLRALSLGDNYLQ  341 (343)
Q Consensus       325 ~~l~~L~~L~ls~N~l~  341 (343)
                      ..+..+....+++|.+.
T Consensus       388 ~~l~~~~~~~ls~Nil~  404 (727)
T 4b8c_D          388 TDLAKRTFTVLSYNTLC  404 (727)
T ss_dssp             --------------CCC
T ss_pred             hcccccceeeeeccccc
Confidence            55666666677777654

>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=99.80  E-value=9.1e-19  Score=172.46  Aligned_cols=199  Identities=23%  Similarity=0.215  Sum_probs=129.3

Q ss_pred             eeCCCCCCCCCCCCCccccCCCCCCEecCCCCC------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhc
Q 040876           95 KANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSG  167 (343)
Q Consensus        95 ~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~  167 (343)
                      .+...+|.++.  +|..+.  ++|++|++++|.      .+++|++|++++| ++                 .+|.   .
T Consensus        44 ~L~ls~n~L~~--lp~~l~--~~L~~L~L~~N~l~~lp~~l~~L~~L~Ls~N~l~-----------------~lp~---~   99 (622)
T 3g06_A           44 VLNVGESGLTT--LPDCLP--AHITTLVIPDNNLTSLPALPPELRTLEVSGNQLT-----------------SLPV---L   99 (622)
T ss_dssp             EEECCSSCCSC--CCSCCC--TTCSEEEECSCCCSCCCCCCTTCCEEEECSCCCS-----------------CCCC---C
T ss_pred             EEEecCCCcCc--cChhhC--CCCcEEEecCCCCCCCCCcCCCCCEEEcCCCcCC-----------------cCCC---C
Confidence            34455788884  888776  899999999998      4567999999999 76                 3443   3


Q ss_pred             CCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhh-------
Q 040876          168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHF-------  240 (343)
Q Consensus       168 l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~-------  240 (343)
                      +  ++|++|++++|.+++ +|.   .+++|++|++++|+++ .+|..   +++|++|++++|.++ .+|. .+       
T Consensus       100 l--~~L~~L~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          100 P--PGLLELSIFSNPLTH-LPA---LPSGLCKLWIFGNQLT-SLPVL---PPGLQELSVSDNQLA-SLPA-LPSELCKLW  167 (622)
T ss_dssp             C--TTCCEEEECSCCCCC-CCC---CCTTCCEEECCSSCCS-CCCCC---CTTCCEEECCSSCCS-CCCC-CCTTCCEEE
T ss_pred             C--CCCCEEECcCCcCCC-CCC---CCCCcCEEECCCCCCC-cCCCC---CCCCCEEECcCCcCC-CcCC-ccCCCCEEE
Confidence            3  566666666666653 333   3455555555555555 23432   245555555555554 2332 11       


Q ss_pred             ----------hcCCCCCeEEecCceee--------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCC
Q 040876          241 ----------VNLTKLSVFSVNENNLT--------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNL  302 (343)
Q Consensus       241 ----------~~l~~L~~L~l~~n~l~--------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L  302 (343)
                                ..+++|+.|++++|.++        ++.|++++|.++. +|..  ..+|++|++++|++++ +|..+++|
T Consensus       168 L~~N~l~~l~~~~~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~l~~-l~~~--~~~L~~L~Ls~N~L~~-lp~~l~~L  243 (622)
T 3g06_A          168 AYNNQLTSLPMLPSGLQELSVSDNQLASLPTLPSELYKLWAYNNRLTS-LPAL--PSGLKELIVSGNRLTS-LPVLPSEL  243 (622)
T ss_dssp             CCSSCCSCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSS-CCCC--CTTCCEEECCSSCCSC-CCCCCTTC
T ss_pred             CCCCCCCCCcccCCCCcEEECCCCCCCCCCCccchhhEEECcCCcccc-cCCC--CCCCCEEEccCCccCc-CCCCCCcC
Confidence                      12366667777776654        4556777776663 3322  1378888888888887 45567888


Q ss_pred             cEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          303 VYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       303 ~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      ++|++++|.++. +|    .   .+++|+.|++++|+|+
T Consensus       244 ~~L~Ls~N~L~~-lp----~---~~~~L~~L~Ls~N~L~  274 (622)
T 3g06_A          244 KELMVSGNRLTS-LP----M---LPSGLLSLSVYRNQLT  274 (622)
T ss_dssp             CEEECCSSCCSC-CC----C---CCTTCCEEECCSSCCC
T ss_pred             cEEECCCCCCCc-CC----c---ccccCcEEeCCCCCCC
Confidence            888888888874 33    2   4578899999999876

>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=99.80  E-value=6.6e-19  Score=159.39  Aligned_cols=180  Identities=24%  Similarity=0.352  Sum_probs=142.4

Q ss_pred             CcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCC--------CCCCCcccccchh-hcccc
Q 040876           75 GHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRL  145 (343)
Q Consensus        75 ~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l  145 (343)
                      .+++.+++++.                .++.  +| .+..+++|++|++++|.        .+++|++|++++| +.   
T Consensus        41 ~~L~~L~l~~~----------------~i~~--l~-~~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~L~~n~l~---   98 (308)
T 1h6u_A           41 DGITTLSAFGT----------------GVTT--IE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLK---   98 (308)
T ss_dssp             HTCCEEECTTS----------------CCCC--CT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCS---
T ss_pred             CCcCEEEeeCC----------------CccC--ch-hhhccCCCCEEEccCCcCCCChhHccCCCCCEEEccCCcCC---
Confidence            35778888875                4443  55 57889999999999987        5677999999988 76   


Q ss_pred             cccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEE
Q 040876          146 SKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILH  225 (343)
Q Consensus       146 ~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~  225 (343)
                                    .++ .+..+  ++|++|++++|.+++ ++. +..+++|++|++++|.+++. +. +..+++|++|+
T Consensus        99 --------------~~~-~~~~l--~~L~~L~l~~n~l~~-~~~-l~~l~~L~~L~l~~n~l~~~-~~-l~~l~~L~~L~  157 (308)
T 1h6u_A           99 --------------NVS-AIAGL--QSIKTLDLTSTQITD-VTP-LAGLSNLQVLYLDLNQITNI-SP-LAGLTNLQYLS  157 (308)
T ss_dssp             --------------CCG-GGTTC--TTCCEEECTTSCCCC-CGG-GTTCTTCCEEECCSSCCCCC-GG-GGGCTTCCEEE
T ss_pred             --------------Cch-hhcCC--CCCCEEECCCCCCCC-chh-hcCCCCCCEEECCCCccCcC-cc-ccCCCCccEEE
Confidence                          343 57888  999999999999996 443 89999999999999999854 33 88999999999


Q ss_pred             ccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCc
Q 040876          226 LSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLV  303 (343)
Q Consensus       226 l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~  303 (343)
                      +++|.++ .++.  +..+++|+.|++++|.+            ++. +. +... +|++|++++|++++..+.. +++|+
T Consensus       158 l~~n~l~-~~~~--l~~l~~L~~L~l~~n~l------------~~~-~~-l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~  220 (308)
T 1h6u_A          158 IGNAQVS-DLTP--LANLSKLTTLKADDNKI------------SDI-SP-LASLPNLIEVHLKNNQISDVSPLANTSNLF  220 (308)
T ss_dssp             CCSSCCC-CCGG--GTTCTTCCEEECCSSCC------------CCC-GG-GGGCTTCCEEECTTSCCCBCGGGTTCTTCC
T ss_pred             ccCCcCC-CChh--hcCCCCCCEEECCCCcc------------CcC-hh-hcCCCCCCEEEccCCccCccccccCCCCCC
Confidence            9999998 4554  77889999988877654            332 22 3334 8999999999988766533 78899


Q ss_pred             EEEccCCcccc
Q 040876          304 YLDLFNNSFLG  314 (343)
Q Consensus       304 ~L~Ls~N~l~~  314 (343)
                      +|++++|.+++
T Consensus       221 ~L~l~~N~i~~  231 (308)
T 1h6u_A          221 IVTLTNQTITN  231 (308)
T ss_dssp             EEEEEEEEEEC
T ss_pred             EEEccCCeeec
Confidence            99999998876

>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=99.80  E-value=1.3e-18  Score=150.68  Aligned_cols=165  Identities=21%  Similarity=0.241  Sum_probs=124.1

Q ss_pred             CCCCCCCCccccceEeCCCCCcEEEEecCCCccccccccceeCCCCCCCCCCCCCccccCCCCCCEecCCCCCCCCCCcc
Q 040876           55 SWNIGGDCCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASRED  134 (343)
Q Consensus        55 ~W~~~~~~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~  134 (343)
                      .|..+...|.|.+|.|...                            .++.  +|..+.  ++|++|++++|.       
T Consensus        11 ~~~~~~~~Cs~~~v~c~~~----------------------------~l~~--ip~~~~--~~L~~L~Ls~n~-------   51 (229)
T 3e6j_A           11 AACPSQCSCSGTTVDCRSK----------------------------RHAS--VPAGIP--TNAQILYLHDNQ-------   51 (229)
T ss_dssp             CCCCTTCEEETTEEECTTS----------------------------CCSS--CCSCCC--TTCSEEECCSSC-------
T ss_pred             ccCCCCCEEeCCEeEccCC----------------------------CcCc--cCCCCC--CCCCEEEcCCCc-------
Confidence            4547888999999999641                            1111  555443  778888888876       


Q ss_pred             cccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCcc
Q 040876          135 QDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLS  214 (343)
Q Consensus       135 L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~  214 (343)
                            +.                +..|..+.++  ++|++|++++|+++...+..+..+++|++|++++|++++..+..
T Consensus        52 ------i~----------------~~~~~~~~~l--~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~  107 (229)
T 3e6j_A           52 ------IT----------------KLEPGVFDSL--INLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAV  107 (229)
T ss_dssp             ------CC----------------CCCTTTTTTC--TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT
T ss_pred             ------cC----------------ccCHHHhhCc--cCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhH
Confidence                  33                2446677888  89999999999998655566788999999999999998666666


Q ss_pred             ccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccC
Q 040876          215 LNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSG  293 (343)
Q Consensus       215 l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~  293 (343)
                      +..+++|++|++++|+++ .+|. .+..+++|++|++++|            ++++..+..+... +|+.|++++|.+..
T Consensus       108 ~~~l~~L~~L~Ls~N~l~-~lp~-~~~~l~~L~~L~L~~N------------~l~~~~~~~~~~l~~L~~L~l~~N~~~c  173 (229)
T 3e6j_A          108 FDRLVHLKELFMCCNKLT-ELPR-GIERLTHLTHLALDQN------------QLKSIPHGAFDRLSSLTHAYLFGNPWDC  173 (229)
T ss_dssp             TTTCTTCCEEECCSSCCC-SCCT-TGGGCTTCSEEECCSS------------CCCCCCTTTTTTCTTCCEEECTTSCBCT
T ss_pred             hCcchhhCeEeccCCccc-ccCc-ccccCCCCCEEECCCC------------cCCccCHHHHhCCCCCCEEEeeCCCccC
Confidence            788999999999999998 7887 7788888888777654            4444444455555 88999999998886


Q ss_pred             ccc
Q 040876          294 PLS  296 (343)
Q Consensus       294 ~~~  296 (343)
                      ..+
T Consensus       174 ~c~  176 (229)
T 3e6j_A          174 ECR  176 (229)
T ss_dssp             TBG
T ss_pred             Ccc
Confidence            544

>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=99.80  E-value=2.7e-20  Score=173.69  Aligned_cols=201  Identities=20%  Similarity=0.147  Sum_probs=156.6

Q ss_pred             CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecC---ccccccchhc-------cCCCC
Q 040876          128 SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSS---SISGHLTEQI-------GHFKN  196 (343)
Q Consensus       128 ~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n---~l~~~~p~~l-------~~l~~  196 (343)
                      .+++|+.|++++| +.+..            ...++..+..+  ++|++|++++|   ++++.+|..+       ..+++
T Consensus        30 ~~~~L~~L~L~~n~i~~~~------------~~~l~~~l~~~--~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~   95 (386)
T 2ca6_A           30 EDDSVKEIVLSGNTIGTEA------------ARWLSENIASK--KDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPK   95 (386)
T ss_dssp             HCSCCCEEECTTSEECHHH------------HHHHHHTTTTC--TTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTT
T ss_pred             cCCCccEEECCCCCCCHHH------------HHHHHHHHHhC--CCccEEeCcccccCccccchhHHHHHHHHHHhhCCc
Confidence            4567999999999 76200            01355567788  99999999996   4556666655       78999


Q ss_pred             CCEEECcCCcccc----cCCccccCCCCCcEEEccCccCccccChH---hhhcC---------CCCCeEEecCceee---
Q 040876          197 LDTLDLGNNSIVG----LVPLSLNELSKLRILHLSDNKLNGTLSEI---HFVNL---------TKLSVFSVNENNLT---  257 (343)
Q Consensus       197 L~~L~Ls~N~l~~----~~p~~l~~l~~L~~L~l~~N~l~g~~p~~---~~~~l---------~~L~~L~l~~n~l~---  257 (343)
                      |++|++++|.+++    .+|..+..+++|++|++++|.+++..+..   .+..+         ++|++|++++|.++   
T Consensus        96 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~  175 (386)
T 2ca6_A           96 LHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGS  175 (386)
T ss_dssp             CCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGG
T ss_pred             ccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHH
Confidence            9999999999987    47778899999999999999997433220   23334         89999999999874   


Q ss_pred             -------------EeEEeccCCcccc-----cCCCccccc-CCCeEeCcCCccc----Cccccc---CCCCcEEEccCCc
Q 040876          258 -------------LKFLDLGENQIHG-----EMTNLTNAT-QLWYLRLHSNNFS----GPLSLI---SSNLVYLDLFNNS  311 (343)
Q Consensus       258 -------------l~~L~ls~n~l~~-----~~~~~~~~~-~L~~L~Ls~N~l~----~~~~~~---~~~L~~L~Ls~N~  311 (343)
                                   ++.|++++|+++.     .++..+... +|++|+|++|.++    +.+|..   +++|++|+|++|.
T Consensus       176 ~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~  255 (386)
T 2ca6_A          176 MKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL  255 (386)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC
T ss_pred             HHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCC
Confidence                         6789999999983     344345555 9999999999996    444433   7899999999999


Q ss_pred             cccccCchhhccC--CccccCceEecCCCcccc
Q 040876          312 FLGSISHFWCYRS--NETKRLRALSLGDNYLQG  342 (343)
Q Consensus       312 l~~~~~~~l~~~l--~~l~~L~~L~ls~N~l~g  342 (343)
                      +++.....++..+  +.+++|+.|++++|.|++
T Consensus       256 i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~  288 (386)
T 2ca6_A          256 LSARGAAAVVDAFSKLENIGLQTLRLQYNEIEL  288 (386)
T ss_dssp             CCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBH
T ss_pred             CchhhHHHHHHHHhhccCCCeEEEECcCCcCCH
Confidence            9987655666766  448999999999999875

>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=99.80  E-value=1.3e-18  Score=160.30  Aligned_cols=171  Identities=19%  Similarity=0.166  Sum_probs=116.6

Q ss_pred             chhh-hhhcCCCCCccE-EEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccC-ccCccccC
Q 040876          160 DIFD-IFSGCVSKGLEI-LVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD-NKLNGTLS  236 (343)
Q Consensus       160 ~ip~-~l~~l~~~~L~~-L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~-N~l~g~~p  236 (343)
                      .+|. .|.++  +++++ +.++.|+++...|..+..+++|++|++++|+++...+..+....++..+++.+ +++. .++
T Consensus        69 ~i~~~~f~~L--~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~-~l~  145 (350)
T 4ay9_X           69 VIEADVFSNL--PKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIH-TIE  145 (350)
T ss_dssp             EECTTSBCSC--TTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCC-EEC
T ss_pred             ccChhHhhcc--hhhhhhhcccCCcccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccc-ccc
Confidence            3443 45556  66554 55666777766667777788888888888887755444555566677777755 4454 555


Q ss_pred             hHhhhcCC-CCCeEEecCceee-----------EeEEeccC-CcccccCCCccccc-CCCeEeCcCCcccCcccccCCCC
Q 040876          237 EIHFVNLT-KLSVFSVNENNLT-----------LKFLDLGE-NQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLISSNL  302 (343)
Q Consensus       237 ~~~~~~l~-~L~~L~l~~n~l~-----------l~~L~ls~-n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~~~~L  302 (343)
                      ...|..+. .++.|++++|+++           ++.+++++ |.++...+..+... +|++||+++|+++..++..+.+|
T Consensus       146 ~~~f~~~~~~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~~~~L  225 (350)
T 4ay9_X          146 RNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENL  225 (350)
T ss_dssp             TTSSTTSBSSCEEEECCSSCCCEECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSSSCTTC
T ss_pred             ccchhhcchhhhhhccccccccCCChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChhhhccc
Confidence            54555543 5777788777764           56677765 55554444556666 99999999999998777678889


Q ss_pred             cEEEccCCccccccCchhhccCCccccCceEecCCC
Q 040876          303 VYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       303 ~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      +.|.+.++.--..+|     .+.++++|+.++++++
T Consensus       226 ~~L~~l~~~~l~~lP-----~l~~l~~L~~l~l~~~  256 (350)
T 4ay9_X          226 KKLRARSTYNLKKLP-----TLEKLVALMEASLTYP  256 (350)
T ss_dssp             CEEECTTCTTCCCCC-----CTTTCCSCCEEECSCH
T ss_pred             hHhhhccCCCcCcCC-----CchhCcChhhCcCCCC
Confidence            999887765433443     3678899999999875

>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=99.79  E-value=1.4e-19  Score=165.40  Aligned_cols=202  Identities=16%  Similarity=0.131  Sum_probs=161.5

Q ss_pred             CCCEecCCCCC-------CC--CCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccc
Q 040876          117 HLEQLSVADRP-------SL--ASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGH  186 (343)
Q Consensus       117 ~L~~L~Ls~n~-------~l--~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~  186 (343)
                      .++.++++++.       .+  +.++.+++++| +.+                . +..+..+  ++|++|++++|.+++.
T Consensus        48 ~~~~l~l~~~~~~~~~~~~~~~~~l~~L~l~~n~l~~----------------~-~~~~~~~--~~L~~L~L~~~~l~~~  108 (336)
T 2ast_B           48 LWQTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQ----------------P-LAEHFSP--FRVQHMDLSNSVIEVS  108 (336)
T ss_dssp             TSSEEECTTCBCCHHHHHHHHHTTCSEEECTTCEECS----------------C-CCSCCCC--BCCCEEECTTCEECHH
T ss_pred             hheeeccccccCCHHHHHhhhhccceEEEcCCccccc----------------c-chhhccC--CCCCEEEccCCCcCHH
Confidence            47899999886       23  67888999888 662                3 3335677  9999999999999866


Q ss_pred             -cchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCc-cCccc-cChHhhhcCCCCCeEEecCc-eee-----
Q 040876          187 -LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN-KLNGT-LSEIHFVNLTKLSVFSVNEN-NLT-----  257 (343)
Q Consensus       187 -~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N-~l~g~-~p~~~~~~l~~L~~L~l~~n-~l~-----  257 (343)
                       +|..+..+++|++|++++|.+++..|..++.+++|++|++++| .+++. ++. .+..+++|++|++++| .++     
T Consensus       109 ~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~-~~~~~~~L~~L~l~~~~~l~~~~~~  187 (336)
T 2ast_B          109 TLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQT-LLSSCSRLDELNLSWCFDFTEKHVQ  187 (336)
T ss_dssp             HHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHH-HHHHCTTCCEEECCCCTTCCHHHHH
T ss_pred             HHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHH-HHhcCCCCCEEcCCCCCCcChHHHH
Confidence             8888999999999999999999888889999999999999999 68753 555 6888999999999999 653     


Q ss_pred             ---------EeEEeccCC--ccc-ccCCCccccc-CCCeEeCcCCc-ccCccccc---CCCCcEEEccCCccccccCchh
Q 040876          258 ---------LKFLDLGEN--QIH-GEMTNLTNAT-QLWYLRLHSNN-FSGPLSLI---SSNLVYLDLFNNSFLGSISHFW  320 (343)
Q Consensus       258 ---------l~~L~ls~n--~l~-~~~~~~~~~~-~L~~L~Ls~N~-l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l  320 (343)
                               ++.|++++|  .++ +.++..+... +|++|++++|. +++..+..   +++|++|++++|.  +..+..+
T Consensus       188 ~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~--~~~~~~~  265 (336)
T 2ast_B          188 VAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCY--DIIPETL  265 (336)
T ss_dssp             HHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCT--TCCGGGG
T ss_pred             HHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCC--CCCHHHH
Confidence                     678999999  555 3455555555 99999999999 66544433   7899999999996  2222222


Q ss_pred             hccCCccccCceEecCCCcccc
Q 040876          321 CYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       321 ~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                       ..+.++++|+.|++++| ++.
T Consensus       266 -~~l~~~~~L~~L~l~~~-i~~  285 (336)
T 2ast_B          266 -LELGEIPTLKTLQVFGI-VPD  285 (336)
T ss_dssp             -GGGGGCTTCCEEECTTS-SCT
T ss_pred             -HHHhcCCCCCEEeccCc-cCH
Confidence             35678999999999998 653

>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=99.78  E-value=2.4e-18  Score=151.03  Aligned_cols=162  Identities=22%  Similarity=0.222  Sum_probs=137.0

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .+|..+.    +.+++|++++|.+++..+..+.++++|++|++++|.+++..|..+..+++|++|++++|+++ .+|...
T Consensus        28 ~~p~~~~----~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~  102 (251)
T 3m19_A           28 SVPSGIP----ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLA-SLPLGV  102 (251)
T ss_dssp             SCCSCCC----TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCC-CCCTTT
T ss_pred             ccCCCCC----CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCccc-ccChhH
Confidence            6666554    68999999999999888888999999999999999999888888999999999999999998 555547


Q ss_pred             hhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccc
Q 040876          240 FVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~  315 (343)
                      +..+++|++|++++|            ++++..+..+... +|++|+|++|++++..+..   +++|++|++++|.+++.
T Consensus       103 ~~~l~~L~~L~L~~N------------~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~  170 (251)
T 3m19_A          103 FDHLTQLDKLYLGGN------------QLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSV  170 (251)
T ss_dssp             TTTCTTCCEEECCSS------------CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCC
T ss_pred             hcccCCCCEEEcCCC------------cCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCcc
Confidence            888999998777665            4555555555555 9999999999999877743   68999999999999975


Q ss_pred             cCchhhccCCccccCceEecCCCcccc
Q 040876          316 ISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       316 ~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      .+    ..+..+++|+.|++++|++++
T Consensus       171 ~~----~~~~~l~~L~~L~l~~N~~~c  193 (251)
T 3m19_A          171 PH----GAFDRLGKLQTITLFGNQFDC  193 (251)
T ss_dssp             CT----TTTTTCTTCCEEECCSCCBCT
T ss_pred             CH----HHHhCCCCCCEEEeeCCceeC
Confidence            43    456789999999999999976

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.77  E-value=1.1e-18  Score=148.74  Aligned_cols=155  Identities=26%  Similarity=0.273  Sum_probs=124.1

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .+|..+.    +++++|++++|++++..+..+..+++|++|++++|++++..+..+..+++|++|++++|+++ .+|...
T Consensus        21 ~~p~~~~----~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~   95 (208)
T 2o6s_A           21 SVPTGIP----AQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQ-SLPNGV   95 (208)
T ss_dssp             SCCSCCC----TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTT
T ss_pred             CCCCCCC----CCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCC-ccCHhH
Confidence            5565442    78999999999999766677899999999999999999665666789999999999999998 566546


Q ss_pred             hhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccc
Q 040876          240 FVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~  315 (343)
                      +..+++|++|++++|            ++++..+..+... +|++|++++|++++..+..   +++|++|++++|.+.+.
T Consensus        96 ~~~l~~L~~L~L~~N------------~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~  163 (208)
T 2o6s_A           96 FDKLTQLKELALNTN------------QLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCT  163 (208)
T ss_dssp             TTTCTTCCEEECCSS------------CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCCC
T ss_pred             hcCccCCCEEEcCCC------------cCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCeecC
Confidence            788999998877665            4555555555555 9999999999999876653   78999999999988764


Q ss_pred             cCchhhccCCccccCceEecCCCcccc
Q 040876          316 ISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       316 ~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                                 ++.|+.|+++.|+++|
T Consensus       164 -----------~~~l~~L~~~~n~~~g  179 (208)
T 2o6s_A          164 -----------CPGIRYLSEWINKHSG  179 (208)
T ss_dssp             -----------TTTTHHHHHHHHHCTT
T ss_pred             -----------CCCHHHHHHHHHhCCc
Confidence                       3456777777777766

>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=99.77  E-value=2.2e-18  Score=154.61  Aligned_cols=170  Identities=23%  Similarity=0.265  Sum_probs=107.5

Q ss_pred             ccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhc
Q 040876          112 LYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQI  191 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l  191 (343)
                      +..+++|++|++++|.             +.                 .++ .+..+  ++|++|++++|++++..+  +
T Consensus        42 ~~~l~~L~~L~l~~~~-------------i~-----------------~~~-~~~~l--~~L~~L~L~~n~l~~~~~--l   86 (291)
T 1h6t_A           42 QNELNSIDQIIANNSD-------------IK-----------------SVQ-GIQYL--PNVTKLFLNGNKLTDIKP--L   86 (291)
T ss_dssp             HHHHHTCCEEECTTSC-------------CC-----------------CCT-TGGGC--TTCCEEECCSSCCCCCGG--G
T ss_pred             hhhcCcccEEEccCCC-------------cc-----------------cCh-hHhcC--CCCCEEEccCCccCCCcc--c
Confidence            4567788888888776             22                 332 35566  777777777777775433  7


Q ss_pred             cCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCccccc
Q 040876          192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGE  271 (343)
Q Consensus       192 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~  271 (343)
                      ..+++|++|++++|.+++ +| .+..+++|++|++++|+++ .++  .+..+++|+.|++++|.++            +.
T Consensus        87 ~~l~~L~~L~l~~n~l~~-~~-~l~~l~~L~~L~L~~n~i~-~~~--~l~~l~~L~~L~l~~n~l~------------~~  149 (291)
T 1h6t_A           87 ANLKNLGWLFLDENKVKD-LS-SLKDLKKLKSLSLEHNGIS-DIN--GLVHLPQLESLYLGNNKIT------------DI  149 (291)
T ss_dssp             TTCTTCCEEECCSSCCCC-GG-GGTTCTTCCEEECTTSCCC-CCG--GGGGCTTCCEEECCSSCCC------------CC
T ss_pred             ccCCCCCEEECCCCcCCC-Ch-hhccCCCCCEEECCCCcCC-CCh--hhcCCCCCCEEEccCCcCC------------cc
Confidence            777777777777777764 33 4777777777777777776 343  4666777777666665443            21


Q ss_pred             CCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          272 MTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       272 ~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                       + .+... +|++|++++|++++..+.. +++|++|++++|.+++.     + .+..+++|+.|++++|+++
T Consensus       150 -~-~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~L~~N~i~~l-----~-~l~~l~~L~~L~l~~n~i~  213 (291)
T 1h6t_A          150 -T-VLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDL-----R-ALAGLKNLDVLELFSQECL  213 (291)
T ss_dssp             -G-GGGGCTTCSEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBC-----G-GGTTCTTCSEEEEEEEEEE
T ss_pred             -h-hhccCCCCCEEEccCCccccchhhcCCCccCEEECCCCcCCCC-----h-hhccCCCCCEEECcCCccc
Confidence             2 22223 6666777766666654422 56666677776666542     1 2456666667776666654

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.76  E-value=9.2e-18  Score=165.60  Aligned_cols=175  Identities=21%  Similarity=0.221  Sum_probs=135.0

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCC-ccccCCCCCcEEEccCccCccccChH
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVP-LSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      ..+..+..+  .+|+++++..+.+. ..+..+..+++|+.++++.+......+ ..+..+++++.++++.|.+.+..+. 
T Consensus       388 ~~~~~~~~~--~~L~~L~~~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~l~~l~~l~ls~n~l~~~~~~-  463 (635)
T 4g8a_A          388 CCSQSDFGT--ISLKYLDLSFNGVI-TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG-  463 (635)
T ss_dssp             ECCHHHHSC--SCCCEEECCSCSEE-EECSCCTTCTTCCEEECTTSEEESTTSSCTTTTCTTCCEEECTTSCCEECCTT-
T ss_pred             ccccchhhh--hhhhhhhccccccc-cccccccccccccchhhhhcccccccccccccccccccccccccccccccccc-
Confidence            445556666  77778887777766 345566777888888887777654443 3456777888888888888755555 


Q ss_pred             hhhcCCCCCeEEecCceee-------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCC
Q 040876          239 HFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSN  301 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~-------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~  301 (343)
                      .+..++.++.|++++|.+.             ++.|++++|++++..|..+... +|++|+|++|++++..|..   +++
T Consensus       464 ~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~  543 (635)
T 4g8a_A          464 IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNS  543 (635)
T ss_dssp             TTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCBCCCGGGTTCTT
T ss_pred             ccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCCEEECCCCcCCCCChhHHhCCCC
Confidence            6777788888888887642             5678888999998888888777 9999999999999987764   689


Q ss_pred             CcEEEccCCccccccCchhhccCCcc-ccCceEecCCCcccc
Q 040876          302 LVYLDLFNNSFLGSISHFWCYRSNET-KRLRALSLGDNYLQG  342 (343)
Q Consensus       302 L~~L~Ls~N~l~~~~~~~l~~~l~~l-~~L~~L~ls~N~l~g  342 (343)
                      |++|+|++|++++..|    ..+..+ ++|+.|++++|+++.
T Consensus       544 L~~L~Ls~N~l~~~~~----~~l~~l~~~L~~L~L~~Np~~C  581 (635)
T 4g8a_A          544 LQVLDYSLNHIMTSKK----QELQHFPSSLAFLNLTQNDFAC  581 (635)
T ss_dssp             CCEEECTTSCCCBCCS----SCTTCCCTTCCEEECTTCCBCC
T ss_pred             CCEEECCCCcCCCCCH----HHHHhhhCcCCEEEeeCCCCcc
Confidence            9999999999998765    455666 689999999999874

>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=1e-17  Score=164.61  Aligned_cols=149  Identities=25%  Similarity=0.258  Sum_probs=80.0

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+..+  ++|++|+|++|.+++..|  +..+++|++|+|++|.+++ +| .+..+++|++|++++|.++ .++  .+..+
T Consensus        60 ~l~~l--~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~-l~-~l~~l~~L~~L~Ls~N~l~-~l~--~l~~l  130 (605)
T 1m9s_A           60 GIQYL--PNVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENKIKD-LS-SLKDLKKLKSLSLEHNGIS-DIN--GLVHL  130 (605)
T ss_dssp             TGGGC--TTCCEEECTTSCCCCCGG--GGGCTTCCEEECCSSCCCC-CT-TSTTCTTCCEEECTTSCCC-CCG--GGGGC
T ss_pred             HHccC--CCCCEEEeeCCCCCCChh--hccCCCCCEEECcCCCCCC-Ch-hhccCCCCCEEEecCCCCC-CCc--cccCC
Confidence            35556  666677777666664333  6666667777777766663 23 5666666777777766665 333  35566


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhh
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWC  321 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~  321 (343)
                      ++|+.|++++|.++            +. + .+..+ +|+.|+|++|.+++..|.. +++|+.|+|++|.+++.      
T Consensus       131 ~~L~~L~Ls~N~l~------------~l-~-~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~i~~l------  190 (605)
T 1m9s_A          131 PQLESLYLGNNKIT------------DI-T-VLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDL------  190 (605)
T ss_dssp             TTCSEEECCSSCCC------------CC-G-GGGSCTTCSEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBC------
T ss_pred             CccCEEECCCCccC------------Cc-h-hhcccCCCCEEECcCCcCCCchhhccCCCCCEEECcCCCCCCC------
Confidence            66666666555443            11 1 12222 5555555555555443322 44555555555555431      


Q ss_pred             ccCCccccCceEecCCCccc
Q 040876          322 YRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       322 ~~l~~l~~L~~L~ls~N~l~  341 (343)
                      ..+..+++|+.|+|++|+++
T Consensus       191 ~~l~~l~~L~~L~L~~N~l~  210 (605)
T 1m9s_A          191 RALAGLKNLDVLELFSQECL  210 (605)
T ss_dssp             GGGTTCTTCSEEECCSEEEE
T ss_pred             hHHccCCCCCEEEccCCcCc
Confidence            12344455555555555444

>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=3.5e-18  Score=158.05  Aligned_cols=162  Identities=25%  Similarity=0.225  Sum_probs=128.8

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhcc-CCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG-HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~-~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      .+|..+.    +.+++|+|++|++++..+..+. .+++|++|+|++|++++..+..+..+++|++|++++|+++ .++..
T Consensus        32 ~iP~~~~----~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~-~~~~~  106 (361)
T 2xot_A           32 NVPQSLP----SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH-TLDEF  106 (361)
T ss_dssp             SCCSSCC----TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC-EECTT
T ss_pred             ccCccCC----CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCC-cCCHH
Confidence            6676554    5689999999999977777777 8999999999999999777788999999999999999998 55554


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc------CCCCcEEEccCCc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI------SSNLVYLDLFNNS  311 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~------~~~L~~L~Ls~N~  311 (343)
                      .|..+++|+.|++++|.            |++..+..+... +|++|+|++|++++..+..      +++|+.|+|++|.
T Consensus       107 ~~~~l~~L~~L~L~~N~------------i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~  174 (361)
T 2xot_A          107 LFSDLQALEVLLLYNNH------------IVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNK  174 (361)
T ss_dssp             TTTTCTTCCEEECCSSC------------CCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSC
T ss_pred             HhCCCcCCCEEECCCCc------------ccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCC
Confidence            78889999988777654            445556666666 9999999999999865543      6789999999999


Q ss_pred             cccccCchhhccCCcccc--CceEecCCCcccc
Q 040876          312 FLGSISHFWCYRSNETKR--LRALSLGDNYLQG  342 (343)
Q Consensus       312 l~~~~~~~l~~~l~~l~~--L~~L~ls~N~l~g  342 (343)
                      |++..+    ..+..++.  ++.|++++|++..
T Consensus       175 l~~l~~----~~~~~l~~~~l~~l~l~~N~~~C  203 (361)
T 2xot_A          175 LKKLPL----TDLQKLPAWVKNGLYLHNNPLEC  203 (361)
T ss_dssp             CCCCCH----HHHHHSCHHHHTTEECCSSCEEC
T ss_pred             CCccCH----HHhhhccHhhcceEEecCCCccC
Confidence            986432    33445555  4889999998763

>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=99.74  E-value=2.4e-17  Score=141.77  Aligned_cols=131  Identities=18%  Similarity=0.183  Sum_probs=63.5

Q ss_pred             CccEEEeecCccccccc-hhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          172 GLEILVLRSSSISGHLT-EQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      .+++|++++|.+++..| ..+..+++|++|++++|++++..+..+..+++|++|++++|.++ .++...|..+++|++|+
T Consensus        33 ~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L~  111 (220)
T 2v70_A           33 YTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLE-NVQHKMFKGLESLKTLM  111 (220)
T ss_dssp             TCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC-CCCGGGGTTCSSCCEEE
T ss_pred             CCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccC-ccCHhHhcCCcCCCEEE
Confidence            34555555555554322 23455555555555555555444444555555555555555554 23322444555555444


Q ss_pred             ecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccc
Q 040876          251 VNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       251 l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~  315 (343)
                      +++            |++++..|..+... +|++|+|++|++++..|..   +++|++|++++|.+.+.
T Consensus       112 Ls~------------N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~  168 (220)
T 2v70_A          112 LRS------------NRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFNCN  168 (220)
T ss_dssp             CTT------------SCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEECS
T ss_pred             CCC------------CcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCcCC
Confidence            433            33333334434333 5555555555555544433   34555555555555443

>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=99.74  E-value=3.2e-17  Score=141.04  Aligned_cols=139  Identities=23%  Similarity=0.277  Sum_probs=95.2

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      ..+|..+.    +++++|++++|++++..+..+..+++|++|++++|.+++..|..+..+++|++|++++|.++ .+|..
T Consensus        24 ~~iP~~l~----~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~   98 (220)
T 2v9t_B           24 TEIPTNLP----ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT-ELPKS   98 (220)
T ss_dssp             SSCCSSCC----TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCC-CCCTT
T ss_pred             CcCCCccC----cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCC-ccCHh
Confidence            45555443    56777777777777655556777777777777777777666777777777777777777776 56654


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~  314 (343)
                      .|..+++|+.|++++            |++++..|..+... +|++|+|++|++++..+..   +++|++|++++|.+..
T Consensus        99 ~f~~l~~L~~L~L~~------------N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c  166 (220)
T 2v9t_B           99 LFEGLFSLQLLLLNA------------NKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFIC  166 (220)
T ss_dssp             TTTTCTTCCEEECCS------------SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEEC
T ss_pred             HccCCCCCCEEECCC------------CCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcCC
Confidence            566677777665554            44445555555555 7777777777777765543   5667777777777754

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.74  E-value=5.6e-18  Score=149.77  Aligned_cols=152  Identities=24%  Similarity=0.292  Sum_probs=109.0

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .++ .+..+  ++|++|++++|.++ .+| .+..+++|++|++++|.+++. |. +..+++|++|++++|+++ .+|.  
T Consensus        33 ~~~-~~~~l--~~L~~L~l~~n~i~-~l~-~l~~l~~L~~L~L~~N~i~~~-~~-l~~l~~L~~L~L~~N~l~-~l~~--  102 (263)
T 1xeu_A           33 DLV-SQKEL--SGVQNFNGDNSNIQ-SLA-GMQFFTNLKELHLSHNQISDL-SP-LKDLTKLEELSVNRNRLK-NLNG--  102 (263)
T ss_dssp             SEE-CHHHH--TTCSEEECTTSCCC-CCT-TGGGCTTCCEEECCSSCCCCC-GG-GTTCSSCCEEECCSSCCS-CCTT--
T ss_pred             ccc-chhhc--CcCcEEECcCCCcc-cch-HHhhCCCCCEEECCCCccCCC-hh-hccCCCCCEEECCCCccC-CcCc--
Confidence            444 46677  88999999999988 455 688899999999999999854 43 888999999999999997 4664  


Q ss_pred             hhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccC
Q 040876          240 FVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSIS  317 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~  317 (343)
                      +.. ++|+.|++++|.+            ++ ++. +... +|++|++++|++++..+.. +++|++|++++|.+++.  
T Consensus       103 ~~~-~~L~~L~L~~N~l------------~~-~~~-l~~l~~L~~L~Ls~N~i~~~~~l~~l~~L~~L~L~~N~i~~~--  165 (263)
T 1xeu_A          103 IPS-ACLSRLFLDNNEL------------RD-TDS-LIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLHGNEITNT--  165 (263)
T ss_dssp             CCC-SSCCEEECCSSCC------------SB-SGG-GTTCTTCCEEECTTSCCCBCGGGGGCTTCCEEECTTSCCCBC--
T ss_pred             ccc-CcccEEEccCCcc------------CC-Chh-hcCcccccEEECCCCcCCCChHHccCCCCCEEECCCCcCcch--
Confidence            222 7777777666554            32 232 3333 7788888888777653222 67778888888877764  


Q ss_pred             chhhccCCccccCceEecCCCcccc
Q 040876          318 HFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       318 ~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                          ..+..+++|+.|++++|++++
T Consensus       166 ----~~l~~l~~L~~L~l~~N~~~~  186 (263)
T 1xeu_A          166 ----GGLTRLKKVNWIDLTGQKCVN  186 (263)
T ss_dssp             ----TTSTTCCCCCEEEEEEEEEEC
T ss_pred             ----HHhccCCCCCEEeCCCCcccC
Confidence                345677778888888777664

>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=99.74  E-value=4.5e-17  Score=140.93  Aligned_cols=140  Identities=24%  Similarity=0.240  Sum_probs=95.7

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      ..+|..+.    ++|++|++++|.+++..|..+..+++|++|++++|+++...+..+..+++|++|++++|+++ .++..
T Consensus        32 ~~ip~~~~----~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~-~l~~~  106 (229)
T 3e6j_A           32 ASVPAGIP----TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLT-VLPSA  106 (229)
T ss_dssp             SSCCSCCC----TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTT
T ss_pred             CccCCCCC----CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCC-ccChh
Confidence            45665443    67778888888887766777777788888888888876444455677778888888888777 44443


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~  314 (343)
                      .+..+++|+.|++++|.+            + .+|..+... +|++|++++|++++..+..   +++|+.|++++|.+.+
T Consensus       107 ~~~~l~~L~~L~Ls~N~l------------~-~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c  173 (229)
T 3e6j_A          107 VFDRLVHLKELFMCCNKL------------T-ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWDC  173 (229)
T ss_dssp             TTTTCTTCCEEECCSSCC------------C-SCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBCT
T ss_pred             HhCcchhhCeEeccCCcc------------c-ccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCccC
Confidence            566777777766665443            3 445445444 7888888888877655443   5677788888887765


Q ss_pred             cc
Q 040876          315 SI  316 (343)
Q Consensus       315 ~~  316 (343)
                      ..
T Consensus       174 ~c  175 (229)
T 3e6j_A          174 EC  175 (229)
T ss_dssp             TB
T ss_pred             Cc
Confidence            43

>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=99.74  E-value=1.8e-17  Score=142.60  Aligned_cols=149  Identities=19%  Similarity=0.266  Sum_probs=105.6

Q ss_pred             cEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecC
Q 040876          174 EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE  253 (343)
Q Consensus       174 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~  253 (343)
                      +.++++++.++ .+|..+.  +++++|++++|.+++..+..+..+++|++|++++|++++..|. .|..+++|++|++++
T Consensus        14 ~~v~c~~~~l~-~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~-~~~~l~~L~~L~Ls~   89 (220)
T 2v9t_B           14 NIVDCRGKGLT-EIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPD-AFQGLRSLNSLVLYG   89 (220)
T ss_dssp             TEEECTTSCCS-SCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTT-TTTTCSSCCEEECCS
T ss_pred             CEEEcCCCCcC-cCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHH-HhhCCcCCCEEECCC
Confidence            56777777777 5666554  5788888888888866666777888888888888888744455 777778777766665


Q ss_pred             ceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCcccc
Q 040876          254 NNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKR  329 (343)
Q Consensus       254 n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~  329 (343)
                      |.            ++...+..+... +|++|+|++|++++..|..   +++|++|+|++|.+++..+    ..+..+++
T Consensus        90 N~------------l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~----~~~~~l~~  153 (220)
T 2v9t_B           90 NK------------ITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAK----GTFSPLRA  153 (220)
T ss_dssp             SC------------CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT----TTTTTCTT
T ss_pred             Cc------------CCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECH----HHHhCCCC
Confidence            44            443334444444 8888888888888766654   5678888888888876543    34567788


Q ss_pred             CceEecCCCcccc
Q 040876          330 LRALSLGDNYLQG  342 (343)
Q Consensus       330 L~~L~ls~N~l~g  342 (343)
                      |+.|++++|+++.
T Consensus       154 L~~L~L~~N~~~c  166 (220)
T 2v9t_B          154 IQTMHLAQNPFIC  166 (220)
T ss_dssp             CCEEECCSSCEEC
T ss_pred             CCEEEeCCCCcCC
Confidence            8888888887753

>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=99.73  E-value=1.1e-17  Score=141.28  Aligned_cols=151  Identities=15%  Similarity=0.182  Sum_probs=120.9

Q ss_pred             hcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCC
Q 040876          166 SGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTK  245 (343)
Q Consensus       166 ~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~  245 (343)
                      ..+  ++|++|++++|.++ .+| .+..+++|++|++++|.++  .+..+..+++|++|++++|.+++..+. .+..+++
T Consensus        41 ~~l--~~L~~L~l~~n~i~-~l~-~l~~l~~L~~L~l~~n~~~--~~~~l~~l~~L~~L~l~~n~l~~~~~~-~l~~l~~  113 (197)
T 4ezg_A           41 AQM--NSLTYITLANINVT-DLT-GIEYAHNIKDLTINNIHAT--NYNPISGLSNLERLRIMGKDVTSDKIP-NLSGLTS  113 (197)
T ss_dssp             HHH--HTCCEEEEESSCCS-CCT-TGGGCTTCSEEEEESCCCS--CCGGGTTCTTCCEEEEECTTCBGGGSC-CCTTCTT
T ss_pred             hhc--CCccEEeccCCCcc-ChH-HHhcCCCCCEEEccCCCCC--cchhhhcCCCCCEEEeECCccCcccCh-hhcCCCC
Confidence            556  88999999999999 566 6899999999999999776  335789999999999999999876676 7888999


Q ss_pred             CCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCc-ccCccccc--CCCCcEEEccCCccccccCchhh
Q 040876          246 LSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNN-FSGPLSLI--SSNLVYLDLFNNSFLGSISHFWC  321 (343)
Q Consensus       246 L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~-l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l~  321 (343)
                      |++|++++|            ++++..+..+... +|++|++++|. ++.. |..  +++|++|++++|.+++.     +
T Consensus       114 L~~L~Ls~n------------~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~-~~l~~l~~L~~L~l~~n~i~~~-----~  175 (197)
T 4ezg_A          114 LTLLDISHS------------AHDDSILTKINTLPKVNSIDLSYNGAITDI-MPLKTLPELKSLNIQFDGVHDY-----R  175 (197)
T ss_dssp             CCEEECCSS------------BCBGGGHHHHTTCSSCCEEECCSCTBCCCC-GGGGGCSSCCEEECTTBCCCCC-----T
T ss_pred             CCEEEecCC------------ccCcHhHHHHhhCCCCCEEEccCCCCcccc-HhhcCCCCCCEEECCCCCCcCh-----H
Confidence            998777665            4555455555555 99999999998 5554 433  88999999999999873     2


Q ss_pred             ccCCccccCceEecCCCcccc
Q 040876          322 YRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       322 ~~l~~l~~L~~L~ls~N~l~g  342 (343)
                       .+..+++|+.|++++|+|.+
T Consensus       176 -~l~~l~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          176 -GIEDFPKLNQLYAFSQTIGG  195 (197)
T ss_dssp             -TGGGCSSCCEEEECBC----
T ss_pred             -HhccCCCCCEEEeeCcccCC
Confidence             46788999999999999976

>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=99.73  E-value=2.3e-17  Score=141.96  Aligned_cols=149  Identities=19%  Similarity=0.216  Sum_probs=87.0

Q ss_pred             cEEEeecCccccccchhccCCCCCCEEECcCCcccccCC-ccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEec
Q 040876          174 EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVP-LSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN  252 (343)
Q Consensus       174 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~  252 (343)
                      +++++++|.++ .+|..+.  ..+++|++++|.+++..| ..+..+++|++|++++|.+++ ++...|..+++|++|+++
T Consensus        14 ~~l~~s~n~l~-~iP~~~~--~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~-i~~~~~~~l~~L~~L~Ls   89 (220)
T 2v70_A           14 TTVDCSNQKLN-KIPEHIP--QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITD-IEEGAFEGASGVNEILLT   89 (220)
T ss_dssp             TEEECCSSCCS-SCCSCCC--TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCE-ECTTTTTTCTTCCEEECC
T ss_pred             CEeEeCCCCcc-cCccCCC--CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCE-ECHHHhCCCCCCCEEECC
Confidence            45666666666 3555442  235666777776665533 235666667777777766663 333256666666665554


Q ss_pred             CceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccc
Q 040876          253 ENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETK  328 (343)
Q Consensus       253 ~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~  328 (343)
                      +            |++++..+..+... +|++|+|++|++++..|..   +++|++|+|++|.+++..|    ..+..++
T Consensus        90 ~------------N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~----~~~~~l~  153 (220)
T 2v70_A           90 S------------NRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAP----GAFDTLH  153 (220)
T ss_dssp             S------------SCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCT----TTTTTCT
T ss_pred             C------------CccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECH----HHhcCCC
Confidence            4            33344444444444 6667777777666655543   4566667777776665433    4455666


Q ss_pred             cCceEecCCCcccc
Q 040876          329 RLRALSLGDNYLQG  342 (343)
Q Consensus       329 ~L~~L~ls~N~l~g  342 (343)
                      +|+.|++++|++++
T Consensus       154 ~L~~L~L~~N~l~c  167 (220)
T 2v70_A          154 SLSTLNLLANPFNC  167 (220)
T ss_dssp             TCCEEECCSCCEEC
T ss_pred             CCCEEEecCcCCcC
Confidence            66677777766654

>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=99.73  E-value=1.4e-17  Score=140.71  Aligned_cols=154  Identities=16%  Similarity=0.229  Sum_probs=120.9

Q ss_pred             cCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhcc
Q 040876          113 YRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG  192 (343)
Q Consensus       113 ~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~  192 (343)
                      ..+++|++|++++|.             +                 ..+| .+..+  ++|++|++++|.++.  +..+.
T Consensus        41 ~~l~~L~~L~l~~n~-------------i-----------------~~l~-~l~~l--~~L~~L~l~~n~~~~--~~~l~   85 (197)
T 4ezg_A           41 AQMNSLTYITLANIN-------------V-----------------TDLT-GIEYA--HNIKDLTINNIHATN--YNPIS   85 (197)
T ss_dssp             HHHHTCCEEEEESSC-------------C-----------------SCCT-TGGGC--TTCSEEEEESCCCSC--CGGGT
T ss_pred             hhcCCccEEeccCCC-------------c-----------------cChH-HHhcC--CCCCEEEccCCCCCc--chhhh
Confidence            566778888887776             2                 2556 57888  999999999997763  34789


Q ss_pred             CCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccC
Q 040876          193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEM  272 (343)
Q Consensus       193 ~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~  272 (343)
                      .+++|++|++++|.+++..|..++.+++|++|++++|.+++..|. .+..+++|++|++++|.+           ++ .+
T Consensus        86 ~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~~~~~-~l~~l~~L~~L~L~~n~~-----------i~-~~  152 (197)
T 4ezg_A           86 GLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILT-KINTLPKVNSIDLSYNGA-----------IT-DI  152 (197)
T ss_dssp             TCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCBGGGHH-HHTTCSSCCEEECCSCTB-----------CC-CC
T ss_pred             cCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccCcHhHH-HHhhCCCCCEEEccCCCC-----------cc-cc
Confidence            999999999999999988888999999999999999999876676 788999999988877641           22 34


Q ss_pred             CCcccccCCCeEeCcCCcccCccccc-CCCCcEEEccCCcccc
Q 040876          273 TNLTNATQLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       273 ~~~~~~~~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~  314 (343)
                      |......+|++|++++|++++..+.. +++|++|++++|++.+
T Consensus       153 ~~l~~l~~L~~L~l~~n~i~~~~~l~~l~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          153 MPLKTLPELKSLNIQFDGVHDYRGIEDFPKLNQLYAFSQTIGG  195 (197)
T ss_dssp             GGGGGCSSCCEEECTTBCCCCCTTGGGCSSCCEEEECBC----
T ss_pred             HhhcCCCCCCEEECCCCCCcChHHhccCCCCCEEEeeCcccCC
Confidence            43333339999999999999854332 8999999999999865

>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=99.73  E-value=1.1e-17  Score=150.08  Aligned_cols=160  Identities=25%  Similarity=0.355  Sum_probs=118.2

Q ss_pred             CCCCCCCCCCCCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEE
Q 040876           98 PRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILV  177 (343)
Q Consensus        98 ~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~  177 (343)
                      ..+|.+..  +| .+..+++|++|++++|.             +.                 .++. +.++  ++|++|+
T Consensus        53 l~~~~i~~--~~-~~~~l~~L~~L~L~~n~-------------l~-----------------~~~~-l~~l--~~L~~L~   96 (291)
T 1h6t_A           53 ANNSDIKS--VQ-GIQYLPNVTKLFLNGNK-------------LT-----------------DIKP-LANL--KNLGWLF   96 (291)
T ss_dssp             CTTSCCCC--CT-TGGGCTTCCEEECCSSC-------------CC-----------------CCGG-GTTC--TTCCEEE
T ss_pred             ccCCCccc--Ch-hHhcCCCCCEEEccCCc-------------cC-----------------CCcc-cccC--CCCCEEE
Confidence            34566665  54 48889999999999887             22                 3444 7778  8899999


Q ss_pred             eecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee
Q 040876          178 LRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT  257 (343)
Q Consensus       178 L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~  257 (343)
                      +++|.+++ +| .+..+++|++|++++|.+++.  ..+..+++|++|++++|.++ .+ . .+..+++|+.|++++|.+ 
T Consensus        97 l~~n~l~~-~~-~l~~l~~L~~L~L~~n~i~~~--~~l~~l~~L~~L~l~~n~l~-~~-~-~l~~l~~L~~L~L~~N~l-  168 (291)
T 1h6t_A           97 LDENKVKD-LS-SLKDLKKLKSLSLEHNGISDI--NGLVHLPQLESLYLGNNKIT-DI-T-VLSRLTKLDTLSLEDNQI-  168 (291)
T ss_dssp             CCSSCCCC-GG-GGTTCTTCCEEECTTSCCCCC--GGGGGCTTCCEEECCSSCCC-CC-G-GGGGCTTCSEEECCSSCC-
T ss_pred             CCCCcCCC-Ch-hhccCCCCCEEECCCCcCCCC--hhhcCCCCCCEEEccCCcCC-cc-h-hhccCCCCCEEEccCCcc-
Confidence            99998885 33 488889999999999988853  46888899999999999887 44 3 677888888877766544 


Q ss_pred             EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCcccc
Q 040876          258 LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       258 l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~  314 (343)
                                 ++..+  +... +|++|++++|.+++..+.. +++|+.|++++|.++.
T Consensus       169 -----------~~~~~--l~~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L~l~~n~i~~  214 (291)
T 1h6t_A          169 -----------SDIVP--LAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLN  214 (291)
T ss_dssp             -----------CCCGG--GTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEEEEEEEC
T ss_pred             -----------ccchh--hcCCCccCEEECCCCcCCCChhhccCCCCCEEECcCCcccC
Confidence                       33333  3333 8888888888887643322 6788888888888765

>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=99.71  E-value=2.7e-17  Score=151.38  Aligned_cols=174  Identities=16%  Similarity=0.176  Sum_probs=101.3

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCc-cccCCCCCcE-EEccCccCccccCh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL-SLNELSKLRI-LHLSDNKLNGTLSE  237 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~-~l~~l~~L~~-L~l~~N~l~g~~p~  237 (343)
                      .+|..+.    +++++|+|++|+|+...+..|.++++|++|+|++|++.+.+|. .|.+++++++ +.+..|+++ .++.
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 EIPSDLP----RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLL-YINP   97 (350)
T ss_dssp             SCCTTCC----TTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCC-EECT
T ss_pred             ccCcCcC----CCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCccc-ccCc
Confidence            5565542    5677777777777743334567777777777777776655553 4566666554 445556676 4443


Q ss_pred             HhhhcCCCCCeEEecCceee------------EeEEeccC-CcccccCCCccccc--CCCeEeCcCCcccCccccc--CC
Q 040876          238 IHFVNLTKLSVFSVNENNLT------------LKFLDLGE-NQIHGEMTNLTNAT--QLWYLRLHSNNFSGPLSLI--SS  300 (343)
Q Consensus       238 ~~~~~l~~L~~L~l~~n~l~------------l~~L~ls~-n~l~~~~~~~~~~~--~L~~L~Ls~N~l~~~~~~~--~~  300 (343)
                      ..|..+++|++|++++|+++            +..+++.+ +++....+..+...  .++.|++++|+++...+..  ..
T Consensus        98 ~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~f~~~  177 (350)
T 4ay9_X           98 EAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGT  177 (350)
T ss_dssp             TSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTSSTTE
T ss_pred             hhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhhcccc
Confidence            36677777777777777653            23355543 34443333333332  5666777777776544433  34


Q ss_pred             CCcEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          301 NLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       301 ~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      +|+.+++++|..-+.+|   +..+..+++|++||+++|+|+
T Consensus       178 ~L~~l~l~~~n~l~~i~---~~~f~~l~~L~~LdLs~N~l~  215 (350)
T 4ay9_X          178 QLDELNLSDNNNLEELP---NDVFHGASGPVILDISRTRIH  215 (350)
T ss_dssp             EEEEEECTTCTTCCCCC---TTTTTTEECCSEEECTTSCCC
T ss_pred             chhHHhhccCCcccCCC---HHHhccCcccchhhcCCCCcC
Confidence            56666666433223333   234566677777777777665

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.70  E-value=6.3e-17  Score=149.56  Aligned_cols=136  Identities=22%  Similarity=0.198  Sum_probs=98.8

Q ss_pred             hhh-cCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhc
Q 040876          164 IFS-GCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVN  242 (343)
Q Consensus       164 ~l~-~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~  242 (343)
                      .+. ++  ++|++|+|++|++++..+..|..+++|++|+|++|++++..+..+..+++|++|++++|++++..|. .|..
T Consensus        58 ~~~~~l--~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~-~~~~  134 (361)
T 2xot_A           58 WTPTRL--TNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRN-AFED  134 (361)
T ss_dssp             SSSSCC--TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTT-TTTT
T ss_pred             hhhhcc--cccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHH-HhCC
Confidence            344 67  8888888888888876667788888888889888888866666788888888888888888744444 7888


Q ss_pred             CCCCCeEEecCceeeEeEEeccCCcccccCCCcc---ccc-CCCeEeCcCCcccCccccc---CCC--CcEEEccCCccc
Q 040876          243 LTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLT---NAT-QLWYLRLHSNNFSGPLSLI---SSN--LVYLDLFNNSFL  313 (343)
Q Consensus       243 l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~---~~~-~L~~L~Ls~N~l~~~~~~~---~~~--L~~L~Ls~N~l~  313 (343)
                      +++|+.|++++|.+            ++..+..+   ... +|+.|+|++|++++..+..   ++.  ++.|+|++|.+.
T Consensus       135 l~~L~~L~L~~N~l------------~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          135 MAQLQKLYLSQNQI------------SRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             CTTCCEEECCSSCC------------CSCCGGGTC----CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             cccCCEEECCCCcC------------CeeCHHHhcCcccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEecCCCcc
Confidence            88888877776554            33222222   223 8888888888888655433   343  367888888876


Q ss_pred             c
Q 040876          314 G  314 (343)
Q Consensus       314 ~  314 (343)
                      .
T Consensus       203 C  203 (361)
T 2xot_A          203 C  203 (361)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.70  E-value=1e-16  Score=157.49  Aligned_cols=163  Identities=27%  Similarity=0.363  Sum_probs=118.4

Q ss_pred             ccCCCCCCEecCCCCC--------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCc
Q 040876          112 LYRLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSS  182 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~  182 (343)
                      +..+++|+.|++++|.        .+++|+.|++++| +.                 .++. +..+  ++|++|+|++|.
T Consensus        39 ~~~L~~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~l~-----------------~~~~-l~~l--~~L~~L~Ls~N~   98 (605)
T 1m9s_A           39 QNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLT-----------------DIKP-LTNL--KNLGWLFLDENK   98 (605)
T ss_dssp             HHHHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSCCC-----------------CCGG-GGGC--TTCCEEECCSSC
T ss_pred             hhcCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCCCC-----------------CChh-hccC--CCCCEEECcCCC
Confidence            3455566666666655        3445666666666 55                 3444 7888  999999999999


Q ss_pred             cccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEe
Q 040876          183 ISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLD  262 (343)
Q Consensus       183 l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~  262 (343)
                      +++ +| .+..+++|++|+|++|.+++ + +.+..+++|+.|+|++|.+++ + . .+..+++|+.|++++|.+      
T Consensus        99 l~~-l~-~l~~l~~L~~L~Ls~N~l~~-l-~~l~~l~~L~~L~Ls~N~l~~-l-~-~l~~l~~L~~L~Ls~N~l------  165 (605)
T 1m9s_A           99 IKD-LS-SLKDLKKLKSLSLEHNGISD-I-NGLVHLPQLESLYLGNNKITD-I-T-VLSRLTKLDTLSLEDNQI------  165 (605)
T ss_dssp             CCC-CT-TSTTCTTCCEEECTTSCCCC-C-GGGGGCTTCSEEECCSSCCCC-C-G-GGGSCTTCSEEECCSSCC------
T ss_pred             CCC-Ch-hhccCCCCCEEEecCCCCCC-C-ccccCCCccCEEECCCCccCC-c-h-hhcccCCCCEEECcCCcC------
Confidence            985 33 68899999999999999985 3 468899999999999999984 4 3 678889988877776544      


Q ss_pred             ccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccc
Q 040876          263 LGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       263 ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~  315 (343)
                            ++..|  +..+ +|+.|+|++|++++..... +++|+.|+|++|.+.+.
T Consensus       166 ------~~~~~--l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~L~~N~l~~~  212 (605)
T 1m9s_A          166 ------SDIVP--LAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLNK  212 (605)
T ss_dssp             ------CCCGG--GTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEECCSEEEECC
T ss_pred             ------CCchh--hccCCCCCEEECcCCCCCCChHHccCCCCCEEEccCCcCcCC
Confidence                  44444  3334 8888888888887752222 77888888888887764

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.69  E-value=1e-16  Score=141.71  Aligned_cols=150  Identities=19%  Similarity=0.267  Sum_probs=99.3

Q ss_pred             cccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchh
Q 040876          111 WLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQ  190 (343)
Q Consensus       111 ~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~  190 (343)
                      .+..+++|++|++++|.             +                 ..+| .+..+  ++|++|++++|++++..+  
T Consensus        36 ~~~~l~~L~~L~l~~n~-------------i-----------------~~l~-~l~~l--~~L~~L~L~~N~i~~~~~--   80 (263)
T 1xeu_A           36 SQKELSGVQNFNGDNSN-------------I-----------------QSLA-GMQFF--TNLKELHLSHNQISDLSP--   80 (263)
T ss_dssp             CHHHHTTCSEEECTTSC-------------C-----------------CCCT-TGGGC--TTCCEEECCSSCCCCCGG--
T ss_pred             chhhcCcCcEEECcCCC-------------c-----------------ccch-HHhhC--CCCCEEECCCCccCCChh--
Confidence            46778888888888876             2                 2444 56667  788888888888875433  


Q ss_pred             ccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccc
Q 040876          191 IGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG  270 (343)
Q Consensus       191 l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~  270 (343)
                      +..+++|++|++++|++++ +|. +.. ++|++|++++|+++ .++  .+..+++|+.|++++|+++            +
T Consensus        81 l~~l~~L~~L~L~~N~l~~-l~~-~~~-~~L~~L~L~~N~l~-~~~--~l~~l~~L~~L~Ls~N~i~------------~  142 (263)
T 1xeu_A           81 LKDLTKLEELSVNRNRLKN-LNG-IPS-ACLSRLFLDNNELR-DTD--SLIHLKNLEILSIRNNKLK------------S  142 (263)
T ss_dssp             GTTCSSCCEEECCSSCCSC-CTT-CCC-SSCCEEECCSSCCS-BSG--GGTTCTTCCEEECTTSCCC------------B
T ss_pred             hccCCCCCEEECCCCccCC-cCc-ccc-CcccEEEccCCccC-CCh--hhcCcccccEEECCCCcCC------------C
Confidence            7788888888888888874 443 223 77888888888887 343  4677777777776665543            2


Q ss_pred             cCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCCccccc
Q 040876          271 EMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       271 ~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~  315 (343)
                       ++. +... +|++|++++|++++..... +++|++|++++|.+++.
T Consensus       143 -~~~-l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          143 -IVM-LGFLSKLEVLDLHGNEITNTGGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             -CGG-GGGCTTCCEEECTTSCCCBCTTSTTCCCCCEEEEEEEEEECC
T ss_pred             -ChH-HccCCCCCEEECCCCcCcchHHhccCCCCCEEeCCCCcccCC
Confidence             222 2333 6777777777776651111 56677777777776654

>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=99.69  E-value=3.3e-18  Score=167.05  Aligned_cols=194  Identities=15%  Similarity=0.140  Sum_probs=138.4

Q ss_pred             cCCCCCCEecCCCCC---------CCCCCcccccchhh-ccc----ccccCCCccccCcccchhhhhhcCCCCCccEEE-
Q 040876          113 YRLTHLEQLSVADRP---------SLASREDQDLLSNI-RQR----LSKCRTGAKSSQEISDIFDIFSGCVSKGLEILV-  177 (343)
Q Consensus       113 ~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~nl-~~~----l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~-  177 (343)
                      ..+++|+.|+|++|.         .+.+|+.|++++|. ...    +..+.       ..+.+|+.++++  ++|+.|+ 
T Consensus       346 ~~~~~L~~L~Ls~n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~-------~~~~~~~~l~~l--~~L~~L~~  416 (567)
T 1dce_A          346 ATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALD-------PLLYEKETLQYF--STLKAVDP  416 (567)
T ss_dssp             STTTTSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC-------TGGGHHHHHHHH--HHHHHHCG
T ss_pred             ccCccceeccCChhhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcc-------cccCCHHHHHHH--HhcccCcc
Confidence            567888888888887         45557777776662 100    00011       115677788888  8888888 


Q ss_pred             eecCccccccch------hccC--CCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          178 LRSSSISGHLTE------QIGH--FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       178 L~~n~l~~~~p~------~l~~--l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      ++.|.+. .++.      .+..  ...|++|++++|.+++ +|. ++.+++|++|++++|.++ .+|. .++.+++|+.|
T Consensus       417 l~~n~~~-~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~-lp~-~~~l~~L~~L~Ls~N~l~-~lp~-~~~~l~~L~~L  491 (567)
T 1dce_A          417 MRAAYLD-DLRSKFLLENSVLKMEYADVRVLHLAHKDLTV-LCH-LEQLLLVTHLDLSHNRLR-ALPP-ALAALRCLEVL  491 (567)
T ss_dssp             GGHHHHH-HHHHHHHHHHHHHHHHHTTCSEEECTTSCCSS-CCC-GGGGTTCCEEECCSSCCC-CCCG-GGGGCTTCCEE
T ss_pred             hhhcccc-hhhhhhhhcccccccCccCceEEEecCCCCCC-CcC-ccccccCcEeecCccccc-ccch-hhhcCCCCCEE
Confidence            5555433 1111      1111  1358999999999995 676 999999999999999998 8998 89999999998


Q ss_pred             EecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcc-ccc---CCCCcEEEccCCccccccCchhhccC
Q 040876          250 SVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPL-SLI---SSNLVYLDLFNNSFLGSISHFWCYRS  324 (343)
Q Consensus       250 ~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~-~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l  324 (343)
                      ++++|.+            ++ +| .+..+ +|++|+|++|++++.. |..   +++|+.|+|++|.+++..| .+...+
T Consensus       492 ~Ls~N~l------------~~-lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~-~~~~l~  556 (567)
T 1dce_A          492 QASDNAL------------EN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEG-IQERLA  556 (567)
T ss_dssp             ECCSSCC------------CC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSS-CTTHHH
T ss_pred             ECCCCCC------------CC-Cc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCcc-HHHHHH
Confidence            8776554            44 55 44444 9999999999999985 554   7899999999999998644 222333


Q ss_pred             CccccCceEec
Q 040876          325 NETKRLRALSL  335 (343)
Q Consensus       325 ~~l~~L~~L~l  335 (343)
                      ..+++|+.|++
T Consensus       557 ~~lp~L~~L~l  567 (567)
T 1dce_A          557 EMLPSVSSILT  567 (567)
T ss_dssp             HHCTTCSEEEC
T ss_pred             HHCcccCccCC
Confidence            45788998875

>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=99.67  E-value=1.2e-16  Score=134.50  Aligned_cols=115  Identities=23%  Similarity=0.349  Sum_probs=91.9

Q ss_pred             CCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhh--hhhcCCCCCccEEEeecCcccc
Q 040876          108 IPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFD--IFSGCVSKGLEILVLRSSSISG  185 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~--~l~~l~~~~L~~L~L~~n~l~~  185 (343)
                      +|..+..  ++++|++++|.             +.                 .++.  .+..+  ++|++|++++|++++
T Consensus        23 ip~~~~~--~l~~L~l~~n~-------------i~-----------------~~~~~~~~~~l--~~L~~L~Ls~N~l~~   68 (192)
T 1w8a_A           23 IPRDIPL--HTTELLLNDNE-------------LG-----------------RISSDGLFGRL--PHLVKLELKRNQLTG   68 (192)
T ss_dssp             CCSCCCT--TCSEEECCSCC-------------CC-----------------SBCCSCSGGGC--TTCCEEECCSSCCCC
T ss_pred             CccCCCC--CCCEEECCCCc-------------CC-----------------ccCCccccccC--CCCCEEECCCCCCCC
Confidence            6665543  78888888876             22                 3443  37778  899999999999998


Q ss_pred             ccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee
Q 040876          186 HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT  257 (343)
Q Consensus       186 ~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~  257 (343)
                      ..|..+.++++|++|++++|++++..|..+..+++|++|++++|++++..|. .+..+++|++|++++|.++
T Consensus        69 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           69 IEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPG-SFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             BCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTT-SSTTCTTCCEEECTTCCBC
T ss_pred             cCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHH-HhhcCCCCCEEEeCCCCcc
Confidence            8888899999999999999999988777788899999999999999866666 7888888888777766543

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.65  E-value=3.4e-17  Score=164.54  Aligned_cols=139  Identities=22%  Similarity=0.206  Sum_probs=114.6

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      ..|+.+..+  +.|++|+|++|.+. .+|..+..+++|++|+|++|.|+ .+|..++++++|++|+|++|.++ .+|. .
T Consensus       215 ~~~~~~~~l--~~L~~L~Ls~n~l~-~l~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~-~lp~-~  288 (727)
T 4b8c_D          215 MPKDSKYDD--QLWHALDLSNLQIF-NISANIFKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPA-E  288 (727)
T ss_dssp             -------CC--CCCCEEECTTSCCS-CCCGGGGGCCSCSCCBCTTSCCS-CCCGGGGGGTTCCEEECTTSCCS-SCCS-S
T ss_pred             cChhhhccC--CCCcEEECCCCCCC-CCChhhcCCCCCCEEEeeCCcCc-ccChhhhCCCCCCEEeCcCCcCC-ccCh-h
Confidence            456778888  99999999999998 78888889999999999999999 89999999999999999999998 8998 7


Q ss_pred             hhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcccccCC----CCcEEEccCCcccc
Q 040876          240 FVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLISS----NLVYLDLFNNSFLG  314 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~~~----~L~~L~Ls~N~l~~  314 (343)
                      ++.+++|++|+|++|.+            + .+|..+..+ +|++|+|++|.+++.+|..+.    .+..+++++|.+++
T Consensus       289 ~~~l~~L~~L~L~~N~l------------~-~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~~  355 (727)
T 4b8c_D          289 LGSCFQLKYFYFFDNMV------------T-TLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEI  355 (727)
T ss_dssp             GGGGTTCSEEECCSSCC------------C-CCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_pred             hcCCCCCCEEECCCCCC------------C-ccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCcccC
Confidence            89999999988776544            3 567667666 999999999999998887632    22347899999998


Q ss_pred             ccC
Q 040876          315 SIS  317 (343)
Q Consensus       315 ~~~  317 (343)
                      .+|
T Consensus       356 ~~p  358 (727)
T 4b8c_D          356 PLP  358 (727)
T ss_dssp             CCC
T ss_pred             cCc
Confidence            776

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.65  E-value=1.2e-15  Score=148.70  Aligned_cols=148  Identities=20%  Similarity=0.219  Sum_probs=109.2

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .+|..+  .  ++|++|++++|.++ .+|   ..+++|++|++++|++++ +|. +..  +|++|++++|.+++ +|.  
T Consensus        73 ~lp~~l--~--~~L~~L~Ls~N~l~-~ip---~~l~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls~N~l~~-lp~--  137 (571)
T 3cvr_A           73 SLPDNL--P--PQITVLEITQNALI-SLP---ELPASLEYLDACDNRLST-LPE-LPA--SLKHLDVDNNQLTM-LPE--  137 (571)
T ss_dssp             CCCSCC--C--TTCSEEECCSSCCS-CCC---CCCTTCCEEECCSSCCSC-CCC-CCT--TCCEEECCSSCCSC-CCC--
T ss_pred             ccCHhH--c--CCCCEEECcCCCCc-ccc---cccCCCCEEEccCCCCCC-cch-hhc--CCCEEECCCCcCCC-CCC--
Confidence            466554  2  68999999999998 677   457899999999999986 777 655  89999999999984 775  


Q ss_pred             hhcCCCCCeEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccccCCCCcEEEccCCccccccCch
Q 040876          240 FVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHF  319 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~~  319 (343)
                        .+++|+.|++++|            ++++ +|.  ...+|++|++++|++++..+ ..++|++|+|++|.|+ .+|. 
T Consensus       138 --~l~~L~~L~Ls~N------------~l~~-lp~--~l~~L~~L~Ls~N~L~~lp~-l~~~L~~L~Ls~N~L~-~lp~-  197 (571)
T 3cvr_A          138 --LPALLEYINADNN------------QLTM-LPE--LPTSLEVLSVRNNQLTFLPE-LPESLEALDVSTNLLE-SLPA-  197 (571)
T ss_dssp             --CCTTCCEEECCSS------------CCSC-CCC--CCTTCCEEECCSSCCSCCCC-CCTTCCEEECCSSCCS-SCCC-
T ss_pred             --cCccccEEeCCCC------------ccCc-CCC--cCCCcCEEECCCCCCCCcch-hhCCCCEEECcCCCCC-chhh-
Confidence              5677777766654            4554 554  22399999999999998444 5589999999999998 4554 


Q ss_pred             hhccC-CccccCceEecCCCcccc
Q 040876          320 WCYRS-NETKRLRALSLGDNYLQG  342 (343)
Q Consensus       320 l~~~l-~~l~~L~~L~ls~N~l~g  342 (343)
                      ++..+ ...+.|+.|++++|+|+.
T Consensus       198 ~~~~L~~~~~~L~~L~Ls~N~l~~  221 (571)
T 3cvr_A          198 VPVRNHHSEETEIFFRCRENRITH  221 (571)
T ss_dssp             CC--------CCEEEECCSSCCCC
T ss_pred             HHHhhhcccccceEEecCCCccee
Confidence            33211 112233999999999863

>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=99.64  E-value=6.2e-18  Score=165.14  Aligned_cols=175  Identities=19%  Similarity=0.160  Sum_probs=138.6

Q ss_pred             CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCc-------------cccccchhccC
Q 040876          128 SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSS-------------ISGHLTEQIGH  193 (343)
Q Consensus       128 ~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~-------------l~~~~p~~l~~  193 (343)
                      ..++|+.|++++| +.                 .+|+.++.+  ++|+.|++++|.             +.+.+|..++.
T Consensus       347 ~~~~L~~L~Ls~n~L~-----------------~Lp~~i~~l--~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~  407 (567)
T 1dce_A          347 TDEQLFRCELSVEKST-----------------VLQSELESC--KELQELEPENKWCLLTIILLMRALDPLLYEKETLQY  407 (567)
T ss_dssp             TTTTSSSCCCCHHHHH-----------------HHHHHHHHH--HHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHH
T ss_pred             cCccceeccCChhhHH-----------------hhHHHHHHH--HHHHHhccccchhhhhHHHHHHhcccccCCHHHHHH
Confidence            4567899999999 86                 899999999  999999997775             56677888888


Q ss_pred             CCCCCEEE-CcCCcccccCCc------cccC--CCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEecc
Q 040876          194 FKNLDTLD-LGNNSIVGLVPL------SLNE--LSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLG  264 (343)
Q Consensus       194 l~~L~~L~-Ls~N~l~~~~p~------~l~~--l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls  264 (343)
                      +++|+.|+ ++.|.+. .++.      .+..  ...|+.|++++|.++ .+|.  +..+++|+.|++++|.         
T Consensus       408 l~~L~~L~~l~~n~~~-~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~-~lp~--~~~l~~L~~L~Ls~N~---------  474 (567)
T 1dce_A          408 FSTLKAVDPMRAAYLD-DLRSKFLLENSVLKMEYADVRVLHLAHKDLT-VLCH--LEQLLLVTHLDLSHNR---------  474 (567)
T ss_dssp             HHHHHHHCGGGHHHHH-HHHHHHHHHHHHHHHHHTTCSEEECTTSCCS-SCCC--GGGGTTCCEEECCSSC---------
T ss_pred             HHhcccCcchhhcccc-hhhhhhhhcccccccCccCceEEEecCCCCC-CCcC--ccccccCcEeecCccc---------
Confidence            99999998 6666443 1111      1111  135999999999998 5775  8889999988777654         


Q ss_pred             CCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          265 ENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       265 ~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                         ++ .+|..+..+ +|+.|+|++|.+++ +|..  +++|++|+|++|.+++..   .|..+..+++|+.|++++|+|+
T Consensus       475 ---l~-~lp~~~~~l~~L~~L~Ls~N~l~~-lp~l~~l~~L~~L~Ls~N~l~~~~---~p~~l~~l~~L~~L~L~~N~l~  546 (567)
T 1dce_A          475 ---LR-ALPPALAALRCLEVLQASDNALEN-VDGVANLPRLQELLLCNNRLQQSA---AIQPLVSCPRLVLLNLQGNSLC  546 (567)
T ss_dssp             ---CC-CCCGGGGGCTTCCEEECCSSCCCC-CGGGTTCSSCCEEECCSSCCCSSS---TTGGGGGCTTCCEEECTTSGGG
T ss_pred             ---cc-ccchhhhcCCCCCEEECCCCCCCC-CcccCCCCCCcEEECCCCCCCCCC---CcHHHhcCCCCCEEEecCCcCC
Confidence               44 667777766 99999999999998 4543  789999999999999864   1356678999999999999998


Q ss_pred             c
Q 040876          342 G  342 (343)
Q Consensus       342 g  342 (343)
                      +
T Consensus       547 ~  547 (567)
T 1dce_A          547 Q  547 (567)
T ss_dssp             G
T ss_pred             C
Confidence            6

>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=99.64  E-value=2.2e-16  Score=132.77  Aligned_cols=120  Identities=23%  Similarity=0.327  Sum_probs=94.7

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccch-hccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTE-QIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~-~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      .+|..+.    .++++|++++|.+++..+. .+..+++|++|++++|.+++..|..+..+++|++|++++|++++..+. 
T Consensus        22 ~ip~~~~----~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-   96 (192)
T 1w8a_A           22 EIPRDIP----LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNK-   96 (192)
T ss_dssp             SCCSCCC----TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSS-
T ss_pred             cCccCCC----CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHH-
Confidence            6666553    5789999999999865554 488899999999999999988888899999999999999999854444 


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLS  296 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~  296 (343)
                      .+..+++|++|++++            |++++..|..+... +|++|++++|.+++..+
T Consensus        97 ~~~~l~~L~~L~L~~------------N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c~  143 (192)
T 1w8a_A           97 MFLGLHQLKTLNLYD------------NQISCVMPGSFEHLNSLTSLNLASNPFNCNCH  143 (192)
T ss_dssp             SSTTCTTCCEEECCS------------SCCCEECTTSSTTCTTCCEEECTTCCBCCSGG
T ss_pred             HhcCCCCCCEEECCC------------CcCCeeCHHHhhcCCCCCEEEeCCCCccCcCc
Confidence            678888888876665            55556667666666 89999999999987654

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.62  E-value=5.4e-15  Score=124.37  Aligned_cols=115  Identities=23%  Similarity=0.334  Sum_probs=97.9

Q ss_pred             CCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcccccc
Q 040876          108 IPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHL  187 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~  187 (343)
                      +|..+.  ++|++|++++|.             +                 ..+|+.+.++  ++|++|++++|.+++..
T Consensus        25 ip~~~~--~~l~~L~L~~n~-------------i-----------------~~ip~~~~~l--~~L~~L~Ls~N~i~~i~   70 (193)
T 2wfh_A           25 LPKGIP--RDVTELYLDGNQ-------------F-----------------TLVPKELSNY--KHLTLIDLSNNRISTLS   70 (193)
T ss_dssp             CCSCCC--TTCCEEECCSSC-------------C-----------------CSCCGGGGGC--TTCCEEECCSSCCCCCC
T ss_pred             CCCCCC--CCCCEEECCCCc-------------C-----------------chhHHHhhcc--cCCCEEECCCCcCCEeC
Confidence            565443  578888888876             2                 3677888899  99999999999999877


Q ss_pred             chhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee
Q 040876          188 TEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT  257 (343)
Q Consensus       188 p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~  257 (343)
                      +..|.++++|++|++++|.+++..|..+..+++|++|++++|.++ .+|...|..+++|+.|++++|.+.
T Consensus        71 ~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           71 NQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDIS-VVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCCC-BCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             HhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECCCCCCC-eeChhhhhcCccccEEEeCCCCee
Confidence            788999999999999999999877778999999999999999998 666656888999999988888765

>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=1.8e-15  Score=124.24  Aligned_cols=129  Identities=24%  Similarity=0.304  Sum_probs=97.4

Q ss_pred             CCccEEEeecCccc-cccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          171 KGLEILVLRSSSIS-GHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       171 ~~L~~L~L~~n~l~-~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      ++|++|++++|.++ +.+|..+..+++|++|++++|.+++.  ..+..+++|++|++++|.+++.+|. .+..+++|++|
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~~l~~L~~L  100 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDM-LAEKLPNLTHL  100 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCH-HHHHCTTCCEE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHH-HHhhCCCCCEE
Confidence            78999999999998 77888888899999999999998855  6788899999999999999866776 67778888887


Q ss_pred             EecCceeeEeEEeccCCcccccC-CCccccc-CCCeEeCcCCcccCccc----cc--CCCCcEEEccCCcccc
Q 040876          250 SVNENNLTLKFLDLGENQIHGEM-TNLTNAT-QLWYLRLHSNNFSGPLS----LI--SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       250 ~l~~n~l~l~~L~ls~n~l~~~~-~~~~~~~-~L~~L~Ls~N~l~~~~~----~~--~~~L~~L~Ls~N~l~~  314 (343)
                      ++++|.+            ++.. +..+... +|++|++++|.+++..+    ..  +++|++|++++|.+..
T Consensus       101 ~Ls~N~l------------~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~  161 (168)
T 2ell_A          101 NLSGNKL------------KDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQE  161 (168)
T ss_dssp             ECBSSSC------------CSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCB
T ss_pred             eccCCcc------------CcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChhh
Confidence            7776544            3321 1333334 77888888887776554    11  6677777777777653

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.59  E-value=8.1e-15  Score=121.36  Aligned_cols=91  Identities=23%  Similarity=0.293  Sum_probs=63.3

Q ss_pred             hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhc
Q 040876          163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVN  242 (343)
Q Consensus       163 ~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~  242 (343)
                      ..+.++  ++|++|++++|.+++..+..+..+++|++|++++|++++..+..+..+++|++|++++|.++ .+|...+..
T Consensus        46 ~~~~~l--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~-~~~~~~~~~  122 (177)
T 2o6r_A           46 GVFDKL--TQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQLK-SVPDGIFDR  122 (177)
T ss_dssp             TTTTTC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCS-CCCTTTTTT
T ss_pred             HHhcCc--ccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEECcCCcce-EeCHHHhcC
Confidence            345666  77888888888877655555677788888888888877555555677778888888888776 455534566


Q ss_pred             CCCCCeEEecCcee
Q 040876          243 LTKLSVFSVNENNL  256 (343)
Q Consensus       243 l~~L~~L~l~~n~l  256 (343)
                      +++|++|++++|.+
T Consensus       123 l~~L~~L~l~~N~~  136 (177)
T 2o6r_A          123 LTSLQKIWLHTNPW  136 (177)
T ss_dssp             CTTCCEEECCSSCB
T ss_pred             CcccCEEEecCCCe
Confidence            67777666665543

>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=2.8e-15  Score=120.52  Aligned_cols=83  Identities=28%  Similarity=0.408  Sum_probs=64.4

Q ss_pred             CCccEEEeecCccc-cccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          171 KGLEILVLRSSSIS-GHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       171 ~~L~~L~L~~n~l~-~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      +++++|++++|.++ +.+|..+..+++|++|++++|.+++.  ..++.+++|++|++++|.+++.+|. .+..+++|++|
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~-~~~~l~~L~~L   93 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEV-LAEKCPNLTHL   93 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHH-HHHHCTTCCEE
T ss_pred             ccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHH-HhhhCCCCCEE
Confidence            67888888888888 77888888888888888888888855  6678888888888888888755665 66667777776


Q ss_pred             EecCcee
Q 040876          250 SVNENNL  256 (343)
Q Consensus       250 ~l~~n~l  256 (343)
                      ++++|.+
T Consensus        94 ~ls~N~i  100 (149)
T 2je0_A           94 NLSGNKI  100 (149)
T ss_dssp             ECTTSCC
T ss_pred             ECCCCcC
Confidence            6655443

>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=99.59  E-value=6.4e-16  Score=151.60  Aligned_cols=191  Identities=15%  Similarity=0.145  Sum_probs=110.8

Q ss_pred             CCccccCCCCCCEecCCCCC-----------CCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEE
Q 040876          108 IPSWLYRLTHLEQLSVADRP-----------SLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEIL  176 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~-----------~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L  176 (343)
                      +|..+..+++|++|++++|.           .+++|+.|++++++..               +.++.....+  ++|++|
T Consensus       285 l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~~~---------------~~l~~~~~~~--~~L~~L  347 (592)
T 3ogk_B          285 MPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGD---------------RGLEVLAQYC--KQLKRL  347 (592)
T ss_dssp             GGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGGGHH---------------HHHHHHHHHC--TTCCEE
T ss_pred             HHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCccCH---------------HHHHHHHHhC--CCCCEE
Confidence            45555566666666666665           4555666666633321               3445555666  778888


Q ss_pred             Eee-----------cCcccccc-chhccCCCCCCEEECcCCcccccCCccccC-CCCCcEEEcc----CccCccc-----
Q 040876          177 VLR-----------SSSISGHL-TEQIGHFKNLDTLDLGNNSIVGLVPLSLNE-LSKLRILHLS----DNKLNGT-----  234 (343)
Q Consensus       177 ~L~-----------~n~l~~~~-p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~-l~~L~~L~l~----~N~l~g~-----  234 (343)
                      +++           .+.+++.. +.....+++|++|+++.|.+++..+..++. +++|++|+++    .|.+++.     
T Consensus       348 ~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~  427 (592)
T 3ogk_B          348 RIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNG  427 (592)
T ss_dssp             EEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHH
T ss_pred             EeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHH
Confidence            887           35555432 222345777888888777777666666655 7778888875    5666642     


Q ss_pred             cChHhhhcCCCCCeEEecCce--ee-------------EeEEeccCCcccc-cCCCccccc-CCCeEeCcCCcccCc-cc
Q 040876          235 LSEIHFVNLTKLSVFSVNENN--LT-------------LKFLDLGENQIHG-EMTNLTNAT-QLWYLRLHSNNFSGP-LS  296 (343)
Q Consensus       235 ~p~~~~~~l~~L~~L~l~~n~--l~-------------l~~L~ls~n~l~~-~~~~~~~~~-~L~~L~Ls~N~l~~~-~~  296 (343)
                      ++. .+..+++|+.|+++.|.  ++             ++.|++++|++++ .++...... +|++|++++|.+++. ++
T Consensus       428 ~~~-~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~  506 (592)
T 3ogk_B          428 VRS-LLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIA  506 (592)
T ss_dssp             HHH-HHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBHHHHH
T ss_pred             HHH-HHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcHHHHH
Confidence            333 35667788888875422  21             4556666666654 223333333 666666666665542 11


Q ss_pred             cc---CCCCcEEEccCCcccccc
Q 040876          297 LI---SSNLVYLDLFNNSFLGSI  316 (343)
Q Consensus       297 ~~---~~~L~~L~Ls~N~l~~~~  316 (343)
                      ..   +++|++|++++|++++..
T Consensus       507 ~~~~~l~~L~~L~ls~n~it~~~  529 (592)
T 3ogk_B          507 AAVTKLPSLRYLWVQGYRASMTG  529 (592)
T ss_dssp             HHHHHCSSCCEEEEESCBCCTTC
T ss_pred             HHHHhcCccCeeECcCCcCCHHH
Confidence            11   556666666666665543

>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=99.58  E-value=5.7e-16  Score=151.99  Aligned_cols=60  Identities=17%  Similarity=0.036  Sum_probs=43.7

Q ss_pred             CCCeEeCcCCcccCc-cc---ccCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          280 QLWYLRLHSNNFSGP-LS---LISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       280 ~L~~L~Ls~N~l~~~-~~---~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +|++|++++|++++. ++   ..+++|++|++++|.+++..   ++..+..+++|++|++++|++++
T Consensus       464 ~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~---~~~~~~~l~~L~~L~ls~n~it~  527 (592)
T 3ogk_B          464 NVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERA---IAAAVTKLPSLRYLWVQGYRASM  527 (592)
T ss_dssp             TCCEEEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBHHH---HHHHHHHCSSCCEEEEESCBCCT
T ss_pred             cceEeeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcHHH---HHHHHHhcCccCeeECcCCcCCH
Confidence            788888888888752 22   22678899999998886643   23334567889999999998875

>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=99.57  E-value=5.7e-15  Score=121.15  Aligned_cols=119  Identities=22%  Similarity=0.239  Sum_probs=97.1

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh-H
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE-I  238 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~-~  238 (343)
                      .+|..+..+  ++|++|++++|.+++.  ..+..+++|++|++++|.+++.+|..+..+++|++|++++|.++ .+|. .
T Consensus        40 ~i~~~~~~l--~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~  114 (168)
T 2ell_A           40 KIEGLTAEF--VNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLK-DISTLE  114 (168)
T ss_dssp             BCSSCCGGG--GGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSSCC-SSGGGG
T ss_pred             hHHHHHHhC--CCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCccC-cchhHH
Confidence            677778888  9999999999999965  77899999999999999999878888888999999999999998 4442 2


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCC---Cccccc-CCCeEeCcCCcccCcc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT---NLTNAT-QLWYLRLHSNNFSGPL  295 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~---~~~~~~-~L~~L~Ls~N~l~~~~  295 (343)
                      .+..+++|++|++++|            .+++..+   ..+... +|++|++++|.+....
T Consensus       115 ~l~~l~~L~~L~l~~N------------~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~  163 (168)
T 2ell_A          115 PLKKLECLKSLDLFNC------------EVTNLNDYRESVFKLLPQLTYLDGYDREDQEAP  163 (168)
T ss_dssp             GGSSCSCCCEEECCSS------------GGGTSTTHHHHHHTTCSSCCEETTEETTSCBCC
T ss_pred             HHhcCCCCCEEEeeCC------------cCcchHHHHHHHHHhCccCcEecCCCCChhhcc
Confidence            6788888888777664            4554433   245545 9999999999887643

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.55  E-value=9.2e-15  Score=117.44  Aligned_cols=112  Identities=24%  Similarity=0.259  Sum_probs=71.1

Q ss_pred             CCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcccccc
Q 040876          108 IPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHL  187 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~  187 (343)
                      +|..+..+++|++|++++|.             +.                 .+ +.+..+  ++|++|++++|.+++.+
T Consensus        34 ~~~~~~~l~~L~~L~l~~n~-------------l~-----------------~~-~~~~~l--~~L~~L~Ls~n~i~~~~   80 (149)
T 2je0_A           34 LEGLTDEFEELEFLSTINVG-------------LT-----------------SI-ANLPKL--NKLKKLELSDNRVSGGL   80 (149)
T ss_dssp             CCSCCTTCTTCCEEECTTSC-------------CC-----------------CC-TTCCCC--TTCCEEECCSSCCCSCT
T ss_pred             HHHHHhhcCCCcEEECcCCC-------------CC-----------------Cc-hhhhcC--CCCCEEECCCCcccchH
Confidence            56666667777777777665             21                 22 445556  67777777777777656


Q ss_pred             chhccCCCCCCEEECcCCccccc-CCccccCCCCCcEEEccCccCccccC--hHhhhcCCCCCeEEec
Q 040876          188 TEQIGHFKNLDTLDLGNNSIVGL-VPLSLNELSKLRILHLSDNKLNGTLS--EIHFVNLTKLSVFSVN  252 (343)
Q Consensus       188 p~~l~~l~~L~~L~Ls~N~l~~~-~p~~l~~l~~L~~L~l~~N~l~g~~p--~~~~~~l~~L~~L~l~  252 (343)
                      |..+..+++|++|++++|.+++. .+..+..+++|++|++++|.+++..+  ...+..+++|+.|+++
T Consensus        81 ~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           81 EVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             HHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             HHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            66666677777777777777642 23566677777777777777763322  0256667777776654

>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=99.54  E-value=8.2e-17  Score=136.05  Aligned_cols=157  Identities=18%  Similarity=0.208  Sum_probs=121.6

Q ss_pred             hhhcCCCCCccEEEeecCccccccch------hccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTE------QIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~------~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~  237 (343)
                      .+...  ..++.++++.+.+++.+|.      .+..+++|++|++++|.+++ +| .+..+++|++|++++|.++ .+|.
T Consensus        13 ~~~~~--~~l~~l~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l~~-l~-~~~~l~~L~~L~l~~n~l~-~l~~   87 (198)
T 1ds9_A           13 IFEER--KSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEK-IS-SLSGMENLRILSLGRNLIK-KIEN   87 (198)
T ss_dssp             HHHHT--TCCCCTTCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEEESC-CC-CHHHHTTCCEEEEEEEEEC-SCSS
T ss_pred             HHHhc--ccccCcchheeEeccccCcHhhhhHHHhcCCCCCEEECCCCCCcc-cc-ccccCCCCCEEECCCCCcc-cccc
Confidence            35555  7778888888888877776      89999999999999999985 77 8899999999999999998 7887


Q ss_pred             HhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccc--c--cCCCCcEEEccCCcc
Q 040876          238 IHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLS--L--ISSNLVYLDLFNNSF  312 (343)
Q Consensus       238 ~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~--~--~~~~L~~L~Ls~N~l  312 (343)
                       .+..+++|+.|++++|.++            + +|. +... +|++|++++|++++..+  .  .+++|++|++++|.+
T Consensus        88 -~~~~~~~L~~L~L~~N~l~------------~-l~~-~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A           88 -LDAVADTLEELWISYNQIA------------S-LSG-IEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             -HHHHHHHCSEEEEEEEECC------------C-HHH-HHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHH
T ss_pred             -hhhcCCcCCEEECcCCcCC------------c-CCc-cccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCcc
Confidence             6777888999888876654            2 343 3334 89999999999987433  1  278999999999999


Q ss_pred             ccccCc------hhhccCCccccCceEecCCCcccc
Q 040876          313 LGSISH------FWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       313 ~~~~~~------~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ++..|.      .....+..+++|+.||  +|.++.
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~L~~Ld--~~~i~~  186 (198)
T 1ds9_A          153 YNDYKENNATSEYRIEVVKRLPNLKKLD--GMPVDV  186 (198)
T ss_dssp             HHHHHTTTTHHHHHHHHHHHCSSCSEEC--CGGGTT
T ss_pred             ccccccccchHHHHHHHHHhCCCcEEEC--CcccCH
Confidence            876432      1112356788999987  676654

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.53  E-value=3.7e-14  Score=119.21  Aligned_cols=116  Identities=23%  Similarity=0.293  Sum_probs=87.1

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .+|..+.    +++++|++++|.++ .+|..+..+++|++|++++|.+++..+..|..+++|++|++++|.+++ ++...
T Consensus        24 ~ip~~~~----~~l~~L~L~~n~i~-~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~-i~~~~   97 (193)
T 2wfh_A           24 VLPKGIP----RDVTELYLDGNQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRC-IPPRT   97 (193)
T ss_dssp             SCCSCCC----TTCCEEECCSSCCC-SCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCB-CCTTT
T ss_pred             cCCCCCC----CCCCEEECCCCcCc-hhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCE-eCHHH
Confidence            5665443    67888888888888 677888888888999999888887767778888888889998888884 44436


Q ss_pred             hhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccC
Q 040876          240 FVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSG  293 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~  293 (343)
                      |..+++|+.|++++|.            ++...+..+... +|+.|++++|.+..
T Consensus        98 f~~l~~L~~L~L~~N~------------l~~~~~~~~~~l~~L~~L~L~~N~~~C  140 (193)
T 2wfh_A           98 FDGLKSLRLLSLHGND------------ISVVPEGAFNDLSALSHLAIGANPLYC  140 (193)
T ss_dssp             TTTCTTCCEEECCSSC------------CCBCCTTTTTTCTTCCEEECCSSCEEC
T ss_pred             hCCCCCCCEEECCCCC------------CCeeChhhhhcCccccEEEeCCCCeec
Confidence            7888888887766544            444444445544 88888888888764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.52  E-value=6.1e-14  Score=116.03  Aligned_cols=113  Identities=26%  Similarity=0.333  Sum_probs=64.3

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      ++|++|++++|++++..+..+..+++|++|++++|.+++..+..+..+++|++|++++|.++ .+|...+..+++|++|+
T Consensus        28 ~~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           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQ-SLPNGVFDKLTQLKELA  106 (177)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEE
T ss_pred             CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCcc-ccCHHHhhCCcccCEEE
Confidence            55666666666666544445566666666666666666444444566666666666666666 33332455566666555


Q ss_pred             ecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccc
Q 040876          251 VNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLS  296 (343)
Q Consensus       251 l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~  296 (343)
                      +++|            ++++..+..+... +|++|++++|.+.+..|
T Consensus       107 l~~N------------~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  141 (177)
T 2o6r_A          107 LDTN------------QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  141 (177)
T ss_dssp             CCSS------------CCSCCCTTTTTTCTTCCEEECCSSCBCCCHH
T ss_pred             CcCC------------cceEeCHHHhcCCcccCEEEecCCCeeccCc
Confidence            5443            3333333333333 56666666666655443

>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=99.49  E-value=6.4e-14  Score=115.86  Aligned_cols=130  Identities=21%  Similarity=0.277  Sum_probs=99.9

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCC-CCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFK-NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~-~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      +..+  .+|++|++++|+++ .+|. +..+. +|++|++++|.+++.  ..+..+++|++|++++|.++ .+|...+..+
T Consensus        15 ~~~~--~~L~~L~l~~n~l~-~i~~-~~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l~-~~~~~~~~~l   87 (176)
T 1a9n_A           15 YTNA--VRDRELDLRGYKIP-VIEN-LGATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRIC-RIGEGLDQAL   87 (176)
T ss_dssp             EECT--TSCEEEECTTSCCC-SCCC-GGGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCCC-EECSCHHHHC
T ss_pred             cCCc--CCceEEEeeCCCCc-hhHH-hhhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCccc-ccCcchhhcC
Confidence            4456  88999999999999 4554 54554 999999999999865  57889999999999999998 5665356889


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCC--ccccc-CCCeEeCcCCcccCcccc----c--CCCCcEEEccCCcccc
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTN--LTNAT-QLWYLRLHSNNFSGPLSL----I--SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~--~~~~~-~L~~L~Ls~N~l~~~~~~----~--~~~L~~L~Ls~N~l~~  314 (343)
                      ++|++|++++|.++             .+|.  .+... +|++|++++|.++...+.    .  +++|++|++++|.+..
T Consensus        88 ~~L~~L~L~~N~i~-------------~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~~~~  154 (176)
T 1a9n_A           88 PDLTELILTNNSLV-------------ELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVKLKE  154 (176)
T ss_dssp             TTCCEEECCSCCCC-------------CGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECCHHH
T ss_pred             CCCCEEECCCCcCC-------------cchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCCHHH
Confidence            99998887776543             3333  34444 899999999998865442    2  7888999998888754

>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=99.47  E-value=5.8e-14  Score=116.13  Aligned_cols=134  Identities=16%  Similarity=0.190  Sum_probs=98.8

Q ss_pred             ccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhc
Q 040876          112 LYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQI  191 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l  191 (343)
                      +.++.+|++|++++|.             +.                 .+|. +..+. ++|++|++++|.+++.  ..+
T Consensus        15 ~~~~~~L~~L~l~~n~-------------l~-----------------~i~~-~~~~~-~~L~~L~Ls~N~l~~~--~~l   60 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYK-------------IP-----------------VIEN-LGATL-DQFDAIDFSDNEIRKL--DGF   60 (176)
T ss_dssp             EECTTSCEEEECTTSC-------------CC-----------------SCCC-GGGGT-TCCSEEECCSSCCCEE--CCC
T ss_pred             cCCcCCceEEEeeCCC-------------Cc-----------------hhHH-hhhcC-CCCCEEECCCCCCCcc--ccc
Confidence            5667888888888876             22                 3333 33330 4899999999999864  678


Q ss_pred             cCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh-HhhhcCCCCCeEEecCceeeEeEEeccCCcccc
Q 040876          192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE-IHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG  270 (343)
Q Consensus       192 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~-~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~  270 (343)
                      ..+++|++|++++|.+++..+..+..+++|++|++++|.++ .+|. ..+..+++|+.|++++|.+            + 
T Consensus        61 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~-~~~~~~~l~~l~~L~~L~l~~N~i------------~-  126 (176)
T 1a9n_A           61 PLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLV-ELGDLDPLASLKSLTYLCILRNPV------------T-  126 (176)
T ss_dssp             CCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCC-CGGGGGGGGGCTTCCEEECCSSGG------------G-
T ss_pred             ccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCcCC-cchhhHhhhcCCCCCEEEecCCCC------------C-
Confidence            88999999999999998554444588999999999999996 6664 2577888888877776544            3 


Q ss_pred             cCCCc----cccc-CCCeEeCcCCcccC
Q 040876          271 EMTNL----TNAT-QLWYLRLHSNNFSG  293 (343)
Q Consensus       271 ~~~~~----~~~~-~L~~L~Ls~N~l~~  293 (343)
                      .+|..    +... +|++||++.|....
T Consensus       127 ~~~~~~~~~~~~l~~L~~Ld~~~n~~~~  154 (176)
T 1a9n_A          127 NKKHYRLYVIYKVPQVRVLDFQKVKLKE  154 (176)
T ss_dssp             GSTTHHHHHHHHCTTCSEETTEECCHHH
T ss_pred             CcHhHHHHHHHHCCccceeCCCcCCHHH
Confidence            33442    4444 89999999998764

>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=99.46  E-value=5.3e-15  Score=145.06  Aligned_cols=171  Identities=16%  Similarity=0.129  Sum_probs=94.5

Q ss_pred             hhhcCCCCCccEEEeecCccccc-cchhccCCCCCCEEECc---------CCcccccCCcccc-CCCCCcEEEccCccCc
Q 040876          164 IFSGCVSKGLEILVLRSSSISGH-LTEQIGHFKNLDTLDLG---------NNSIVGLVPLSLN-ELSKLRILHLSDNKLN  232 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~-~p~~l~~l~~L~~L~Ls---------~N~l~~~~p~~l~-~l~~L~~L~l~~N~l~  232 (343)
                      .+..+  ++|++|++++| ++.. ++.....+++|++|+++         .+.+++.....+. .+++|++|.+..|.++
T Consensus       309 ~~~~~--~~L~~L~l~~~-~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~l~  385 (594)
T 2p1m_B          309 LLCQC--PKLQRLWVLDY-IEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMT  385 (594)
T ss_dssp             HHTTC--TTCCEEEEEGG-GHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESCCC
T ss_pred             HHhcC--CCcCEEeCcCc-cCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCCcC
Confidence            34455  66666666655 3321 22222345666666662         2333332222222 3566666666666665


Q ss_pred             cccChHhhhcCCCCCeEEec--C----ceee-----------------EeEEeccCCcccccCCCcccc-c-CCCeEeCc
Q 040876          233 GTLSEIHFVNLTKLSVFSVN--E----NNLT-----------------LKFLDLGENQIHGEMTNLTNA-T-QLWYLRLH  287 (343)
Q Consensus       233 g~~p~~~~~~l~~L~~L~l~--~----n~l~-----------------l~~L~ls~n~l~~~~~~~~~~-~-~L~~L~Ls  287 (343)
                      +..+......+++|+.|+++  +    +.++                 ++.|++++ .+++.....+.. . +|++|+++
T Consensus       386 ~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~-~l~~~~~~~l~~~~~~L~~L~L~  464 (594)
T 2p1m_B          386 NAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG-LLTDKVFEYIGTYAKKMEMLSVA  464 (594)
T ss_dssp             HHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS-SCCHHHHHHHHHHCTTCCEEEEE
T ss_pred             HHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC-cccHHHHHHHHHhchhccEeecc
Confidence            43333122346667777766  2    2222                 45566655 454432222222 3 78888888


Q ss_pred             CCcccCcccc----cCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCccc
Q 040876          288 SNNFSGPLSL----ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       288 ~N~l~~~~~~----~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      +|.+++..+.    .+++|++|++++|.+++...   ...+..+++|+.|++++|+++
T Consensus       465 ~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~---~~~~~~l~~L~~L~l~~~~~~  519 (594)
T 2p1m_B          465 FAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKAL---LANASKLETMRSLWMSSCSVS  519 (594)
T ss_dssp             SCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHH---HHTGGGGGGSSEEEEESSCCB
T ss_pred             CCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHH---HHHHHhCCCCCEEeeeCCCCC
Confidence            8888654332    26888888888888855432   233456788888888888774

>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=99.44  E-value=4.3e-14  Score=138.54  Aligned_cols=176  Identities=15%  Similarity=0.091  Sum_probs=110.9

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccc-hhccCCCCCCEEECcCCccccc-CCccccCCCCCcEEEcc---------C
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLT-EQIGHFKNLDTLDLGNNSIVGL-VPLSLNELSKLRILHLS---------D  228 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~Ls~N~l~~~-~p~~l~~l~~L~~L~l~---------~  228 (343)
                      .+|..+..+  ++|++|++++|.+++... ..+..+++|++|++++| ++.. ++.....+++|++|++.         .
T Consensus       280 ~l~~~~~~~--~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~-~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~  356 (594)
T 2p1m_B          280 YLPAVYSVC--SRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY-IEDAGLEVLASTCKDLRELRVFPSEPFVMEPN  356 (594)
T ss_dssp             GGGGGHHHH--TTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGG-GHHHHHHHHHHHCTTCCEEEEECSCTTCSSCS
T ss_pred             hHHHHHHhh--CCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCc-cCHHHHHHHHHhCCCCCEEEEecCcccccccC
Confidence            344445566  778888888887664332 23557788888888877 4322 22222357788888773         3


Q ss_pred             ccCccccChHhhhcCCCCCeEEecCceee-------------EeEEecc--C----Cccccc-----CCCccccc-CCCe
Q 040876          229 NKLNGTLSEIHFVNLTKLSVFSVNENNLT-------------LKFLDLG--E----NQIHGE-----MTNLTNAT-QLWY  283 (343)
Q Consensus       229 N~l~g~~p~~~~~~l~~L~~L~l~~n~l~-------------l~~L~ls--~----n~l~~~-----~~~~~~~~-~L~~  283 (343)
                      +.+++.........+++|+.|.+..|.++             ++.|+++  +    +.+++.     ++..+... +|++
T Consensus       357 ~~l~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~  436 (594)
T 2p1m_B          357 VALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRR  436 (594)
T ss_dssp             SCCCHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCE
T ss_pred             CCCCHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccE
Confidence            44543222212234788888887777664             5678887  3    455521     12223334 8999


Q ss_pred             EeCcCCcccCcccc----cCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          284 LRLHSNNFSGPLSL----ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       284 L~Ls~N~l~~~~~~----~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      |++++ .+++..+.    .+++|++|++++|.+++..+..+   ...+++|++|++++|.+++
T Consensus       437 L~L~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l---~~~~~~L~~L~L~~n~~~~  495 (594)
T 2p1m_B          437 LSLSG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHV---LSGCDSLRKLEIRDCPFGD  495 (594)
T ss_dssp             EECCS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHH---HHHCTTCCEEEEESCSCCH
T ss_pred             EeecC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHH---HhcCCCcCEEECcCCCCcH
Confidence            99977 56543322    26889999999999877543222   2458899999999999854

>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=3.3e-15  Score=126.09  Aligned_cols=134  Identities=24%  Similarity=0.218  Sum_probs=108.9

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      ..+|..+..+  ++|++|++++|.+++ +| .+..+++|++|++++|.++ .+|..+..+++|++|++++|+++ .+|  
T Consensus        38 ~~l~~~~~~l--~~L~~L~ls~n~l~~-l~-~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~~L~L~~N~l~-~l~--  109 (198)
T 1ds9_A           38 EKMDATLSTL--KACKHLALSTNNIEK-IS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQIA-SLS--  109 (198)
T ss_dssp             CCCHHHHHHT--TTCSEEECSEEEESC-CC-CHHHHTTCCEEEEEEEEEC-SCSSHHHHHHHCSEEEEEEEECC-CHH--
T ss_pred             hhhhHHHhcC--CCCCEEECCCCCCcc-cc-ccccCCCCCEEECCCCCcc-cccchhhcCCcCCEEECcCCcCC-cCC--
Confidence            4667799999  999999999999996 77 8899999999999999998 78888888899999999999998 465  


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCC-Cccccc-CCCeEeCcCCcccCcccc-----------c--CCCCc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT-NLTNAT-QLWYLRLHSNNFSGPLSL-----------I--SSNLV  303 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~-~~~~~~-~L~~L~Ls~N~l~~~~~~-----------~--~~~L~  303 (343)
                      .+..+++|++|++++|.++            +..+ ..+... +|++|++++|.+++.+|.           .  +++|+
T Consensus       110 ~~~~l~~L~~L~l~~N~i~------------~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~  177 (198)
T 1ds9_A          110 GIEKLVNLRVLYMSNNKIT------------NWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLK  177 (198)
T ss_dssp             HHHHHHHSSEEEESEEECC------------CHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCS
T ss_pred             ccccCCCCCEEECCCCcCC------------chhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcE
Confidence            5788899999888876653            2111 233334 999999999999887654           1  78999


Q ss_pred             EEEccCCcccc
Q 040876          304 YLDLFNNSFLG  314 (343)
Q Consensus       304 ~L~Ls~N~l~~  314 (343)
                      +||  +|.++.
T Consensus       178 ~Ld--~~~i~~  186 (198)
T 1ds9_A          178 KLD--GMPVDV  186 (198)
T ss_dssp             EEC--CGGGTT
T ss_pred             EEC--CcccCH
Confidence            987  677654

>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=99.42  E-value=3.4e-13  Score=110.90  Aligned_cols=92  Identities=24%  Similarity=0.297  Sum_probs=60.5

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .+|..+.    +++++|++++|++++..|..+.++++|++|++++|++++..+..+..+++|++|++++|+++ .+|...
T Consensus        23 ~ip~~~~----~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~-~~~~~~   97 (170)
T 3g39_A           23 SVPTGIP----TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLK-SIPRGA   97 (170)
T ss_dssp             SCCSCCC----TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTT
T ss_pred             ccCccCC----CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccC-EeCHHH
Confidence            4554442    56777777777777666666777777777777777777554445667777777777777776 444435


Q ss_pred             hhcCCCCCeEEecCcee
Q 040876          240 FVNLTKLSVFSVNENNL  256 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l  256 (343)
                      +..+++|+.|++++|.+
T Consensus        98 ~~~l~~L~~L~L~~N~~  114 (170)
T 3g39_A           98 FDNLKSLTHIWLLNNPW  114 (170)
T ss_dssp             TTTCTTCCEEECCSSCB
T ss_pred             hcCCCCCCEEEeCCCCC
Confidence            66667776666665544

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.39  E-value=7.2e-13  Score=109.42  Aligned_cols=92  Identities=22%  Similarity=0.284  Sum_probs=57.1

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .+|..+.    ++|++|++++|++++..|..+.++++|++|+|++|++++..+..+..+++|++|++++|+++ .+|...
T Consensus        26 ~iP~~~~----~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~-~l~~~~  100 (174)
T 2r9u_A           26 SVPAGIP----TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLK-SIPRGA  100 (174)
T ss_dssp             SCCSCCC----TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTT
T ss_pred             ccCCCcC----CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccc-eeCHHH
Confidence            4554442    56677777777777666666667777777777777776443334566677777777777766 444434


Q ss_pred             hhcCCCCCeEEecCcee
Q 040876          240 FVNLTKLSVFSVNENNL  256 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l  256 (343)
                      +..+++|++|++++|.+
T Consensus       101 ~~~l~~L~~L~L~~N~~  117 (174)
T 2r9u_A          101 FDNLKSLTHIYLYNNPW  117 (174)
T ss_dssp             TTTCTTCSEEECCSSCB
T ss_pred             hccccCCCEEEeCCCCc
Confidence            66666666666655544

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.36  E-value=4.4e-14  Score=130.91  Aligned_cols=162  Identities=16%  Similarity=0.104  Sum_probs=95.1

Q ss_pred             CCccEEEeecCccccccchhccC-----CCCCCEEECcCCcccccCCcccc-CCCCCcEEEccCccCccccChHhh----
Q 040876          171 KGLEILVLRSSSISGHLTEQIGH-----FKNLDTLDLGNNSIVGLVPLSLN-ELSKLRILHLSDNKLNGTLSEIHF----  240 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~-----l~~L~~L~Ls~N~l~~~~p~~l~-~l~~L~~L~l~~N~l~g~~p~~~~----  240 (343)
                      +.|++|++++|.++......+..     .++|++|+|++|.++......+. .+++|++|++++|.++..-.. .+    
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~-~L~~~L  150 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACK-DLRDLL  150 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHH-HHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHH-HHHHHH
Confidence            78999999999998654444432     27999999999999754333333 457899999999999743222 23    


Q ss_pred             -hcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcc----cc---cCCCCcEEEccCCc
Q 040876          241 -VNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPL----SL---ISSNLVYLDLFNNS  311 (343)
Q Consensus       241 -~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~----~~---~~~~L~~L~Ls~N~  311 (343)
                       ...+.|+.|++++|.++-.       .. ..++..+... +|++|+|++|.+++..    +.   ..++|++|+|++|.
T Consensus       151 ~~~~~~L~~L~Ls~n~l~~~-------~~-~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~  222 (372)
T 3un9_A          151 LHDQCQITTLRLSNNPLTAA-------GV-AVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNG  222 (372)
T ss_dssp             HSTTCCCCEEECCSSCCHHH-------HH-HHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC
T ss_pred             HhcCCccceeeCCCCCCChH-------HH-HHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC
Confidence             2357788888887765300       00 0111112222 5555555555554311    11   13455555665555


Q ss_pred             cccccCchhhccCCccccCceEecCCCccc
Q 040876          312 FLGSISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       312 l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      |++.....++..+...++|++|+|++|.|+
T Consensus       223 i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          223 AGDTAALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             CCHHHHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             CCHHHHHHHHHHHHhCCCCCEEeccCCCCC
Confidence            555443344444444555555666555554

>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=99.36  E-value=3.7e-12  Score=104.65  Aligned_cols=109  Identities=25%  Similarity=0.275  Sum_probs=86.7

Q ss_pred             CccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEe
Q 040876          172 GLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSV  251 (343)
Q Consensus       172 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l  251 (343)
                      ..+++++++|.++ .+|..+.  ++|++|++++|++++..|..+..+++|++|++++|+++ .+|...|..+++|++|++
T Consensus        10 ~~~~l~~s~n~l~-~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~L   85 (170)
T 3g39_A           10 SGTTVDCSGKSLA-SVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSL   85 (170)
T ss_dssp             ETTEEECTTSCCS-SCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEEeCCCCcC-ccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcC-ccChhhccCCCCCCEEEC
Confidence            3578999999998 5777663  78999999999999887888999999999999999998 566546788888888777


Q ss_pred             cCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccc
Q 040876          252 NENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLS  296 (343)
Q Consensus       252 ~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~  296 (343)
                      ++|            +|++..+..+... +|++|+|++|.++...+
T Consensus        86 ~~N------------~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~  119 (170)
T 3g39_A           86 NDN------------QLKSIPRGAFDNLKSLTHIWLLNNPWDCACS  119 (170)
T ss_dssp             CSS------------CCCCCCTTTTTTCTTCCEEECCSSCBCTTBG
T ss_pred             CCC------------ccCEeCHHHhcCCCCCCEEEeCCCCCCCCch
Confidence            654            4555555556555 89999999998876544

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.33  E-value=7.1e-12  Score=103.38  Aligned_cols=108  Identities=21%  Similarity=0.265  Sum_probs=87.6

Q ss_pred             ccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEec
Q 040876          173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN  252 (343)
Q Consensus       173 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~  252 (343)
                      -+.+++++|+++ .+|..+.  ++|++|++++|++++..|..+..+++|++|++++|+++ .+|...|..+++|++|+++
T Consensus        14 ~~~l~~~~n~l~-~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~l~~L~~L~L~   89 (174)
T 2r9u_A           14 QTLVNCQNIRLA-SVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLT-AIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SSEEECCSSCCS-SCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECC
T ss_pred             CcEEEeCCCCCC-ccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCC-ccChhHhCCcchhhEEECC
Confidence            468999999997 6787664  88999999999999888889999999999999999998 5666467888999887776


Q ss_pred             CceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccc
Q 040876          253 ENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLS  296 (343)
Q Consensus       253 ~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~  296 (343)
                      +|            +|++..+..+... +|++|+|++|.+....+
T Consensus        90 ~N------------~l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~  122 (174)
T 2r9u_A           90 DN------------HLKSIPRGAFDNLKSLTHIYLYNNPWDCECR  122 (174)
T ss_dssp             SS------------CCCCCCTTTTTTCTTCSEEECCSSCBCTTBG
T ss_pred             CC------------ccceeCHHHhccccCCCEEEeCCCCcccccc
Confidence            65            4454445546555 99999999999886543

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.31  E-value=1.8e-13  Score=126.84  Aligned_cols=162  Identities=17%  Similarity=0.141  Sum_probs=106.5

Q ss_pred             CCccEEEeecCccccccchhc-cCCCCCCEEECcCCcccccCCccc-----cCCCCCcEEEccCccCccc----cChHhh
Q 040876          171 KGLEILVLRSSSISGHLTEQI-GHFKNLDTLDLGNNSIVGLVPLSL-----NELSKLRILHLSDNKLNGT----LSEIHF  240 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l-~~l~~L~~L~Ls~N~l~~~~p~~l-----~~l~~L~~L~l~~N~l~g~----~p~~~~  240 (343)
                      ++|++|+|++|.++......+ ..+++|++|+|++|.++......+     ...++|++|++++|.++..    ++. .+
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~-~L  179 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLME-GL  179 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHH-HH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHH-HH
Confidence            589999999999985444443 345789999999999986544444     2468899999999999732    333 45


Q ss_pred             hcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccc----cc---CCCCcEEEccCCcc
Q 040876          241 VNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLS----LI---SSNLVYLDLFNNSF  312 (343)
Q Consensus       241 ~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~----~~---~~~L~~L~Ls~N~l  312 (343)
                      ...++|++|++++|.++..       .. ..++..+... +|++|+|++|.+++...    ..   .++|++|+|++|.|
T Consensus       180 ~~~~~L~~L~Ls~N~l~~~-------g~-~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i  251 (372)
T 3un9_A          180 AGNTSVTHLSLLHTGLGDE-------GL-ELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNEL  251 (372)
T ss_dssp             HTCSSCCEEECTTSSCHHH-------HH-HHHHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSC
T ss_pred             hcCCCcCEEeCCCCCCCcH-------HH-HHHHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCC
Confidence            6778888888777655300       00 0123333444 89999999999986322    21   57899999999999


Q ss_pred             ccccCchhhccCCcc-ccCceEe--cCCCccc
Q 040876          313 LGSISHFWCYRSNET-KRLRALS--LGDNYLQ  341 (343)
Q Consensus       313 ~~~~~~~l~~~l~~l-~~L~~L~--ls~N~l~  341 (343)
                      ++.....+....... ..|+.+.  +..|.++
T Consensus       252 ~~~g~~~L~~~~~~~~~~L~~l~~ll~~~~~~  283 (372)
T 3un9_A          252 SSEGRQVLRDLGGAAEGGARVVVSLTEGTAVS  283 (372)
T ss_dssp             CHHHHHHHHHCC------CEEECCCC----CH
T ss_pred             CHHHHHHHHHHhcCCCccchhhHhhhcCCccC
Confidence            887665554432221 1277777  6666654

>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=99.28  E-value=1.6e-11  Score=112.42  Aligned_cols=93  Identities=22%  Similarity=0.212  Sum_probs=77.3

Q ss_pred             CCccccCCCCCCEecCCC-CCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccc
Q 040876          108 IPSWLYRLTHLEQLSVAD-RPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGH  186 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~-n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~  186 (343)
                      +|. +..+++|++|+|++ |.             +.                +..+..|.++  ++|++|+|++|+|++.
T Consensus        24 ip~-l~~~~~L~~L~l~~~n~-------------l~----------------~~~~~~~~~l--~~L~~L~l~~N~l~~~   71 (347)
T 2ifg_A           24 LHH-LPGAENLTELYIENQQH-------------LQ----------------HLELRDLRGL--GELRNLTIVKSGLRFV   71 (347)
T ss_dssp             TTT-SCSCSCCSEEECCSCSS-------------CC----------------EECGGGSCSC--CCCSEEECCSSCCCEE
T ss_pred             cCC-CCCCCCeeEEEccCCCC-------------CC----------------CcChhHhccc--cCCCEEECCCCcccee
Confidence            888 99999999999986 66             32                2334678889  9999999999999998


Q ss_pred             cchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCcc
Q 040876          187 LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNG  233 (343)
Q Consensus       187 ~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g  233 (343)
                      .|..|.++++|++|+|++|+|++..+..+..++ |+.|++.+|.+..
T Consensus        72 ~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           72 APDAFHFTPRLSRLNLSFNALESLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             CTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             CHHHhcCCcCCCEEeCCCCccceeCHHHcccCC-ceEEEeeCCCccC
Confidence            888899999999999999999955444555555 9999999999873

>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=99.26  E-value=1.2e-11  Score=112.48  Aligned_cols=78  Identities=15%  Similarity=0.040  Sum_probs=49.0

Q ss_pred             EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCc-EEEccCCccccccCchhhccCCccccCce
Q 040876          258 LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLV-YLDLFNNSFLGSISHFWCYRSNETKRLRA  332 (343)
Q Consensus       258 l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~-~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~  332 (343)
                      ++.+++++|+++...+..+..+ +|+.+++.+| ++...+..   +.+|+ .+++.+ .++...    +..|..+++|+.
T Consensus       228 L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~----~~aF~~c~~L~~  301 (329)
T 3sb4_A          228 LVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIE----FGAFMGCDNLRY  301 (329)
T ss_dssp             CCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEEC----TTTTTTCTTEEE
T ss_pred             CeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEc----hhhhhCCccCCE
Confidence            4556777777765555556666 7778877776 54433332   56677 777776 554322    245677778888


Q ss_pred             EecCCCccc
Q 040876          333 LSLGDNYLQ  341 (343)
Q Consensus       333 L~ls~N~l~  341 (343)
                      +++++|.++
T Consensus       302 l~l~~n~i~  310 (329)
T 3sb4_A          302 VLATGDKIT  310 (329)
T ss_dssp             EEECSSCCC
T ss_pred             EEeCCCccC
Confidence            887777654

>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=99.20  E-value=5.9e-11  Score=107.91  Aligned_cols=99  Identities=13%  Similarity=0.069  Sum_probs=66.2

Q ss_pred             CCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCC-eEeCcCCcccCcc
Q 040876          218 LSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLW-YLRLHSNNFSGPL  295 (343)
Q Consensus       218 l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~-~L~Ls~N~l~~~~  295 (343)
                      +++|+.+++++|+++ .+|...|.++++|+.+++.            +| ++...+..+..+ +|+ .+++.+ .++...
T Consensus       225 ~~~L~~l~L~~n~i~-~I~~~aF~~~~~L~~l~l~------------~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~  289 (329)
T 3sb4_A          225 MPNLVSLDISKTNAT-TIPDFTFAQKKYLLKIKLP------------HN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIE  289 (329)
T ss_dssp             CTTCCEEECTTBCCC-EECTTTTTTCTTCCEEECC------------TT-CCEECTTTTTTCTTCCEEEEECT-TCCEEC
T ss_pred             cCCCeEEECCCCCcc-eecHhhhhCCCCCCEEECC------------cc-cceehHHHhhCChhccEEEEEcc-cceEEc
Confidence            445555556555555 5555455555555555554            44 444445566666 899 999998 666544


Q ss_pred             ccc---CCCCcEEEccCCccccccCchhhccCCccccCceEec
Q 040876          296 SLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSL  335 (343)
Q Consensus       296 ~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~l  335 (343)
                      +..   +++|+.+++++|.++...+    ..|.++++|+.++.
T Consensus       290 ~~aF~~c~~L~~l~l~~n~i~~I~~----~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          290 FGAFMGCDNLRYVLATGDKITTLGD----ELFGNGVPSKLIYK  328 (329)
T ss_dssp             TTTTTTCTTEEEEEECSSCCCEECT----TTTCTTCCCCEEEC
T ss_pred             hhhhhCCccCCEEEeCCCccCccch----hhhcCCcchhhhcc
Confidence            443   7899999999999986543    56788999998864

>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=99.19  E-value=3.4e-11  Score=110.18  Aligned_cols=94  Identities=19%  Similarity=0.248  Sum_probs=83.0

Q ss_pred             cchhhhhhcCCCCCccEEEeec-CccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh
Q 040876          159 SDIFDIFSGCVSKGLEILVLRS-SSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~-n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~  237 (343)
                      ..+|. +..+  ++|++|+|++ |.+++..+..|.++++|++|+|++|+|++..|..|.++++|++|+|++|+|+ .+|.
T Consensus        22 ~~ip~-l~~~--~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~-~~~~   97 (347)
T 2ifg_A           22 DSLHH-LPGA--ENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALE-SLSW   97 (347)
T ss_dssp             TTTTT-SCSC--SCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCS-CCCS
T ss_pred             CccCC-CCCC--CCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccc-eeCH
Confidence            47888 9888  9999999996 9999877788999999999999999999988889999999999999999998 6666


Q ss_pred             HhhhcCCCCCeEEecCceee
Q 040876          238 IHFVNLTKLSVFSVNENNLT  257 (343)
Q Consensus       238 ~~~~~l~~L~~L~l~~n~l~  257 (343)
                      ..+..++ |+.|++.+|.+.
T Consensus        98 ~~~~~~~-L~~l~l~~N~~~  116 (347)
T 2ifg_A           98 KTVQGLS-LQELVLSGNPLH  116 (347)
T ss_dssp             TTTCSCC-CCEEECCSSCCC
T ss_pred             HHcccCC-ceEEEeeCCCcc
Confidence            4565555 999999988875

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=99.04  E-value=1.8e-10  Score=106.02  Aligned_cols=170  Identities=14%  Similarity=0.155  Sum_probs=112.2

Q ss_pred             chhhhhhcCCCCCccEEEeecCccc---------cccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCcc
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSIS---------GHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNK  230 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~---------~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~  230 (343)
                      .+.+++..+  ++|+.|.+......         +.+...+..+++|+.|++++|.-. .++. + .+++|++|++..+.
T Consensus       130 ~L~~s~~~l--~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~-~-~~~~L~~L~L~~~~  204 (362)
T 2ra8_A          130 GIVENKEKF--AHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK-K-PRPNLKSLEIISGG  204 (362)
T ss_dssp             HHHTTHHHH--TTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS-C-BCTTCSEEEEECSB
T ss_pred             HHHHhhhhc--chhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc-c-cCCCCcEEEEecCC
Confidence            445556677  89999998665321         235556678899999999887311 3343 4 37899999999888


Q ss_pred             CccccChHhhh--cCCCCCeEEecCc--eeeEeEEeccCCcccccCCCcc---cccCCCeEeCcCCcccCccc------c
Q 040876          231 LNGTLSEIHFV--NLTKLSVFSVNEN--NLTLKFLDLGENQIHGEMTNLT---NATQLWYLRLHSNNFSGPLS------L  297 (343)
Q Consensus       231 l~g~~p~~~~~--~l~~L~~L~l~~n--~l~l~~L~ls~n~l~~~~~~~~---~~~~L~~L~Ls~N~l~~~~~------~  297 (343)
                      +...... .+.  .+++|+.|+|+.+  ...      ....+.+ +...+   ..++|++|+|++|.+.+..+      .
T Consensus       205 l~~~~l~-~l~~~~lp~L~~L~L~~~~~~~~------~~~~~~~-l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~  276 (362)
T 2ra8_A          205 LPDSVVE-DILGSDLPNLEKLVLYVGVEDYG------FDGDMNV-FRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESD  276 (362)
T ss_dssp             CCHHHHH-HHHHSBCTTCCEEEEECBCGGGT------CCSCGGG-TGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCS
T ss_pred             CChHHHH-HHHHccCCCCcEEEEeccccccc------cchhHHH-HHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCc
Confidence            7643222 333  6899999987531  100      0000111 11111   12389999999998875322      1


Q ss_pred             cCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          298 ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       298 ~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      .+++|++|+|+.|.+++..+..++..+..+++|+.|++++|.|+.
T Consensus       277 ~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d  321 (362)
T 2ra8_A          277 ILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSD  321 (362)
T ss_dssp             SGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCCH
T ss_pred             cCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCCH
Confidence            267899999999999887666666666678899999999998864

>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=98.92  E-value=9.4e-10  Score=96.47  Aligned_cols=81  Identities=22%  Similarity=0.261  Sum_probs=64.8

Q ss_pred             hcCCCCCccEEEeecCcccc--ccchhccCCCCCCEEECcCCcccccCCccccCCC--CCcEEEccCccCccccCh----
Q 040876          166 SGCVSKGLEILVLRSSSISG--HLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELS--KLRILHLSDNKLNGTLSE----  237 (343)
Q Consensus       166 ~~l~~~~L~~L~L~~n~l~~--~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~--~L~~L~l~~N~l~g~~p~----  237 (343)
                      .++  ++|++|+|++|++++  .+|..+..+++|++|+|++|++++.  ..+..++  +|++|++++|.+.+.+|.    
T Consensus       167 ~~l--~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y  242 (267)
T 3rw6_A          167 ENI--PELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKGLKLEELWLDGNSLCDTFRDQSTY  242 (267)
T ss_dssp             HHC--TTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTTSCCSEEECTTSTTGGGCSSHHHH
T ss_pred             hhC--CCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhcccCCcceEEccCCcCccccCcchhH
Confidence            567  899999999999997  5567778899999999999999854  3455555  899999999999876662    


Q ss_pred             --HhhhcCCCCCeEE
Q 040876          238 --IHFVNLTKLSVFS  250 (343)
Q Consensus       238 --~~~~~l~~L~~L~  250 (343)
                        ..+..+++|+.||
T Consensus       243 ~~~il~~~P~L~~LD  257 (267)
T 3rw6_A          243 ISAIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHHHCTTCCEES
T ss_pred             HHHHHHHCcccCeEC
Confidence              2467788888876

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.82  E-value=1.3e-07  Score=88.08  Aligned_cols=164  Identities=12%  Similarity=0.122  Sum_probs=76.9

Q ss_pred             hhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhc
Q 040876          163 DIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVN  242 (343)
Q Consensus       163 ~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~  242 (343)
                      ..|.++  ++|+.+++..|.++. ++.......+|+.+.+..+ ++..-...|.++++|+.+.+..+ ++ .++...|.+
T Consensus       174 ~aF~~c--~~L~~l~l~~n~l~~-I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~-l~-~I~~~aF~~  247 (401)
T 4fdw_A          174 DIFYYC--YNLKKADLSKTKITK-LPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN-VS-TIGQEAFRE  247 (401)
T ss_dssp             STTTTC--TTCCEEECTTSCCSE-ECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT-CC-EECTTTTTT
T ss_pred             HHhhCc--ccCCeeecCCCcceE-echhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC-cc-Ccccccccc
Confidence            355666  677777777666663 3332222466666666533 44333345556666666666543 32 333333433


Q ss_pred             CCCCCeEEecCcee-----------eEeEEeccCCccc-----ccCCCccccc-CCCeEeCcCCcccCccccc---CCCC
Q 040876          243 LTKLSVFSVNENNL-----------TLKFLDLGENQIH-----GEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNL  302 (343)
Q Consensus       243 l~~L~~L~l~~n~l-----------~l~~L~ls~n~l~-----~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L  302 (343)
                       .+|+.+.+..+--           .++.+++.+|.+.     ...+..+..+ +|+.+++.. .++......   +.+|
T Consensus       248 -~~L~~i~lp~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~-~i~~I~~~aF~~c~~L  325 (401)
T 4fdw_A          248 -SGITTVKLPNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SIRILGQGLLGGNRKV  325 (401)
T ss_dssp             -CCCSEEEEETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCCSC
T ss_pred             -CCccEEEeCCCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC-ceEEEhhhhhcCCCCc
Confidence             4444444432210           0333444333332     1222334444 666666653 233222222   4556


Q ss_pred             cEEEccCCccccccCchhhccCCccccCceEecCCCcc
Q 040876          303 VYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       303 ~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      +.+.+..| ++...    ...|..+ +|+.+++++|.+
T Consensus       326 ~~l~lp~~-l~~I~----~~aF~~~-~L~~l~l~~n~~  357 (401)
T 4fdw_A          326 TQLTIPAN-VTQIN----FSAFNNT-GIKEVKVEGTTP  357 (401)
T ss_dssp             CEEEECTT-CCEEC----TTSSSSS-CCCEEEECCSSC
T ss_pred             cEEEECcc-ccEEc----HHhCCCC-CCCEEEEcCCCC
Confidence            66666433 33211    2344555 666666666543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.77  E-value=2.4e-09  Score=98.40  Aligned_cols=188  Identities=13%  Similarity=0.106  Sum_probs=115.7

Q ss_pred             CccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccc
Q 040876          109 PSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLT  188 (343)
Q Consensus       109 p~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p  188 (343)
                      ...+.++++|+.|.+....    .+...++.. .               .+.+...+..+  ++|+.|++++|.-. .++
T Consensus       132 ~~s~~~l~~L~~L~l~~~~----~e~~~is~~-~---------------~~~L~~ll~~~--P~L~~L~L~g~~~l-~l~  188 (362)
T 2ra8_A          132 VENKEKFAHFEGLFWGDID----FEEQEISWI-E---------------QVDLSPVLDAM--PLLNNLKIKGTNNL-SIG  188 (362)
T ss_dssp             HTTHHHHTTCSEEEECCCC----TTTCCGGGC-B---------------CCBCHHHHHTC--TTCCEEEEECCBTC-BCC
T ss_pred             HHhhhhcchhhheeecCcc----hhhcccccc-c---------------ccCHHHHHhcC--CCCcEEEEeCCCCc-eec
Confidence            4446678899999886542    011111100 0               02456667777  99999999887311 233


Q ss_pred             hhccCCCCCCEEECcCCcccccCCcccc--CCCCCcEEEccC--ccCccc-----cChHhh--hcCCCCCeEEecCceee
Q 040876          189 EQIGHFKNLDTLDLGNNSIVGLVPLSLN--ELSKLRILHLSD--NKLNGT-----LSEIHF--VNLTKLSVFSVNENNLT  257 (343)
Q Consensus       189 ~~l~~l~~L~~L~Ls~N~l~~~~p~~l~--~l~~L~~L~l~~--N~l~g~-----~p~~~~--~~l~~L~~L~l~~n~l~  257 (343)
                      . + .+++|++|++..+.++......+.  .+++|++|+|+.  |...+.     +.. .+  ..+++|++|++.+|.+ 
T Consensus       189 ~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~-~l~~~~~p~Lr~L~L~~~~i-  264 (362)
T 2ra8_A          189 K-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP-LFSKDRFPNLKWLGIVDAEE-  264 (362)
T ss_dssp             S-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGG-GSCTTTCTTCCEEEEESCTT-
T ss_pred             c-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHH-HHhcCCCCCcCEEeCCCCCC-
Confidence            3 4 388999999999888755444454  789999999853  222111     111 12  2467888888776544 


Q ss_pred             EeEEeccCCcccccCC----CcccccCCCeEeCcCCcccCc----cccc---CCCCcEEEccCCccccccCchhhccCCc
Q 040876          258 LKFLDLGENQIHGEMT----NLTNATQLWYLRLHSNNFSGP----LSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNE  326 (343)
Q Consensus       258 l~~L~ls~n~l~~~~~----~~~~~~~L~~L~Ls~N~l~~~----~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~  326 (343)
                                 .+..+    ....+.+|++|+|+.|.+++.    ++..   +++|+.|++++|.+++.....+...+  
T Consensus       265 -----------~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~al--  331 (362)
T 2ra8_A          265 -----------QNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQKSL--  331 (362)
T ss_dssp             -----------HHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCCHHHHHHHHHHC--
T ss_pred             -----------chHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCCHHHHHHHHHHc--
Confidence                       22111    111223899999999998863    2222   68899999999998876543443322  


Q ss_pred             cccCceEecCCCc
Q 040876          327 TKRLRALSLGDNY  339 (343)
Q Consensus       327 l~~L~~L~ls~N~  339 (343)
                         ...++++.|+
T Consensus       332 ---g~~~~~~~~~  341 (362)
T 2ra8_A          332 ---PMKIDVSDSQ  341 (362)
T ss_dssp             ---CSEEECCSBC
T ss_pred             ---CCEEEecCCc
Confidence               3567887765

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.75  E-value=1.7e-07  Score=87.43  Aligned_cols=167  Identities=10%  Similarity=0.081  Sum_probs=86.6

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIH  239 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~  239 (343)
                      .++.....+  .+|+.+.+..+ ++..-...|.++++|+.+++..+ ++..-...|.+ .+|+.+.+. +.++ .++...
T Consensus       194 ~I~~~aF~~--~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i~lp-~~i~-~I~~~a  266 (401)
T 4fdw_A          194 KLPASTFVY--AGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTVKLP-NGVT-NIASRA  266 (401)
T ss_dssp             EECTTTTTT--CCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEEEEE-TTCC-EECTTT
T ss_pred             EechhhEee--cccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCccEEEeC-CCcc-EEChhH
Confidence            344433334  55566555532 44333344555555666655543 22122223333 445555552 2333 344434


Q ss_pred             hhcCCCCCeEEecCceee-----------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---
Q 040876          240 FVNLTKLSVFSVNENNLT-----------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---  298 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~-----------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---  298 (343)
                      |.++++|+.+.+.+|.+.                 ++.+++. +.++......+..+ +|+.+++..| ++......   
T Consensus       267 F~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~-~~i~~I~~~aF~~c~~L~~l~lp~~-l~~I~~~aF~~  344 (401)
T 4fdw_A          267 FYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIP-ESIRILGQGLLGGNRKVTQLTIPAN-VTQINFSAFNN  344 (401)
T ss_dssp             TTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCC-TTCCEECTTTTTTCCSCCEEEECTT-CCEECTTSSSS
T ss_pred             hhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeC-CceEEEhhhhhcCCCCccEEEECcc-ccEEcHHhCCC
Confidence            555555555555444321                 3334444 23443334556655 8999999665 54333322   


Q ss_pred             CCCCcEEEccCCccccccCchhhccCCccc-cCceEecCCCcc
Q 040876          299 SSNLVYLDLFNNSFLGSISHFWCYRSNETK-RLRALSLGDNYL  340 (343)
Q Consensus       299 ~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~-~L~~L~ls~N~l  340 (343)
                      + +|+.+++++|.+....    ...+..++ .++.|.+..+.+
T Consensus       345 ~-~L~~l~l~~n~~~~l~----~~~F~~~~~~l~~l~vp~~~~  382 (401)
T 4fdw_A          345 T-GIKEVKVEGTTPPQVF----EKVWYGFPDDITVIRVPAESV  382 (401)
T ss_dssp             S-CCCEEEECCSSCCBCC----CSSCCCSCTTCCEEEECGGGH
T ss_pred             C-CCCEEEEcCCCCcccc----cccccCCCCCccEEEeCHHHH
Confidence            5 8999999999765432    23455553 678888876643

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.65  E-value=3.1e-09  Score=88.31  Aligned_cols=35  Identities=14%  Similarity=0.204  Sum_probs=19.7

Q ss_pred             CCCeEeC--cCCcccCcccc----c---CCCCcEEEccCCcccc
Q 040876          280 QLWYLRL--HSNNFSGPLSL----I---SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       280 ~L~~L~L--s~N~l~~~~~~----~---~~~L~~L~Ls~N~l~~  314 (343)
                      +|++|+|  ++|.++.....    .   .++|++|+|++|.+..
T Consensus       122 ~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~~  165 (185)
T 1io0_A          122 SLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQGP  165 (185)
T ss_dssp             SCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHHH
T ss_pred             CceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCCh
Confidence            6677777  66666542211    1   3556666666666643

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.63  E-value=1.9e-08  Score=83.45  Aligned_cols=93  Identities=15%  Similarity=0.170  Sum_probs=50.4

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccc----cchhccCCCCCCEEECcCCccccc----CCccccCCCCCcEEEc--cCc
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGH----LTEQIGHFKNLDTLDLGNNSIVGL----VPLSLNELSKLRILHL--SDN  229 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~l--~~N  229 (343)
                      .+.+.+...  ++|++|+|++|.+...    +...+...+.|++|+|++|.|+..    +...+...++|++|++  ++|
T Consensus        56 ~l~~~L~~~--~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N  133 (185)
T 1io0_A           56 ACAEALKTN--TYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQ  133 (185)
T ss_dssp             HHHHHHTTC--CSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSS
T ss_pred             HHHHHHHhC--CCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCC
Confidence            344455555  6677777777766532    233344456677777777766543    2344555566666666  566


Q ss_pred             cCccc----cChHhhhcCCCCCeEEecCce
Q 040876          230 KLNGT----LSEIHFVNLTKLSVFSVNENN  255 (343)
Q Consensus       230 ~l~g~----~p~~~~~~l~~L~~L~l~~n~  255 (343)
                      .++..    +.. .+...++|++|++++|.
T Consensus       134 ~i~~~g~~~l~~-~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          134 PLGNNVEMEIAN-MLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             CCCHHHHHHHHH-HHHHCSSCCEEECCCSS
T ss_pred             CCCHHHHHHHHH-HHHhCCCcCEEeccCCC
Confidence            66522    112 33334555555555443

>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=98.28  E-value=2.6e-07  Score=80.88  Aligned_cols=143  Identities=16%  Similarity=0.119  Sum_probs=91.3

Q ss_pred             CccccceEeCCCCCcEEEEecCCCccccccccceeCCC------------CCCCCCCCCCc-cccCCCCCCE--ecCCCC
Q 040876           62 CCTWAGIVCDNVTGHIIELNLRNPFTYYRRSRYKANPR------------SMLVGKGPIPS-WLYRLTHLEQ--LSVADR  126 (343)
Q Consensus        62 ~c~w~gv~c~~~~~~v~~l~l~~~~~~~~~~~g~~~~~------------~n~~~~~~ip~-~l~~l~~L~~--L~Ls~n  126 (343)
                      .|.|.|+.|+....+|+.+-..+..+  ....|.+.+.            +|..++. ++- .+...+.|+.  ++++.|
T Consensus        77 l~~~~g~i~~~~~~ki~~~v~~~~~~--~~~~~~l~~~~~~~Lk~~l~~ryn~~~~~-LdLs~l~~dp~L~~~~l~l~~N  153 (267)
T 3rw6_A           77 LKAVNYKILDRENRRISIIINSSAPP--HTILNELKPEQVEQLKLIMSKRYDGSQQA-LDLKGLRSDPDLVAQNIDVVLN  153 (267)
T ss_dssp             HHHTTSSCBCTTSCBCCCEEEECCCC--HHHHTSCCHHHHHHHHHHHHHTEETTTTE-EECTTGGGCHHHHHTTCCCCTT
T ss_pred             HHhcCcEEECCCCCEEEEEEecCCCc--ccccccCCHHHHHHHHHHHHhccchhccc-cCHHHcCCCcchhhcCccccCC
Confidence            57899999986545664443322100  0112222211            2222221 111 1333444544  566666


Q ss_pred             C-------------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhcc
Q 040876          127 P-------------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIG  192 (343)
Q Consensus       127 ~-------------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~  192 (343)
                      .             .+++|+.|+|++| +.+              +..+|..+..+  ++|++|+|++|.+++.  ..+.
T Consensus       154 ~~~~~~~~l~i~~~~l~~L~~L~Ls~N~l~~--------------l~~l~~~~~~l--~~L~~L~Ls~N~i~~~--~~l~  215 (267)
T 3rw6_A          154 RRSCMAATLRIIEENIPELLSLNLSNNRLYR--------------LDDMSSIVQKA--PNLKILNLSGNELKSE--RELD  215 (267)
T ss_dssp             SHHHHHHHHHHHHHHCTTCCEEECTTSCCCC--------------CGGGTTHHHHS--TTCCEEECTTSCCCSG--GGGG
T ss_pred             HHHHHHHHHHHHHhhCCCCCEEECCCCCCCC--------------CccchhHHhhC--CCCCEEECCCCccCCc--hhhh
Confidence            4             4778888888888 762              13667788889  9999999999999964  3344


Q ss_pred             CCC--CCCEEECcCCcccccCCc-------cccCCCCCcEEE
Q 040876          193 HFK--NLDTLDLGNNSIVGLVPL-------SLNELSKLRILH  225 (343)
Q Consensus       193 ~l~--~L~~L~Ls~N~l~~~~p~-------~l~~l~~L~~L~  225 (343)
                      .+.  +|++|+|++|.+.+.+|.       .+..+++|+.||
T Consensus       216 ~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~il~~~P~L~~LD  257 (267)
T 3rw6_A          216 KIKGLKLEELWLDGNSLCDTFRDQSTYISAIRERFPKLLRLD  257 (267)
T ss_dssp             GGTTSCCSEEECTTSTTGGGCSSHHHHHHHHHHHCTTCCEES
T ss_pred             hcccCCcceEEccCCcCccccCcchhHHHHHHHHCcccCeEC
Confidence            444  999999999999987763       367899999986

>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=98.00  E-value=3.3e-06  Score=68.85  Aligned_cols=83  Identities=8%  Similarity=0.060  Sum_probs=58.6

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCc-ccccCCccccCC----CCCcEEEccCcc-CccccChHhhhcCC
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNS-IVGLVPLSLNEL----SKLRILHLSDNK-LNGTLSEIHFVNLT  244 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~~~p~~l~~l----~~L~~L~l~~N~-l~g~~p~~~~~~l~  244 (343)
                      .+|++||++++.++..--..+.++++|++|+|++|. ++..--..++.+    ++|++|++++|. ++..--. .+..++
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~-~L~~~~  139 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGII-ALHHFR  139 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHH-HGGGCT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHH-HHhcCC
Confidence            478999999988886656667888889999998884 665444445554    368888888874 6632112 456677


Q ss_pred             CCCeEEecCc
Q 040876          245 KLSVFSVNEN  254 (343)
Q Consensus       245 ~L~~L~l~~n  254 (343)
                      +|++|+++++
T Consensus       140 ~L~~L~L~~c  149 (176)
T 3e4g_A          140 NLKYLFLSDL  149 (176)
T ss_dssp             TCCEEEEESC
T ss_pred             CCCEEECCCC
Confidence            8888777765

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.87  E-value=0.00026  Score=65.39  Aligned_cols=201  Identities=11%  Similarity=0.068  Sum_probs=96.4

Q ss_pred             cccCCCCCCEecCCCCC---------CCCCCcccccchhhcc----cccccCC-Ccc-ccCcccchhhhhhcCCCCCccE
Q 040876          111 WLYRLTHLEQLSVADRP---------SLASREDQDLLSNIRQ----RLSKCRT-GAK-SSQEISDIFDIFSGCVSKGLEI  175 (343)
Q Consensus       111 ~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~nl~~----~l~~~~~-~~~-~~~~~~~ip~~l~~l~~~~L~~  175 (343)
                      .+.++++|+.+.+.++.         .+.+|+.+++..++..    .+..|.. ..+ ++.....+.+.....  ..|+.
T Consensus       157 aF~~c~~L~~i~l~~~~~~I~~~~F~~c~~L~~i~l~~~~~~I~~~~F~~~~~L~~i~~~~~~~~i~~~~~~~--~~l~~  234 (394)
T 4fs7_A          157 AFATCESLEYVSLPDSMETLHNGLFSGCGKLKSIKLPRNLKIIRDYCFAECILLENMEFPNSLYYLGDFALSK--TGVKN  234 (394)
T ss_dssp             TTTTCTTCCEEECCTTCCEECTTTTTTCTTCCBCCCCTTCCEECTTTTTTCTTCCBCCCCTTCCEECTTTTTT--CCCCE
T ss_pred             hhcccCCCcEEecCCccceeccccccCCCCceEEEcCCCceEeCchhhccccccceeecCCCceEeehhhccc--CCCce
Confidence            35666777777776543         3455666666555211    0111110 000 111111222222333  45555


Q ss_pred             EEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCce
Q 040876          176 LVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENN  255 (343)
Q Consensus       176 L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~  255 (343)
                      +.+... ++..-...+..+..|+.+.+..+... .....+..+..++.+....+.    ++...|..+.+|+.+.+..+ 
T Consensus       235 i~ip~~-~~~i~~~~f~~~~~l~~~~~~~~~~~-i~~~~F~~~~~l~~~~~~~~~----i~~~~F~~~~~L~~i~l~~~-  307 (394)
T 4fs7_A          235 IIIPDS-FTELGKSVFYGCTDLESISIQNNKLR-IGGSLFYNCSGLKKVIYGSVI----VPEKTFYGCSSLTEVKLLDS-  307 (394)
T ss_dssp             EEECTT-CCEECSSTTTTCSSCCEEEECCTTCE-ECSCTTTTCTTCCEEEECSSE----ECTTTTTTCTTCCEEEECTT-
T ss_pred             EEECCC-ceecccccccccccceeEEcCCCcce-eeccccccccccceeccCcee----eccccccccccccccccccc-
Confidence            555432 22122234555566666666555332 333445556666666554432    33335556666666665432 


Q ss_pred             eeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCc
Q 040876          256 LTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLR  331 (343)
Q Consensus       256 l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~  331 (343)
                                  ++..-...+..+ +|+.+++..+ ++......   +.+|+.+++..+ ++...    ...|..+.+|+
T Consensus       308 ------------i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~-l~~I~----~~aF~~C~~L~  369 (394)
T 4fs7_A          308 ------------VKFIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS-LRKIG----ANAFQGCINLK  369 (394)
T ss_dssp             ------------CCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT-CCEEC----TTTBTTCTTCC
T ss_pred             ------------cceechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc-ccEeh----HHHhhCCCCCC
Confidence                        221222334444 7777777543 33222222   567777777655 43221    24566777777


Q ss_pred             eEecCCC
Q 040876          332 ALSLGDN  338 (343)
Q Consensus       332 ~L~ls~N  338 (343)
                      .+++..+
T Consensus       370 ~i~lp~~  376 (394)
T 4fs7_A          370 KVELPKR  376 (394)
T ss_dssp             EEEEEGG
T ss_pred             EEEECCC
Confidence            7777554

>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=97.77  E-value=1.3e-05  Score=65.39  Aligned_cols=68  Identities=19%  Similarity=0.284  Sum_probs=54.0

Q ss_pred             hhhhcCCCCCccEEEeecCc-cccccchhccCC----CCCCEEECcCCc-ccccCCccccCCCCCcEEEccCcc-Cc
Q 040876          163 DIFSGCVSKGLEILVLRSSS-ISGHLTEQIGHF----KNLDTLDLGNNS-IVGLVPLSLNELSKLRILHLSDNK-LN  232 (343)
Q Consensus       163 ~~l~~l~~~~L~~L~L~~n~-l~~~~p~~l~~l----~~L~~L~Ls~N~-l~~~~p~~l~~l~~L~~L~l~~N~-l~  232 (343)
                      ..+.++  ++|++|+|++|. ++..--..++.+    ++|++|++++|. +|..--..+.++++|++|+++++. ++
T Consensus        79 ~~L~~~--~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~~c~~It  153 (176)
T 3e4g_A           79 DHMEGL--QYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVK  153 (176)
T ss_dssp             GGGTTC--SCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEESCTTCC
T ss_pred             HHhcCC--CCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECCCCCCCC
Confidence            446778  999999999995 776555566665    479999999984 876655678889999999999985 44

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.65  E-value=0.0022  Score=59.13  Aligned_cols=215  Identities=16%  Similarity=0.132  Sum_probs=111.6

Q ss_pred             cccCCCCCCEecCCCCC---------CCCCCcccccchhhcc----cccccCCCcc-ccCcccch-hhhhhcCCCCCccE
Q 040876          111 WLYRLTHLEQLSVADRP---------SLASREDQDLLSNIRQ----RLSKCRTGAK-SSQEISDI-FDIFSGCVSKGLEI  175 (343)
Q Consensus       111 ~l~~l~~L~~L~Ls~n~---------~l~~L~~L~l~~nl~~----~l~~~~~~~~-~~~~~~~i-p~~l~~l~~~~L~~  175 (343)
                      .+.++++|+.+++..+-         .+.+|+.+.+..++..    .+..|..... .......+ ...|.++  ++|+.
T Consensus        89 aF~~c~~L~~i~lp~~l~~I~~~aF~~c~~L~~i~~p~~l~~i~~~aF~~~~~~~~~~~~~~~~i~~~aF~~c--~~L~~  166 (394)
T 4fs7_A           89 AFENCSKLEIINIPDSVKMIGRCTFSGCYALKSILLPLMLKSIGVEAFKGCDFKEITIPEGVTVIGDEAFATC--ESLEY  166 (394)
T ss_dssp             TTTTCTTCCEECCCTTCCEECTTTTTTCTTCCCCCCCTTCCEECTTTTTTCCCSEEECCTTCCEECTTTTTTC--TTCCE
T ss_pred             HhhCCCCCcEEEeCCCceEccchhhcccccchhhcccCceeeecceeeecccccccccCccccccchhhhccc--CCCcE
Confidence            47788889988886543         3445666665554211    1222222111 11111222 2457778  88888


Q ss_pred             EEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCc-c-------------------cc
Q 040876          176 LVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN-G-------------------TL  235 (343)
Q Consensus       176 L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~-g-------------------~~  235 (343)
                      +.+..+. ...-...|.++.+|+.+.+..+ ++..-...+.++..|+.+.+..+... +                   .+
T Consensus       167 i~l~~~~-~~I~~~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~~~L~~i~~~~~~~~i~~~~~~~~~l~~i~ip~~~~~i  244 (394)
T 4fs7_A          167 VSLPDSM-ETLHNGLFSGCGKLKSIKLPRN-LKIIRDYCFAECILLENMEFPNSLYYLGDFALSKTGVKNIIIPDSFTEL  244 (394)
T ss_dssp             EECCTTC-CEECTTTTTTCTTCCBCCCCTT-CCEECTTTTTTCTTCCBCCCCTTCCEECTTTTTTCCCCEEEECTTCCEE
T ss_pred             EecCCcc-ceeccccccCCCCceEEEcCCC-ceEeCchhhccccccceeecCCCceEeehhhcccCCCceEEECCCceec
Confidence            8887654 3234456778888888888766 44233445667777777766554321 0                   11


Q ss_pred             ChHhhhcCCCCCeEEecCceee-----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CC
Q 040876          236 SEIHFVNLTKLSVFSVNENNLT-----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SS  300 (343)
Q Consensus       236 p~~~~~~l~~L~~L~l~~n~l~-----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~  300 (343)
                      ....+..+..++.+.+..+..+           ++.+....+.+   ....+... +|+.+.+..+ ++......   +.
T Consensus       245 ~~~~f~~~~~l~~~~~~~~~~~i~~~~F~~~~~l~~~~~~~~~i---~~~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~  320 (394)
T 4fs7_A          245 GKSVFYGCTDLESISIQNNKLRIGGSLFYNCSGLKKVIYGSVIV---PEKTFYGCSSLTEVKLLDS-VKFIGEEAFESCT  320 (394)
T ss_dssp             CSSTTTTCSSCCEEEECCTTCEECSCTTTTCTTCCEEEECSSEE---CTTTTTTCTTCCEEEECTT-CCEECTTTTTTCT
T ss_pred             ccccccccccceeEEcCCCcceeeccccccccccceeccCceee---ccccccccccccccccccc-cceechhhhcCCC
Confidence            1112333344444444333221           11111111111   01122233 6777777654 33222222   57


Q ss_pred             CCcEEEccCCccccccCchhhccCCccccCceEecCCC
Q 040876          301 NLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       301 ~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      +|+.+++.++ ++...    ...|.++.+|+.+++..|
T Consensus       321 ~L~~i~lp~~-v~~I~----~~aF~~c~~L~~i~lp~~  353 (394)
T 4fs7_A          321 SLVSIDLPYL-VEEIG----KRSFRGCTSLSNINFPLS  353 (394)
T ss_dssp             TCCEECCCTT-CCEEC----TTTTTTCTTCCEECCCTT
T ss_pred             CCCEEEeCCc-ccEEh----HHhccCCCCCCEEEECcc
Confidence            8888888644 44322    246778889999988765

>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=97.62  E-value=1.5e-05  Score=66.20  Aligned_cols=114  Identities=15%  Similarity=0.177  Sum_probs=75.0

Q ss_pred             cccCCCCCcEEEccCc-cCccc----cChHhhhcCCCCCeEEecCceeeEeEEeccCCcccc----cCCCccccc-CCCe
Q 040876          214 SLNELSKLRILHLSDN-KLNGT----LSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG----EMTNLTNAT-QLWY  283 (343)
Q Consensus       214 ~l~~l~~L~~L~l~~N-~l~g~----~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~----~~~~~~~~~-~L~~  283 (343)
                      .+.+-+.|++|+|++| .+...    +.. .+..-+.|+.|+|++|.            |..    .+...+... .|++
T Consensus        36 ll~~n~~L~~L~L~~nn~igd~ga~~la~-aL~~N~~L~~L~L~~n~------------igd~ga~alA~aL~~N~tL~~  102 (197)
T 1pgv_A           36 LREDDTDLKEVNINNMKRVSKERIRSLIE-AACNSKHIEKFSLANTA------------ISDSEARGLIELIETSPSLRV  102 (197)
T ss_dssp             HHTTCSSCCEEECTTCCSSCHHHHHHHHH-HHTTCSCCCEEECTTSC------------CBHHHHTTHHHHHHHCSSCCE
T ss_pred             HHhcCCCccEEECCCCCCCCHHHHHHHHH-HHhhCCCcCEEEccCCC------------CChHHHHHHHHHHhcCCccCe
Confidence            3455678999999985 77522    222 44555677776666654            433    223333334 8999


Q ss_pred             EeCcCCcccCccccc-------CCCCcEEEccCC---ccccccCchhhccCCccccCceEecCCCcc
Q 040876          284 LRLHSNNFSGPLSLI-------SSNLVYLDLFNN---SFLGSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       284 L~Ls~N~l~~~~~~~-------~~~L~~L~Ls~N---~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      |+|++|.|+......       -+.|++|+|++|   .+.......+.+.+...+.|+.|+++.|.+
T Consensus       103 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          103 LNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             EECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             EecCCCcCCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCCCc
Confidence            999999997532211       356999999865   455554456677777888999999988764

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.53  E-value=0.0014  Score=60.36  Aligned_cols=127  Identities=12%  Similarity=0.134  Sum_probs=63.0

Q ss_pred             hccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCccc
Q 040876          190 QIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIH  269 (343)
Q Consensus       190 ~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~  269 (343)
                      .|..+..|+.+.+..+..+ .-...+.++++|+.+.+. +.++ .++...|.++.+|+.+.+..+             ++
T Consensus       260 aF~~c~~L~~i~lp~~~~~-I~~~aF~~c~~L~~i~l~-~~i~-~I~~~aF~~c~~L~~i~lp~~-------------v~  323 (394)
T 4gt6_A          260 AFDSCAYLASVKMPDSVVS-IGTGAFMNCPALQDIEFS-SRIT-ELPESVFAGCISLKSIDIPEG-------------IT  323 (394)
T ss_dssp             TTTTCSSCCEEECCTTCCE-ECTTTTTTCTTCCEEECC-TTCC-EECTTTTTTCTTCCEEECCTT-------------CC
T ss_pred             eeeecccccEEecccccce-ecCcccccccccccccCC-Cccc-ccCceeecCCCCcCEEEeCCc-------------cc
Confidence            3455566666666544332 223345566666666664 3343 555556666666666666532             22


Q ss_pred             ccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcc
Q 040876          270 GEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYL  340 (343)
Q Consensus       270 ~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l  340 (343)
                      ..-...+..+ +|+.+.+..+ ++......   +.+|+.+++.++....       ..+.....|+.+.+..|.+
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-VTKIPESAFSNCTALNNIEYSGSRSQW-------NAISTDSGLQNLPVAPGSI  390 (394)
T ss_dssp             EECTTTTTTCTTCCEEEECTT-CCBCCGGGGTTCTTCCEEEESSCHHHH-------HTCBCCCCC----------
T ss_pred             EehHhHhhCCCCCCEEEECcc-cCEEhHhHhhCCCCCCEEEECCceeeh-------hhhhccCCCCEEEeCCCCE
Confidence            1223344444 7788877644 43322222   6778888877765321       3345566777777766644

>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=97.09  E-value=0.0002  Score=59.37  Aligned_cols=88  Identities=11%  Similarity=0.068  Sum_probs=63.8

Q ss_pred             hhcCCCCCeEEecCceeeEeEEeccCCcccc----cCCCccccc-CCCeEeCcCCcccCccccc-------CCCCcEEEc
Q 040876          240 FVNLTKLSVFSVNENNLTLKFLDLGENQIHG----EMTNLTNAT-QLWYLRLHSNNFSGPLSLI-------SSNLVYLDL  307 (343)
Q Consensus       240 ~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~----~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-------~~~L~~L~L  307 (343)
                      +.+-+.|++|++++|           |+|..    .+...+... .|+.|+|++|++.......       -+.|+.|+|
T Consensus        37 l~~n~~L~~L~L~~n-----------n~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L  105 (197)
T 1pgv_A           37 REDDTDLKEVNINNM-----------KRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNV  105 (197)
T ss_dssp             HTTCSSCCEEECTTC-----------CSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEEC
T ss_pred             HhcCCCccEEECCCC-----------CCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEec
Confidence            344566777666543           14432    122333333 8999999999998533322       478999999


Q ss_pred             cCCccccccCchhhccCCccccCceEecCCC
Q 040876          308 FNNSFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       308 s~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      ++|.|++.....+.+.+...+.|+.|+|++|
T Consensus       106 ~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A          106 ESNFLTPELLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             CSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             CCCcCCHHHHHHHHHHHhhCCceeEEECCCC
Confidence            9999999887888889999999999999865

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.85  E-value=0.0041  Score=57.27  Aligned_cols=130  Identities=13%  Similarity=0.145  Sum_probs=84.1

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .|.++  ..|+.+.+..+... .....+.+++.|+.+.+.. .++..-...|.++.+|+.+.+..+ ++ .+....|.++
T Consensus       260 aF~~c--~~L~~i~lp~~~~~-I~~~aF~~c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~~-v~-~I~~~aF~~C  333 (394)
T 4gt6_A          260 AFDSC--AYLASVKMPDSVVS-IGTGAFMNCPALQDIEFSS-RITELPESVFAGCISLKSIDIPEG-IT-QILDDAFAGC  333 (394)
T ss_dssp             TTTTC--SSCCEEECCTTCCE-ECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEECCTT-CC-EECTTTTTTC
T ss_pred             eeeec--ccccEEecccccce-ecCcccccccccccccCCC-cccccCceeecCCCCcCEEEeCCc-cc-EehHhHhhCC
Confidence            56677  88999988765443 4456688899999999964 455344457888999999999865 55 6777789999


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcccccCCCCcEEEccCCcc
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSF  312 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l  312 (343)
                      .+|+.+.+..+             ++..-...+..+ +|+.+++.++......-....+|+.+.+..+.+
T Consensus       334 ~~L~~i~ip~s-------------v~~I~~~aF~~C~~L~~i~~~~~~~~~~~~~~~~~L~~i~i~~~~~  390 (394)
T 4gt6_A          334 EQLERIAIPSS-------------VTKIPESAFSNCTALNNIEYSGSRSQWNAISTDSGLQNLPVAPGSI  390 (394)
T ss_dssp             TTCCEEEECTT-------------CCBCCGGGGTTCTTCCEEEESSCHHHHHTCBCCCCC----------
T ss_pred             CCCCEEEECcc-------------cCEEhHhHhhCCCCCCEEEECCceeehhhhhccCCCCEEEeCCCCE
Confidence            99999888643             222223445555 899999988765422112256777777765543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.82  E-value=0.0023  Score=49.34  Aligned_cols=52  Identities=17%  Similarity=0.151  Sum_probs=29.7

Q ss_pred             EEeccCCccc-ccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccc
Q 040876          260 FLDLGENQIH-GEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFL  313 (343)
Q Consensus       260 ~L~ls~n~l~-~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~  313 (343)
                      .++.+++.++ ..+|..  .. +|++|+|++|+|+...+..   +++|++|+|++|.+.
T Consensus        12 ~v~Cs~~~L~~~~vP~~--lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTA--FPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTTSCSC--CCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCccccCCCC--CCcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCee
Confidence            4555566665 233422  22 5677777777776544433   556677777777654

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.72  E-value=0.0062  Score=55.60  Aligned_cols=85  Identities=19%  Similarity=0.252  Sum_probs=52.8

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+.++  ..|+.+.+..+ ++..-...+.++..|+.+.+..+ +...-...+..+++|+.+.+.++.++ .++...|.++
T Consensus       235 ~f~~~--~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~-~I~~~aF~~c  309 (379)
T 4h09_A          235 AFYGM--KALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIE-TLEPRVFMDC  309 (379)
T ss_dssp             TTTTC--SSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCC-EECTTTTTTC
T ss_pred             cccCC--ccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccc-eehhhhhcCC
Confidence            44556  67777777554 44333445666777777777543 33233345666777777777776665 5666567777


Q ss_pred             CCCCeEEecC
Q 040876          244 TKLSVFSVNE  253 (343)
Q Consensus       244 ~~L~~L~l~~  253 (343)
                      .+|+.+.+..
T Consensus       310 ~~L~~i~lp~  319 (379)
T 4h09_A          310 VKLSSVTLPT  319 (379)
T ss_dssp             TTCCEEECCT
T ss_pred             CCCCEEEcCc
Confidence            7777777654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.32  E-value=0.0075  Score=46.37  Aligned_cols=36  Identities=33%  Similarity=0.429  Sum_probs=16.8

Q ss_pred             CCCEEECcCCcccccCCccccCCCCCcEEEccCccC
Q 040876          196 NLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL  231 (343)
Q Consensus       196 ~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l  231 (343)
                      +|++|+|++|+|+..-+..|..+++|++|+|++|.+
T Consensus        32 ~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           32 DTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            345555555555432233344445555555555444

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.28  E-value=0.028  Score=51.21  Aligned_cols=128  Identities=13%  Similarity=0.152  Sum_probs=80.5

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+..+  ..++.+.+..+ +.......+..+..|+.+.+..+ ++..-...+.++.+|+.+.+..+ ++ .++...|.++
T Consensus       212 ~f~~~--~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~-~i~~~aF~~c  285 (379)
T 4h09_A          212 GFSYG--KNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VK-TVPYLLCSGC  285 (379)
T ss_dssp             TTTTC--SSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CS-EECTTTTTTC
T ss_pred             ccccc--cccceeeeccc-eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ce-eccccccccc
Confidence            44555  77888877654 33344456778888998888765 44344456777888888888654 44 5666678888


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCC
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNN  310 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N  310 (343)
                      ++|+.+.+.++.+            +..-...+..+ +|+.+++..+ ++......   +.+|+.+.+..+
T Consensus       286 ~~L~~i~l~~~~i------------~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~ip~~  343 (379)
T 4h09_A          286 SNLTKVVMDNSAI------------ETLEPRVFMDCVKLSSVTLPTA-LKTIQVYAFKNCKALSTISYPKS  343 (379)
T ss_dssp             TTCCEEEECCTTC------------CEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCCCCCCTT
T ss_pred             ccccccccccccc------------ceehhhhhcCCCCCCEEEcCcc-ccEEHHHHhhCCCCCCEEEECCc
Confidence            8888887765433            22223345454 7888888654 33222222   566777766543

---

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	343
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	4e-17
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	2e-06
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	1e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	4e-11
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-09
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	1e-04
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	2e-04
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	2e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	7e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.001
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	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 = 78.6 bits (192), Expect = 4e-17
 Identities = 71/326 (21%), Positives = 110/326 (33%), Gaps = 45/326 (13%)

Query: 31  CLESEREALLRFKQDLQDPSNRLASWNIGGDCC--TWAGIVCDN--VTGHIIELNLRNPF 86
           C   +++ALL+ K+DL +P+  L+SW    DCC  TW G++CD    T  +  L+L    
Sbjct: 3   CNPQDKQALLQIKKDLGNPTT-LSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSG-- 59

Query: 87  TYYRRSRYKANPRSMLVGKGPIPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLS 146
                          L    PIPS L  L +L  L +    +L                 
Sbjct: 60  -------------LNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA------IAKL 100

Query: 147 KCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNS 206
                   +               K L  L    +++SG L   I    NL  +    N 
Sbjct: 101 TQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNR 160

Query: 207 IVGLVPLSLNELSKLRI-LHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKF----- 260
           I G +P S    SKL   + +S N+L G +              S N             
Sbjct: 161 ISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSD 220

Query: 261 -----LDLGENQIHGEMTNLTNATQLWYLRLHSNNFSG--PLSLIS-SNLVYLDLFNNSF 312
                + L +N +  ++  +  +  L  L L +N   G  P  L     L  L++  N+ 
Sbjct: 221 KNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNL 280

Query: 313 LGSISHFWCYRSNETKRLRALSLGDN 338
            G I           +R    +  +N
Sbjct: 281 CGEIPQGG-----NLQRFDVSAYANN 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 = 46.3 bits (108), Expect = 2e-06
 Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 2/64 (3%)

Query: 193 HFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVN 252
             KNL+ LDL NN I G +P  L +L  L  L++S N L G + +    NL +  V +  
Sbjct: 242 LSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ--GGNLQRFDVSAYA 299

Query: 253 ENNL 256
            N  
Sbjct: 300 NNKC 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 = 1e-05
 Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 178 LRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKL 231
           LR++ I G L + +   K L +L++  N++ G +P     L +  +   ++NK 
Sbjct: 251 LRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP-QGGNLQRFDVSAYANNKC 303

>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 = 61.2 bits (147), Expect = 4e-11
 Identities = 48/186 (25%), Positives = 73/186 (39%), Gaps = 19/186 (10%)

Query: 161 IFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSK 220
           I DI    +   L+ L L  + +       +    NL  LDL NN I  L PLS   L+K
Sbjct: 209 ISDITPLGILTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLS--GLTK 264

Query: 221 LRILHLSDNKLNG-------TLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT 273
           L  L L  N+++        T      +N  +L   S   N   L +L L  N I   ++
Sbjct: 265 LTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISD-IS 323

Query: 274 NLTNATQLWYLRLHSNNFSGPLSLIS-SNLVYLDLFNNSFLGSISHFWCYRSNETKRLRA 332
            +++ T+L  L   +N  S   SL + +N+ +L   +N                  R+  
Sbjct: 324 PVSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLTPLANL------TRITQ 377

Query: 333 LSLGDN 338
           L L D 
Sbjct: 378 LGLNDQ 383

>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 = 2e-09
 Identities = 33/164 (20%), Positives = 58/164 (35%), Gaps = 11/164 (6%)

Query: 169 VSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSD 228
           +     +L L+++ I+        + KNL TL L NN I  + P +   L KL  L+LS 
Sbjct: 29  LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK 88

Query: 229 NKLNGTLSEIHFV-----------NLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTN 277
           N+L     ++                 + SVF+     + ++           E      
Sbjct: 89  NQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQG 148

Query: 278 ATQLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWC 321
             +L Y+R+   N +     +  +L  L L  N      +    
Sbjct: 149 MKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLK 192

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.9 bits (90), Expect = 1e-04
 Identities = 22/112 (19%), Positives = 37/112 (33%), Gaps = 12/112 (10%)

Query: 199 TLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI-HFVNLTKLSVFSVNENNL- 256
            L L +  +  L  L   +L  +  L LS N+L      +     L  L        N+ 
Sbjct: 2   VLHLAHKDLTVLCHLE--QLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 257 ------TLKFLDLGENQIHG--EMTNLTNATQLWYLRLHSNNFSGPLSLISS 300
                  L+ L L  N++     +  L +  +L  L L  N+      +   
Sbjct: 60  GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQER 111

>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 = 40.6 bits (93), Expect = 2e-04
 Identities = 24/171 (14%), Positives = 45/171 (26%), Gaps = 14/171 (8%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L  L L    +             L  L L +N++  L   +  +L  L  L L  N+++
Sbjct: 107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRIS 166

Query: 233 GTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFS 292
                  F  L  L    +++N +         +        L                 
Sbjct: 167 SVPERA-FRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPL- 224

Query: 293 GPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQGE 343
                    L YL L +N ++        +       L+      + +   
Sbjct: 225 -------RALQYLRLNDNPWVCDCRARPLWAW-----LQKFRGSSSEVPCS 263

>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 = 39.8 bits (91), Expect = 2e-04
 Identities = 27/153 (17%), Positives = 43/153 (28%), Gaps = 11/153 (7%)

Query: 173 LEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN 232
           L+ L L+ +++     +      NL  L L  N I  +   +   L  L  L L  N++ 
Sbjct: 131 LQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVA 190

Query: 233 GTLSEI-----------HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQL 281
                             F N               L++L L +N    +         L
Sbjct: 191 HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAWL 250

Query: 282 WYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLG 314
              R  S+     L    +      L  N   G
Sbjct: 251 QKFRGSSSEVPCSLPQRLAGRDLKRLAANDLQG 283

>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 = 7e-04
 Identities = 19/155 (12%), Positives = 45/155 (29%), Gaps = 13/155 (8%)

Query: 173 LEILVLRSSSIS-GHLTEQIGHFKNLDTLDLGNNSI----VGLVPLSLNELSKLRILHLS 227
           ++ L ++   +S     E +   +    + L +  +       +  +L     L  L+L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 228 DNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLH 287
            N+L           L           +  ++ L L    + G    + ++T      L 
Sbjct: 64  SNELGDVGVHCVLQGLQT--------PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQ 115

Query: 288 SNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCY 322
             + S  L   +   +  +   +           Y
Sbjct: 116 ELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEY 150

>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 = 38.0 bits (86), Expect = 0.001
 Identities = 14/100 (14%), Positives = 33/100 (33%), Gaps = 11/100 (11%)

Query: 196 NLDTLDLGNNSIVGL-VPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNEN 254
           ++ +LD+    +        L  L + +++ L D  L     +          + S    
Sbjct: 3   DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCK---------DISSALRV 53

Query: 255 NLTLKFLDLGENQIHGE-MTNLTNATQLWYLRLHSNNFSG 293
           N  L  L+L  N++    +  +    Q    ++   +   
Sbjct: 54  NPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQN 93

>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 = 36.2 bits (82), Expect = 0.004
 Identities = 10/50 (20%), Positives = 18/50 (36%)

Query: 194 FKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL 243
            K+   L L  N +      +L   ++L  L+L   +L     +     L
Sbjct: 30  PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVL 79

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	343
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	100.0
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.92
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.86
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.85
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.84
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.82
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.81
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.81
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.81
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.75
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.73
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.69
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.69
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.67
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.66
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.64
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.64
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.64
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.6
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.6
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.58
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.55
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.54
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.49
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.48
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.43
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.43
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.4
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.37
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.37
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.35
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.33
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.32
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.23
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.17
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.13
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.54
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.1
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.91
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.71
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.32
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.23

>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=8.2e-41  Score=302.13  Aligned_cols=257  Identities=26%  Similarity=0.449  Sum_probs=164.6

Q ss_pred             CCcHHHHHHHHHhhhhCCCCCCCCCCCCCCCCCc--cccceEeCCCC--CcEEEEecCCCccccccccceeCCCCCCCCC
Q 040876           30 GCLESEREALLRFKQDLQDPSNRLASWNIGGDCC--TWAGIVCDNVT--GHIIELNLRNPFTYYRRSRYKANPRSMLVGK  105 (343)
Q Consensus        30 ~~~~~~~~~L~~~k~~~~~~~~~~~~W~~~~~~c--~w~gv~c~~~~--~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~  105 (343)
                      -|.++|++||++||+++.+|. .+++|..+.|||  .|.||+|+..+  +||++|||++.     ++.|.+         
T Consensus         2 ~c~~~e~~aLl~~k~~~~~~~-~l~sW~~~~d~C~~~w~gv~C~~~~~~~~v~~L~L~~~-----~l~g~~---------   66 (313)
T d1ogqa_           2 LCNPQDKQALLQIKKDLGNPT-TLSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGL-----NLPKPY---------   66 (313)
T ss_dssp             CSCHHHHHHHHHHHHHTTCCG-GGTTCCTTSCTTTTCSTTEEECCSSSCCCEEEEEEECC-----CCSSCE---------
T ss_pred             CCCHHHHHHHHHHHHHCCCCC-cCCCCCCCCCCCCCcCCCeEEeCCCCcEEEEEEECCCC-----CCCCCC---------
Confidence            389999999999999998875 688998889999  49999998644  48999999986     444432         


Q ss_pred             CCCCccccCCCCCCEecCCC-CCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccc
Q 040876          106 GPIPSWLYRLTHLEQLSVAD-RPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSIS  184 (343)
Q Consensus       106 ~~ip~~l~~l~~L~~L~Ls~-n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~  184 (343)
                       ++|+.++++++|++|+|++ |.             +.                |.+|+.++++  ++|++|++++|++.
T Consensus        67 -~lp~~l~~L~~L~~L~Ls~~N~-------------l~----------------g~iP~~i~~L--~~L~~L~Ls~N~l~  114 (313)
T d1ogqa_          67 -PIPSSLANLPYLNFLYIGGINN-------------LV----------------GPIPPAIAKL--TQLHYLYITHTNVS  114 (313)
T ss_dssp             -ECCGGGGGCTTCSEEEEEEETT-------------EE----------------SCCCGGGGGC--TTCSEEEEEEECCE
T ss_pred             -CCChHHhcCccccccccccccc-------------cc----------------cccccccccc--cccchhhhcccccc
Confidence             2899999999999999986 44             22                3555555555  55566666655555


Q ss_pred             cccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCC-CeEEecCceee------
Q 040876          185 GHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKL-SVFSVNENNLT------  257 (343)
Q Consensus       185 ~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L-~~L~l~~n~l~------  257 (343)
                      +..+..+..+..|+++++++|.+.+.+|..+++++.++++++++|.++|.+|. .+..+..+ +.++++.|+++      
T Consensus       115 ~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~-~~~~l~~l~~~l~~~~n~l~~~~~~~  193 (313)
T d1ogqa_         115 GAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD-SYGSFSKLFTSMTISRNRLTGKIPPT  193 (313)
T ss_dssp             EECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCG-GGGCCCTTCCEEECCSSEEEEECCGG
T ss_pred             ccccccccchhhhcccccccccccccCchhhccCcccceeecccccccccccc-cccccccccccccccccccccccccc
Confidence            55555555555555555555555555555555555555555555555555555 44444443 45555555543      


Q ss_pred             -----------------------------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc---CCCCcEE
Q 040876          258 -----------------------------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI---SSNLVYL  305 (343)
Q Consensus       258 -----------------------------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~---~~~L~~L  305 (343)
                                                   ++.+++++|.+.+.++......+|++|+|++|+++|.+|..   +++|++|
T Consensus       194 ~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L  273 (313)
T d1ogqa_         194 FANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSL  273 (313)
T ss_dssp             GGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEE
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccCccCeecccCChHHhCCCCCCEE
Confidence                                         23355555555555443222225666666666666555543   4556666


Q ss_pred             EccCCccccccCchhhccCCccccCceEecCCCc
Q 040876          306 DLFNNSFLGSISHFWCYRSNETKRLRALSLGDNY  339 (343)
Q Consensus       306 ~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~  339 (343)
                      +|++|+++|.+|     .++++++|+.+++++|+
T Consensus       274 ~Ls~N~l~g~iP-----~~~~L~~L~~l~l~~N~  302 (313)
T d1ogqa_         274 NVSFNNLCGEIP-----QGGNLQRFDVSAYANNK  302 (313)
T ss_dssp             ECCSSEEEEECC-----CSTTGGGSCGGGTCSSS
T ss_pred             ECcCCcccccCC-----CcccCCCCCHHHhCCCc
Confidence            666666665544     12455556666666664

>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=99.92  E-value=4.3e-25  Score=198.28  Aligned_cols=193  Identities=23%  Similarity=0.297  Sum_probs=172.1

Q ss_pred             CCCCCCCCCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCC
Q 040876          101 MLVGKGPIPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCV  169 (343)
Q Consensus       101 n~~~~~~ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~  169 (343)
                      |+++|. +|+.++++++|++|+|++|.          .+..|+.++++.| +.                +.+|..+.++ 
T Consensus        87 N~l~g~-iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~----------------~~~p~~l~~l-  148 (313)
T d1ogqa_          87 NNLVGP-IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALS----------------GTLPPSISSL-  148 (313)
T ss_dssp             TTEESC-CCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEE----------------SCCCGGGGGC-
T ss_pred             cccccc-cccccccccccchhhhccccccccccccccchhhhccccccccccc----------------ccCchhhccC-
Confidence            577776 99999999999999999998          4667899999988 66                5889999999 


Q ss_pred             CCCccEEEeecCccccccchhccCCCCC-CEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCe
Q 040876          170 SKGLEILVLRSSSISGHLTEQIGHFKNL-DTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSV  248 (343)
Q Consensus       170 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L-~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~  248 (343)
                       +.++++++++|.+.+.+|..+..+..+ +.+++++|++++..|..+..+..+ .++++.+.+.+.+|. .+..+++++.
T Consensus       149 -~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~-~l~l~~~~~~~~~~~-~~~~~~~l~~  225 (313)
T d1ogqa_         149 -PNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA-FVDLSRNMLEGDASV-LFGSDKNTQK  225 (313)
T ss_dssp             -TTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCS-EEECCSSEEEECCGG-GCCTTSCCSE
T ss_pred             -cccceeeccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccccc-cccccccccc
Confidence             999999999999999999999988876 899999999999999888887654 799999999988887 7888999999


Q ss_pred             EEecCceee-----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCc-cc
Q 040876          249 FSVNENNLT-----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNS-FL  313 (343)
Q Consensus       249 L~l~~n~l~-----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~-l~  313 (343)
                      +++++|.++           ++.|++++|+++|.+|..+... +|++|+|++|+++|.+|..  +++|+.+++++|+ ++
T Consensus       226 l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~~~L~~L~~l~l~~N~~l~  305 (313)
T d1ogqa_         226 IHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             EECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCSSSEEE
T ss_pred             cccccccccccccccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccCCCcccCCCCCHHHhCCCcccc
Confidence            999999875           6679999999999999988877 9999999999999998876  7789999999997 55


Q ss_pred             c
Q 040876          314 G  314 (343)
Q Consensus       314 ~  314 (343)
                      |
T Consensus       306 g  306 (313)
T d1ogqa_         306 G  306 (313)
T ss_dssp             S
T ss_pred             C
Confidence            5

>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=99.86  E-value=3.5e-21  Score=168.57  Aligned_cols=162  Identities=27%  Similarity=0.211  Sum_probs=105.1

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      +++++|+|++|+|++..+..|.++++|++|+|++|+++ .+| .++.+++|++|++++|+++ .++. .+..+++|+.|+
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~-~l~-~~~~l~~L~~L~Ls~N~l~-~~~~-~~~~l~~L~~L~  106 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQ-VDGTLPVLGTLDLSHNQLQ-SLPL-LGQTLPALTVLD  106 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-EEE-CCSCCTTCCEEECCSSCCS-SCCC-CTTTCTTCCEEE
T ss_pred             cCCCEEECcCCcCCCcCHHHhhcccccccccccccccc-ccc-ccccccccccccccccccc-cccc-cccccccccccc
Confidence            34555555555555433344555555555555555555 232 2345555555555555554 3333 445555555555


Q ss_pred             ecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccc
Q 040876          251 VNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLG  314 (343)
Q Consensus       251 l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~  314 (343)
                      +++|.+.            +..+++++|.++...+..+... +++.+++++|++++..+..   +++|++|+|++|+|+ 
T Consensus       107 l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~-  185 (266)
T d1p9ag_         107 VSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLY-  185 (266)
T ss_dssp             CCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCC-
T ss_pred             ccccccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCccccccccccceeecccCCCc-
Confidence            5555442            3446666777776666666655 8999999999999877654   688999999999998 


Q ss_pred             ccCchhhccCCccccCceEecCCCccc
Q 040876          315 SISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       315 ~~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      .+|    +.+..+++|+.|+|++|++.
T Consensus       186 ~lp----~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         186 TIP----KGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             CCC----TTTTTTCCCSEEECCSCCBC
T ss_pred             ccC----hhHCCCCCCCEEEecCCCCC
Confidence            454    45567889999999999875

>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=99.85  E-value=4.9e-20  Score=164.22  Aligned_cols=237  Identities=19%  Similarity=0.243  Sum_probs=136.2

Q ss_pred             CccccceEeCCC---------CCcEEEEecCCCccccccccceeCCCCCCCCCCCCCc-cccCCCCCCEecCCCCC----
Q 040876           62 CCTWAGIVCDNV---------TGHIIELNLRNPFTYYRRSRYKANPRSMLVGKGPIPS-WLYRLTHLEQLSVADRP----  127 (343)
Q Consensus        62 ~c~w~gv~c~~~---------~~~v~~l~l~~~~~~~~~~~g~~~~~~n~~~~~~ip~-~l~~l~~L~~L~Ls~n~----  127 (343)
                      -|.|++|.|.+.         ...++.|++++                |+++.  +|+ .+.++++|++|++++|.    
T Consensus         9 ~c~~~~~~C~~~~L~~lP~~l~~~l~~L~Ls~----------------N~i~~--l~~~~f~~l~~L~~L~l~~n~~~~i   70 (305)
T d1xkua_           9 QCHLRVVQCSDLGLEKVPKDLPPDTALLDLQN----------------NKITE--IKDGDFKNLKNLHTLILINNKISKI   70 (305)
T ss_dssp             EEETTEEECTTSCCCSCCCSCCTTCCEEECCS----------------SCCCC--BCTTTTTTCTTCCEEECCSSCCCCB
T ss_pred             EecCCEEEecCCCCCccCCCCCCCCCEEECcC----------------CcCCC--cChhHhhcccccccccccccccccc
Confidence            378999999752         13466677765                45655  554 67888888888888887    


Q ss_pred             ------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEE
Q 040876          128 ------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTL  200 (343)
Q Consensus       128 ------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L  200 (343)
                            .++.|+.|++++| ++                 .+|..+.    ..++.|++.+|.+.+..+..+.....++.+
T Consensus        71 ~~~~f~~l~~L~~L~l~~n~l~-----------------~l~~~~~----~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l  129 (305)
T d1xkua_          71 SPGAFAPLVKLERLYLSKNQLK-----------------ELPEKMP----KTLQELRVHENEITKVRKSVFNGLNQMIVV  129 (305)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCS-----------------BCCSSCC----TTCCEEECCSSCCCBBCHHHHTTCTTCCEE
T ss_pred             chhhhhCCCccCEecccCCccC-----------------cCccchh----hhhhhhhccccchhhhhhhhhhcccccccc
Confidence                  4556777777777 55                 2222211    234444444444443333333333333444


Q ss_pred             ECcCCccc--ccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee------------EeEEeccCC
Q 040876          201 DLGNNSIV--GLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT------------LKFLDLGEN  266 (343)
Q Consensus       201 ~Ls~N~l~--~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~------------l~~L~ls~n  266 (343)
                      +...|...  ...+..+..+++|+.+++++|.++ .+|. .  ..++|+.|++++|..+            ++.|++++|
T Consensus       130 ~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~-~l~~-~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n  205 (305)
T d1xkua_         130 ELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQ-G--LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN  205 (305)
T ss_dssp             ECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCC-SCCS-S--CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSS
T ss_pred             ccccccccccCCCccccccccccCccccccCCcc-ccCc-c--cCCccCEEECCCCcCCCCChhHhhccccccccccccc
Confidence            44333221  112223334444444444444443 3332 1  1334444444444332            233555566


Q ss_pred             cccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCccccccCchh--hccCCccccCceEecCCCccc
Q 040876          267 QIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGSISHFW--CYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       267 ~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~~~~~l--~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      .+++..+.++... +|++|+|++|+++...+..  +++|++|++++|+|+......+  +.....+++|+.|++++|+++
T Consensus       206 ~l~~~~~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         206 SISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             CCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             cccccccccccccccceeeecccccccccccccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCcCc
Confidence            6776666666666 9999999999998653332  7889999999999886322221  233456788999999999874

>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=99.84  E-value=3.8e-20  Score=163.35  Aligned_cols=155  Identities=25%  Similarity=0.217  Sum_probs=83.3

Q ss_pred             CCccEEEee-cCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          171 KGLEILVLR-SSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       171 ~~L~~L~L~-~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      ..++.++.. .+.++...+..+.++++|++|++++|.+....+..+...++|+.+++++|+++ .+|...|..+++|++|
T Consensus        80 ~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~-~i~~~~f~~~~~L~~L  158 (284)
T d1ozna_          80 ALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHL  158 (284)
T ss_dssp             TTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEE
T ss_pred             ccccccccccccccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhcccccc-ccChhHhccccchhhc
Confidence            444554432 33344333445555555555555555555444444455555555555555555 3433245555555554


Q ss_pred             EecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhhccCC
Q 040876          250 SVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWCYRSN  325 (343)
Q Consensus       250 ~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~~~l~  325 (343)
                      ++++            |++++..+..+... +|+++++++|++++..|..   +++|++|++++|.+.+..    +..+.
T Consensus       159 ~l~~------------N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~----~~~~~  222 (284)
T d1ozna_         159 FLHG------------NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALP----TEALA  222 (284)
T ss_dssp             ECCS------------SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCC----HHHHT
T ss_pred             cccc------------CcccccchhhhccccccchhhhhhccccccChhHhhhhhhccccccccccccccc----ccccc
Confidence            4443            34444444444444 6666666666666655544   456666666666666533    23445


Q ss_pred             ccccCceEecCCCcccc
Q 040876          326 ETKRLRALSLGDNYLQG  342 (343)
Q Consensus       326 ~l~~L~~L~ls~N~l~g  342 (343)
                      .+++|++|++++|++.+
T Consensus       223 ~~~~L~~L~l~~N~l~C  239 (284)
T d1ozna_         223 PLRALQYLRLNDNPWVC  239 (284)
T ss_dssp             TCTTCCEEECCSSCEEC
T ss_pred             cccccCEEEecCCCCCC
Confidence            56666666666666653

>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=99.82  E-value=2.2e-20  Score=164.96  Aligned_cols=183  Identities=23%  Similarity=0.256  Sum_probs=139.4

Q ss_pred             CCCCCCCCC-ccccCCCCCCEecCCCCC----------CCCCCcccccchh--hcccccccCCCccccCcccchhhhhhc
Q 040876          101 MLVGKGPIP-SWLYRLTHLEQLSVADRP----------SLASREDQDLLSN--IRQRLSKCRTGAKSSQEISDIFDIFSG  167 (343)
Q Consensus       101 n~~~~~~ip-~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n--l~~~l~~~~~~~~~~~~~~~ip~~l~~  167 (343)
                      |+++.  +| ..+.++++|++|++++|.          .+..++.++...+  +.                ...|..+.+
T Consensus        42 N~i~~--i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~----------------~l~~~~~~~  103 (284)
T d1ozna_          42 NRISH--VPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLR----------------SVDPATFHG  103 (284)
T ss_dssp             SCCCE--ECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCC----------------CCCTTTTTT
T ss_pred             CcCCC--CCHHHhhccccccccccccccccccccccccccccccccccccccccc----------------cccchhhcc
Confidence            46655  44 458888999999998887          2233444433322  22                233667888


Q ss_pred             CCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCC
Q 040876          168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLS  247 (343)
Q Consensus       168 l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~  247 (343)
                      +  ++|++|++++|.+....+..+...++|+.+++++|.+++..+..+..+++|++|++++|+++ .++...|.++++|+
T Consensus       104 l--~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~-~l~~~~f~~l~~L~  180 (284)
T d1ozna_         104 L--GRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRIS-SVPERAFRGLHSLD  180 (284)
T ss_dssp             C--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-EECTTTTTTCTTCC
T ss_pred             c--ccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCccc-ccchhhhccccccc
Confidence            9  99999999999998777777888999999999999999666677889999999999999998 55555888999999


Q ss_pred             eEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCcccccc
Q 040876          248 VFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSI  316 (343)
Q Consensus       248 ~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~  316 (343)
                      .+++++|            ++++..|..+... +|++|++++|++.+..+..   +++|++|++++|.+....
T Consensus       181 ~l~l~~N------------~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~C~C  241 (284)
T d1ozna_         181 RLLLHQN------------RVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDC  241 (284)
T ss_dssp             EEECCSS------------CCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEECSG
T ss_pred             hhhhhhc------------cccccChhHhhhhhhcccccccccccccccccccccccccCEEEecCCCCCCCc
Confidence            8777664            4555666666666 8888888888888766654   677888888888877543

>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=99.81  E-value=4.5e-19  Score=157.83  Aligned_cols=206  Identities=24%  Similarity=0.262  Sum_probs=150.9

Q ss_pred             CCccccCCCCCCEecCCCCC----------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEE
Q 040876          108 IPSWLYRLTHLEQLSVADRP----------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEIL  176 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~----------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L  176 (343)
                      +|..+.  +++++|++++|+          .+++|++|++++| +.                ...|..|.++  ++|++|
T Consensus        25 lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~----------------~i~~~~f~~l--~~L~~L   84 (305)
T d1xkua_          25 VPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKIS----------------KISPGAFAPL--VKLERL   84 (305)
T ss_dssp             CCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCC----------------CBCTTTTTTC--TTCCEE
T ss_pred             cCCCCC--CCCCEEECcCCcCCCcChhHhhcccccccccccccccc----------------ccchhhhhCC--CccCEe
Confidence            777664  689999999997          3445666666666 44                2234556666  677777


Q ss_pred             EeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCc--cccChHhhhcCCCCCeEEecCc
Q 040876          177 VLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLN--GTLSEIHFVNLTKLSVFSVNEN  254 (343)
Q Consensus       177 ~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~--g~~p~~~~~~l~~L~~L~l~~n  254 (343)
                      ++++|+++ .+|..+  ...++.|++.+|.+.+..+..+.....++.++...|...  +..+. .+..+++|+.+++++|
T Consensus        85 ~l~~n~l~-~l~~~~--~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~-~~~~l~~L~~l~l~~n  160 (305)
T d1xkua_          85 YLSKNQLK-ELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENG-AFQGMKKLSYIRIADT  160 (305)
T ss_dssp             ECCSSCCS-BCCSSC--CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTT-GGGGCTTCCEEECCSS
T ss_pred             cccCCccC-cCccch--hhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCcc-ccccccccCccccccC
Confidence            77777766 344432  345667777777766544444555666777777666433  22233 6777889999999998


Q ss_pred             eee---------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc---CCCCcEEEccCCccccccCchhh
Q 040876          255 NLT---------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI---SSNLVYLDLFNNSFLGSISHFWC  321 (343)
Q Consensus       255 ~l~---------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~---~~~L~~L~Ls~N~l~~~~~~~l~  321 (343)
                      .++         ++.|++++|..++..+..+... .+++|++++|.+++..+..   +++|++|+|++|+++. +    |
T Consensus       161 ~l~~l~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~~-l----p  235 (305)
T d1xkua_         161 NITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVK-V----P  235 (305)
T ss_dssp             CCCSCCSSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSS-C----C
T ss_pred             CccccCcccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeecccccccc-c----c
Confidence            874         6779999999998887777766 9999999999999876655   6899999999999974 3    4


Q ss_pred             ccCCccccCceEecCCCcccc
Q 040876          322 YRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       322 ~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      ..+..+++|++|++++|+|+.
T Consensus       236 ~~l~~l~~L~~L~Ls~N~i~~  256 (305)
T d1xkua_         236 GGLADHKYIQVVYLHNNNISA  256 (305)
T ss_dssp             TTTTTCSSCCEEECCSSCCCC
T ss_pred             cccccccCCCEEECCCCccCc
Confidence            667889999999999999863

>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=99.81  E-value=1.3e-18  Score=159.15  Aligned_cols=219  Identities=24%  Similarity=0.296  Sum_probs=115.9

Q ss_pred             CCCCCCCCCCccccCCCCCCEecCCCCC--------CCCCCcccccchh-hccccc-------------ccCCCcc----
Q 040876          100 SMLVGKGPIPSWLYRLTHLEQLSVADRP--------SLASREDQDLLSN-IRQRLS-------------KCRTGAK----  153 (343)
Q Consensus       100 ~n~~~~~~ip~~l~~l~~L~~L~Ls~n~--------~l~~L~~L~l~~n-l~~~l~-------------~~~~~~~----  153 (343)
                      +|++++  +|+ ++++++|++|++++|.        .+++|+.++++++ +.+...             .+.+...    
T Consensus        75 ~N~l~~--l~~-l~~L~~L~~L~L~~n~i~~i~~l~~l~~L~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  151 (384)
T d2omza2          75 NNQLTD--ITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALS  151 (384)
T ss_dssp             SSCCCC--CGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGT
T ss_pred             CCcCCC--Ccc-ccCCcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            356665  553 8888999999998887        5566788877766 443200             0000000    


Q ss_pred             ------------------------------ccCcccchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECc
Q 040876          154 ------------------------------SSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLG  203 (343)
Q Consensus       154 ------------------------------~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls  203 (343)
                                                    ........+.....+  ++++.+++++|.+++..|  +..+++|++|+++
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~~~~l~l~~n~i~~~~~--~~~~~~L~~L~l~  227 (384)
T d2omza2         152 GLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKL--TNLESLIATNNQISDITP--LGILTNLDELSLN  227 (384)
T ss_dssp             TCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGC--TTCSEEECCSSCCCCCGG--GGGCTTCCEEECC
T ss_pred             ccccccccccccccchhhhhccccccccccccccccccccccccc--cccceeeccCCccCCCCc--ccccCCCCEEECC
Confidence                                          000112223344555  667777777777665433  3445666677777


Q ss_pred             CCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee--------------------------
Q 040876          204 NNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT--------------------------  257 (343)
Q Consensus       204 ~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~--------------------------  257 (343)
                      +|.++. + +.+..+++|+.+++++|.+++ ++  .+..+++|+.|+++++.++                          
T Consensus       228 ~n~l~~-~-~~l~~l~~L~~L~l~~n~l~~-~~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~~~  302 (384)
T d2omza2         228 GNQLKD-I-GTLASLTNLTDLDLANNQISN-LA--PLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISP  302 (384)
T ss_dssp             SSCCCC-C-GGGGGCTTCSEEECCSSCCCC-CG--GGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGG
T ss_pred             CCCCCC-c-chhhcccccchhccccCccCC-CC--cccccccCCEeeccCcccCCCCccccccccccccccccccccccc
Confidence            666652 2 245666666666666666653 32  2455666666666666543                          


Q ss_pred             ------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCcccc-cCCCCcEEEccCCccccccCchhhccCCcccc
Q 040876          258 ------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSL-ISSNLVYLDLFNNSFLGSISHFWCYRSNETKR  329 (343)
Q Consensus       258 ------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~-~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~  329 (343)
                            ++.+++++|++++..+  +... +|++|++++|++++...- .+++|++|++++|++++..      .+.++++
T Consensus       303 ~~~~~~l~~L~ls~n~l~~l~~--l~~l~~L~~L~L~~n~l~~l~~l~~l~~L~~L~l~~N~l~~l~------~l~~l~~  374 (384)
T d2omza2         303 ISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLT------PLANLTR  374 (384)
T ss_dssp             GGGCTTCSEEECCSSCCSCCGG--GGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCBCG------GGTTCTT
T ss_pred             cchhcccCeEECCCCCCCCCcc--cccCCCCCEEECCCCCCCCChhHcCCCCCCEEECCCCcCCCCh------hhccCCC
Confidence                  2335555555543221  2222 555555555555442211 1455555555555555421      1344555


Q ss_pred             CceEecCCC
Q 040876          330 LRALSLGDN  338 (343)
Q Consensus       330 L~~L~ls~N  338 (343)
                      |+.|++++|
T Consensus       375 L~~L~L~~N  383 (384)
T d2omza2         375 ITQLGLNDQ  383 (384)
T ss_dssp             CSEEECCCE
T ss_pred             CCEeeCCCC
Confidence            555555554

>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=99.81  E-value=4.2e-19  Score=155.12  Aligned_cols=145  Identities=27%  Similarity=0.281  Sum_probs=91.5

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .|.++  ++|++|+|++|+++ .+|. ++.+++|++|++++|+++ ..+..+..+++|+.|++++|.+. .++...+..+
T Consensus        50 ~f~~l--~~L~~L~L~~N~l~-~l~~-~~~l~~L~~L~Ls~N~l~-~~~~~~~~l~~L~~L~l~~~~~~-~~~~~~~~~l  123 (266)
T d1p9ag_          50 TLMPY--TRLTQLNLDRAELT-KLQV-DGTLPVLGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGL  123 (266)
T ss_dssp             GGTTC--TTCCEEECTTSCCC-EEEC-CSCCTTCCEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCC-CCCSSTTTTC
T ss_pred             Hhhcc--cccccccccccccc-cccc-cccccccccccccccccc-ccccccccccccccccccccccc-eeeccccccc
Confidence            45555  55666666666555 2332 345556666666666555 33445555556666666665554 3333244555


Q ss_pred             CCCCeEEecCceee------------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEcc
Q 040876          244 TKLSVFSVNENNLT------------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLF  308 (343)
Q Consensus       244 ~~L~~L~l~~n~l~------------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls  308 (343)
                      .+++.|++++|.++            ++.+++++|++++..+..+... +|++|+|++|+++..++..  +++|+.|+|+
T Consensus       124 ~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~  203 (266)
T d1p9ag_         124 GELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (266)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             cccccccccccccceeccccccccccchhcccccccccccCccccccccccceeecccCCCcccChhHCCCCCCCEEEec
Confidence            55666666555543            4456777788887777777766 9999999999999543333  6889999999


Q ss_pred             CCcccc
Q 040876          309 NNSFLG  314 (343)
Q Consensus       309 ~N~l~~  314 (343)
                      +|.+..
T Consensus       204 ~Np~~C  209 (266)
T d1p9ag_         204 GNPWLC  209 (266)
T ss_dssp             SCCBCC
T ss_pred             CCCCCC
Confidence            998764

>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=99.75  E-value=2.7e-17  Score=150.24  Aligned_cols=131  Identities=25%  Similarity=0.360  Sum_probs=83.6

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      ++|+.|++++|.+++..+  +..+++|++|++++|++++. + .+..++.++.+.++.|.++ .++  .+..+++++.|+
T Consensus       241 ~~L~~L~l~~n~l~~~~~--~~~~~~L~~L~l~~~~l~~~-~-~~~~~~~l~~l~~~~n~l~-~~~--~~~~~~~l~~L~  313 (384)
T d2omza2         241 TNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNI-S-PLAGLTALTNLELNENQLE-DIS--PISNLKNLTYLT  313 (384)
T ss_dssp             TTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCCCC-G-GGTTCTTCSEEECCSSCCS-CCG--GGGGCTTCSEEE
T ss_pred             cccchhccccCccCCCCc--ccccccCCEeeccCcccCCC-C-ccccccccccccccccccc-ccc--ccchhcccCeEE
Confidence            444444444444442211  33444444444444444422 1 2334444444444444444 222  467788999999


Q ss_pred             ecCceee----------EeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc-CCCCcEEEccCC
Q 040876          251 VNENNLT----------LKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNN  310 (343)
Q Consensus       251 l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N  310 (343)
                      +++|+++          ++.|++++|++++ ++. +..+ +|++|++++|++++.+|-. +++|+.|+|++|
T Consensus       314 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         314 LYFNNISDISPVSSLTKLQRLFFANNKVSD-VSS-LANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQ  383 (384)
T ss_dssp             CCSSCCSCCGGGGGCTTCCEEECCSSCCCC-CGG-GGGCTTCCEEECCSSCCCBCGGGTTCTTCSEEECCCE
T ss_pred             CCCCCCCCCcccccCCCCCEEECCCCCCCC-Chh-HcCCCCCCEEECCCCcCCCChhhccCCCCCEeeCCCC
Confidence            9999875          7889999999985 444 4445 9999999999999877644 889999999987

>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=99.73  E-value=4.3e-18  Score=141.32  Aligned_cols=160  Identities=19%  Similarity=0.209  Sum_probs=116.7

Q ss_pred             CCccccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccch-hhhhhcCCCCCccEEEeecCccccc
Q 040876          108 IPSWLYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDI-FDIFSGCVSKGLEILVLRSSSISGH  186 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~i-p~~l~~l~~~~L~~L~L~~n~l~~~  186 (343)
                      ||..+.  +++++|+|++|.             ++                +.+ +..|.++  ++|++|++++|.+...
T Consensus        23 iP~~lp--~~l~~L~Ls~N~-------------i~----------------~~~~~~~f~~l--~~L~~L~L~~N~i~~~   69 (192)
T d1w8aa_          23 IPRDIP--LHTTELLLNDNE-------------LG----------------RISSDGLFGRL--PHLVKLELKRNQLTGI   69 (192)
T ss_dssp             CCSCCC--TTCSEEECCSCC-------------CC----------------SBCCSCSGGGC--TTCCEEECCSSCCCCB
T ss_pred             cCCCCC--CCCCEEEeCCCC-------------Cc----------------ccccccccCCC--ceEeeeeccccccccc
Confidence            666553  578888888887             32                123 3456778  8999999999999988


Q ss_pred             cchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCC
Q 040876          187 LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGEN  266 (343)
Q Consensus       187 ~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n  266 (343)
                      .+..+..+++|++|++++|++++..|..|.++++|++|+|++|+++ .+|+..|..+++|++|++++|.+.         
T Consensus        70 ~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~l~-~i~~~~f~~l~~L~~l~L~~N~~~---------  139 (192)
T d1w8aa_          70 EPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQIS-CVMPGSFEHLNSLTSLNLASNPFN---------  139 (192)
T ss_dssp             CTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCC-EECTTSSTTCTTCCEEECTTCCBC---------
T ss_pred             cccccccccccceeeeccccccccCHHHHhCCCcccccccCCcccc-ccCHHHhcCCcccccccccccccc---------
Confidence            8888999999999999999999777778899999999999999998 566657888888888877776543         


Q ss_pred             cccccCCCccccc-CCCeEeCcCCcccCcccccCCCCcEEEccCCcccc
Q 040876          267 QIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLG  314 (343)
Q Consensus       267 ~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~  314 (343)
                         .... ..... .++.+.+..+.++...|..+..++.++++.|.+.-
T Consensus       140 ---~~~~-~~~~~~~l~~~~l~~~~~~c~~p~~l~~~~l~~L~~n~l~C  184 (192)
T d1w8aa_         140 ---CNCH-LAWFAEWLRKKSLNGGAARCGAPSKVRDVQIKDLPHSEFKC  184 (192)
T ss_dssp             ---CSGG-GHHHHHHHHHHCCSGGGCBBCSSTTTTTSBGGGSCTTTCCC
T ss_pred             ---cccc-hHHHhhhhhhhcccCCCeEeCCChhhcCCEeeecCHhhCcC
Confidence               2211 11111 34555666676666666666666667777777643

>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=99.69  E-value=1.1e-17  Score=138.69  Aligned_cols=158  Identities=21%  Similarity=0.260  Sum_probs=122.8

Q ss_pred             chhhhhhcCCCCCccEEEeecCcccccc-chhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHL-TEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~-p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      .+|+.+.    +++++|+|++|+|++.+ +..|.++++|++|++++|.+....+..+..+++|++|++++|+++ .+|+.
T Consensus        22 ~iP~~lp----~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~-~l~~~   96 (192)
T d1w8aa_          22 EIPRDIP----LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIK-EISNK   96 (192)
T ss_dssp             SCCSCCC----TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCC-EECSS
T ss_pred             ccCCCCC----CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecccccc-ccCHH
Confidence            6777653    68999999999998645 556789999999999999999888889999999999999999998 66665


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccccc--CCCCcEEEccCCccccc
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLSLI--SSNLVYLDLFNNSFLGS  315 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~~~--~~~L~~L~Ls~N~l~~~  315 (343)
                      .|.++++|++|+|++            |+|++..+..+... +|++|+|++|.+.......  ...++.+.+..+.++..
T Consensus        97 ~F~~l~~L~~L~L~~------------N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~~~~~~~~~~l~~~~l~~~~~~c~  164 (192)
T d1w8aa_          97 MFLGLHQLKTLNLYD------------NQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFAEWLRKKSLNGGAARCG  164 (192)
T ss_dssp             SSTTCTTCCEEECCS------------SCCCEECTTSSTTCTTCCEEECTTCCBCCSGGGHHHHHHHHHHCCSGGGCBBC
T ss_pred             HHhCCCcccccccCC------------ccccccCHHHhcCCcccccccccccccccccchHHHhhhhhhhcccCCCeEeC
Confidence            789999999877766            45555566667666 9999999999998654332  23355556677777655


Q ss_pred             cCchhhccCCccccCceEecCCCccc
Q 040876          316 ISHFWCYRSNETKRLRALSLGDNYLQ  341 (343)
Q Consensus       316 ~~~~l~~~l~~l~~L~~L~ls~N~l~  341 (343)
                      .|       ..++.++.++++.|.|.
T Consensus       165 ~p-------~~l~~~~l~~L~~n~l~  183 (192)
T d1w8aa_         165 AP-------SKVRDVQIKDLPHSEFK  183 (192)
T ss_dssp             SS-------TTTTTSBGGGSCTTTCC
T ss_pred             CC-------hhhcCCEeeecCHhhCc
Confidence            44       24566778889988875

>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=2e-16  Score=133.03  Aligned_cols=145  Identities=26%  Similarity=0.323  Sum_probs=112.7

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      +..+  ++|++|++++|++++ ++ .++.+++|++|++++|+++ .+| .+..+++|+.|++++|.+. .++  .+..++
T Consensus        64 l~~l--~~L~~L~L~~n~i~~-l~-~~~~l~~L~~L~l~~n~i~-~l~-~l~~l~~L~~L~l~~~~~~-~~~--~l~~l~  134 (210)
T d1h6ta2          64 IQYL--PNVTKLFLNGNKLTD-IK-PLANLKNLGWLFLDENKVK-DLS-SLKDLKKLKSLSLEHNGIS-DIN--GLVHLP  134 (210)
T ss_dssp             GGGC--TTCCEEECCSSCCCC-CG-GGTTCTTCCEEECCSSCCC-CGG-GGTTCTTCCEEECTTSCCC-CCG--GGGGCT
T ss_pred             HhhC--CCCCEEeCCCccccC-cc-ccccCcccccccccccccc-ccc-ccccccccccccccccccc-ccc--cccccc
Confidence            6667  899999999999985 33 3678999999999999998 444 5888999999999999886 444  467788


Q ss_pred             CCCeEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhcc
Q 040876          245 KLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYR  323 (343)
Q Consensus       245 ~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~  323 (343)
                      .++.+++++|.+            ++ .+......+|+++++++|++++..+.. +++|+.|++++|++++ +    + .
T Consensus       135 ~l~~l~~~~n~l------------~~-~~~~~~l~~L~~l~l~~n~l~~i~~l~~l~~L~~L~Ls~N~i~~-l----~-~  195 (210)
T d1h6ta2         135 QLESLYLGNNKI------------TD-ITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISD-L----R-A  195 (210)
T ss_dssp             TCCEEECCSSCC------------CC-CGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCB-C----G-G
T ss_pred             cccccccccccc------------cc-cccccccccccccccccccccccccccCCCCCCEEECCCCCCCC-C----h-h
Confidence            888877776554            32 222222338999999999999865533 8899999999999975 2    2 4


Q ss_pred             CCccccCceEecCC
Q 040876          324 SNETKRLRALSLGD  337 (343)
Q Consensus       324 l~~l~~L~~L~ls~  337 (343)
                      +..+++|++|++++
T Consensus       196 l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         196 LAGLKNLDVLELFS  209 (210)
T ss_dssp             GTTCTTCSEEEEEE
T ss_pred             hcCCCCCCEEEccC
Confidence            77899999999874

>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=99.67  E-value=5.8e-16  Score=128.96  Aligned_cols=142  Identities=20%  Similarity=0.270  Sum_probs=106.9

Q ss_pred             hhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcC
Q 040876          164 IFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNL  243 (343)
Q Consensus       164 ~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l  243 (343)
                      .+..+  ++|++|++++|++++..|  ++++++|++|++++|.+. .++ .+.++++|+.|++++|.+. .++  .+..+
T Consensus        57 ~l~~l--~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~n~~~-~~~-~l~~l~~L~~L~l~~~~~~-~~~--~~~~l  127 (199)
T d2omxa2          57 GVEYL--NNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQIA-DIT-PLANLTNLTGLTLFNNQIT-DID--PLKNL  127 (199)
T ss_dssp             TGGGC--TTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC-CCG-GGTTCTTCSEEECCSSCCC-CCG--GGTTC
T ss_pred             ccccC--CCcCcCccccccccCccc--ccCCcccccccccccccc-ccc-ccccccccccccccccccc-ccc--ccchh
Confidence            35667  899999999999986433  889999999999999887 444 4888999999999998886 333  46778


Q ss_pred             CCCCeEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhc
Q 040876          244 TKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCY  322 (343)
Q Consensus       244 ~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~  322 (343)
                      ++|+.|++++|++            . .++......+|++|++++|++++..+.. +++|++|++++|++++.      +
T Consensus       128 ~~L~~L~l~~n~l------------~-~~~~l~~~~~L~~L~l~~n~l~~l~~l~~l~~L~~L~ls~N~i~~i------~  188 (199)
T d2omxa2         128 TNLNRLELSSNTI------------S-DISALSGLTSLQQLNFSSNQVTDLKPLANLTTLERLDISSNKVSDI------S  188 (199)
T ss_dssp             TTCSEEECCSSCC------------C-CCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCC------G
T ss_pred             hhhHHhhhhhhhh------------c-ccccccccccccccccccccccCCccccCCCCCCEEECCCCCCCCC------c
Confidence            8888877776544            3 2333333339999999999998865433 88999999999998762      2


Q ss_pred             cCCccccCceE
Q 040876          323 RSNETKRLRAL  333 (343)
Q Consensus       323 ~l~~l~~L~~L  333 (343)
                      .++++++|+.|
T Consensus       189 ~l~~L~~L~~L  199 (199)
T d2omxa2         189 VLAKLTNLESL  199 (199)
T ss_dssp             GGGGCTTCSEE
T ss_pred             cccCCCCCCcC
Confidence            35677788765

>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=99.66  E-value=5.7e-16  Score=131.64  Aligned_cols=179  Identities=22%  Similarity=0.318  Sum_probs=115.5

Q ss_pred             ccCCCCCCEecCCCCCCCCCCcccccchhhcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCccccccchhc
Q 040876          112 LYRLTHLEQLSVADRPSLASREDQDLLSNIRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISGHLTEQI  191 (343)
Q Consensus       112 l~~l~~L~~L~Ls~n~~l~~L~~L~l~~nl~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l  191 (343)
                      +..+.+|++|++.+|.             ++                 .+ +.+..+  ++|++|++++|.+++..|  +
T Consensus        37 ~~~l~~L~~L~l~~~~-------------i~-----------------~l-~~l~~l--~~L~~L~ls~n~i~~~~~--l   81 (227)
T d1h6ua2          37 QADLDGITTLSAFGTG-------------VT-----------------TI-EGVQYL--NNLIGLELKDNQITDLAP--L   81 (227)
T ss_dssp             HHHHHTCCEEECTTSC-------------CC-----------------CC-TTGGGC--TTCCEEECCSSCCCCCGG--G
T ss_pred             HHHcCCcCEEECCCCC-------------CC-----------------cc-hhHhcC--CCCcEeecCCceeecccc--c
Confidence            4567788888888776             21                 33 235556  667777777766664332  6


Q ss_pred             cCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceee----------EeEE
Q 040876          192 GHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLT----------LKFL  261 (343)
Q Consensus       192 ~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~----------l~~L  261 (343)
                      ..+++|+++++++|.++ .++ .+.++++|+.++++++...+ ++  .+...+.++.+.++.+.+.          ++.|
T Consensus        82 ~~l~~l~~l~~~~n~~~-~i~-~l~~l~~L~~l~l~~~~~~~-~~--~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L  156 (227)
T d1h6ua2          82 KNLTKITELELSGNPLK-NVS-AIAGLQSIKTLDLTSTQITD-VT--PLAGLSNLQVLYLDLNQITNISPLAGLTNLQYL  156 (227)
T ss_dssp             TTCCSCCEEECCSCCCS-CCG-GGTTCTTCCEEECTTSCCCC-CG--GGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEE
T ss_pred             ccccccccccccccccc-ccc-cccccccccccccccccccc-cc--hhccccchhhhhchhhhhchhhhhccccccccc
Confidence            66666777777666665 332 45666667777766666542 22  2344556666666555442          4556


Q ss_pred             eccCCcccccCCCcccccCCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhccCCccccCceEecCC
Q 040876          262 DLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGD  337 (343)
Q Consensus       262 ~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~  337 (343)
                      ++++|.+++..+ .....+|++|++++|++++..+-. +++|++|++++|++++..      .+..+++|+.|++++
T Consensus       157 ~l~~n~~~~~~~-l~~l~~L~~L~Ls~n~l~~l~~l~~l~~L~~L~Ls~N~lt~i~------~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         157 SIGNAQVSDLTP-LANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVS------PLANTSNLFIVTLTN  226 (227)
T ss_dssp             ECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECTTSCCCBCG------GGTTCTTCCEEEEEE
T ss_pred             cccccccccchh-hcccccceecccCCCccCCChhhcCCCCCCEEECcCCcCCCCc------ccccCCCCCEEEeeC
Confidence            666676654332 223338999999999998754433 789999999999988631      367889999999873

>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=99.64  E-value=8.8e-16  Score=131.49  Aligned_cols=171  Identities=22%  Similarity=0.267  Sum_probs=110.9

Q ss_pred             chhh-hhhcCCCCCccEEEeecCccccccc-hhccCCCCCCEEECcC-CcccccCCccccCCCCCcEEEccCccCccccC
Q 040876          160 DIFD-IFSGCVSKGLEILVLRSSSISGHLT-EQIGHFKNLDTLDLGN-NSIVGLVPLSLNELSKLRILHLSDNKLNGTLS  236 (343)
Q Consensus       160 ~ip~-~l~~l~~~~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~Ls~-N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p  236 (343)
                      .+|. .|.++  ++|++|++++|.+...++ ..+..++.++++++.. |.+....+..+..+++|+++++++|.+. ..+
T Consensus        43 ~l~~~~f~~l--~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~-~~~  119 (242)
T d1xwdc1          43 VIQKGAFSGF--GDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIK-HLP  119 (242)
T ss_dssp             EECTTTTTTC--TTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESCCCC-SCC
T ss_pred             ccChhHhhcc--chhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccccchhhhc-ccc
Confidence            4444 46777  788888888887765443 3567778888877654 5666666666777888888888888776 333


Q ss_pred             h-HhhhcCCCCCeEEecCceee-------------EeEEeccCCcccccCCCcccccCCCeE-eCcCCcccCccccc---
Q 040876          237 E-IHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHGEMTNLTNATQLWYL-RLHSNNFSGPLSLI---  298 (343)
Q Consensus       237 ~-~~~~~l~~L~~L~l~~n~l~-------------l~~L~ls~n~l~~~~~~~~~~~~L~~L-~Ls~N~l~~~~~~~---  298 (343)
                      . ..+..++.+..+...++.+.             ...+++++|+++...+..+...+++.+ ++++|+++...+..   
T Consensus       120 ~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~  199 (242)
T d1xwdc1         120 DVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHG  199 (242)
T ss_dssp             CCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTTTTCCEEEEECTTCTTCCCCCTTTTTT
T ss_pred             cccccccccccccccccccccccccccccccccccceeeecccccccccccccccchhhhccccccccccccccHHHhcC
Confidence            2 12233444444444443332             445788888887655555555555544 56778887654433   


Q ss_pred             CCCCcEEEccCCccccccCchhhccCCccccCceEecCC
Q 040876          299 SSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGD  337 (343)
Q Consensus       299 ~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~  337 (343)
                      +++|++|++++|+++. +|   +..+.++++|+.+++.+
T Consensus       200 l~~L~~L~Ls~N~l~~-l~---~~~~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         200 ASGPVILDISRTRIHS-LP---SYGLENLKKLRARSTYN  234 (242)
T ss_dssp             SCCCSEEECTTSCCCC-CC---SSSCTTCCEEESSSEES
T ss_pred             CCCCCEEECCCCcCCc-cC---HHHHcCCcccccCcCCC
Confidence            6889999999999884 43   24567777787777654

>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=99.64  E-value=1.5e-15  Score=129.07  Aligned_cols=162  Identities=25%  Similarity=0.319  Sum_probs=132.6

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      +..+  .+|++|++.+|+++. + +.+.++++|++|++++|.+++..  .+..+++++++++++|.++ .++  .+.+++
T Consensus        37 ~~~l--~~L~~L~l~~~~i~~-l-~~l~~l~~L~~L~ls~n~i~~~~--~l~~l~~l~~l~~~~n~~~-~i~--~l~~l~  107 (227)
T d1h6ua2          37 QADL--DGITTLSAFGTGVTT-I-EGVQYLNNLIGLELKDNQITDLA--PLKNLTKITELELSGNPLK-NVS--AIAGLQ  107 (227)
T ss_dssp             HHHH--HTCCEEECTTSCCCC-C-TTGGGCTTCCEEECCSSCCCCCG--GGTTCCSCCEEECCSCCCS-CCG--GGTTCT
T ss_pred             HHHc--CCcCEEECCCCCCCc-c-hhHhcCCCCcEeecCCceeeccc--ccccccccccccccccccc-ccc--cccccc
Confidence            4556  889999999999984 5 45899999999999999998553  3889999999999999987 565  477899


Q ss_pred             CCCeEEecCceee----------EeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc-CCCCcEEEccCCccc
Q 040876          245 KLSVFSVNENNLT----------LKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFL  313 (343)
Q Consensus       245 ~L~~L~l~~n~l~----------l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~  313 (343)
                      .|+.++++++...          ...++++.+.+....+ .....+|++|++++|.+++..+.. +++|++|++++|+++
T Consensus       108 ~L~~l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~L~~L~l~~n~~~~~~~l~~l~~L~~L~Ls~n~l~  186 (227)
T d1h6ua2         108 SIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKIS  186 (227)
T ss_dssp             TCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCC
T ss_pred             cccccccccccccccchhccccchhhhhchhhhhchhhh-hccccccccccccccccccchhhcccccceecccCCCccC
Confidence            9999999998764          4557888887765433 333338999999999998755533 899999999999998


Q ss_pred             cccCchhhccCCccccCceEecCCCcccc
Q 040876          314 GSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       314 ~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +.      ..+.++++|++|++++|+|++
T Consensus       187 ~l------~~l~~l~~L~~L~Ls~N~lt~  209 (227)
T d1h6ua2         187 DI------SPLASLPNLIEVHLKNNQISD  209 (227)
T ss_dssp             CC------GGGGGCTTCCEEECTTSCCCB
T ss_pred             CC------hhhcCCCCCCEEECcCCcCCC
Confidence            63      236789999999999999874

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.64  E-value=1.8e-15  Score=125.93  Aligned_cols=149  Identities=22%  Similarity=0.319  Sum_probs=118.8

Q ss_pred             hcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCC
Q 040876          166 SGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTK  245 (343)
Q Consensus       166 ~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~  245 (343)
                      ..+  +++++|++++|.++. + +.+..+++|++|++++|++++. + .++++++|++|++++|.+. .++  .+.+++.
T Consensus        37 ~~l--~~l~~L~l~~~~i~~-l-~~l~~l~nL~~L~Ls~N~l~~~-~-~l~~l~~L~~L~l~~n~~~-~~~--~l~~l~~  107 (199)
T d2omxa2          37 TDL--DQVTTLQADRLGIKS-I-DGVEYLNNLTQINFSNNQLTDI-T-PLKNLTKLVDILMNNNQIA-DIT--PLANLTN  107 (199)
T ss_dssp             HHH--TTCCEEECTTSCCCC-C-TTGGGCTTCCEEECCSSCCCCC-G-GGTTCTTCCEEECCSSCCC-CCG--GGTTCTT
T ss_pred             HHh--cCCCEEECCCCCCCC-c-cccccCCCcCcCccccccccCc-c-cccCCcccccccccccccc-ccc--ccccccc
Confidence            345  889999999999984 4 3588999999999999999854 3 3899999999999999987 555  4778999


Q ss_pred             CCeEEecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCcccc-cCCCCcEEEccCCccccccCchhhccC
Q 040876          246 LSVFSVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSL-ISSNLVYLDLFNNSFLGSISHFWCYRS  324 (343)
Q Consensus       246 L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~-~~~~L~~L~Ls~N~l~~~~~~~l~~~l  324 (343)
                      |+.|++++|.+.            . ++......+|+.|++++|++....+. .+++|++|++++|++++.      ..+
T Consensus       108 L~~L~l~~~~~~------------~-~~~~~~l~~L~~L~l~~n~l~~~~~l~~~~~L~~L~l~~n~l~~l------~~l  168 (199)
T d2omxa2         108 LTGLTLFNNQIT------------D-IDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSNQVTDL------KPL  168 (199)
T ss_dssp             CSEEECCSSCCC------------C-CGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCC------GGG
T ss_pred             cccccccccccc------------c-ccccchhhhhHHhhhhhhhhcccccccccccccccccccccccCC------ccc
Confidence            999888775542            2 22222233999999999999864332 278999999999999873      236


Q ss_pred             CccccCceEecCCCcccc
Q 040876          325 NETKRLRALSLGDNYLQG  342 (343)
Q Consensus       325 ~~l~~L~~L~ls~N~l~g  342 (343)
                      +++++|++|++++|++++
T Consensus       169 ~~l~~L~~L~ls~N~i~~  186 (199)
T d2omxa2         169 ANLTTLERLDISSNKVSD  186 (199)
T ss_dssp             TTCTTCCEEECCSSCCCC
T ss_pred             cCCCCCCEEECCCCCCCC
Confidence            789999999999999875

>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=99.60  E-value=2.2e-14  Score=128.67  Aligned_cols=54  Identities=20%  Similarity=0.162  Sum_probs=44.7

Q ss_pred             CCCeEeCcCCcccCcccccCCCCcEEEccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          280 QLWYLRLHSNNFSGPLSLISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       280 ~L~~L~Ls~N~l~~~~~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      +|++|++++|+++. +|..+++|+.|++++|+|+. +|    .   .+++|++|++++|+|+.
T Consensus       285 ~L~~L~Ls~N~l~~-lp~~~~~L~~L~L~~N~L~~-l~----~---~~~~L~~L~L~~N~L~~  338 (353)
T d1jl5a_         285 SLEELNVSNNKLIE-LPALPPRLERLIASFNHLAE-VP----E---LPQNLKQLHVEYNPLRE  338 (353)
T ss_dssp             TCCEEECCSSCCSC-CCCCCTTCCEEECCSSCCSC-CC----C---CCTTCCEEECCSSCCSS
T ss_pred             CCCEEECCCCccCc-cccccCCCCEEECCCCcCCc-cc----c---ccCCCCEEECcCCcCCC
Confidence            79999999999984 56678899999999999974 44    2   24679999999999863

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.60  E-value=8.2e-15  Score=122.92  Aligned_cols=146  Identities=25%  Similarity=0.340  Sum_probs=118.2

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFS  250 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~  250 (343)
                      .+|++|++++|.++. ++ .+..+++|++|++++|++++ ++ .++.+++|++|++++|+++ .+|  .+..+++|+.|+
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~~L~  118 (210)
T d1h6ta2          46 NSIDQIIANNSDIKS-VQ-GIQYLPNVTKLFLNGNKLTD-IK-PLANLKNLGWLFLDENKVK-DLS--SLKDLKKLKSLS  118 (210)
T ss_dssp             HTCCEEECTTSCCCC-CT-TGGGCTTCCEEECCSSCCCC-CG-GGTTCTTCCEEECCSSCCC-CGG--GGTTCTTCCEEE
T ss_pred             cCccEEECcCCCCCC-ch-hHhhCCCCCEEeCCCccccC-cc-ccccCcccccccccccccc-ccc--cccccccccccc
Confidence            789999999999985 33 48889999999999999985 44 4788999999999999998 566  477899999988


Q ss_pred             ecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccccc-CCCCcEEEccCCccccccCchhhccCCcccc
Q 040876          251 VNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLSLI-SSNLVYLDLFNNSFLGSISHFWCYRSNETKR  329 (343)
Q Consensus       251 l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~-~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~  329 (343)
                      +++|.+.             .++.......++.+++++|.+++..+.. +++|+++++++|.+++.      ..+..+++
T Consensus       119 l~~~~~~-------------~~~~l~~l~~l~~l~~~~n~l~~~~~~~~l~~L~~l~l~~n~l~~i------~~l~~l~~  179 (210)
T d1h6ta2         119 LEHNGIS-------------DINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDI------VPLAGLTK  179 (210)
T ss_dssp             CTTSCCC-------------CCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCC------GGGTTCTT
T ss_pred             ccccccc-------------cccccccccccccccccccccccccccccccccccccccccccccc------ccccCCCC
Confidence            8876542             2333333338999999999998754433 89999999999999863      23678999


Q ss_pred             CceEecCCCcccc
Q 040876          330 LRALSLGDNYLQG  342 (343)
Q Consensus       330 L~~L~ls~N~l~g  342 (343)
                      |+.|++++|+|+.
T Consensus       180 L~~L~Ls~N~i~~  192 (210)
T d1h6ta2         180 LQNLYLSKNHISD  192 (210)
T ss_dssp             CCEEECCSSCCCB
T ss_pred             CCEEECCCCCCCC
Confidence            9999999999864

>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=99.58  E-value=4.3e-16  Score=140.69  Aligned_cols=226  Identities=16%  Similarity=0.145  Sum_probs=156.5

Q ss_pred             CCccccCCCCCCEecCCCCC--------------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCC
Q 040876          108 IPSWLYRLTHLEQLSVADRP--------------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKG  172 (343)
Q Consensus       108 ip~~l~~l~~L~~L~Ls~n~--------------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~  172 (343)
                      +...+.+.+.|+.|+|++|.              ..++|+.++++.+ ......      ........+.+.+..+  ++
T Consensus        23 l~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~------~~~~~~~~l~~~l~~~--~~   94 (344)
T d2ca6a1          23 VFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKD------EIPEALRLLLQALLKC--PK   94 (344)
T ss_dssp             TSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGG------GSHHHHHHHHHHHTTC--TT
T ss_pred             HHHHHhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCccccccc------ccchHHHHHHHHHhhC--CC
Confidence            55667778899999999886              3456777777765 221000      0000112345566677  88


Q ss_pred             ccEEEeecCccccc----cchhccCCCCCCEEECcCCcccccCCcc-------------ccCCCCCcEEEccCccCccc-
Q 040876          173 LEILVLRSSSISGH----LTEQIGHFKNLDTLDLGNNSIVGLVPLS-------------LNELSKLRILHLSDNKLNGT-  234 (343)
Q Consensus       173 L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-------------l~~l~~L~~L~l~~N~l~g~-  234 (343)
                      |++|++++|.++..    +...+...++|++|++++|.++......             ....+.|+.+.+++|.++.. 
T Consensus        95 L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~  174 (344)
T d2ca6a1          95 LHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGS  174 (344)
T ss_dssp             CCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGG
T ss_pred             cccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccc
Confidence            99999999988753    3445567789999999999875321111             13467889999999887622 


Q ss_pred             ---cChHhhhcCCCCCeEEecCceee-----------------EeEEeccCCccccc----CCCccccc-CCCeEeCcCC
Q 040876          235 ---LSEIHFVNLTKLSVFSVNENNLT-----------------LKFLDLGENQIHGE----MTNLTNAT-QLWYLRLHSN  289 (343)
Q Consensus       235 ---~p~~~~~~l~~L~~L~l~~n~l~-----------------l~~L~ls~n~l~~~----~~~~~~~~-~L~~L~Ls~N  289 (343)
                         +.. .+...+.|+.|++++|.++                 ++.|++++|.++..    +...+... +|++|++++|
T Consensus       175 ~~~l~~-~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n  253 (344)
T d2ca6a1         175 MKEWAK-TFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDC  253 (344)
T ss_dssp             HHHHHH-HHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTC
T ss_pred             cccccc-hhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcC
Confidence               222 4566788999999998874                 56799999988642    22333444 8999999999


Q ss_pred             cccCcccc---------cCCCCcEEEccCCccccccCchhhccCC-ccccCceEecCCCcccc
Q 040876          290 NFSGPLSL---------ISSNLVYLDLFNNSFLGSISHFWCYRSN-ETKRLRALSLGDNYLQG  342 (343)
Q Consensus       290 ~l~~~~~~---------~~~~L~~L~Ls~N~l~~~~~~~l~~~l~-~l~~L~~L~ls~N~l~g  342 (343)
                      .+++....         ....|+.|++++|.++......+...+. +.+.|+.|++++|+|+.
T Consensus       254 ~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~  316 (344)
T d2ca6a1         254 LLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE  316 (344)
T ss_dssp             CCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCT
T ss_pred             ccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCCC
Confidence            99753111         1467999999999998766556666664 57889999999999865

>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=99.55  E-value=1.6e-14  Score=123.53  Aligned_cols=175  Identities=14%  Similarity=0.146  Sum_probs=130.4

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCC-ccccCCCCCcEEEccC-ccCccccC
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVP-LSLNELSKLRILHLSD-NKLNGTLS  236 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~L~l~~-N~l~g~~p  236 (343)
                      ..+|+.+.    +++++|++++|.++...+..|.++++|++|++++|.+...++ ..+..++.++++.+.. |.+. .++
T Consensus        21 ~~iP~~l~----~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~-~~~   95 (242)
T d1xwdc1          21 TEIPSDLP----RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLL-YIN   95 (242)
T ss_dssp             SSCCSCSC----SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCC-EEC
T ss_pred             CCcCCCCC----CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccc-ccc
Confidence            36776553    679999999999995445578999999999999999876554 4678899999998764 6676 444


Q ss_pred             hHhhhcCCCCCeEEecCceee-------------EeEEeccCCcccccCCCcccc-c-CCCeEeCcCCcccCccccc--C
Q 040876          237 EIHFVNLTKLSVFSVNENNLT-------------LKFLDLGENQIHGEMTNLTNA-T-QLWYLRLHSNNFSGPLSLI--S  299 (343)
Q Consensus       237 ~~~~~~l~~L~~L~l~~n~l~-------------l~~L~ls~n~l~~~~~~~~~~-~-~L~~L~Ls~N~l~~~~~~~--~  299 (343)
                      ...|..+++|+++++++|.++             +..+...++.+....+..+.. . .++.|++++|+++...+..  .
T Consensus        96 ~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~~  175 (242)
T d1xwdc1          96 PEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNG  175 (242)
T ss_dssp             TTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTTTT
T ss_pred             cccccccccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeecccccccccccccccc
Confidence            437889999999999999875             333555666666544444433 3 7899999999998755544  3


Q ss_pred             CCCcEE-EccCCccccccCchhhccCCccccCceEecCCCcccc
Q 040876          300 SNLVYL-DLFNNSFLGSISHFWCYRSNETKRLRALSLGDNYLQG  342 (343)
Q Consensus       300 ~~L~~L-~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls~N~l~g  342 (343)
                      .+++.+ ++++|.++. +|   +..+.++++|++|++++|+|+.
T Consensus       176 ~~l~~~~~l~~n~l~~-l~---~~~f~~l~~L~~L~Ls~N~l~~  215 (242)
T d1xwdc1         176 TQLDELNLSDNNNLEE-LP---NDVFHGASGPVILDISRTRIHS  215 (242)
T ss_dssp             CCEEEEECTTCTTCCC-CC---TTTTTTSCCCSEEECTTSCCCC
T ss_pred             hhhhcccccccccccc-cc---HHHhcCCCCCCEEECCCCcCCc
Confidence            444444 567788875 33   2446789999999999999873

>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=99.54  E-value=4.3e-16  Score=144.82  Aligned_cols=85  Identities=20%  Similarity=0.132  Sum_probs=53.9

Q ss_pred             EeEEeccCCcccccCC----Cccccc-CCCeEeCcCCcccCc----ccc----cCCCCcEEEccCCccccccCchhhccC
Q 040876          258 LKFLDLGENQIHGEMT----NLTNAT-QLWYLRLHSNNFSGP----LSL----ISSNLVYLDLFNNSFLGSISHFWCYRS  324 (343)
Q Consensus       258 l~~L~ls~n~l~~~~~----~~~~~~-~L~~L~Ls~N~l~~~----~~~----~~~~L~~L~Ls~N~l~~~~~~~l~~~l  324 (343)
                      ++.++++++.++....    ...... +|++|+|++|++++.    ++.    ..+.|++|+|++|.|++.....+++.+
T Consensus       314 L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~~l  393 (460)
T d1z7xw1         314 LESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATL  393 (460)
T ss_dssp             CCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHH
T ss_pred             cccccccccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCChHHHHHHHHHH
Confidence            3446666665554211    111222 688888888887642    111    245688888888888776555566666


Q ss_pred             CccccCceEecCCCcccc
Q 040876          325 NETKRLRALSLGDNYLQG  342 (343)
Q Consensus       325 ~~l~~L~~L~ls~N~l~g  342 (343)
                      ..+++|++|++++|+|+.
T Consensus       394 ~~~~~L~~L~Ls~N~i~~  411 (460)
T d1z7xw1         394 LANHSLRELDLSNNCLGD  411 (460)
T ss_dssp             HHCCCCCEEECCSSSCCH
T ss_pred             hcCCCCCEEECCCCcCCH
Confidence            677888888888888764

>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=99.49  E-value=9.1e-14  Score=106.29  Aligned_cols=76  Identities=26%  Similarity=0.415  Sum_probs=48.5

Q ss_pred             cEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecC
Q 040876          174 EILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNE  253 (343)
Q Consensus       174 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~  253 (343)
                      |+|++++|+++ .++ .+.++++|++|++++|+++ .+|+.++.+++|++|++++|.++ .+|  .+..+++|++|++++
T Consensus         1 R~L~Ls~n~l~-~l~-~l~~l~~L~~L~ls~N~l~-~lp~~~~~l~~L~~L~l~~N~i~-~l~--~~~~l~~L~~L~l~~   74 (124)
T d1dcea3           1 RVLHLAHKDLT-VLC-HLEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALE-NVD--GVANLPRLQELLLCN   74 (124)
T ss_dssp             SEEECTTSCCS-SCC-CGGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCC-CCG--GGTTCSSCCEEECCS
T ss_pred             CEEEcCCCCCC-CCc-ccccCCCCCEEECCCCccC-cchhhhhhhhccccccccccccc-ccC--ccccccccCeEECCC
Confidence            45677777776 344 3666777777777777776 55666677777777777777776 444  355566666655554


Q ss_pred             ce
Q 040876          254 NN  255 (343)
Q Consensus       254 n~  255 (343)
                      |+
T Consensus        75 N~   76 (124)
T d1dcea3          75 NR   76 (124)
T ss_dssp             SC
T ss_pred             Cc
Confidence            43

>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=99.48  E-value=1e-13  Score=106.04  Aligned_cols=118  Identities=22%  Similarity=0.277  Sum_probs=88.7

Q ss_pred             CEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccccCCCccc
Q 040876          198 DTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMTNLTN  277 (343)
Q Consensus       198 ~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~  277 (343)
                      ++|++++|+++ .++ .+..+++|++|++++|+++ .+|+ .+..+++|+.|++++|.++             .+|....
T Consensus         1 R~L~Ls~n~l~-~l~-~l~~l~~L~~L~ls~N~l~-~lp~-~~~~l~~L~~L~l~~N~i~-------------~l~~~~~   63 (124)
T d1dcea3           1 RVLHLAHKDLT-VLC-HLEQLLLVTHLDLSHNRLR-ALPP-ALAALRCLEVLQASDNALE-------------NVDGVAN   63 (124)
T ss_dssp             SEEECTTSCCS-SCC-CGGGGTTCCEEECCSSCCC-CCCG-GGGGCTTCCEEECCSSCCC-------------CCGGGTT
T ss_pred             CEEEcCCCCCC-CCc-ccccCCCCCEEECCCCccC-cchh-hhhhhhccccccccccccc-------------ccCcccc
Confidence            57999999998 555 5899999999999999998 8887 7899999999888876654             3344333


Q ss_pred             ccCCCeEeCcCCcccCccc-c---cCCCCcEEEccCCccccccCchhhccCCccccCceE
Q 040876          278 ATQLWYLRLHSNNFSGPLS-L---ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRAL  333 (343)
Q Consensus       278 ~~~L~~L~Ls~N~l~~~~~-~---~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L  333 (343)
                      ..+|++|++++|++++... .   .+++|++|++++|.+++.. +........+|+|+.+
T Consensus        64 l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~-~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          64 LPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEE-GIQERLAEMLPSVSSI  122 (124)
T ss_dssp             CSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSS-SCTTHHHHHCTTCSEE
T ss_pred             ccccCeEECCCCccCCCCCchhhcCCCCCCEEECCCCcCCcCc-cHHHHHHHHCcCcceE
Confidence            3499999999999986432 1   1789999999999998632 1111222345666655

>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=99.43  E-value=1.6e-13  Score=110.06  Aligned_cols=125  Identities=18%  Similarity=0.267  Sum_probs=83.8

Q ss_pred             hhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCC
Q 040876          165 FSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLT  244 (343)
Q Consensus       165 l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~  244 (343)
                      +.+.  .++++|+|++|+|+ .++..+..+++|++|++++|.++ .++ .+..+++|++|++++|+++ .++...+..++
T Consensus        14 ~~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_          14 YTNA--VRDRELDLRGYKIP-VIENLGATLDQFDAIDFSDNEIR-KLD-GFPLLRRLKTLLVNNNRIC-RIGEGLDQALP   87 (162)
T ss_dssp             EECT--TSCEEEECTTSCCC-SCCCGGGGTTCCSEEECCSSCCC-EEC-CCCCCSSCCEEECCSSCCC-EECSCHHHHCT
T ss_pred             ccCc--CcCcEEECCCCCCC-ccCccccccccCCEEECCCCCCC-ccC-CcccCcchhhhhccccccc-CCCcccccccc
Confidence            3455  67788888888887 45665667788888888888887 343 5777888888888888887 55553566778


Q ss_pred             CCCeEEecCceeeEeEEeccCCcccccCCCccccc-CCCeEeCcCCcccCccc------ccCCCCcEEE
Q 040876          245 KLSVFSVNENNLTLKFLDLGENQIHGEMTNLTNAT-QLWYLRLHSNNFSGPLS------LISSNLVYLD  306 (343)
Q Consensus       245 ~L~~L~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~-~L~~L~Ls~N~l~~~~~------~~~~~L~~L~  306 (343)
                      +|++|++++|+++         .+. .+ ..+... +|++|++++|.++....      ..+++|++||
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 DLTELILTNNSLV---------ELG-DL-DPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             TCCEEECCSCCCC---------CGG-GG-GGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             ccccceecccccc---------ccc-cc-cccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            8888777766543         011 11 123333 78888888888865432      1278888876

>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=99.43  E-value=1.7e-13  Score=109.86  Aligned_cols=129  Identities=22%  Similarity=0.257  Sum_probs=98.3

Q ss_pred             ccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeEEecCceeeEeEEeccCCcccc
Q 040876          191 IGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVFSVNENNLTLKFLDLGENQIHG  270 (343)
Q Consensus       191 l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~  270 (343)
                      +.+..++++|+|++|+|+ .++..+..+++|++|++++|+++ .++  .+..+++|++|++++|++            +.
T Consensus        14 ~~n~~~lr~L~L~~n~I~-~i~~~~~~l~~L~~L~Ls~N~i~-~l~--~~~~l~~L~~L~ls~N~i------------~~   77 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIP-VIENLGATLDQFDAIDFSDNEIR-KLD--GFPLLRRLKTLLVNNNRI------------CR   77 (162)
T ss_dssp             EECTTSCEEEECTTSCCC-SCCCGGGGTTCCSEEECCSSCCC-EEC--CCCCCSSCCEEECCSSCC------------CE
T ss_pred             ccCcCcCcEEECCCCCCC-ccCccccccccCCEEECCCCCCC-ccC--CcccCcchhhhhcccccc------------cC
Confidence            567788999999999998 56766678999999999999998 675  477888888877776554            44


Q ss_pred             cCCCccccc-CCCeEeCcCCcccCccc--c--cCCCCcEEEccCCccccccCchhhccCCccccCceEecC
Q 040876          271 EMTNLTNAT-QLWYLRLHSNNFSGPLS--L--ISSNLVYLDLFNNSFLGSISHFWCYRSNETKRLRALSLG  336 (343)
Q Consensus       271 ~~~~~~~~~-~L~~L~Ls~N~l~~~~~--~--~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~l~~L~~L~ls  336 (343)
                      ..+..+... +|+.|++++|+++....  .  .+++|++|++++|.++.. |..-+..+..+++|++||-+
T Consensus        78 l~~~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~-~~~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_          78 IGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNK-KHYRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             ECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGS-TTHHHHHHHHCTTCSEETTE
T ss_pred             CCccccccccccccceeccccccccccccccccccccchhhcCCCccccc-cchHHHHHHHCCCcCeeCCC
Confidence            344444444 99999999999986322  1  278999999999999763 33222345678999999843

>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=99.40  E-value=3.5e-13  Score=118.07  Aligned_cols=92  Identities=18%  Similarity=0.263  Sum_probs=55.2

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCC-ccccc-CCccccCCCCCcEEEccCc-cCccc-c
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNN-SIVGL-VPLSLNELSKLRILHLSDN-KLNGT-L  235 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N-~l~~~-~p~~l~~l~~L~~L~l~~N-~l~g~-~  235 (343)
                      .++..+..+  ++|++|+++++.+++..+..++++++|++|+++++ .++.. +......+++|++|+++++ .++.. +
T Consensus        62 ~l~~l~~~c--~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~  139 (284)
T d2astb2          62 TLHGILSQC--SKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHV  139 (284)
T ss_dssp             HHHHHHTTB--CCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHH
T ss_pred             HHHHHHHhC--CCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccccccccccccccc
Confidence            344556667  77777777777777666777777777777777774 45422 1122345677777777775 33321 1


Q ss_pred             ChHhhhc-CCCCCeEEecCc
Q 040876          236 SEIHFVN-LTKLSVFSVNEN  254 (343)
Q Consensus       236 p~~~~~~-l~~L~~L~l~~n  254 (343)
                      .. .+.. .+.|+.|+++++
T Consensus       140 ~~-~~~~~~~~L~~L~l~~~  158 (284)
T d2astb2         140 QV-AVAHVSETITQLNLSGY  158 (284)
T ss_dssp             HH-HHHHSCTTCCEEECCSC
T ss_pred             hh-hhcccccccchhhhccc
Confidence            12 2323 356777777653

>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=99.37  E-value=1.4e-13  Score=123.92  Aligned_cols=200  Identities=21%  Similarity=0.126  Sum_probs=142.0

Q ss_pred             CCCCcccccchh-hcccccccCCCccccCcccchhhhhhcCCCCCccEEEeecCcccc---c-------cchhccCCCCC
Q 040876          129 LASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSGCVSKGLEILVLRSSSISG---H-------LTEQIGHFKNL  197 (343)
Q Consensus       129 l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~l~~~~L~~L~L~~n~l~~---~-------~p~~l~~l~~L  197 (343)
                      ...++.|++++| +..            .....+.+.+...  ++|+.++++++....   .       +...+...++|
T Consensus        30 ~~~l~~L~Ls~n~i~~------------~~~~~l~~~l~~~--~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L   95 (344)
T d2ca6a1          30 DDSVKEIVLSGNTIGT------------EAARWLSENIASK--KDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKL   95 (344)
T ss_dssp             CSCCCEEECTTSEECH------------HHHHHHHHTTTTC--TTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTC
T ss_pred             CCCCCEEECcCCcCCH------------HHHHHHHHHHHhC--CCCCEEECCCCcccccccccchHHHHHHHHHhhCCCc
Confidence            456888999988 641            0012455566777  899999998775442   1       23345678899


Q ss_pred             CEEECcCCccccc----CCccccCCCCCcEEEccCccCccccC----h--------HhhhcCCCCCeEEecCceee----
Q 040876          198 DTLDLGNNSIVGL----VPLSLNELSKLRILHLSDNKLNGTLS----E--------IHFVNLTKLSVFSVNENNLT----  257 (343)
Q Consensus       198 ~~L~Ls~N~l~~~----~p~~l~~l~~L~~L~l~~N~l~g~~p----~--------~~~~~l~~L~~L~l~~n~l~----  257 (343)
                      ++|++++|.++..    +...+...++|++|++++|.+...-.    .        ......+.|+.+.+++|.++    
T Consensus        96 ~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~  175 (344)
T d2ca6a1          96 HTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSM  175 (344)
T ss_dssp             CEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGH
T ss_pred             ccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccccccccc
Confidence            9999999998754    23345567899999999998752110    0        01234678999999998874    


Q ss_pred             ------------EeEEeccCCccccc-----CCCccccc-CCCeEeCcCCcccCc----cc---ccCCCCcEEEccCCcc
Q 040876          258 ------------LKFLDLGENQIHGE-----MTNLTNAT-QLWYLRLHSNNFSGP----LS---LISSNLVYLDLFNNSF  312 (343)
Q Consensus       258 ------------l~~L~ls~n~l~~~-----~~~~~~~~-~L~~L~Ls~N~l~~~----~~---~~~~~L~~L~Ls~N~l  312 (343)
                                  ++.+++++|.++..     +...+... +|+.|++++|.++..    +.   ...++|++|++++|.+
T Consensus       176 ~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i  255 (344)
T d2ca6a1         176 KEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLL  255 (344)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCC
T ss_pred             ccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCcc
Confidence                        67899999998742     22334444 899999999998742    11   1268899999999999


Q ss_pred             ccccCchhhccCCc--cccCceEecCCCcccc
Q 040876          313 LGSISHFWCYRSNE--TKRLRALSLGDNYLQG  342 (343)
Q Consensus       313 ~~~~~~~l~~~l~~--l~~L~~L~ls~N~l~g  342 (343)
                      ++.....+...+..  .+.|++|++++|+|+.
T Consensus       256 ~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~  287 (344)
T d2ca6a1         256 SARGAAAVVDAFSKLENIGLQTLRLQYNEIEL  287 (344)
T ss_dssp             CHHHHHHHHHHHHTCSSCCCCEEECCSSCCBH
T ss_pred             CchhhHHHHHHhhhccCCCCCEEECCCCcCCh
Confidence            88765566555543  4679999999999864

>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=99.37  E-value=1e-11  Score=110.92  Aligned_cols=85  Identities=21%  Similarity=0.258  Sum_probs=56.7

Q ss_pred             eeCCCCCCCCCCCCCccccCCCCCCEecCCCCC------CCCCCcccccchh-hcccccccCCCccccCcccchhhhhhc
Q 040876           95 KANPRSMLVGKGPIPSWLYRLTHLEQLSVADRP------SLASREDQDLLSN-IRQRLSKCRTGAKSSQEISDIFDIFSG  167 (343)
Q Consensus        95 ~~~~~~n~~~~~~ip~~l~~l~~L~~L~Ls~n~------~l~~L~~L~l~~n-l~~~l~~~~~~~~~~~~~~~ip~~l~~  167 (343)
                      .+..+++.++.  +|+.   .++|++|++++|+      .+.+|+.|++++| ++                 .+++    
T Consensus        42 ~LdLs~~~L~~--lp~~---~~~L~~L~Ls~N~l~~lp~~~~~L~~L~l~~n~l~-----------------~l~~----   95 (353)
T d1jl5a_          42 ELELNNLGLSS--LPEL---PPHLESLVASCNSLTELPELPQSLKSLLVDNNNLK-----------------ALSD----   95 (353)
T ss_dssp             EEECTTSCCSC--CCSC---CTTCSEEECCSSCCSSCCCCCTTCCEEECCSSCCS-----------------CCCS----
T ss_pred             EEEeCCCCCCC--CCCC---CCCCCEEECCCCCCcccccchhhhhhhhhhhcccc-----------------hhhh----
Confidence            34444566664  7753   4678899999887      3346777777777 54                 2221    


Q ss_pred             CCCCCccEEEeecCccccccchhccCCCCCCEEECcCCccc
Q 040876          168 CVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIV  208 (343)
Q Consensus       168 l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~  208 (343)
                      + ++.|++|++++|.+. .+|. ++.+++|++|++++|.+.
T Consensus        96 l-p~~L~~L~L~~n~l~-~lp~-~~~l~~L~~L~l~~~~~~  133 (353)
T d1jl5a_          96 L-PPLLEYLGVSNNQLE-KLPE-LQNSSFLKIIDVDNNSLK  133 (353)
T ss_dssp             C-CTTCCEEECCSSCCS-SCCC-CTTCTTCCEEECCSSCCS
T ss_pred             h-ccccccccccccccc-cccc-hhhhccceeecccccccc
Confidence            1 045788888888877 4554 567788888888887765

>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=99.35  E-value=2.1e-14  Score=119.14  Aligned_cols=145  Identities=19%  Similarity=0.210  Sum_probs=90.9

Q ss_pred             CccEEEeecC--ccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          172 GLEILVLRSS--SISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       172 ~L~~L~L~~n--~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      .++.+++...  .+. .++..+..+++|++|++++|+|+ .++ .+..+++|++|++++|.++ .+|. .+..+++|+.|
T Consensus        24 ~~~~~~l~~~~~~i~-~l~~sl~~L~~L~~L~Ls~n~I~-~i~-~l~~l~~L~~L~Ls~N~i~-~i~~-~~~~~~~L~~L   98 (198)
T d1m9la_          24 EAEKVELHGMIPPIE-KMDATLSTLKACKHLALSTNNIE-KIS-SLSGMENLRILSLGRNLIK-KIEN-LDAVADTLEEL   98 (198)
T ss_dssp             TCSCEECCBCCTTCC-CCHHHHHHTTTCCEEECSEEEES-CCC-CHHHHTTCCEEECCEEEEC-SCSS-HHHHHHHCCEE
T ss_pred             ccceeeeecccCchh-hhhhHHhcccccceeECcccCCC-Ccc-cccCCccccChhhcccccc-cccc-ccccccccccc
Confidence            3455555543  233 45667777888888888888877 444 5777888888888888876 6665 44445667776


Q ss_pred             EecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCcccCccc----ccCCCCcEEEccCCccccccCchh-----
Q 040876          250 SVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFSGPLS----LISSNLVYLDLFNNSFLGSISHFW-----  320 (343)
Q Consensus       250 ~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~~~~~----~~~~~L~~L~Ls~N~l~~~~~~~l-----  320 (343)
                      ++++|.++             .++......+|++|++++|+++....    ..+++|++|++++|.+....+...     
T Consensus        99 ~l~~N~i~-------------~l~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~  165 (198)
T d1m9la_          99 WISYNQIA-------------SLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEY  165 (198)
T ss_dssp             ECSEEECC-------------CHHHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHH
T ss_pred             cccccccc-------------ccccccccccccccccccchhccccccccccCCCccceeecCCCccccCcccccchhhH
Confidence            66665543             12222222378888888888775321    126788888888888765443211     


Q ss_pred             -hccCCccccCceEe
Q 040876          321 -CYRSNETKRLRALS  334 (343)
Q Consensus       321 -~~~l~~l~~L~~L~  334 (343)
                       ...+..+|+|+.||
T Consensus       166 r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         166 RIEVVKRLPNLKKLD  180 (198)
T ss_dssp             HHHHHHHCSSCCEES
T ss_pred             HHHHHHHCCCcCEeC
Confidence             01245678888877

>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=99.33  E-value=9.9e-13  Score=115.15  Aligned_cols=163  Identities=17%  Similarity=0.163  Sum_probs=122.5

Q ss_pred             CCccEEEeecCccccc-cchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCc-cCccc-cChHhhhcCCCCC
Q 040876          171 KGLEILVLRSSSISGH-LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDN-KLNGT-LSEIHFVNLTKLS  247 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~-~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N-~l~g~-~p~~~~~~l~~L~  247 (343)
                      .+|++|+++++.++.. ++..+.++++|++|+++++.+++..+..++.+++|++|+++++ .++.. +.. ....+++|+
T Consensus        46 ~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~-l~~~~~~L~  124 (284)
T d2astb2          46 FRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQT-LLSSCSRLD  124 (284)
T ss_dssp             BCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHH-HHHHCTTCC
T ss_pred             CCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccch-hhHHHHhcc
Confidence            6899999999998754 4455788999999999999998888888999999999999996 56522 222 356789999


Q ss_pred             eEEecCc-eee--------------EeEEeccCC--cccc-cCCCccccc-CCCeEeCcCCc-ccCccccc---CCCCcE
Q 040876          248 VFSVNEN-NLT--------------LKFLDLGEN--QIHG-EMTNLTNAT-QLWYLRLHSNN-FSGPLSLI---SSNLVY  304 (343)
Q Consensus       248 ~L~l~~n-~l~--------------l~~L~ls~n--~l~~-~~~~~~~~~-~L~~L~Ls~N~-l~~~~~~~---~~~L~~  304 (343)
                      +|+++++ .++              ++.|+++++  .++. .+....... +|++|++++|. +++.....   +++|++
T Consensus       125 ~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~  204 (284)
T d2astb2         125 ELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQH  204 (284)
T ss_dssp             EEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCE
T ss_pred             ccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcCCE
Confidence            9999986 332              667888864  3443 223333334 89999999864 66544333   789999


Q ss_pred             EEccCC-ccccccCchhhccCCccccCceEecCCC
Q 040876          305 LDLFNN-SFLGSISHFWCYRSNETKRLRALSLGDN  338 (343)
Q Consensus       305 L~Ls~N-~l~~~~~~~l~~~l~~l~~L~~L~ls~N  338 (343)
                      |++++| .+++...    ..+.++++|+.|+++++
T Consensus       205 L~L~~C~~i~~~~l----~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         205 LSLSRCYDIIPETL----LELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             EECTTCTTCCGGGG----GGGGGCTTCCEEECTTS
T ss_pred             EECCCCCCCChHHH----HHHhcCCCCCEEeeeCC
Confidence            999995 5766543    34567899999999887

>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=99.32  E-value=1.4e-13  Score=127.43  Aligned_cols=63  Identities=24%  Similarity=0.183  Sum_probs=38.0

Q ss_pred             CCCeEeCcCCcccCcccc-------cCCCCcEEEccCCccccccCchhhccCC-ccccCceEecCCCcccc
Q 040876          280 QLWYLRLHSNNFSGPLSL-------ISSNLVYLDLFNNSFLGSISHFWCYRSN-ETKRLRALSLGDNYLQG  342 (343)
Q Consensus       280 ~L~~L~Ls~N~l~~~~~~-------~~~~L~~L~Ls~N~l~~~~~~~l~~~l~-~l~~L~~L~ls~N~l~g  342 (343)
                      .|+.+++++|.++.....       ..++|++|+|++|.+++.....++..+. ..+.|++|++++|.|++
T Consensus       313 ~L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~  383 (460)
T d1z7xw1         313 QLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSD  383 (460)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCH
T ss_pred             ccccccccccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCCh
Confidence            455555555555432111       1356888888888877654444555443 35668888888888764

>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=99.23  E-value=1.8e-13  Score=113.45  Aligned_cols=132  Identities=24%  Similarity=0.234  Sum_probs=102.5

Q ss_pred             cchhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          159 SDIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       159 ~~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      ..+|..+..+  ++|++|++++|+|+ .++ .+..+++|++|++++|.++ .+|.....+++|++|++++|+++ .++  
T Consensus        38 ~~l~~sl~~L--~~L~~L~Ls~n~I~-~i~-~l~~l~~L~~L~Ls~N~i~-~i~~~~~~~~~L~~L~l~~N~i~-~l~--  109 (198)
T d1m9la_          38 EKMDATLSTL--KACKHLALSTNNIE-KIS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQIA-SLS--  109 (198)
T ss_dssp             CCCHHHHHHT--TTCCEEECSEEEES-CCC-CHHHHTTCCEEECCEEEEC-SCSSHHHHHHHCCEEECSEEECC-CHH--
T ss_pred             hhhhhHHhcc--cccceeECcccCCC-Ccc-cccCCccccChhhcccccc-ccccccccccccccccccccccc-ccc--
Confidence            4677889999  99999999999999 454 5889999999999999998 66765666778999999999998 554  


Q ss_pred             hhhcCCCCCeEEecCceeeEeEEeccCCcccccCC--Cccccc-CCCeEeCcCCcccCcccc-------------cCCCC
Q 040876          239 HFVNLTKLSVFSVNENNLTLKFLDLGENQIHGEMT--NLTNAT-QLWYLRLHSNNFSGPLSL-------------ISSNL  302 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l~l~~L~ls~n~l~~~~~--~~~~~~-~L~~L~Ls~N~l~~~~~~-------------~~~~L  302 (343)
                      .+..+++|+.|++++|+++            . ++  ..+..+ +|++|++++|++....+.             .+++|
T Consensus       110 ~~~~l~~L~~L~L~~N~i~------------~-~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L  176 (198)
T d1m9la_         110 GIEKLVNLRVLYMSNNKIT------------N-WGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNL  176 (198)
T ss_dssp             HHHHHHHSSEEEESEEECC------------C-HHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSC
T ss_pred             cccccccccccccccchhc------------c-ccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHCCCc
Confidence            4778899999888877653            2 11  123344 999999999998764332             16889


Q ss_pred             cEEEccCCccc
Q 040876          303 VYLDLFNNSFL  313 (343)
Q Consensus       303 ~~L~Ls~N~l~  313 (343)
                      +.||  +..++
T Consensus       177 ~~LD--~~~I~  185 (198)
T d1m9la_         177 KKLD--GMPVD  185 (198)
T ss_dssp             CEES--SGGGT
T ss_pred             CEeC--CccCC
Confidence            9876  44554

>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=99.17  E-value=4.9e-11  Score=94.55  Aligned_cols=93  Identities=19%  Similarity=0.207  Sum_probs=55.3

Q ss_pred             chhhhhhcCCCCCccEEEeecC-ccccccchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccChH
Q 040876          160 DIFDIFSGCVSKGLEILVLRSS-SISGHLTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSEI  238 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n-~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~  238 (343)
                      .+|..+..+  ++|++|++++| .++..-+..|.++++|+.|++++|+++...|..|..+++|++|+|++|+++ .+|..
T Consensus        22 ~~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~~~   98 (156)
T d2ifga3          22 DSLHHLPGA--ENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALE-SLSWK   98 (156)
T ss_dssp             TTTTTSCSC--SCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCS-CCCST
T ss_pred             cCcccccCc--cccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCc-ccChh
Confidence            455556566  66677776544 366444455666677777777777766555556666667777777777766 55553


Q ss_pred             hhhcCCCCCeEEecCcee
Q 040876          239 HFVNLTKLSVFSVNENNL  256 (343)
Q Consensus       239 ~~~~l~~L~~L~l~~n~l  256 (343)
                      .+. ...|+.|++++|.+
T Consensus        99 ~~~-~~~l~~L~L~~Np~  115 (156)
T d2ifga3          99 TVQ-GLSLQELVLSGNPL  115 (156)
T ss_dssp             TTC-SCCCCEEECCSSCC
T ss_pred             hhc-cccccccccCCCcc
Confidence            332 23455555555443

>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=99.13  E-value=1.6e-10  Score=91.56  Aligned_cols=108  Identities=19%  Similarity=0.150  Sum_probs=84.0

Q ss_pred             CCccEEEeecCccccccchhccCCCCCCEEECcCC-cccccCCccccCCCCCcEEEccCccCccccChHhhhcCCCCCeE
Q 040876          171 KGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNN-SIVGLVPLSLNELSKLRILHLSDNKLNGTLSEIHFVNLTKLSVF  249 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N-~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~~~~~~l~~L~~L  249 (343)
                      ...+.++.+++.+. ..|..+..+++|++|++++| .++..-+..|.++++|+.|++++|+++ .+++..|..+++|++|
T Consensus         8 ~~~~~l~c~~~~~~-~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~-~i~~~~f~~l~~L~~L   85 (156)
T d2ifga3           8 HGSSGLRCTRDGAL-DSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLR-FVAPDAFHFTPRLSRL   85 (156)
T ss_dssp             SSSSCEECCSSCCC-TTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCC-EECTTGGGSCSCCCEE
T ss_pred             CCCCeEEecCCCCc-cCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccC-Ccccccccccccccce
Confidence            44567888888887 57888889999999999766 587555667899999999999999998 6665588899999887


Q ss_pred             EecCceeeEeEEeccCCcccccCCCcccccCCCeEeCcCCccc
Q 040876          250 SVNENNLTLKFLDLGENQIHGEMTNLTNATQLWYLRLHSNNFS  292 (343)
Q Consensus       250 ~l~~n~l~l~~L~ls~n~l~~~~~~~~~~~~L~~L~Ls~N~l~  292 (343)
                      ++++|+            |+...+..+...+|+.|+|++|.+.
T Consensus        86 ~Ls~N~------------l~~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          86 NLSFNA------------LESLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             ECCSSC------------CSCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             eccCCC------------CcccChhhhccccccccccCCCccc
Confidence            776654            4433344555458899999999885

>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=98.54  E-value=2e-08  Score=79.61  Aligned_cols=89  Identities=21%  Similarity=0.162  Sum_probs=61.0

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccc--cchhccCCCCCCEEECcCCcccccCCccccCCCCCcEEEccCccCccccCh
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGH--LTEQIGHFKNLDTLDLGNNSIVGLVPLSLNELSKLRILHLSDNKLNGTLSE  237 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~--~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~l~~N~l~g~~p~  237 (343)
                      .++.....+  +.|++|++++|+|+..  ++..+..+++|++|++++|.++..-+-......+|+.+++++|.+......
T Consensus        56 ~l~~~~~~~--~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~  133 (162)
T d1koha1          56 TLRIIEENI--PELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRD  133 (162)
T ss_dssp             HHHHHHHHC--TTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSS
T ss_pred             hhHHHHHhC--CCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCccc
Confidence            344445667  8899999999998843  345567788999999999998843222233455788899999988744332


Q ss_pred             ------HhhhcCCCCCeEE
Q 040876          238 ------IHFVNLTKLSVFS  250 (343)
Q Consensus       238 ------~~~~~l~~L~~L~  250 (343)
                            ..+..+++|+.||
T Consensus       134 ~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         134 QSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHHHHHTTSTTCCEET
T ss_pred             chhHHHHHHHHCCCCCEEC
Confidence                  1345678887765

>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=98.10  E-value=4.9e-07  Score=71.28  Aligned_cols=64  Identities=22%  Similarity=0.159  Sum_probs=49.2

Q ss_pred             chhhhhhcCCCCCccEEEeecCccccccchhccCCCCCCEEECcCCcccccCCc-------cccCCCCCcEEE
Q 040876          160 DIFDIFSGCVSKGLEILVLRSSSISGHLTEQIGHFKNLDTLDLGNNSIVGLVPL-------SLNELSKLRILH  225 (343)
Q Consensus       160 ~ip~~l~~l~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~-------~l~~l~~L~~L~  225 (343)
                      .++..+..+  ++|+.|++++|.++..-+-...+..+|++|++++|.+......       .+..+|+|+.||
T Consensus        82 ~~~~~~~~l--~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1          82 DMSSIVQKA--PNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             GGGTHHHHS--TTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             hhHHHHhhC--CcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHHHHHCCCCCEEC
Confidence            456677888  9999999999999953333444566899999999999865442       256789999886

>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=97.91  E-value=9.7e-06  Score=63.86  Aligned_cols=69  Identities=17%  Similarity=0.183  Sum_probs=37.8

Q ss_pred             hhhhhhcCCCCCccEEEeecCccccc----cchhccCCCCCCEEECcCCcccccC----CccccCCCCCcEEEccCccC
Q 040876          161 IFDIFSGCVSKGLEILVLRSSSISGH----LTEQIGHFKNLDTLDLGNNSIVGLV----PLSLNELSKLRILHLSDNKL  231 (343)
Q Consensus       161 ip~~l~~l~~~~L~~L~L~~n~l~~~----~p~~l~~l~~L~~L~Ls~N~l~~~~----p~~l~~l~~L~~L~l~~N~l  231 (343)
                      +-..+...  +.|++|++++|.+...    +...+...+.|++|++++|.++..-    ...+...++|++|++++|.+
T Consensus        36 l~~~L~~n--~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~  112 (167)
T d1pgva_          36 LIEAACNS--KHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQ  112 (167)
T ss_dssp             HHHHHTTC--SCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSS
T ss_pred             HHHHHhhC--CccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcC
Confidence            33445555  6667777776666532    2233444566666666666665321    12344456666666666644

>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=97.71  E-value=3.1e-06  Score=66.82  Aligned_cols=40  Identities=8%  Similarity=0.147  Sum_probs=23.9

Q ss_pred             CCCCCCEEECcCC-ccccc----CCccccCCCCCcEEEccCccCc
Q 040876          193 HFKNLDTLDLGNN-SIVGL----VPLSLNELSKLRILHLSDNKLN  232 (343)
Q Consensus       193 ~l~~L~~L~Ls~N-~l~~~----~p~~l~~l~~L~~L~l~~N~l~  232 (343)
                      +.+.|++|+|+++ .++..    +-..+...+.|++|++++|.+.
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~   57 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAIS   57 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCB
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccc
Confidence            4567777777763 35422    2223455666777777777765

>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=97.32  E-value=1.5e-05  Score=62.62  Aligned_cols=43  Identities=14%  Similarity=0.155  Sum_probs=26.6

Q ss_pred             hccCCCCCCEEECcC-Cccccc----CCccccCCCCCcEEEccCccCc
Q 040876          190 QIGHFKNLDTLDLGN-NSIVGL----VPLSLNELSKLRILHLSDNKLN  232 (343)
Q Consensus       190 ~l~~l~~L~~L~Ls~-N~l~~~----~p~~l~~l~~L~~L~l~~N~l~  232 (343)
                      ...+.+.|++|++++ +.++..    +...+...++|++|++++|.++
T Consensus        12 ~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~   59 (166)
T d1io0a_          12 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSN   59 (166)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCC
T ss_pred             HHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCccc
Confidence            344567788888876 445422    2223445677777777777765

>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=97.23  E-value=0.00015  Score=56.56  Aligned_cols=37  Identities=14%  Similarity=0.188  Sum_probs=15.7

Q ss_pred             CCccEEEeecCcccccc----chhccCCCCCCEEECcCCcc
Q 040876          171 KGLEILVLRSSSISGHL----TEQIGHFKNLDTLDLGNNSI  207 (343)
Q Consensus       171 ~~L~~L~L~~n~l~~~~----p~~l~~l~~L~~L~Ls~N~l  207 (343)
                      ++|++|++++|.++...    ...+...+.++.+++++|.+
T Consensus        46 ~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~   86 (166)
T d1io0a_          46 TYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFI   86 (166)
T ss_dssp             CSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCC
T ss_pred             CccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccc
Confidence            44555555555444221    11223334444444444444